Psyllid ID: psy1308

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------
Protein Sequence
MFRILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFIDVV
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHHccccccccccccEEEEEccccccccHHHHcccHHHHHcccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHcccHHHHHHHHHcccccccccccccccHHHHHHHccccHHHHHHHHccccccccccccHHHHHHHHHccccHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHcccccHHHHHHHHHHHHHHHHcccccccccEEEEEEccccccHHHHHHHHHHHHHccccccEEEEEcccccHHHHHHHHccccccccccccccHHHHHHHccccEEEEEccccccccHHHHHHHHHHcccccccccccEEEccccEEEEcccccHHHHHHHHHHHHHHHHHHccccccccccccccccHHccHHHHHHHHHHHHHHccccccccccccEEEEEccccHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHccccccccEEEEEEEcccEEEEccccccEEEEEEEEcccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHccHHHHHHHHHcccccccccccccccHHHHHHHcccHHHHHHHHHcccccccccccHHHHHHHHHcccccHHHHHccHHHHHHHHHHHHcccccHHHHHHHHcccHHHHHHHHHHcccHHHHHcccccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcccccccccEEEEEEccccccHHHHHHHHHHHHcccccccEEEEEHHHHHHHccHHHHccccccccccccccHHHHHHHccccEEEEEHHHHHHcHHHHHHHHHHHHccccccccccEEEcccEEEEEEccccHHHHHHHcccccHHHHHHHHHHHHcccccccccHccccHHHHHHHHHHHHHHHcccHHHHHHccEEEEEccccHHHHHHHHHHHHHHHHHHHHHcccEEEEcHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHccccccccEEEEEEccccEEEEEccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MFRILVQRRQLVLCILSnyfkqkpykrgfqssklfyttqstqadfksCLSVFpkirqsnntcmynNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIEnskldvnmrhplgwtplhvAAINGKVDNVRVLLEaganpnlgdlfNTVHRTAaekkmnpfeVLLKREDefndvlnpnmtfLGFSALHYGVVAGNTEVVELLLKsgadptvkdnsghipsdyaedANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKrkengwtdddhplVFLFlgssgigkTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAkligappgylghddggqltkrlkkcpnavvlfdevdkahPDVLTVLLQLFdegrltdgkgktiecKDAIFVMTSNLASNEIAQHALQLRKEgeefskrtpsisksqgsnldvtisrhfkdhvvqpilkrhfrrdeFLGRINEIVYFlpfskselHTLVCRELNFWAKKALdkhninivWDIDVETiladgydvhygarsiKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVsedsakggIIKLKVKKKGMKDFIDVV
Flexible Loop (DISEMBL)
mfrilvqrRQLVLCILsnyfkqkpykrgfQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAganpnlgdlFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSgadptvkdnsghipsdyaedaNIKQILQKYAEKYADLQrekeaeerrkypleqrlkdrivgqesAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLfdegrltdgkgktIECKDAIFVMTSNLASNEIAQHALQLRKEGEefskrtpsisksqgsnldvTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAaheksvigkgSFVRLYVQWSkevsedsakggiiklkvkkkgmkdfidvv
Low Complexity Region (SEG)
MFRILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAkggiiklkvkkkgmkDFIDVV
Disordered region (IsUnstruct)
**RILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKS*********************NIKQILQKYA**************************RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEI*****************************DVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVS****KGGIIKLKV************
Disordered Region (DISOPRED)
**R***QRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIE*****VNMRHPLGWTPLHVAA***************ANPNLGDLFN***************************LNPNMTFLGFSALHYGVVAGNTEVV***********************AEDANIKQILQKYAEKYADL***********YPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQ**************************ISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKE************************DVV
Disordered Region (DISEMBL)
MFRILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADL**********KYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRK******************NLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFIDVV
Disordered Region (DISPRO)
MFRILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD*********IPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTP************TISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKG*******************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFRILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAExxxxxxxxxxxxxxxxxxxxxxxxxxxxKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFIDVV
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	607	2.2.26 [Sep-21-2011]
Q60649	677	Caseinolytic peptidase B	yes	N/A	0.902	0.809	0.562	1e-173
Q5E9N5	677	Caseinolytic peptidase B	yes	N/A	0.808	0.725	0.610	1e-172
Q9WTT2	677	Caseinolytic peptidase B	yes	N/A	0.899	0.806	0.561	1e-172
Q9H078	707	Caseinolytic peptidase B	yes	N/A	0.827	0.710	0.567	1e-168
Q6MD97	868	Chaperone protein ClpB OS	yes	N/A	0.520	0.364	0.423	1e-70
Q81GM5	866	Chaperone protein ClpB OS	yes	N/A	0.459	0.322	0.401	2e-58
Q7MNK1	857	Chaperone protein ClpB OS	yes	N/A	0.454	0.322	0.381	3e-58
Q7CU92	874	Chaperone protein ClpB OS	yes	N/A	0.622	0.432	0.359	3e-58
Q7AJA9	866	Chaperone protein ClpB OS	yes	N/A	0.471	0.330	0.412	3e-58
Q89YY3	862	Chaperone protein ClpB OS	yes	N/A	0.451	0.317	0.395	4e-58

>sp|Q60649|CLPB_MOUSE Caseinolytic peptidase B protein homolog OS=Mus musculus GN=Clpb PE=1 SV=1

 Score =  610 bits (1572), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 314/558 (56%), Positives = 417/558 (74%), Gaps = 10/558 (1%)

Query: 25  YKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLEC-- 82
           + R  + +++ Y T ++     S     P  + S N       L   A ++AL +++C  
Sbjct: 71  WGRRGERTEIPYLTAASSERGPSPEETLPG-QDSWNGVPNKTGLGMWALAMAL-VVQCYS 128

Query: 83  --QSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLL 140
              S KD  L  AAR  + +E++  +     DVN RH LGWT L VA+I+     V+VLL
Sbjct: 129 KNPSNKDAALMEAARANNVQEVRRLLSEGA-DVNARHKLGWTALMVASISHNESVVQVLL 187

Query: 141 EAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAG 200
            AGA+PNLGD F++V++TA E+ ++  EVL+ RED+FN+ LN   +F G +ALHY V+A 
Sbjct: 188 AAGADPNLGDEFSSVYKTANEQGVHSLEVLVTREDDFNNRLNHRASFKGCTALHYAVLAD 247

Query: 201 NTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKY 260
           +  +V+ LL  GA+P  ++  GH P DYA +  + ++L+    KY + QR++EAEERR++
Sbjct: 248 DYSIVKELLDRGANPLQRNEMGHTPLDYAREGEVMKLLKTSETKYMEKQRKREAEERRRF 307

Query: 261 PLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFY 320
           PLEQRLK+ I+GQESAI  + AAI+RKENGW D++HPLVFLFLGSSGIGKTELAKQ A Y
Sbjct: 308 PLEQRLKEHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKY 367

Query: 321 IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVD 380
           +H+D K+ FIRLDMSE+QE+HEVAK IG+PPGY+GH++GGQLTK+LK+CPNAVVLFDEVD
Sbjct: 368 MHKDAKKGFIRLDMSEFQERHEVAKFIGSPPGYIGHEEGGQLTKKLKQCPNAVVLFDEVD 427

Query: 381 KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFS 440
           KAHPDVLT++LQLFDEGRLTDGKGKTI+CKDAIF+MTSN+AS+EIAQHALQLR+E  E S
Sbjct: 428 KAHPDVLTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMS 487

Query: 441 KR--TPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSEL 498
           +     ++   Q S+  +TIS++FK++V++PILK HFRRDEFLGRINEIVYFLPF  SEL
Sbjct: 488 RNRIAENLGDVQMSD-KITISKNFKENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSEL 546

Query: 499 HTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAA 558
             LV +ELNFWAK+A  +HNI ++WD +V  +L DGY+VHYGARSIKHEVER+VV+QLAA
Sbjct: 547 IQLVNKELNFWAKRAKQRHNITLLWDREVADVLVDGYNVHYGARSIKHEVERRVVNQLAA 606

Query: 559 AHEKSVIGKGSFVRLYVQ 576
           A+E+ ++  G  +R+ V+
Sbjct: 607 AYEQDLLPGGCTLRITVE 624

May function as a regulatory ATPase and be related to secretion/protein trafficking process.
Mus musculus (taxid: 10090)

>sp|Q5E9N5|CLPB_BOVIN Caseinolytic peptidase B protein homolog OS=Bos taurus GN=CLPB PE=2 SV=1

 Score =  607 bits (1564), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 302/495 (61%), Positives = 390/495 (78%), Gaps = 4/495 (0%)

Query: 84  SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG 143
           S KD  L  AAR  + +E+   +     DVN RH LGWT L VAAIN     V+VLL AG
Sbjct: 132 SSKDAALMEAARANNVQEVSRLLSEGA-DVNARHRLGWTALMVAAINRNDSVVQVLLAAG 190

Query: 144 ANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTE 203
           A+PNLGD F++V++TA ++ ++  EVL+ RED+FN+ LN   +F G +ALHY V+A +  
Sbjct: 191 ADPNLGDDFSSVYKTAKDQGIHSLEVLVTREDDFNNRLNNRASFKGCTALHYAVLADDYR 250

Query: 204 VVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLE 263
            V+ LL  GA+P  ++  GH P DYA +  + ++L+    KY + QR++EAEERR++PLE
Sbjct: 251 TVKELLDGGANPLQRNEMGHTPLDYAREGEVMKLLRTSETKYQEKQRKREAEERRRFPLE 310

Query: 264 QRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR 323
           QRLK+ I+GQESAI  + AAI+RKENGW D++HPLVFLFLGSSGIGKTELAKQ A Y+H+
Sbjct: 311 QRLKEHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKYMHK 370

Query: 324 DKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAH 383
           D K+ FIRLDMSE+QE+HEVAK IG+PPGY+GH++GGQLTK+LK+CPNAVVLFDEVDKAH
Sbjct: 371 DAKKGFIRLDMSEFQERHEVAKFIGSPPGYIGHEEGGQLTKKLKQCPNAVVLFDEVDKAH 430

Query: 384 PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKR- 442
           PDVLT++LQLFDEGRLTDGKGKTI+CKDAIF+MTSN+AS+EIAQHALQLR+E  E S+  
Sbjct: 431 PDVLTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSRNR 490

Query: 443 -TPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTL 501
              ++   Q S+  +TIS++FK++V++PILK HFRRDEFLGRINEIVYFLPF  SEL  L
Sbjct: 491 IAENLGDVQISD-KITISKNFKENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSELIQL 549

Query: 502 VCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHE 561
           V +ELNFWAK+A  +HNI ++WD +V  +L +GY+VHYGARSIKHEVER+VV+QLAAA+E
Sbjct: 550 VNKELNFWAKRAKQRHNITLLWDREVADVLVEGYNVHYGARSIKHEVERRVVNQLAAAYE 609

Query: 562 KSVIGKGSFVRLYVQ 576
           + ++  G  +R+ V+
Sbjct: 610 QDLLPGGCTLRITVE 624

May function as a regulatory ATPase and be related to secretion/protein trafficking process.

Bos taurus (taxid: 9913)

>sp|Q9WTT2|CLPB_RAT Caseinolytic peptidase B protein homolog OS=Rattus norvegicus GN=Clpb PE=2 SV=1

 Score =  605 bits (1559), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 313/557 (56%), Positives = 416/557 (74%), Gaps = 11/557 (1%)

Query: 26  KRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLEC--- 82
           +RG + +++ Y T ++     S     P  + S N       L   A ++AL +++C   
Sbjct: 73  RRG-ERTEIPYLTAASSGRGPSPEETLPG-QDSWNGVPNKAGLGMWALAMAL-VVQCYNK 129

Query: 83  -QSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLE 141
             S KD  L  AAR  + +E++  +     DVN RH LGWT L VAAI+     V+VLL 
Sbjct: 130 NPSNKDAALMEAARANNVQEVRRLLSEGA-DVNARHKLGWTALMVAAISHNESVVQVLLA 188

Query: 142 AGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGN 201
           AGA+PNLGD F++V++TA E+ ++  EVL+ RED+FN+ LN   +F G +ALHY V+A +
Sbjct: 189 AGADPNLGDDFSSVYKTANEQGVHSLEVLVTREDDFNNRLNHRASFKGCTALHYAVLADD 248

Query: 202 TEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYP 261
             +V+ LL  GA+P  ++  GH P DYA +  + ++L+    KY + QR++EAEERR++P
Sbjct: 249 YSIVKELLGGGANPLQRNEMGHTPLDYAREGEVMKLLKTSETKYMEKQRKREAEERRRFP 308

Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYI 321
           LEQRL+  I+GQESAI  + AAI+RKENGW D++HPLVFLFLGSSGIGKTELAKQ A Y+
Sbjct: 309 LEQRLEQHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKYM 368

Query: 322 HRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDK 381
           H+D K+ FIRLDMSE+QE+HEVAK IG+PPGY+GH++GGQLTK+LK+CPNAVVLFDEVDK
Sbjct: 369 HKDAKKGFIRLDMSEFQERHEVAKFIGSPPGYIGHEEGGQLTKKLKQCPNAVVLFDEVDK 428

Query: 382 AHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSK 441
           AHPDVLT++LQLFDEGRLTDGKGKTI+CKDAIF+MTSN+AS+EIAQHALQLR+E  E S+
Sbjct: 429 AHPDVLTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSR 488

Query: 442 R--TPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELH 499
                ++   Q S+  +TIS++FK+++++PILK HFRRDEFLGRINEIVYFLPF  SEL 
Sbjct: 489 NRIAENLGDVQISD-KITISKNFKENMIRPILKAHFRRDEFLGRINEIVYFLPFCHSELI 547

Query: 500 TLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAA 559
            LV +ELNFWAK+A  +HNI ++WD +V  +L DGY+V YGARSIKHEVER+VV+QLAAA
Sbjct: 548 QLVNKELNFWAKRAKQRHNITLLWDREVADVLVDGYNVQYGARSIKHEVERRVVNQLAAA 607

Query: 560 HEKSVIGKGSFVRLYVQ 576
           +E+ ++  G  +R+ V+
Sbjct: 608 YEQDLLPGGCTLRITVE 624

May function as a regulatory ATPase and be related to secretion/protein trafficking process.

Rattus norvegicus (taxid: 10116)

>sp|Q9H078|CLPB_HUMAN Caseinolytic peptidase B protein homolog OS=Homo sapiens GN=CLPB PE=1 SV=1

 Score =  593 bits (1529), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 307/541 (56%), Positives = 397/541 (73%), Gaps = 39/541 (7%)

Query: 73  CSLALTLL-----ECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVA 127
           C+LA  L+     +  S KD  L  AAR  + +E+   +     DVN +H LGWT L VA
Sbjct: 116 CALAAALVVHCYSKSPSNKDAALLEAARANNMQEVSRLLSEGA-DVNAKHRLGWTALMVA 174

Query: 128 AINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFE------------------- 168
           AIN     V+VLL AGA+PNLGD F++V++TA E+ ++  E                   
Sbjct: 175 AINRNNSVVQVLLAAGADPNLGDDFSSVYKTAKEQGIHSLEDGGQDGASRHITNQWTSAL 234

Query: 169 -----------VLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTV 217
                      VL+ RED+FN+ LN   +F G +ALHY V+A +   V+ LL  GA+P  
Sbjct: 235 EFRRWLGLPAGVLITREDDFNNRLNNRASFKGCTALHYAVLADDYRTVKELLDGGANPLQ 294

Query: 218 KDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAI 277
           ++  GH P DYA +  + ++L+    KY + QR++EAEERR++PLEQRLK+ I+GQESAI
Sbjct: 295 RNEMGHTPLDYAREGEVMKLLRTSEAKYQEKQRKREAEERRRFPLEQRLKEHIIGQESAI 354

Query: 278 NIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY 337
             + AAI+RKENGW D++HPLVFLFLGSSGIGKTELAKQ A Y+H+D K+ FIRLDMSE+
Sbjct: 355 ATVGAAIRRKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKYMHKDAKKGFIRLDMSEF 414

Query: 338 QEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEG 397
           QE+HEVAK IG+PPGY+GH++GGQLTK+LK+CPNAVVLFDEVDKAHPDVLT++LQLFDEG
Sbjct: 415 QERHEVAKFIGSPPGYVGHEEGGQLTKKLKQCPNAVVLFDEVDKAHPDVLTIMLQLFDEG 474

Query: 398 RLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKR--TPSISKSQGSNLD 455
           RLTDGKGKTI+CKDAIF+MTSN+AS+EIAQHALQLR+E  E S+     ++   Q S+  
Sbjct: 475 RLTDGKGKTIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSRNRIAENLGDVQISD-K 533

Query: 456 VTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALD 515
           +TIS++FK++V++PILK HFRRDEFLGRINEIVYFLPF  SEL  LV +ELNFWAK+A  
Sbjct: 534 ITISKNFKENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSELIQLVNKELNFWAKRAKQ 593

Query: 516 KHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYV 575
           +HNI ++WD +V  +L DGY+VHYGARSIKHEVER+VV+QLAAA+E+ ++  G  +R+ V
Sbjct: 594 RHNITLLWDREVADVLVDGYNVHYGARSIKHEVERRVVNQLAAAYEQDLLPGGCTLRITV 653

Query: 576 Q 576
           +
Sbjct: 654 E 654

May function as a regulatory ATPase and be related to secretion/protein trafficking process.

Homo sapiens (taxid: 9606)

>sp|Q6MD97|CLPB_PARUW Chaperone protein ClpB OS=Protochlamydia amoebophila (strain UWE25) GN=clpB PE=3 SV=1

 Score =  268 bits (684), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 146/345 (42%), Positives = 223/345 (64%), Gaps = 29/345 (8%)

Query: 234 IKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTD 293
           I QI+ K+         E EAE  R   LE  L+ R+VGQE A++ +S AI+R  +G +D
Sbjct: 537 IAQIVSKWTGIPVHKMLEGEAE--RLLHLENELEKRVVGQEIAVSAVSEAIRRSRSGLSD 594

Query: 294 DDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPG 352
            + P+ VFLFLG +G+GKTELAK LAF +  ++ EA IRLDMSEY EKH V+KLIG+PPG
Sbjct: 595 PNRPMGVFLFLGPTGVGKTELAKALAFQLF-NQDEALIRLDMSEYMEKHTVSKLIGSPPG 653

Query: 353 YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDA 412
           Y+G+++GGQLT+ L++ P AVVLFDE++KAHPDV  +LLQ+FD+GRLTD KG+ + CK+A
Sbjct: 654 YIGYEEGGQLTEALRRRPYAVVLFDEIEKAHPDVFNILLQVFDDGRLTDSKGRVVNCKNA 713

Query: 413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILK 472
           +F+MTSN+ S+ + +   Q                  QG   D  +       V+ P++K
Sbjct: 714 LFIMTSNIGSDLLLEKMEQ----------------NKQGLAKDEIML------VLDPVIK 751

Query: 473 RHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILA 532
           +HF R EF+ R+++I+ F+P  + ++  +V  +LN  AK+  D+ ++ ++W       LA
Sbjct: 752 KHF-RPEFINRLDDILPFVPLREHDMEKIVVIQLNLLAKRLKDR-DVELMWTPQALAHLA 809

Query: 533 -DGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQ 576
            +GYD H+GAR +K  ++++V++QL+ A  +  I   S ++L ++
Sbjct: 810 KEGYDPHFGARPLKRYIQQEVINQLSTAILEGKIPPHSHIKLELE 854

Part of a stress-induced multi-chaperone system, it is involved in the recovery of the cell from heat-induced damage, in cooperation with DnaK, DnaJ and GrpE. Acts before DnaK, in the processing of protein aggregates. Protein binding stimulates the ATPase activity; ATP hydrolysis unfolds the denatured protein aggregates, which probably helps expose new hydrophobic binding sites on the surface of ClpB-bound aggregates, contributing to the solubilization and refolding of denatured protein aggregates by DnaK.

Protochlamydia amoebophila (strain UWE25) (taxid: 264201)

>sp|Q81GM5|CLPB_BACCR Chaperone protein ClpB OS=Bacillus cereus (strain ATCC 14579 / DSM 31) GN=clpB PE=3 SV=1

 Score =  227 bits (579), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 123/306 (40%), Positives = 189/306 (61%), Gaps = 27/306 (8%)

Query: 253 EAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKT 311
           E E  +   LEQ L +R++GQE A++++S A+ R   G  D + P+  F+FLG +G+GKT
Sbjct: 559 EGEREKLLRLEQILSERVIGQEEAVSLVSDAVLRARAGIKDPNRPIGSFIFLGPTGVGKT 618

Query: 312 ELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPN 371
           ELAK LA  +  D +E  IR+DMSEY EKH V++LIGAPPGY+G+++GGQLT+ +++ P 
Sbjct: 619 ELAKTLAQSLF-DSEEQMIRIDMSEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRKPY 677

Query: 372 AVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQ 431
           +VVL DE++KAHP+V  +LLQ+ D+GR+TD +G+T++ K+ + +MTSN+ S     H L 
Sbjct: 678 SVVLLDEIEKAHPEVFNILLQMLDDGRITDSQGRTVDFKNTVIIMTSNIGS----AHLL- 732

Query: 432 LRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFL 491
                              G   D +I    +D +V   L+ HF R EFL R++EI+ F 
Sbjct: 733 ------------------DGLEEDGSIKEESRD-LVMGQLRGHF-RPEFLNRVDEIILFK 772

Query: 492 PFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ 551
           P + +E+  +V + +     +  D+H    + D   E ++  G+D  YGAR +K  V+RQ
Sbjct: 773 PLTTNEIKGIVDKIVKELQGRLADRHITVELTDAAKEFVVEAGFDPMYGARPLKRYVQRQ 832

Query: 552 VVSQLA 557
           V ++LA
Sbjct: 833 VETKLA 838

Part of a stress-induced multi-chaperone system, it is involved in the recovery of the cell from heat-induced damage, in cooperation with DnaK, DnaJ and GrpE. Acts before DnaK, in the processing of protein aggregates. Protein binding stimulates the ATPase activity; ATP hydrolysis unfolds the denatured protein aggregates, which probably helps expose new hydrophobic binding sites on the surface of ClpB-bound aggregates, contributing to the solubilization and refolding of denatured protein aggregates by DnaK.

Bacillus cereus (strain ATCC 14579 / DSM 31) (taxid: 226900)

>sp|Q7MNK1|CLPB_VIBVY Chaperone protein ClpB OS=Vibrio vulnificus (strain YJ016) GN=clpB PE=3 SV=1

 Score =  226 bits (577), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 117/307 (38%), Positives = 195/307 (63%), Gaps = 31/307 (10%)

Query: 253 EAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKT 311
           EAE+ +   +E+ L  R++GQ+ A+ +++ AI+R   G +D + P+  FLFLG +G+GKT
Sbjct: 553 EAEKEKLLRMEEVLHKRVIGQKEAVEVVANAIRRSRAGLSDPNKPIGSFLFLGPTGVGKT 612

Query: 312 ELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPN 371
           EL K LA ++  D ++A +R+DMSE+ EKH VA+L+GAPPGY+G+++GG LT+ +++ P 
Sbjct: 613 ELCKTLANFMF-DSEDAMVRIDMSEFMEKHSVARLVGAPPGYVGYEEGGYLTEAVRRKPY 671

Query: 372 AVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQ 431
           +V+L DEV+KAHPDV  +LLQ+ D+GRLTDG+G+T++ ++ + +MTSNL S+ I ++   
Sbjct: 672 SVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSSRIQENFAM 731

Query: 432 LRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFL 491
           L  +G                          K+ V++ ++ +HF R EFL R++E V F 
Sbjct: 732 LDYQG-------------------------IKEQVME-VVTKHF-RPEFLNRVDETVVFH 764

Query: 492 PFSKSELHTLVCRELNFWAKKALDKHNINI-VWDIDVETILADGYDVHYGARSIKHEVER 550
           P S+  + ++   +LN  A + +++H   + V D  +E I   G+D  YGAR +K  +++
Sbjct: 765 PLSQDHIKSIAAIQLNRLANR-MEEHGYQLEVSDKALELIAQVGFDPVYGARPLKRAIQQ 823

Query: 551 QVVSQLA 557
            + + LA
Sbjct: 824 SIENPLA 830

Part of a stress-induced multi-chaperone system, it is involved in the recovery of the cell from heat-induced damage, in cooperation with DnaK, DnaJ and GrpE. Acts before DnaK, in the processing of protein aggregates. Protein binding stimulates the ATPase activity; ATP hydrolysis unfolds the denatured protein aggregates, which probably helps expose new hydrophobic binding sites on the surface of ClpB-bound aggregates, contributing to the solubilization and refolding of denatured protein aggregates by DnaK.

Vibrio vulnificus (strain YJ016) (taxid: 196600)

>sp|Q7CU92|CLPB_AGRT5 Chaperone protein ClpB OS=Agrobacterium tumefaciens (strain C58 / ATCC 33970) GN=clpB PE=3 SV=2

 Score =  226 bits (577), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 155/431 (35%), Positives = 226/431 (52%), Gaps = 53/431 (12%)

Query: 154 TVHRTAAEKKMNPFEVLLKREDEFNDVL---NPNMTFLGFSALHYGVVAGNTEVVELLLK 210
           T    A ++K+     L KR DE  + L     N  F     L YG++ G       L K
Sbjct: 460 TARWQAEKQKLGHAADLKKRLDEARNELAIAQRNGQFQRAGELTYGIIPG-------LEK 512

Query: 211 SGADPTVKDNSG--HIPSDYAEDANIKQILQKYA----EKYADLQREKEAEERRKYPLEQ 264
             A    +D+SG   +  +     NI  ++ ++     +K  + QREK         +E 
Sbjct: 513 ELAAAEARDSSGAGSMVQEVVTPDNIAHVVSRWTGIPVDKMLEGQREK------LLRMED 566

Query: 265 RLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHR 323
            L   +VGQ  A+  +S A++R   G  D + P+  F+FLG +G+GKTEL K LA ++  
Sbjct: 567 ELAKSVVGQGEAVQAVSKAVRRSRAGLQDPNRPIGSFIFLGPTGVGKTELTKSLARFLF- 625

Query: 324 DKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAH 383
           D + A +RLDMSEY EKH VA+LIGAPPGY+G+++GG LT+ +++ P  VVLFDE++KAH
Sbjct: 626 DDETAMVRLDMSEYMEKHSVARLIGAPPGYVGYEEGGALTEAVRRRPYQVVLFDEIEKAH 685

Query: 384 PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRT 443
           PDV  VLLQ+ D+GRLTDG+G+T++ K+ I +MTSNL S  + Q                
Sbjct: 686 PDVFNVLLQVLDDGRLTDGQGRTVDFKNTIIIMTSNLGSEFMTQ---------------- 729

Query: 444 PSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVC 503
                  G N DV   R      V   ++ HF R EFL RI++I+ F    + E+  +V 
Sbjct: 730 ------MGDNDDVDSVREL----VMERVRSHF-RPEFLNRIDDIILFHRLRRDEMGAIVE 778

Query: 504 RELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEK 562
            +L        D+  I +  D D  + LA+ GYD  YGAR +K  +++ V  +LA     
Sbjct: 779 IQLKRLVSLLADR-KITLELDEDARSWLANKGYDPAYGARPLKRVIQKSVQDRLAEMILG 837

Query: 563 SVIGKGSFVRL 573
             I  GS V++
Sbjct: 838 GEIPDGSRVKV 848

Part of a stress-induced multi-chaperone system, it is involved in the recovery of the cell from heat-induced damage, in cooperation with DnaK, DnaJ and GrpE. Acts before DnaK, in the processing of protein aggregates. Protein binding stimulates the ATPase activity; ATP hydrolysis unfolds the denatured protein aggregates, which probably helps expose new hydrophobic binding sites on the surface of ClpB-bound aggregates, contributing to the solubilization and refolding of denatured protein aggregates by DnaK.

Agrobacterium tumefaciens (strain C58 / ATCC 33970) (taxid: 176299)

>sp|Q7AJA9|CLPB_CHLPN Chaperone protein ClpB OS=Chlamydia pneumoniae GN=clpB PE=3 SV=1

 Score =  226 bits (577), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 130/315 (41%), Positives = 200/315 (63%), Gaps = 29/315 (9%)

Query: 269 RIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKE 327
           R+VGQ  A++ +S +I+    G  D   PL VFLFLG +G+GKTELAK LA  +  +K+E
Sbjct: 569 RVVGQPFAVSAVSDSIRAARVGLNDPQRPLGVFLFLGPTGVGKTELAKALADLLF-NKEE 627

Query: 328 AFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVL 387
           A +R DMSEY EKH ++KLIG+ PGY+G+++GG L++ L++ P +VVLFDE++KA  +VL
Sbjct: 628 AMVRFDMSEYMEKHSISKLIGSSPGYVGYEEGGSLSEALRRRPYSVVLFDEIEKADKEVL 687

Query: 388 TVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSIS 447
            +LLQ+FD+G LTDGK + + CK+A+F+MTSN+ S E+A +     K+G E +K      
Sbjct: 688 NILLQVFDDGILTDGKKRKVNCKNALFIMTSNIGSPELADYC---SKKGSELTK------ 738

Query: 448 KSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELN 507
                  +  +S      VV P+LKR+    EF+ RI+EI+ F+P +K ++  +V  ++ 
Sbjct: 739 -------EAILS------VVSPVLKRYL-SPEFMNRIDEILPFVPLTKEDIVKIVGIQMR 784

Query: 508 FWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIG 566
             A++ L    IN+ WD  V   L++ GYD  +GAR +K  ++++VV  L+ A  K  I 
Sbjct: 785 RIAQR-LKARRINLSWDDSVILFLSEQGYDSAFGARPLKRLIQQKVVILLSKALLKGDIK 843

Query: 567 KGSFVRLYVQWSKEV 581
             + + L +  +KEV
Sbjct: 844 PDTSIELTM--AKEV 856

Part of a stress-induced multi-chaperone system, it is involved in the recovery of the cell from heat-induced damage, in cooperation with DnaK, DnaJ and GrpE. Acts before DnaK, in the processing of protein aggregates. Protein binding stimulates the ATPase activity; ATP hydrolysis unfolds the denatured protein aggregates, which probably helps expose new hydrophobic binding sites on the surface of ClpB-bound aggregates, contributing to the solubilization and refolding of denatured protein aggregates by DnaK.

Chlamydia pneumoniae (taxid: 83558)

>sp|Q89YY3|CLPB_BACTN Chaperone protein ClpB OS=Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482) GN=clpB PE=3 SV=1

 Score =  226 bits (576), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 118/298 (39%), Positives = 187/298 (62%), Gaps = 24/298 (8%)

Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFY 320
           LE  L  R++GQ+ AI  ++ A++R   G  D   P+  F+FLG++G+GKTELAK LA +
Sbjct: 560 LEDELHQRVIGQDEAIEAVADAVRRSRAGLQDPKRPIGSFIFLGTTGVGKTELAKALAEF 619

Query: 321 IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVD 380
           +  D +    R+DMSEYQEKH V++L+GAPPGY+G+D+GGQLT+ +++ P +VVLFDE++
Sbjct: 620 LF-DDESMMTRIDMSEYQEKHSVSRLVGAPPGYVGYDEGGQLTEAIRRKPYSVVLFDEIE 678

Query: 381 KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFS 440
           KAHPDV  +LLQ+ D+GRLTD KG+ +  K+ I +MTSN+ S+ I               
Sbjct: 679 KAHPDVFNILLQVLDDGRLTDNKGRVVNFKNTIIIMTSNMGSSYIQSQ------------ 726

Query: 441 KRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT 500
                + K  GSN +  I    K+  V  +LK++  R EFL RI+E + FLP +++E+  
Sbjct: 727 -----MEKLSGSNKEEVIEETKKE--VMNMLKKNI-RPEFLNRIDETIMFLPLTETEIRQ 778

Query: 501 LVCRELNFWAKKALDKHNINI-VWDIDVETILADGYDVHYGARSIKHEVERQVVSQLA 557
           +V  ++    +K L ++ + + + D  +  +   GYD  +GAR +K  ++R +++ L+
Sbjct: 779 IVLLQIK-GVQKMLAENGVELEMTDAALNFLSQVGYDPEFGARPVKRAIQRYLLNDLS 835

Part of a stress-induced multi-chaperone system, it is involved in the recovery of the cell from heat-induced damage, in cooperation with DnaK, DnaJ and GrpE. Acts before DnaK, in the processing of protein aggregates. Protein binding stimulates the ATPase activity; ATP hydrolysis unfolds the denatured protein aggregates, which probably helps expose new hydrophobic binding sites on the surface of ClpB-bound aggregates, contributing to the solubilization and refolding of denatured protein aggregates by DnaK.

Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482) (taxid: 226186)

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	607
91080595	593	PREDICTED: similar to Caseinolytic pepti	0.909	0.930	0.614	0.0
242023901	682	suppressor of potassium transport defect	0.912	0.812	0.595	0.0
307180438	642	Caseinolytic peptidase B protein-like pr	0.876	0.828	0.603	0.0
332026312	609	Caseinolytic peptidase B protein-like pr	0.876	0.873	0.604	0.0
322792402	642	hypothetical protein SINV_11479 [Solenop	0.863	0.816	0.600	0.0
383853509	670	PREDICTED: caseinolytic peptidase B prot	0.874	0.792	0.604	0.0
350400658	643	PREDICTED: caseinolytic peptidase B prot	0.855	0.807	0.609	0.0
340711024	643	PREDICTED: caseinolytic peptidase B prot	0.878	0.828	0.595	0.0
345486795	631	PREDICTED: caseinolytic peptidase B prot	0.840	0.808	0.632	0.0
390351646	544	PREDICTED: caseinolytic peptidase B prot	0.850	0.948	0.591	0.0

>gi|91080595|ref|XP_973935.1| PREDICTED: similar to Caseinolytic peptidase B protein homolog (Suppressor of potassium transport defect 3) [Tribolium castaneum] gi|270005512|gb|EFA01960.1| hypothetical protein TcasGA2_TC007578 [Tribolium castaneum]

 Score =  702 bits (1813), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 347/565 (61%), Positives = 432/565 (76%), Gaps = 13/565 (2%)

Query: 48  CLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLT-----LFRAARYGSAKEL 102
           C   FP  +Q+     +N+    S   L  T L   S  + T     LFRAA+YG  +EL
Sbjct: 22  CAPKFPSFQQNEEKRGFNHPKTDSLAFLGFTGLVIASCDNRTQSNKRLFRAAQYGVVEEL 81

Query: 103 KTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEK 162
           KT I+N K ++N RH LGWTPL VAA+N + + V+ LLEAGA PNLG+ F +  RTA EK
Sbjct: 82  KTLIKN-KANLNARHELGWTPLMVAAVNNQYEAVKALLEAGAEPNLGEEFISAKRTAKEK 140

Query: 163 KMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSG 222
            ++P EVL+ RE+EF++ LN  ++F GF+ALHY V+  N  +V+LL+  GADPT+++ +G
Sbjct: 141 GLHPIEVLMTREEEFSNSLNAKVSFRGFTALHYAVLINNLSIVKLLIDQGADPTIENEAG 200

Query: 223 HIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISA 282
           H P  YA + ++K  LQ+   K+ +++++ E EERR++PLE+RLK RIVGQE AI I+SA
Sbjct: 201 HTPLAYAVEGDLKNYLQEKTSKFEEIKKQNELEERRRFPLEERLKTRIVGQEGAITIVSA 260

Query: 283 AIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE 342
            I+RKENGW DD+HPLVFLFLGSSGIGKTELAKQLA YIH++K +AFIRLDMSEYQEKHE
Sbjct: 261 TIRRKENGWGDDEHPLVFLFLGSSGIGKTELAKQLAAYIHKEKPQAFIRLDMSEYQEKHE 320

Query: 343 VAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDG 402
           VAKLIGAPPGY+GHD+GGQLT RLK+CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDG
Sbjct: 321 VAKLIGAPPGYIGHDEGGQLTSRLKQCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDG 380

Query: 403 KGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHF 462
            GKTIECK+AIF+MTSNLAS+EIAQH L+LR+E E       S +  +  + ++TISR F
Sbjct: 381 HGKTIECKNAIFIMTSNLASDEIAQHGLKLRQEIENLRANRLSNTTDEEISDNITISRKF 440

Query: 463 KDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIV 522
           KD VV+PILKRHF+RDEFLGRINEIVYFLPFS++EL  LV RE++ WA++A DKH I++ 
Sbjct: 441 KDEVVKPILKRHFKRDEFLGRINEIVYFLPFSRTELLQLVSREMSVWAQRAKDKHKIDLN 500

Query: 523 WDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQW-SKEV 581
           WD  VE+ LADGYDVHYGARSIK+EVER+VV+QLAAAHE   IGKGS V++   W  K +
Sbjct: 501 WDRSVESALADGYDVHYGARSIKYEVERRVVNQLAAAHESGFIGKGSVVQVTTVWHEKTL 560

Query: 582 SEDSAKGGIIKLKVKKKGMKDFIDV 606
           S +      IKL+VK KG K F+DV
Sbjct: 561 SPE------IKLRVKSKGAKGFVDV 579

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242023901|ref|XP_002432369.1| suppressor of potassium transport defect, putative [Pediculus humanus corporis] gi|212517792|gb|EEB19631.1| suppressor of potassium transport defect, putative [Pediculus humanus corporis]

 Score =  690 bits (1781), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 337/566 (59%), Positives = 435/566 (76%), Gaps = 12/566 (2%)

Query: 52  FPKIRQSNNTCMYNNLLFASAC---SLALTLLEC---QSIKDLTLFRAARYGSAKELKTF 105
           + + ++SN    Y+N          SL+L +  C    ++ +  LFRAA+YG+  E+K  
Sbjct: 105 YERYQRSNEKQWYDNDFIKWKILPGSLSLVVAGCFGEINVNEKRLFRAAQYGNDTEIKN- 163

Query: 106 IENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMN 165
           + +  +D+N RHP+GWT LHVA+IN ++  V+ LL+AGA+P+LGD F  + RTA EK ++
Sbjct: 164 LASEGMDMNTRHPMGWTALHVASINSRLGVVKALLKAGADPDLGDDFINIQRTAIEKGLH 223

Query: 166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
              VL+ RE+EF++ LN   TF GF+ALHY V+A + EV+E LL+ GA+P  ++++GH P
Sbjct: 224 SMNVLMVREEEFSNRLNNRATFQGFTALHYAVLADDVEVIEALLEGGANPLKENDAGHRP 283

Query: 226 SDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIK 285
           SDYA + ++K +L KYA K+ ++Q+++EA+ERR++P+E RLK+ IVGQE  I I++AAI+
Sbjct: 284 SDYAREGDVKNMLLKYAVKFDEIQKQREADERRRFPIEMRLKEHIVGQEGPIAIVAAAIR 343

Query: 286 RKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAK 345
           RKENGW DD+HPLVFLFLGSSGIGKTELAKQLA YIH+DK+ AFIRLDMSEYQEKHEVAK
Sbjct: 344 RKENGWADDEHPLVFLFLGSSGIGKTELAKQLARYIHKDKQNAFIRLDMSEYQEKHEVAK 403

Query: 346 LIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGK 405
           LIGAPPGY+GHDDGGQLTKRLKK PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKG+
Sbjct: 404 LIGAPPGYIGHDDGGQLTKRLKKFPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGR 463

Query: 406 TIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLD----VTISRH 461
           TI CKDA+FVMTSNLAS+EIA++A+QLRKE EE +K    +      N      VT+SR 
Sbjct: 464 TIMCKDAVFVMTSNLASDEIAEYAIQLRKEAEEINKNKYKMEGKGEDNASMTEQVTVSRD 523

Query: 462 FKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINI 521
           FK+ VVQPILKRHFRRDEFLGRINEIVYFLPFS+SEL  LV +EL++W K+A +KH I +
Sbjct: 524 FKEEVVQPILKRHFRRDEFLGRINEIVYFLPFSQSELLKLVTKELDYWKKRAFEKHGIEL 583

Query: 522 VWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSK-E 580
            WD +V   LADGYDVHYGARSIK+EVER+++SQ+AA HE+ V+  G  V++ V W K +
Sbjct: 584 TWDPEVAAALADGYDVHYGARSIKYEVERRLISQIAAGHEQGVVTPGCAVKIKVTWPKSD 643

Query: 581 VSEDSAKGGIIKLKVKKKGMKDFIDV 606
            S  +     + L V++KG KDF++V
Sbjct: 644 GSTKTETHSTLNLHVRQKGQKDFVEV 669

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307180438|gb|EFN68464.1| Caseinolytic peptidase B protein-like protein [Camponotus floridanus]

 Score =  666 bits (1718), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/540 (60%), Positives = 412/540 (76%), Gaps = 8/540 (1%)

Query: 68  LFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVA 127
           +  S     + L +  ++ +   FRA +YG+  EL+  I +  +DVN+RH LGWT LH A
Sbjct: 97  MLLSGLGFIVALCDAPNLAEKRFFRAVQYGNISELRKAIADG-IDVNVRHSLGWTALHTA 155

Query: 128 AINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTF 187
           AIN KV+ +++LL  GA+ N GD F  V+RTA EK ++  +VL+KRE+EF+D LN   TF
Sbjct: 156 AINQKVEVIKILLHNGADINAGDNFVNVYRTAMEKGLHSLDVLMKREEEFSDRLNNRATF 215

Query: 188 LGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYAD 247
            GF+ALHY V+A +   V+ LL  GA+PTV++ +GH   DYA++  IK++L K+A KY +
Sbjct: 216 QGFTALHYAVLADSKICVKTLLDEGANPTVENEAGHRAVDYAKEGEIKEMLIKHAIKYDE 275

Query: 248 LQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSG 307
           + +EKEAEERR++PLEQRLK  IVGQE  I+I+++ I+RKENGW D++HPLVFLFLGSSG
Sbjct: 276 IVKEKEAEERRRFPLEQRLKQHIVGQEGPISIVASTIRRKENGWIDEEHPLVFLFLGSSG 335

Query: 308 IGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLK 367
           IGKTELAKQLA YIH+DK+++FIRLDMSEYQ+KHEVAKLIGAPPGY+GHDDGGQLTK LK
Sbjct: 336 IGKTELAKQLAAYIHKDKRDSFIRLDMSEYQQKHEVAKLIGAPPGYVGHDDGGQLTKLLK 395

Query: 368 KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ 427
           K P+AVVLFDEVDKAHPDVLT+LLQLFDEGRLTDGKGKTIECK+AIFVMTSNL S EIA+
Sbjct: 396 KYPSAVVLFDEVDKAHPDVLTILLQLFDEGRLTDGKGKTIECKNAIFVMTSNLGSEEIAE 455

Query: 428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEI 487
           HA+QLR E E         S        + ISR+FKD VV+PILK HFRRDEFLGRINEI
Sbjct: 456 HAMQLRAEAERLLNHRLINSDEDQEPERIEISRNFKDQVVRPILKAHFRRDEFLGRINEI 515

Query: 488 VYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHE 547
           VYFLPFS++EL  LV REL  WA +A ++H I + WD ++ ++LADGYDVHYGARSIK+E
Sbjct: 516 VYFLPFSRAELMKLVTRELETWATRAKERHMIELKWDREILSVLADGYDVHYGARSIKYE 575

Query: 548 VERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFIDVV 607
           VER+VV+QLAAAHE+  +GKG  V L  +W +        G  I L V++KG K+F+D++
Sbjct: 576 VERRVVNQLAAAHERGQLGKGCCVLLKAKWHE-------SGASITLSVRQKGSKNFVDII 628

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332026312|gb|EGI66446.1| Caseinolytic peptidase B protein-like protein [Acromyrmex echinatior]

 Score =  661 bits (1705), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/541 (60%), Positives = 410/541 (75%), Gaps = 9/541 (1%)

Query: 68  LFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVA 127
           +F  +    +   +    K+   FRA +YG+  ELK  I  S +DVN+RHPLGWT L  A
Sbjct: 63  IFLGSLGFVVAFCDTSHFKEKKFFRAVQYGNISELKRSIA-SGIDVNIRHPLGWTALQTA 121

Query: 128 AINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTF 187
           AIN K D +++LL+ GA+ N GD F  V+RTA EK +   +VL KRE+EF+D LN   TF
Sbjct: 122 AINQKEDIIKILLDNGADVNAGDNFVNVYRTAMEKGLPSLDVLTKREEEFSDRLNNRATF 181

Query: 188 LGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYAD 247
            GF+ALHY V+A +   V+ LL  GA+PT+++ +GH   +YA++  +K++L K+A KY +
Sbjct: 182 QGFTALHYAVLANSETCVKALLDGGANPTIENEAGHRAVEYAKEREMKEMLIKHAIKYDE 241

Query: 248 LQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSG 307
           + +EKEAEERR++PLEQRLK  IVGQE +I+I+++ I+RKENGW D++HPLVFLFLGSSG
Sbjct: 242 IVKEKEAEERRRFPLEQRLKQHIVGQEGSISIVASTIRRKENGWIDEEHPLVFLFLGSSG 301

Query: 308 IGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLK 367
           IGKTELAKQLA YIHR+K ++FIRLDMSEYQ KHEVAKLIGAPPGY+GHDDGGQLTK LK
Sbjct: 302 IGKTELAKQLAAYIHRNKSDSFIRLDMSEYQGKHEVAKLIGAPPGYVGHDDGGQLTKLLK 361

Query: 368 KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ 427
           K P+AVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECK+AIF+MTSNL S EIA+
Sbjct: 362 KYPSAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKNAIFIMTSNLGSEEIAE 421

Query: 428 HALQLRKEGEE-FSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE 486
           HA+QLR E E   + R  + +        + ISR+FKD VV+PILK HFRRDEFLGRINE
Sbjct: 422 HAIQLRAEAERLLNHRLANTTDENQEPEHIEISRNFKDQVVRPILKNHFRRDEFLGRINE 481

Query: 487 IVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKH 546
           IVYFLPFS++EL  LV REL  WAK+A ++H I + WD +V ++LADGYDVHYGARSIK+
Sbjct: 482 IVYFLPFSRTELIELVARELKTWAKRAKERHMIELKWDREVLSVLADGYDVHYGARSIKY 541

Query: 547 EVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFIDV 606
           EVER+VV+QLAAAHE+  +GKG  V L  +W +        G  I L V+KKG + F+D+
Sbjct: 542 EVERRVVNQLAAAHERGELGKGCCVLLKAKWHE-------SGASITLSVQKKGSEKFVDI 594

Query: 607 V 607
            
Sbjct: 595 A 595

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322792402|gb|EFZ16386.1| hypothetical protein SINV_11479 [Solenopsis invicta]

 Score =  655 bits (1689), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 320/533 (60%), Positives = 407/533 (76%), Gaps = 9/533 (1%)

Query: 76  ALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDN 135
           A+   +    K+   FRA +YG+  ELK  I +  +DVN RH +GWT L  AAIN + D 
Sbjct: 108 AVVFCDASHFKEKRFFRAVQYGNIAELKKCIADG-IDVNTRHQMGWTALQTAAINQREDV 166

Query: 136 VRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHY 195
           +++LL+ GA+ N GD F  V++TA EK ++  +VL+KRE+EF+D LN   TF GF+ALHY
Sbjct: 167 IKILLDNGADINAGDNFVNVYKTAMEKGLHSLDVLMKREEEFSDRLNNRATFKGFTALHY 226

Query: 196 GVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAE 255
            V+A +   V+ LL  GA+PT+++ +G+   +Y ++  I+++L K+A KY ++ +EKEAE
Sbjct: 227 AVLADSKACVKALLDGGANPTIENEAGYRAVEYTKEGEIREMLVKHAIKYDEMVKEKEAE 286

Query: 256 ERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAK 315
           ERR++PLEQRLK  IVGQE  I+I+++ I+RKENGW D++HPLVFLFLGSSGIGKTELAK
Sbjct: 287 ERRRFPLEQRLKQHIVGQEGPISIVASTIRRKENGWIDEEHPLVFLFLGSSGIGKTELAK 346

Query: 316 QLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVL 375
           QLA YIH++K +AFIRLDMSEYQ KHEVAKLIGAPPGY+GHDDGGQLTK LKKCP+AVVL
Sbjct: 347 QLAAYIHKNKLDAFIRLDMSEYQGKHEVAKLIGAPPGYVGHDDGGQLTKLLKKCPSAVVL 406

Query: 376 FDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKE 435
           FDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECK+AIF+MTSNL S EIA+HALQLR E
Sbjct: 407 FDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKNAIFIMTSNLGSEEIAEHALQLRAE 466

Query: 436 GEE-FSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS 494
            E   + R  + S        + ISR+FKD VV+PILK HFRRDEFLGRINEIVYFLPFS
Sbjct: 467 AERLLNHRLVNTSNEDQEPEHIEISRNFKDQVVRPILKNHFRRDEFLGRINEIVYFLPFS 526

Query: 495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVS 554
           ++EL  LV REL  W+ +A ++H I + WD +V ++LADGYDVHYGARSIK+EVER+V++
Sbjct: 527 RAELIELVARELKAWSTRAKERHMIELKWDREVLSVLADGYDVHYGARSIKYEVERRVIN 586

Query: 555 QLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFIDVV 607
           QLAAAHE+  +GKG  V L  +W +        G  I L V++KG K F+D++
Sbjct: 587 QLAAAHERGELGKGCCVLLKAKWHE-------SGATITLSVQQKGSKKFVDII 632

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383853509|ref|XP_003702265.1| PREDICTED: caseinolytic peptidase B protein homolog [Megachile rotundata]

 Score =  654 bits (1687), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/541 (60%), Positives = 411/541 (75%), Gaps = 10/541 (1%)

Query: 68  LFASACSLALTLLECQSI-KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHV 126
           + +S   +++ L E  +  K+   F+AA+YG  K+LK  ++ S +DVN+RHPLGWT LHV
Sbjct: 124 IVSSGFGISIALCEASNFHKEKEFFQAAKYGDIKKLKAILK-SGIDVNVRHPLGWTALHV 182

Query: 127 AAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMT 186
           AAIN +   V++L+E GA+ N  D F  V+ TA EK +   +VL  RE EF+D LN   T
Sbjct: 183 AAINFQPKVVKLLIEHGADVNAQDEFINVYATAIEKGLQILDVLSTREQEFSDYLNSRAT 242

Query: 187 FLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYA 246
           F GF+ LHY V+  + +    L+ + ADPT+K  SGH P +YAE+  +K+IL KY+ KY 
Sbjct: 243 FKGFTPLHYAVLVNSKDCAVELMNAAADPTIKAESGHGPIEYAENGELKEILTKYSIKYD 302

Query: 247 DLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSS 306
           ++++EKE EERRK+PLEQRLK  IVGQ+ AI+I+++ I+RKENGW D+ HPLVFLFLGSS
Sbjct: 303 NIKKEKEMEERRKFPLEQRLKKYIVGQDGAISIVASTIRRKENGWIDEKHPLVFLFLGSS 362

Query: 307 GIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRL 366
           GIGKTELAKQLA YIH++K E FIRLDMSEYQEKHEVAKLIGAPPGY+GHDDGGQLTK+L
Sbjct: 363 GIGKTELAKQLAAYIHKNKPEGFIRLDMSEYQEKHEVAKLIGAPPGYVGHDDGGQLTKQL 422

Query: 367 KKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA 426
           +KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECK+AIFVMTSNLAS  IA
Sbjct: 423 RKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKNAIFVMTSNLASEVIA 482

Query: 427 QHALQLRKEGEEFSKRTPSISKSQGSNLD-VTISRHFKDHVVQPILKRHFRRDEFLGRIN 485
           +HA+QLR+E +  S +    S     N + + ISR+FKD VV+PILK HFRRDEFLGRIN
Sbjct: 483 EHAVQLREETQRVSDQKHDQSMDINENSEHIEISRNFKDKVVRPILKSHFRRDEFLGRIN 542

Query: 486 EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIK 545
           EIVYFLPFS+SEL  LV +EL  WA++A ++H I + W+ +V ++LA+GYD HYGARSIK
Sbjct: 543 EIVYFLPFSQSELIKLVAKELEAWAERAKERHKIELKWNREVLSLLAEGYDTHYGARSIK 602

Query: 546 HEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFID 605
           +EVER+VV+QLAAAHE+  +G G  V L V W K        G  I L +++K  KDF+D
Sbjct: 603 YEVERRVVNQLAAAHERGQLGTGCSVLLKVIWQK-------GGASIALSIRRKDSKDFVD 655

Query: 606 V 606
           +
Sbjct: 656 I 656

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350400658|ref|XP_003485912.1| PREDICTED: caseinolytic peptidase B protein homolog [Bombus impatiens]

 Score =  650 bits (1678), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/532 (60%), Positives = 409/532 (76%), Gaps = 13/532 (2%)

Query: 78  TLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVR 137
            L E ++ +D   F AA+YG+ +EL   I+   +DVNMRHPLGWT LH+AAIN K + V+
Sbjct: 109 ALCEAKNHRDKQFFLAAKYGNIRELTNIIKEG-IDVNMRHPLGWTALHLAAINAKPEVVK 167

Query: 138 VLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGV 197
           +LL+ GA+ NL D F  V+ TA EK ++  +VL+ RE+EF D LN   TF GF+ALHY V
Sbjct: 168 LLLKHGADANLQDEFINVYGTAIEKGLHTLDVLMIREEEFCDHLNSRATFKGFTALHYAV 227

Query: 198 VAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEER 257
           +A +   V+ LL++GADPT+K+ SGH   +YA+D  +K++L K A KY ++ +EKE EER
Sbjct: 228 LADSKPCVQALLEAGADPTMKNESGHRAVEYAKDGELKEMLIKRAIKYDEIMKEKELEER 287

Query: 258 RKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQL 317
           R++PLEQRL+  IVGQ  AI+I+++ I+RKENGW D+ HPLVFLFLGSSGIGKTELAKQL
Sbjct: 288 RRFPLEQRLRQYIVGQTGAISIVASTIRRKENGWIDEKHPLVFLFLGSSGIGKTELAKQL 347

Query: 318 AFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD 377
           A YIH++K+E FIRLDMSEYQEKHEVAKLIGAPPGY+GHDDGGQLTK L+KCPNAVVLFD
Sbjct: 348 AAYIHKNKQEGFIRLDMSEYQEKHEVAKLIGAPPGYVGHDDGGQLTKLLRKCPNAVVLFD 407

Query: 378 EVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGE 437
           EVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECK+AIF+MTSNLAS  IA HA+ LR+E +
Sbjct: 408 EVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKNAIFIMTSNLASEVIADHAVHLREEAQ 467

Query: 438 EFSKRTPSISKSQGSNLD---VTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS 494
              ++   + K+  +  D   + ISR FKD VV+PILK HF RDEFLGRINEIVYFLPFS
Sbjct: 468 RVMEQ--KLDKNVDTEEDPEHIEISRKFKDEVVRPILKSHFGRDEFLGRINEIVYFLPFS 525

Query: 495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVS 554
           +SEL +LV +EL  WA +A  +H I + W+ +V ++LA+GYD HYGARSIK+E+ER+VV+
Sbjct: 526 QSELISLVVKELETWADRAKKRHKIELKWNREVLSLLAEGYDTHYGARSIKYEIERRVVN 585

Query: 555 QLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFIDV 606
           QLAAAHE+  + KG  V L V+W K        G  I L +++KG KDF+D+
Sbjct: 586 QLAAAHERGQLEKGCCVLLKVKWYK-------NGANIALSIRRKGAKDFVDL 630

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340711024|ref|XP_003394082.1| PREDICTED: caseinolytic peptidase B protein homolog [Bombus terrestris]

 Score =  647 bits (1668), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/547 (59%), Positives = 416/547 (76%), Gaps = 14/547 (2%)

Query: 64  YNNLLFA-SACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWT 122
           + NL F      + + L E ++ +D   F AA+YG+ +EL   I+   +DVNMRHPLGWT
Sbjct: 94  FKNLGFILGGIGITIALCEAKNHRDKQFFLAAKYGNIEELTNIIKEG-IDVNMRHPLGWT 152

Query: 123 PLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLN 182
            LH+AAIN K + V++LL+ GA+ N  D F  V+ TA EK ++  +VL+ RE+EF D LN
Sbjct: 153 ALHLAAINAKPEVVKLLLKHGADVNAQDEFINVYGTAIEKGLHTLDVLMIREEEFCDHLN 212

Query: 183 PNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYA 242
              TF GF+ALHY V+A +   V+ LL++GADPT+K+ SG+   +YA+D  +K++L K A
Sbjct: 213 SRATFKGFTALHYAVLADSKPCVQALLEAGADPTMKNESGYRAVEYAKDGEVKEMLIKRA 272

Query: 243 EKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLF 302
            KY ++ +EKE EERR++PLEQRL+  IVGQ  AI+I+++ I+RKENGW D+ HPLVFLF
Sbjct: 273 IKYDEIMKEKELEERRRFPLEQRLRQYIVGQTGAISIVASTIRRKENGWIDEKHPLVFLF 332

Query: 303 LGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQL 362
           LGSSGIGKTELAKQLA YIH++K+E FIRLDMSEYQEKHEVAKLIGAPPGY+GHDDGGQL
Sbjct: 333 LGSSGIGKTELAKQLAAYIHKNKQEGFIRLDMSEYQEKHEVAKLIGAPPGYIGHDDGGQL 392

Query: 363 TKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLAS 422
           TK L+KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECK+AIF+MTSNLAS
Sbjct: 393 TKLLRKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKNAIFIMTSNLAS 452

Query: 423 NEIAQHALQLRKEGEEFSKRTPSISKSQGSNLD---VTISRHFKDHVVQPILKRHFRRDE 479
             IA HA+ LR+E +   ++   + K+  +  D   + ISR FKD VV+PILK HF RDE
Sbjct: 453 EVIADHAVHLREEAQRVMEQ--KLDKNADTEEDPEHIEISRKFKDEVVRPILKSHFGRDE 510

Query: 480 FLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHY 539
           FLGRINEIVYFLPFS+SEL +LV +EL  WA +A  +H I + W+ +V ++LA+GYD HY
Sbjct: 511 FLGRINEIVYFLPFSQSELISLVVKELETWADRAKKRHKIELKWNREVLSLLAEGYDTHY 570

Query: 540 GARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKG 599
           GARSIK+E+ER+VV+QLAAAHE+  + KG  V L V+W K    +SA    I L +++KG
Sbjct: 571 GARSIKYEIERRVVNQLAAAHERGQLEKGCCVLLKVKWHK----NSAN---IALSIRRKG 623

Query: 600 MKDFIDV 606
            KDF+D+
Sbjct: 624 AKDFVDL 630

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345486795|ref|XP_001607140.2| PREDICTED: caseinolytic peptidase B protein homolog [Nasonia vitripennis]

 Score =  642 bits (1655), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 329/520 (63%), Positives = 405/520 (77%), Gaps = 10/520 (1%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
            F AA+YG+  +LK  I +S LDVN RH LGWT L  AAING+V+ +R L+E GA+ N G
Sbjct: 107 FFLAAQYGNILDLKKAI-DSGLDVNTRHSLGWTALQTAAINGRVEALRYLIERGADINAG 165

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D F  V++TA EK+M+P +VL +RE+EF+D L    TF GF+ALHY V+A + + V+ LL
Sbjct: 166 DNFVNVYKTAMEKRMHPSDVLSEREEEFSDRLIARATFKGFTALHYAVLARSKDCVKALL 225

Query: 210 KSGADPTVKDNSGHIPSDYA-EDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKD 268
            +GA+PT+++ +G    DYA  D  I+ +L K+A KY ++ +EKEAEERR++PLEQRLK 
Sbjct: 226 DAGANPTIENEAGRRAVDYAYMDKEIEDMLIKHALKYDEIIKEKEAEERRRFPLEQRLKQ 285

Query: 269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEA 328
            IVGQE AI+I+++ I+RKENGW D++HPLVFLFLGSSGIGKTELAKQLA YIHR+K ++
Sbjct: 286 FIVGQEGAISIVASTIRRKENGWIDEEHPLVFLFLGSSGIGKTELAKQLAAYIHRNKPDS 345

Query: 329 FIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLT 388
           FIRLDMSEYQEKHEVAKLIGAPPGY+GHDDGGQLTK L+K P+AVVLFDEVDKAHPDVLT
Sbjct: 346 FIRLDMSEYQEKHEVAKLIGAPPGYVGHDDGGQLTKLLRKSPSAVVLFDEVDKAHPDVLT 405

Query: 389 VLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEE-FSKRTPSIS 447
           VLLQLFDEGRLTDGKGKTIECKDAIF+MTSNLAS EIA+HA+QLR+E E   +KR    +
Sbjct: 406 VLLQLFDEGRLTDGKGKTIECKDAIFIMTSNLASEEIAEHAMQLREEAERLLTKRLDDKT 465

Query: 448 KSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELN 507
                  ++ ISR+FKD VV+PILK HFRRDEFLGRINEIVYFLPFS++EL  LV REL 
Sbjct: 466 NDDQEPENIEISRNFKDQVVRPILKSHFRRDEFLGRINEIVYFLPFSRAELIKLVVRELE 525

Query: 508 FWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGK 567
            WA +A ++H I + WD +V ++LADGYD HYGARSIKHEVER+VV+QLA AHE+  +  
Sbjct: 526 AWASRARERHKIELKWDREVLSVLADGYDAHYGARSIKHEVERRVVNQLATAHERGQLDP 585

Query: 568 GSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFIDVV 607
           G  V L  +W K        G  I L VK KG+KDF+D+V
Sbjct: 586 GCCVLLKARWHK-------NGASIGLSVKPKGVKDFVDLV 618

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|390351646|ref|XP_786389.2| PREDICTED: caseinolytic peptidase B protein homolog [Strongylocentrotus purpuratus]

 Score =  640 bits (1652), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 309/522 (59%), Positives = 401/522 (76%), Gaps = 6/522 (1%)

Query: 91  FRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD 150
           F A+R     E+   +  S  +VN RH LGWT LHVA IN     +R LL+AGA+PN+GD
Sbjct: 9   FLASRKDDVDEISRLLR-SGFNVNARHQLGWTALHVATINRHEKALRALLKAGADPNIGD 67

Query: 151 LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLK 210
            F++V +TA EK +N  +VL  RED+F+D LN   +F G +ALHY V++ +  +V +LL+
Sbjct: 68  EFSSVWQTAQEKSLNSLQVLYDREDDFSDRLNNRASFRGCTALHYAVLSNDINIVRILLE 127

Query: 211 SGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRI 270
           +GADP + + +GH P  YA+   IKQ+L++ ++K++ LQ ++ AEERR++PLEQRL + I
Sbjct: 128 AGADPMITNENGHTPMQYAKGQAIKQLLEENSKKFSALQAKRAAEERRRFPLEQRLTEFI 187

Query: 271 VGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFI 330
           +GQ+ AI  ++AA++RKENGW D+DHPLVFLFLGSSGIGKTELAKQ+A Y+H+D K  FI
Sbjct: 188 IGQDGAIATVAAAVRRKENGWMDEDHPLVFLFLGSSGIGKTELAKQIARYMHKDVKNGFI 247

Query: 331 RLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVL 390
           R+DMSEYQEKHEVAK IGAPPGY+GHD GGQLTK+LK+ PNAVVLFDEVDKAHPDVLT++
Sbjct: 248 RMDMSEYQEKHEVAKFIGAPPGYVGHDQGGQLTKKLKQNPNAVVLFDEVDKAHPDVLTIM 307

Query: 391 LQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSK-RTPSISKS 449
           LQLFDEGRLTDGKGKTIECKDAIFVMTSN+AS+EIA HALQLR+E +   K R  +  +S
Sbjct: 308 LQLFDEGRLTDGKGKTIECKDAIFVMTSNIASDEIASHALQLRREAKAMMKQRQTAQVES 367

Query: 450 QGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFW 509
                 VTIS+ FK+ VVQPILKRHFRRDEFLGRINE+VYFLPFS++EL  LV +ELNFW
Sbjct: 368 AEMTEQVTISKRFKEDVVQPILKRHFRRDEFLGRINEMVYFLPFSRAELIRLVSKELNFW 427

Query: 510 AKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGS 569
           A +A D+H + + WD++V  +LADGYDVHYGARSIKHEVER++V+QLAAA EK +I +G 
Sbjct: 428 ATRAKDRHEMELTWDVEVLEVLADGYDVHYGARSIKHEVERRIVNQLAAAQEKLLISQGC 487

Query: 570 FVRLYVQWSKEVSEDSAKGGI----IKLKVKKKGMKDFIDVV 607
            + + V      ++ S    +    +KL+V KKG K+ ++++
Sbjct: 488 KLHIAVDAGSHDNKMSGSQDLQQTKLKLQVIKKGKKETVNIL 529

Source: Strongylocentrotus purpuratus

Species: Strongylocentrotus purpuratus

Genus: Strongylocentrotus

Family: Strongylocentrotidae

Order: Echinoida

Class: Echinoidea

Phylum: Echinodermata

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	607
UNIPROTKB|E2R362	677	CLPB "Uncharacterized protein"	0.807	0.723	0.612	4.5e-162
UNIPROTKB|F6XXW3	704	CLPB "Uncharacterized protein"	0.807	0.696	0.612	4.5e-162
MGI|MGI:1100517	677	Clpb "ClpB caseinolytic peptid	0.825	0.740	0.6	4.5e-162
UNIPROTKB|Q5E9N5	677	CLPB "Caseinolytic peptidase B	0.808	0.725	0.610	2.5e-161
UNIPROTKB|F1M955	543	Clpb "Caseinolytic peptidase B	0.803	0.898	0.611	2.5e-161
RGD|621328	677	Clpb "ClpB caseinolytic peptid	0.825	0.740	0.596	2.2e-160
UNIPROTKB|Q9H078	707	CLPB "Caseinolytic peptidase B	0.675	0.579	0.639	3.3e-160
UNIPROTKB|H0YGM0	712	CLPB "Caseinolytic peptidase B	0.675	0.575	0.639	4.8e-157
UNIPROTKB|B4DXW4	506	CLPB "cDNA FLJ53238, highly si	0.741	0.889	0.631	1.1e-153
UNIPROTKB|I3LJ13	410	LOC100524385 "Uncharacterized	0.581	0.860	0.673	1.9e-131

UNIPROTKB|E2R362 CLPB "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 1578 (560.5 bits), Expect = 4.5e-162, P = 4.5e-162
 Identities = 304/496 (61%), Positives = 391/496 (78%)

Query:    84 SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG 143
             S KD+ L  AAR  + +E+   +     DVN RH LGWT L VAAI+     VR+LL AG
Sbjct:   132 SNKDIALMEAARANNVQEVSRLLSEGA-DVNARHRLGWTALMVAAISRNDSVVRILLAAG 190

Query:   144 ANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTE 203
             A+PNLGD F++V++TA E+ ++  EVL+ RED+FN+ LN   +F G +ALHY V+A +  
Sbjct:   191 ADPNLGDDFSSVYKTAKEQGIHSLEVLVTREDDFNNRLNNRASFKGCTALHYAVLADDYR 250

Query:   204 VVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLE 263
              V+ LL  GA+P  ++  GH P DYA +  + ++L+    KY + QR++EAEERR++PLE
Sbjct:   251 TVKELLDGGANPLQRNEMGHTPLDYAREGEVMKLLRTSEAKYQEKQRKREAEERRRFPLE 310

Query:   264 QRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR 323
             QRLK+ I+GQESAI  + AAI+RKENGW D++HPLVFLFLGSSGIGKTELAKQ A Y+H+
Sbjct:   311 QRLKEHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKYMHK 370

Query:   324 DKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAH 383
             D K+ FIRLDMSE+QE+HEVAK IG+PPGY+GH++GGQLTK+LK+CPNAVVLFDEVDKAH
Sbjct:   371 DAKKGFIRLDMSEFQERHEVAKFIGSPPGYIGHEEGGQLTKKLKQCPNAVVLFDEVDKAH 430

Query:   384 PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRT 443
             PDVLT++LQLFDEGRLTDGKGKTI+CKDAIF+MTSN+AS+EIAQHALQLR+E  E S   
Sbjct:   431 PDVLTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSHNR 490

Query:   444 PSISKSQGS---NLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT 500
               I+++ G    N  +TIS++FK++V++PILK HFRRDEFLGRINEIVYFLPF  SEL  
Sbjct:   491 --IAENLGDVQINDKITISKNFKENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSELIQ 548

Query:   501 LVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAH 560
             LV +ELNFWAK+A  +HNI ++WD +V  +L DGY+VHYGARSIKHEVER+VV+QLAAA+
Sbjct:   549 LVNKELNFWAKRAKQRHNITLLWDREVADVLVDGYNVHYGARSIKHEVERRVVNQLAAAY 608

Query:   561 EKSVIGKGSFVRLYVQ 576
             E+ ++  G  +R+ V+
Sbjct:   609 EQDLLPGGCTLRITVE 624

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|F6XXW3 CLPB "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 1578 (560.5 bits), Expect = 4.5e-162, P = 4.5e-162
 Identities = 304/496 (61%), Positives = 391/496 (78%)

Query:    84 SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG 143
             S KD+ L  AAR  + +E+   +     DVN RH LGWT L VAAI+     VR+LL AG
Sbjct:   138 SNKDIALMEAARANNVQEVSRLLSEGA-DVNARHRLGWTALMVAAISRNDSVVRILLAAG 196

Query:   144 ANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTE 203
             A+PNLGD F++V++TA E+ ++  EVL+ RED+FN+ LN   +F G +ALHY V+A +  
Sbjct:   197 ADPNLGDDFSSVYKTAKEQGIHSLEVLVTREDDFNNRLNNRASFKGCTALHYAVLADDYR 256

Query:   204 VVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLE 263
              V+ LL  GA+P  ++  GH P DYA +  + ++L+    KY + QR++EAEERR++PLE
Sbjct:   257 TVKELLDGGANPLQRNEMGHTPLDYAREGEVMKLLRTSEAKYQEKQRKREAEERRRFPLE 316

Query:   264 QRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR 323
             QRLK+ I+GQESAI  + AAI+RKENGW D++HPLVFLFLGSSGIGKTELAKQ A Y+H+
Sbjct:   317 QRLKEHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKYMHK 376

Query:   324 DKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAH 383
             D K+ FIRLDMSE+QE+HEVAK IG+PPGY+GH++GGQLTK+LK+CPNAVVLFDEVDKAH
Sbjct:   377 DAKKGFIRLDMSEFQERHEVAKFIGSPPGYIGHEEGGQLTKKLKQCPNAVVLFDEVDKAH 436

Query:   384 PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRT 443
             PDVLT++LQLFDEGRLTDGKGKTI+CKDAIF+MTSN+AS+EIAQHALQLR+E  E S   
Sbjct:   437 PDVLTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSHNR 496

Query:   444 PSISKSQGS---NLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT 500
               I+++ G    N  +TIS++FK++V++PILK HFRRDEFLGRINEIVYFLPF  SEL  
Sbjct:   497 --IAENLGDVQINDKITISKNFKENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSELIQ 554

Query:   501 LVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAH 560
             LV +ELNFWAK+A  +HNI ++WD +V  +L DGY+VHYGARSIKHEVER+VV+QLAAA+
Sbjct:   555 LVNKELNFWAKRAKQRHNITLLWDREVADVLVDGYNVHYGARSIKHEVERRVVNQLAAAY 614

Query:   561 EKSVIGKGSFVRLYVQ 576
             E+ ++  G  +R+ V+
Sbjct:   615 EQDLLPGGCTLRITVE 630

GO:0005524 "ATP binding" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

MGI|MGI:1100517 Clpb "ClpB caseinolytic peptidase B" [Mus musculus (taxid:10090)]

 Score = 1578 (560.5 bits), Expect = 4.5e-162, P = 4.5e-162
 Identities = 306/510 (60%), Positives = 400/510 (78%)

Query:    74 SLALTLL-ECQSI----KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAA 128
             +LA+ L+ +C S     KD  L  AAR  + +E++  +     DVN RH LGWT L VA+
Sbjct:   117 ALAMALVVQCYSKNPSNKDAALMEAARANNVQEVRRLLSEGA-DVNARHKLGWTALMVAS 175

Query:   129 INGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFL 188
             I+     V+VLL AGA+PNLGD F++V++TA E+ ++  EVL+ RED+FN+ LN   +F 
Sbjct:   176 ISHNESVVQVLLAAGADPNLGDEFSSVYKTANEQGVHSLEVLVTREDDFNNRLNHRASFK 235

Query:   189 GFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADL 248
             G +ALHY V+A +  +V+ LL  GA+P  ++  GH P DYA +  + ++L+    KY + 
Sbjct:   236 GCTALHYAVLADDYSIVKELLDRGANPLQRNEMGHTPLDYAREGEVMKLLKTSETKYMEK 295

Query:   249 QREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGI 308
             QR++EAEERR++PLEQRLK+ I+GQESAI  + AAI+RKENGW D++HPLVFLFLGSSGI
Sbjct:   296 QRKREAEERRRFPLEQRLKEHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGSSGI 355

Query:   309 GKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK 368
             GKTELAKQ A Y+H+D K+ FIRLDMSE+QE+HEVAK IG+PPGY+GH++GGQLTK+LK+
Sbjct:   356 GKTELAKQTAKYMHKDAKKGFIRLDMSEFQERHEVAKFIGSPPGYIGHEEGGQLTKKLKQ 415

Query:   369 CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH 428
             CPNAVVLFDEVDKAHPDVLT++LQLFDEGRLTDGKGKTI+CKDAIF+MTSN+AS+EIAQH
Sbjct:   416 CPNAVVLFDEVDKAHPDVLTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEIAQH 475

Query:   429 ALQLRKEGEEFSKR--TPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE 486
             ALQLR+E  E S+     ++   Q S+  +TIS++FK++V++PILK HFRRDEFLGRINE
Sbjct:   476 ALQLRQEALEMSRNRIAENLGDVQMSD-KITISKNFKENVIRPILKAHFRRDEFLGRINE 534

Query:   487 IVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKH 546
             IVYFLPF  SEL  LV +ELNFWAK+A  +HNI ++WD +V  +L DGY+VHYGARSIKH
Sbjct:   535 IVYFLPFCHSELIQLVNKELNFWAKRAKQRHNITLLWDREVADVLVDGYNVHYGARSIKH 594

Query:   547 EVERQVVSQLAAAHEKSVIGKGSFVRLYVQ 576
             EVER+VV+QLAAA+E+ ++  G  +R+ V+
Sbjct:   595 EVERRVVNQLAAAYEQDLLPGGCTLRITVE 624

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0034605 "cellular response to heat" evidence=ISO

UNIPROTKB|Q5E9N5 CLPB "Caseinolytic peptidase B protein homolog" [Bos taurus (taxid:9913)]

 Score = 1571 (558.1 bits), Expect = 2.5e-161, P = 2.5e-161
 Identities = 302/495 (61%), Positives = 390/495 (78%)

Query:    84 SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG 143
             S KD  L  AAR  + +E+   +     DVN RH LGWT L VAAIN     V+VLL AG
Sbjct:   132 SSKDAALMEAARANNVQEVSRLLSEGA-DVNARHRLGWTALMVAAINRNDSVVQVLLAAG 190

Query:   144 ANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTE 203
             A+PNLGD F++V++TA ++ ++  EVL+ RED+FN+ LN   +F G +ALHY V+A +  
Sbjct:   191 ADPNLGDDFSSVYKTAKDQGIHSLEVLVTREDDFNNRLNNRASFKGCTALHYAVLADDYR 250

Query:   204 VVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLE 263
              V+ LL  GA+P  ++  GH P DYA +  + ++L+    KY + QR++EAEERR++PLE
Sbjct:   251 TVKELLDGGANPLQRNEMGHTPLDYAREGEVMKLLRTSETKYQEKQRKREAEERRRFPLE 310

Query:   264 QRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR 323
             QRLK+ I+GQESAI  + AAI+RKENGW D++HPLVFLFLGSSGIGKTELAKQ A Y+H+
Sbjct:   311 QRLKEHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKYMHK 370

Query:   324 DKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAH 383
             D K+ FIRLDMSE+QE+HEVAK IG+PPGY+GH++GGQLTK+LK+CPNAVVLFDEVDKAH
Sbjct:   371 DAKKGFIRLDMSEFQERHEVAKFIGSPPGYIGHEEGGQLTKKLKQCPNAVVLFDEVDKAH 430

Query:   384 PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKR- 442
             PDVLT++LQLFDEGRLTDGKGKTI+CKDAIF+MTSN+AS+EIAQHALQLR+E  E S+  
Sbjct:   431 PDVLTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSRNR 490

Query:   443 -TPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTL 501
                ++   Q S+  +TIS++FK++V++PILK HFRRDEFLGRINEIVYFLPF  SEL  L
Sbjct:   491 IAENLGDVQISD-KITISKNFKENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSELIQL 549

Query:   502 VCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHE 561
             V +ELNFWAK+A  +HNI ++WD +V  +L +GY+VHYGARSIKHEVER+VV+QLAAA+E
Sbjct:   550 VNKELNFWAKRAKQRHNITLLWDREVADVLVEGYNVHYGARSIKHEVERRVVNQLAAAYE 609

Query:   562 KSVIGKGSFVRLYVQ 576
             + ++  G  +R+ V+
Sbjct:   610 QDLLPGGCTLRITVE 624

GO:0034605 "cellular response to heat" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

UNIPROTKB|F1M955 Clpb "Caseinolytic peptidase B protein homolog" [Rattus norvegicus (taxid:10116)]

 Score = 1571 (558.1 bits), Expect = 2.5e-161, P = 2.5e-161
 Identities = 301/492 (61%), Positives = 390/492 (79%)

Query:    87 DLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP 146
             D  L  AAR  + +E++  +     DVN RH LGWT L VAAI+     V+VLL AGA+P
Sbjct:     1 DAALMEAARANNVQEVRRLLSEGA-DVNARHKLGWTALMVAAISHNESVVQVLLAAGADP 59

Query:   147 NLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVE 206
             NLGD F++V++TA E+ ++  EVL+ RED+FN+ LN   +F G +ALHY V+A +  +V+
Sbjct:    60 NLGDDFSSVYKTANEQGVHSLEVLVTREDDFNNRLNHRASFKGCTALHYAVLADDYSIVK 119

Query:   207 LLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRL 266
              LL  GA+P  ++  GH P DYA +  + ++L+    KY + QR++EAEERR++PLEQRL
Sbjct:   120 ELLGGGANPLQRNEMGHTPLDYAREGEVMKLLKTSETKYMEKQRKREAEERRRFPLEQRL 179

Query:   267 KDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK 326
             K+ I+GQESAI  + AAI+RKENGW D++HPLVFLFLGSSGIGKTELAKQ A Y+H+D K
Sbjct:   180 KEHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKYMHKDAK 239

Query:   327 EAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDV 386
             + FIRLDMSE+QE+HEVAK IG+PPGY+GH++GGQLTK+LK+CPNAVVLFDEVDKAHPDV
Sbjct:   240 KGFIRLDMSEFQERHEVAKFIGSPPGYIGHEEGGQLTKKLKQCPNAVVLFDEVDKAHPDV 299

Query:   387 LTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKR--TP 444
             LT++LQLFDEGRLTDGKGKTI+CKDAIF+MTSN+AS+EIAQHALQLR+E  E S+     
Sbjct:   300 LTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSRNRIAE 359

Query:   445 SISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCR 504
             ++   Q S+  +TIS++FK++V++PILK HFRRDEFLGRINEIVYFLPF  SEL  LV +
Sbjct:   360 NLGDVQISD-KITISKNFKENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSELIQLVNK 418

Query:   505 ELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSV 564
             ELNFWAK+A  +HNI ++WD +V  +L DGY+VHYGARSIKHEVER+VV+QLAAA+E+ +
Sbjct:   419 ELNFWAKRAKQRHNITLLWDREVADVLVDGYNVHYGARSIKHEVERRVVNQLAAAYEQDL 478

Query:   565 IGKGSFVRLYVQ 576
             +  G  +R+ V+
Sbjct:   479 LPGGCTLRITVE 490

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0034605 "cellular response to heat" evidence=IEA

RGD|621328 Clpb "ClpB caseinolytic peptidase B homolog (E. coli)" [Rattus norvegicus (taxid:10116)]

 Score = 1562 (554.9 bits), Expect = 2.2e-160, P = 2.2e-160
 Identities = 304/510 (59%), Positives = 398/510 (78%)

Query:    74 SLALTLL-ECQ----SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAA 128
             +LA+ L+ +C     S KD  L  AAR  + +E++  +     DVN RH LGWT L VAA
Sbjct:   117 ALAMALVVQCYNKNPSNKDAALMEAARANNVQEVRRLLSEGA-DVNARHKLGWTALMVAA 175

Query:   129 INGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFL 188
             I+     V+VLL AGA+PNLGD F++V++TA E+ ++  EVL+ RED+FN+ LN   +F 
Sbjct:   176 ISHNESVVQVLLAAGADPNLGDDFSSVYKTANEQGVHSLEVLVTREDDFNNRLNHRASFK 235

Query:   189 GFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADL 248
             G +ALHY V+A +  +V+ LL  GA+P  ++  GH P DYA +  + ++L+    KY + 
Sbjct:   236 GCTALHYAVLADDYSIVKELLGGGANPLQRNEMGHTPLDYAREGEVMKLLKTSETKYMEK 295

Query:   249 QREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGI 308
             QR++EAEERR++PLEQRL+  I+GQESAI  + AAI+RKENGW D++HPLVFLFLGSSGI
Sbjct:   296 QRKREAEERRRFPLEQRLEQHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGSSGI 355

Query:   309 GKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK 368
             GKTELAKQ A Y+H+D K+ FIRLDMSE+QE+HEVAK IG+PPGY+GH++GGQLTK+LK+
Sbjct:   356 GKTELAKQTAKYMHKDAKKGFIRLDMSEFQERHEVAKFIGSPPGYIGHEEGGQLTKKLKQ 415

Query:   369 CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH 428
             CPNAVVLFDEVDKAHPDVLT++LQLFDEGRLTDGKGKTI+CKDAIF+MTSN+AS+EIAQH
Sbjct:   416 CPNAVVLFDEVDKAHPDVLTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEIAQH 475

Query:   429 ALQLRKEGEEFSKR--TPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE 486
             ALQLR+E  E S+     ++   Q S+  +TIS++FK+++++PILK HFRRDEFLGRINE
Sbjct:   476 ALQLRQEALEMSRNRIAENLGDVQISD-KITISKNFKENMIRPILKAHFRRDEFLGRINE 534

Query:   487 IVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKH 546
             IVYFLPF  SEL  LV +ELNFWAK+A  +HNI ++WD +V  +L DGY+V YGARSIKH
Sbjct:   535 IVYFLPFCHSELIQLVNKELNFWAKRAKQRHNITLLWDREVADVLVDGYNVQYGARSIKH 594

Query:   547 EVERQVVSQLAAAHEKSVIGKGSFVRLYVQ 576
             EVER+VV+QLAAA+E+ ++  G  +R+ V+
Sbjct:   595 EVERRVVNQLAAAYEQDLLPGGCTLRITVE 624

GO:0003674 "molecular_function" evidence=ND

GO:0005524 "ATP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005739 "mitochondrion" evidence=ISO

GO:0008150 "biological_process" evidence=ND

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0034605 "cellular response to heat" evidence=ISO

UNIPROTKB|Q9H078 CLPB "Caseinolytic peptidase B protein homolog" [Homo sapiens (taxid:9606)]

 Score = 1398 (497.2 bits), Expect = 3.3e-160, Sum P(2) = 3.3e-160
 Identities = 264/413 (63%), Positives = 337/413 (81%)

Query:   166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
             P  VL+ RED+FN+ LN   +F G +ALHY V+A +   V+ LL  GA+P  ++  GH P
Sbjct:   243 PAGVLITREDDFNNRLNNRASFKGCTALHYAVLADDYRTVKELLDGGANPLQRNEMGHTP 302

Query:   226 SDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIK 285
              DYA +  + ++L+    KY + QR++EAEERR++PLEQRLK+ I+GQESAI  + AAI+
Sbjct:   303 LDYAREGEVMKLLRTSEAKYQEKQRKREAEERRRFPLEQRLKEHIIGQESAIATVGAAIR 362

Query:   286 RKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAK 345
             RKENGW D++HPLVFLFLGSSGIGKTELAKQ A Y+H+D K+ FIRLDMSE+QE+HEVAK
Sbjct:   363 RKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKYMHKDAKKGFIRLDMSEFQERHEVAK 422

Query:   346 LIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGK 405
              IG+PPGY+GH++GGQLTK+LK+CPNAVVLFDEVDKAHPDVLT++LQLFDEGRLTDGKGK
Sbjct:   423 FIGSPPGYVGHEEGGQLTKKLKQCPNAVVLFDEVDKAHPDVLTIMLQLFDEGRLTDGKGK 482

Query:   406 TIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKR--TPSISKSQGSNLDVTISRHFK 463
             TI+CKDAIF+MTSN+AS+EIAQHALQLR+E  E S+     ++   Q S+  +TIS++FK
Sbjct:   483 TIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSRNRIAENLGDVQISD-KITISKNFK 541

Query:   464 DHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVW 523
             ++V++PILK HFRRDEFLGRINEIVYFLPF  SEL  LV +ELNFWAK+A  +HNI ++W
Sbjct:   542 ENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSELIQLVNKELNFWAKRAKQRHNITLLW 601

Query:   524 DIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQ 576
             D +V  +L DGY+VHYGARSIKHEVER+VV+QLAAA+E+ ++  G  +R+ V+
Sbjct:   602 DREVADVLVDGYNVHYGARSIKHEVERRVVNQLAAAYEQDLLPGGCTLRITVE 654

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0034605 "cellular response to heat" evidence=IDA

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|H0YGM0 CLPB "Caseinolytic peptidase B protein homolog" [Homo sapiens (taxid:9606)]

 Score = 1398 (497.2 bits), Expect = 4.8e-157, Sum P(2) = 4.8e-157
 Identities = 264/413 (63%), Positives = 337/413 (81%)

Query:   166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
             P  VL+ RED+FN+ LN   +F G +ALHY V+A +   V+ LL  GA+P  ++  GH P
Sbjct:   248 PAGVLITREDDFNNRLNNRASFKGCTALHYAVLADDYRTVKELLDGGANPLQRNEMGHTP 307

Query:   226 SDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIK 285
              DYA +  + ++L+    KY + QR++EAEERR++PLEQRLK+ I+GQESAI  + AAI+
Sbjct:   308 LDYAREGEVMKLLRTSEAKYQEKQRKREAEERRRFPLEQRLKEHIIGQESAIATVGAAIR 367

Query:   286 RKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAK 345
             RKENGW D++HPLVFLFLGSSGIGKTELAKQ A Y+H+D K+ FIRLDMSE+QE+HEVAK
Sbjct:   368 RKENGWYDEEHPLVFLFLGSSGIGKTELAKQTAKYMHKDAKKGFIRLDMSEFQERHEVAK 427

Query:   346 LIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGK 405
              IG+PPGY+GH++GGQLTK+LK+CPNAVVLFDEVDKAHPDVLT++LQLFDEGRLTDGKGK
Sbjct:   428 FIGSPPGYVGHEEGGQLTKKLKQCPNAVVLFDEVDKAHPDVLTIMLQLFDEGRLTDGKGK 487

Query:   406 TIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKR--TPSISKSQGSNLDVTISRHFK 463
             TI+CKDAIF+MTSN+AS+EIAQHALQLR+E  E S+     ++   Q S+  +TIS++FK
Sbjct:   488 TIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSRNRIAENLGDVQISD-KITISKNFK 546

Query:   464 DHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVW 523
             ++V++PILK HFRRDEFLGRINEIVYFLPF  SEL  LV +ELNFWAK+A  +HNI ++W
Sbjct:   547 ENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSELIQLVNKELNFWAKRAKQRHNITLLW 606

Query:   524 DIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQ 576
             D +V  +L DGY+VHYGARSIKHEVER+VV+QLAAA+E+ ++  G  +R+ V+
Sbjct:   607 DREVADVLVDGYNVHYGARSIKHEVERRVVNQLAAAYEQDLLPGGCTLRITVE 659

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|B4DXW4 CLPB "cDNA FLJ53238, highly similar to Caseinolytic peptidase B protein" [Homo sapiens (taxid:9606)]

 Score = 1499 (532.7 bits), Expect = 1.1e-153, P = 1.1e-153
 Identities = 286/453 (63%), Positives = 368/453 (81%)

Query:   126 VAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNM 185
             VAAIN     V+VLL AGA+PNLGD F++V++TA E+ ++  EVL+ RED+FN+ LN   
Sbjct:     2 VAAINRNNSVVQVLLAAGADPNLGDDFSSVYKTAKEQGIHSLEVLITREDDFNNRLNNRA 61

Query:   186 TFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKY 245
             +F G +ALHY V+A +   V+ LL  GA+P  ++  GH P DYA +  + ++L+    KY
Sbjct:    62 SFKGCTALHYAVLADDYRTVKELLDGGANPLQRNEMGHTPLDYAREGEVMKLLRTSEAKY 121

Query:   246 ADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGS 305
              + QR++EAEERR++PLEQRLK+ I+GQESAI  + AAI+RKENGW D++HPLVFLFLGS
Sbjct:   122 QEKQRKREAEERRRFPLEQRLKEHIIGQESAIATVGAAIRRKENGWYDEEHPLVFLFLGS 181

Query:   306 SGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKR 365
             SGIGKTELAKQ A Y+H+D K+ FIRLDMSE+QE+HEVAK IG+PPGY+GH++GGQLTK+
Sbjct:   182 SGIGKTELAKQTAKYMHKDAKKGFIRLDMSEFQERHEVAKFIGSPPGYVGHEEGGQLTKK 241

Query:   366 LKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEI 425
             LK+CPNAVVLFDEVDKAHPDVLT++LQLFDEGRLTDGKGKTI+CKDAIF+MTSN+AS+EI
Sbjct:   242 LKQCPNAVVLFDEVDKAHPDVLTIMLQLFDEGRLTDGKGKTIDCKDAIFIMTSNVASDEI 301

Query:   426 AQHALQLRKEGEEFSKR--TPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGR 483
             AQHALQLR+E  E S+     ++   Q S+  +TIS++FK++V++PILK HFRRDEFLGR
Sbjct:   302 AQHALQLRQEALEMSRNRIAENLGDVQISD-KITISKNFKENVIRPILKAHFRRDEFLGR 360

Query:   484 INEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARS 543
             INEIVYFLPF  SEL  LV +ELNFWAK+A  +HNI ++WD +V  +L DGY+VHYGARS
Sbjct:   361 INEIVYFLPFCHSELIQLVNKELNFWAKRAKQRHNITLLWDREVADVLVDGYNVHYGARS 420

Query:   544 IKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQ 576
             IKHEVER+VV+QLAAA+E+ ++  G  +R+ V+
Sbjct:   421 IKHEVERRVVNQLAAAYEQDLLPGGCTLRITVE 453

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|I3LJ13 LOC100524385 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 1289 (458.8 bits), Expect = 1.9e-131, P = 1.9e-131
 Identities = 241/358 (67%), Positives = 304/358 (84%)

Query:   222 GHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIIS 281
             GH P DYA +  + ++L+    KY + QR++EAEERR++PLEQRLK+ I+GQESAI  + 
Sbjct:     2 GHTPLDYAREGEVMKLLRTSEAKYQEKQRKREAEERRRFPLEQRLKEHIIGQESAIAAVG 61

Query:   282 AAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH 341
             AAI+RKENGW D++HPLVFLFLGSSGIGKTELAKQ A Y+H+D K+ FIRLDMSE+QE+H
Sbjct:    62 AAIRRKENGWYDEEHPLVFLFLGSSGIGKTELAKQTARYMHKDAKKGFIRLDMSEFQERH 121

Query:   342 EVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTD 401
             EVAK IG+PPGY+GH++GGQLTK+LK+CPNAVVLFDEVDKAHPDVLT++LQLFDEGRLTD
Sbjct:   122 EVAKFIGSPPGYVGHEEGGQLTKKLKQCPNAVVLFDEVDKAHPDVLTIMLQLFDEGRLTD 181

Query:   402 GKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQG---SNLDVTI 458
             GKGKTI+CKDAIF+MTSN+AS+EIAQHALQLR+E  E S+    I+++ G   S   +TI
Sbjct:   182 GKGKTIDCKDAIFIMTSNVASDEIAQHALQLRQEALEMSRNR--IAENLGDVQSGDKITI 239

Query:   459 SRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHN 518
             S++FK++V++PILK HFRRDEFLGRINEIVYFLPF  SEL  LV +ELNFWAK+A  +HN
Sbjct:   240 SKNFKENVIRPILKAHFRRDEFLGRINEIVYFLPFCHSELIQLVNKELNFWAKRAKQRHN 299

Query:   519 INIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQ 576
             I ++WD +V  +L DGY+VHYGARSIKHEVER+VV+QLAAA+E+ ++ +G  +R+ V+
Sbjct:   300 ITLLWDREVADVLVDGYNVHYGARSIKHEVERRVVNQLAAAYEQDLLPEGCCLRISVE 357

GO:0005524 "ATP binding" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

---

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)
Q60649	CLPB_MOUSE	No assigned EC number	0.5627	0.9028	0.8094	yes	N/A
Q5E9N5	CLPB_BOVIN	No assigned EC number	0.6101	0.8088	0.7252	yes	N/A
Q9H078	CLPB_HUMAN	No assigned EC number	0.5674	0.8270	0.7100	yes	N/A
Q9WTT2	CLPB_RAT	No assigned EC number	0.5619	0.8995	0.8064	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	607
COG0542	786	COG0542, clpA, ATP-binding subunits of Clp proteas	1e-89
TIGR03346	852	TIGR03346, chaperone_ClpB, ATP-dependent chaperone	1e-77
CHL00095	821	CHL00095, clpC, Clp protease ATP binding subunit	2e-69
TIGR02639	730	TIGR02639, ClpA, ATP-dependent Clp protease ATP-bi	4e-64
pfam07724	168	pfam07724, AAA_2, AAA domain (Cdc48 subfamily)	4e-63
PRK10865	857	PRK10865, PRK10865, protein disaggregation chapero	4e-62
TIGR03345	852	TIGR03345, VI_ClpV1, type VI secretion ATPase, Clp	2e-55
PRK11034	758	PRK11034, clpA, ATP-dependent Clp protease ATP-bin	1e-42
cd00204	126	cd00204, ANK, ankyrin repeats; ankyrin repeats med	4e-18
pfam12796	91	pfam12796, Ank_2, Ankyrin repeats (3 copies)	2e-15
cd00204	126	cd00204, ANK, ankyrin repeats; ankyrin repeats med	1e-14
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	5e-14
COG0714	329	COG0714, COG0714, MoxR-like ATPases [General funct	4e-12
pfam12796	91	pfam12796, Ank_2, Ankyrin repeats (3 copies)	7e-12
smart00382	148	smart00382, AAA, ATPases associated with a variety	6e-11
cd00204	126	cd00204, ANK, ankyrin repeats; ankyrin repeats med	4e-10
COG0666	235	COG0666, Arp, FOG: Ankyrin repeat [General functio	4e-10
pfam00023	33	pfam00023, Ank, Ankyrin repeat	3e-08
PHA02875	413	PHA02875, PHA02875, ankyrin repeat protein; Provis	5e-08
pfam07728	135	pfam07728, AAA_5, AAA domain (dynein-related subfa	6e-08
PHA03100	422	PHA03100, PHA03100, ankyrin repeat protein; Provis	2e-07
pfam00023	33	pfam00023, Ank, Ankyrin repeat	2e-06
PHA03095	471	PHA03095, PHA03095, ankyrin-like protein; Provisio	2e-06
PHA03095	471	PHA03095, PHA03095, ankyrin-like protein; Provisio	3e-06
pfam13606	30	pfam13606, Ank_3, Ankyrin repeat	5e-06
pfam13401	124	pfam13401, AAA_22, AAA domain	5e-06
pfam13857	56	pfam13857, Ank_5, Ankyrin repeats (many copies)	8e-06
pfam10431	81	pfam10431, ClpB_D2-small, C-terminal, D2-small dom	3e-05
pfam13637	54	pfam13637, Ank_4, Ankyrin repeats (many copies)	3e-05
smart00248	30	smart00248, ANK, ankyrin repeats	3e-05
pfam13637	54	pfam13637, Ank_4, Ankyrin repeats (many copies)	5e-05
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	5e-05
PHA02875	413	PHA02875, PHA02875, ankyrin repeat protein; Provis	9e-05
pfam13857	56	pfam13857, Ank_5, Ankyrin repeats (many copies)	9e-05
PTZ00322	664	PTZ00322, PTZ00322, 6-phosphofructo-2-kinase/fruct	2e-04
PTZ00322	664	PTZ00322, PTZ00322, 6-phosphofructo-2-kinase/fruct	2e-04
TIGR00763	775	TIGR00763, lon, ATP-dependent protease La	3e-04
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	3e-04
TIGR00764	608	TIGR00764, lon_rel, lon-related putative ATP-depen	5e-04
COG1221	403	COG1221, PspF, Transcriptional regulators containi	5e-04
COG0666	235	COG0666, Arp, FOG: Ankyrin repeat [General functio	6e-04
PHA02875	413	PHA02875, PHA02875, ankyrin repeat protein; Provis	8e-04
PLN03192	823	PLN03192, PLN03192, Voltage-dependent potassium ch	9e-04
pfam13637	54	pfam13637, Ank_4, Ankyrin repeats (many copies)	0.001
PHA02874	434	PHA02874, PHA02874, ankyrin repeat protein; Provis	0.001
PHA02874	434	PHA02874, PHA02874, ankyrin repeat protein; Provis	0.001
TIGR00870	743	TIGR00870, trp, transient-receptor-potential calci	0.002
smart00248	30	smart00248, ANK, ankyrin repeats	0.003
smart01086	90	smart01086, ClpB_D2-small, C-terminal, D2-small do	0.003
PHA02876	682	PHA02876, PHA02876, ankyrin repeat protein; Provis	0.003

>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

 Score =  294 bits (754), Expect = 1e-89
 Identities = 132/328 (40%), Positives = 194/328 (59%), Gaps = 30/328 (9%)

Query: 251 EKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIG 309
           E E E+     LE+RLK R++GQ+ A+  +S AI+R   G  D + P+  FLFLG +G+G
Sbjct: 476 EDEKEKLLN--LERRLKKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVG 533

Query: 310 KTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKC 369
           KTELAK LA  +    ++A IR+DMSEY EKH V++LIGAPPGY+G+++GGQLT+ +++ 
Sbjct: 534 KTELAKALAEALF-GDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGGQLTEAVRRK 592

Query: 370 PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHA 429
           P +V+L DE++KAHPDV  +LLQ+ D+GRLTDG+G+T++ ++ I +MTSN  S EI + A
Sbjct: 593 PYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEILRDA 652

Query: 430 LQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVY 489
                                    D       K+  V   LK+HF R EFL RI+EI+ 
Sbjct: 653 D----------------------GDDFADKEALKEA-VMEELKKHF-RPEFLNRIDEIIP 688

Query: 490 FLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGARSIKHEV 548
           F P SK  L  +V  +LN  AK+ L +  I +    +  + +   GYD  YGAR ++  +
Sbjct: 689 FNPLSKEVLERIVDLQLNRLAKR-LAERGITLELSDEAKDFLAEKGYDPEYGARPLRRAI 747

Query: 549 ERQVVSQLAAAHEKSVIGKGSFVRLYVQ 576
           ++++   LA       I  G  V++ V 
Sbjct: 748 QQEIEDPLADEILFGKIEDGGTVKVDVD 775

Length = 786

>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB

 Score =  262 bits (673), Expect = 1e-77
 Identities = 124/312 (39%), Positives = 187/312 (59%), Gaps = 37/312 (11%)

Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFY 320
           +E+ L +R+VGQ+ A+  +S AI+R   G +D + P+  FLFLG +G+GKTELAK LA +
Sbjct: 559 MEEVLHERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF 618

Query: 321 IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVD 380
           +  D ++A +R+DMSEY EKH VA+LIGAPPGY+G+++GGQLT+ +++ P +VVLFDEV+
Sbjct: 619 LF-DDEDAMVRIDMSEYMEKHSVARLIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVE 677

Query: 381 KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFS 440
           KAHPDV  VLLQ+ D+GRLTDG+G+T++ ++ + +MTSNL S  I +       +  E  
Sbjct: 678 KAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNLGSQFIQE---LAGGDDYEEM 734

Query: 441 KRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT 500
           +                         V  +L+ HFR  EFL RI+EIV F P  + ++  
Sbjct: 735 RE-----------------------AVMEVLRAHFR-PEFLNRIDEIVVFHPLGREQIAR 770

Query: 501 LVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAA 559
           +V  +L    K+  ++  I +         LA+ GYD  YGAR +K  ++R++ + LA  
Sbjct: 771 IVEIQLGRLRKRLAERK-ITLELSDAALDFLAEAGYDPVYGARPLKRAIQREIENPLAKK 829

Query: 560 ------HEKSVI 565
                  +   I
Sbjct: 830 ILAGEVADGDTI 841

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins [Protein fate, Protein folding and stabilization]. Length = 852

>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit

 Score =  239 bits (613), Expect = 2e-69
 Identities = 120/298 (40%), Positives = 181/298 (60%), Gaps = 19/298 (6%)

Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLV-FLFLGSSGIGKTELAKQLAFY 320
           +E+ L  RI+GQ+ A+  +S AI+R   G  + + P+  FLF G +G+GKTEL K LA Y
Sbjct: 503 MEETLHKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASY 562

Query: 321 IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVD 380
                ++A IRLDMSEY EKH V+KLIG+PPGY+G+++GGQLT+ ++K P  VVLFDE++
Sbjct: 563 FF-GSEDAMIRLDMSEYMEKHTVSKLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIE 621

Query: 381 KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFS 440
           KAHPD+  +LLQ+ D+GRLTD KG+TI+ K+ + +MTSNL S  I     +    G  F 
Sbjct: 622 KAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLGSKVI-----ETNSGGLGFE 676

Query: 441 KRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT 500
                +S+ Q   L          ++V   LK+ F R EFL R++EI+ F   +K+++  
Sbjct: 677 LSENQLSEKQYKRL---------SNLVNEELKQFF-RPEFLNRLDEIIVFRQLTKNDV-W 725

Query: 501 LVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLA 557
            +   +     K L++  I +     ++T+L + GY+  YGAR ++  + R +   LA
Sbjct: 726 EIAEIMLKNLFKRLNEQGIQLEVTERIKTLLIEEGYNPLYGARPLRRAIMRLLEDPLA 783

Length = 821

>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit clpA

 Score =  224 bits (572), Expect = 4e-64
 Identities = 106/301 (35%), Positives = 165/301 (54%), Gaps = 40/301 (13%)

Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFY 320
           LE+ LK +I GQ+ AI+ + +AIKR   G  D + P+  FLF+G +G+GKTELAKQLA  
Sbjct: 447 LEKNLKAKIFGQDEAIDQLVSAIKRSRAGLGDPNKPVGSFLFVGPTGVGKTELAKQLA-- 504

Query: 321 IHRDKKE---AFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD 377
                +E     +R DMSEY EKH V++LIG+PPGY+G + GG LT  ++K P+ V+L D
Sbjct: 505 -----EELGVHLLRFDMSEYMEKHTVSRLIGSPPGYVGFEQGGLLTDAVRKHPHCVLLLD 559

Query: 378 EVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGE 437
           E++KAHPD+  +LLQ+ D   LTD  G+  + ++ I +MTSN  ++E+++  +    E  
Sbjct: 560 EIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAGASEMSKPPIGFGGENS 619

Query: 438 EFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSE 497
           E             S     I + F      P         EF  R++ I++F   S+  
Sbjct: 620 E-------------SKSLKAIKKLFS-----P---------EFRNRLDAIIHFNDLSEEM 652

Query: 498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQL 556
              +V + L+    +  +K NI +    D +  LA+ GYD  +GAR +   ++ ++   L
Sbjct: 653 AEKIVKKFLDELQDQLNEK-NIELELTDDAKKYLAEKGYDEEFGARPLARVIQEEIKKPL 711

Query: 557 A 557
           +
Sbjct: 712 S 712

[Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 730

>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily)

 Score =  205 bits (523), Expect = 4e-63
 Identities = 78/189 (41%), Positives = 115/189 (60%), Gaps = 25/189 (13%)

Query: 299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDD 358
            FLFLG +G+GKTELAK LA  +  D++ A IR+DMSEY E+H V++LIGAPPGY+G+++
Sbjct: 5   SFLFLGPTGVGKTELAKALAELLFGDER-ALIRIDMSEYMEEHSVSRLIGAPPGYVGYEE 63

Query: 359 GGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTS 418
           GGQLT+ +++ P ++VL DE++KAHP V   LLQ+ + G LTD +G+ ++ ++ +F+MT 
Sbjct: 64  GGQLTEAVRRKPYSIVLIDEIEKAHPGVQNDLLQILEGGTLTDKQGRKVDFRNTLFIMTG 123

Query: 419 NLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRD 478
           N  S +I                       S  S L  +        +V  +LK+ F   
Sbjct: 124 NFGSEKI-----------------------SDASRLGDSPDYELLKELVMDLLKKGFIP- 159

Query: 479 EFLGRINEI 487
           EFLGR+  I
Sbjct: 160 EFLGRLPII 168

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 168

>gnl|CDD|182791 PRK10865, PRK10865, protein disaggregation chaperone; Provisional

 Score =  220 bits (562), Expect = 4e-62
 Identities = 125/368 (33%), Positives = 212/368 (57%), Gaps = 37/368 (10%)

Query: 191 SALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQR 250
           S L YG      ++ EL  +  A   ++  +  +  +   DA I ++L ++      + R
Sbjct: 499 SELQYG------KIPELEKQLAAATQLEGKTMRLLRNKVTDAEIAEVLARWTG--IPVSR 550

Query: 251 EKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIG 309
             E+E  +   +EQ L  R++GQ  A+  +S AI+R   G +D + P+  FLFLG +G+G
Sbjct: 551 MLESEREKLLRMEQELHHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVG 610

Query: 310 KTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKC 369
           KTEL K LA ++  D  +A +R+DMSE+ EKH V++L+GAPPGY+G+++GG LT+ +++ 
Sbjct: 611 KTELCKALANFMF-DSDDAMVRIDMSEFMEKHSVSRLVGAPPGYVGYEEGGYLTEAVRRR 669

Query: 370 PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHA 429
           P +V+L DEV+KAHPDV  +LLQ+ D+GRLTDG+G+T++ ++ + +MTSNL S+ I    
Sbjct: 670 PYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDLIQ--- 726

Query: 430 LQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVY 489
                  E F +   +               H K+ +V  ++  +F R EF+ RI+E+V 
Sbjct: 727 -------ERFGELDYA---------------HMKE-LVLGVVSHNF-RPEFINRIDEVVV 762

Query: 490 FLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVE 549
           F P  +  + ++   +L    K+  ++     + D  ++ +  +GYD  YGAR +K  ++
Sbjct: 763 FHPLGEQHIASIAQIQLQRLYKRLEERGYEIHISDEALKLLSENGYDPVYGARPLKRAIQ 822

Query: 550 RQVVSQLA 557
           +Q+ + LA
Sbjct: 823 QQIENPLA 830

Length = 857

>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family

 Score =  201 bits (513), Expect = 2e-55
 Identities = 99/300 (33%), Positives = 166/300 (55%), Gaps = 31/300 (10%)

Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFY 320
           L  RL +R++GQ+ A+  I+  I+    G  D   PL VFL +G SG+GKTE A  LA  
Sbjct: 560 LPDRLAERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAEL 619

Query: 321 IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVD 380
           ++   ++  I ++MSE+QE H V++L G+PPGY+G+ +GG LT+ +++ P +VVL DEV+
Sbjct: 620 LY-GGEQNLITINMSEFQEAHTVSRLKGSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVE 678

Query: 381 KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQ--LRKEGEE 438
           KAHPDVL +  Q+FD+G + DG+G+ I+ K+ + ++TSN  S+ I           + E 
Sbjct: 679 KAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNAGSDLIMALCADPETAPDPEA 738

Query: 439 FSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSEL 498
             +                         ++P L + F +  FLGR+  ++ +LP     L
Sbjct: 739 LLEA------------------------LRPELLKVF-KPAFLGRMT-VIPYLPLDDDVL 772

Query: 499 HTLVCRELNFWAKKALDKHNINIVWDID-VETILADGYDVHYGARSIKHEVERQVVSQLA 557
             +V  +L+  A++  + H   +V+    VE I+A   +V  GAR+I   + + ++ +L+
Sbjct: 773 AAIVRLKLDRIARRLKENHGAELVYSEALVEHIVARCTEVESGARNIDAILNQTLLPELS 832

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system [Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis]. Length = 852

>gnl|CDD|236828 PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit; Provisional

 Score =  163 bits (414), Expect = 1e-42
 Identities = 100/301 (33%), Positives = 155/301 (51%), Gaps = 40/301 (13%)

Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFY 320
           L  RLK  + GQ+ AI  ++ AIK    G   +  P+  FLF G +G+GKTE+  QL+  
Sbjct: 452 LGDRLKMLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA 511

Query: 321 IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVD 380
           +  +     +R DMSEY E+H V++LIGAPPGY+G D GG LT  + K P+AV+L DE++
Sbjct: 512 LGIE----LLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIE 567

Query: 381 KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFS 440
           KAHPDV  +LLQ+ D G LTD  G+  + ++ + VMT+N    E  + ++ L        
Sbjct: 568 KAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGL-------- 619

Query: 441 KRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT 500
                I +   ++    I + F                EF  R++ I++F   S   +H 
Sbjct: 620 -----IHQDNSTDAMEEIKKIFT--------------PEFRNRLDNIIWFDHLSTDVIHQ 660

Query: 501 LVCR---ELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQL 556
           +V +   EL    +  LD+  +++    +    LA+ GYD   GAR +   ++  +   L
Sbjct: 661 VVDKFIVEL----QAQLDQKGVSLEVSQEARDWLAEKGYDRAMGARPMARVIQDNLKKPL 716

Query: 557 A 557
           A
Sbjct: 717 A 717

Length = 758

>gnl|CDD|238125 cd00204, ANK, ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

 Score = 80.5 bits (199), Expect = 4e-18
 Identities = 45/150 (30%), Positives = 63/150 (42%), Gaps = 37/150 (24%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA  G  + +K  +EN   DVN +   G TPLH+AA NG ++ V++LLE GA+ N  
Sbjct: 11  LHLAASNGHLEVVKLLLENGA-DVNAKDNDGRTPLHLAAKNGHLEIVKLLLEKGADVNAR 69

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      G + LH     GN +VV+LLL
Sbjct: 70  D------------------------------------KDGNTPLHLAARNGNLDVVKLLL 93

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
           K GAD   +D  G  P   A      ++++
Sbjct: 94  KHGADVNARDKDGRTPLHLAAKNGHLEVVK 123

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats. Length = 126

>gnl|CDD|205076 pfam12796, Ank_2, Ankyrin repeats (3 copies)

 Score = 71.5 bits (176), Expect = 2e-15
 Identities = 37/96 (38%), Positives = 53/96 (55%), Gaps = 5/96 (5%)

Query: 124 LHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNP 183
           LH+AA NG ++ V++LLE GA+ NLGD    +H  A    +   ++LL+   + N     
Sbjct: 1   LHLAAKNGNLELVKLLLEKGADVNLGDTDTALHLAARNGNLEIVKLLLEHGADVNAKDKD 60

Query: 184 NMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKD 219
             T     ALH     GN E+V+LLL+ GAD  +KD
Sbjct: 61  GNT-----ALHLAARNGNLEIVKLLLEHGADINLKD 91

Length = 91

>gnl|CDD|238125 cd00204, ANK, ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

 Score = 70.5 bits (173), Expect = 1e-14
 Identities = 37/135 (27%), Positives = 55/135 (40%), Gaps = 36/135 (26%)

Query: 114 NMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKR 173
           N R   G TPLH+AA NG ++ V++LLE GA+ N  D                       
Sbjct: 1   NARDEDGRTPLHLAASNGHLEVVKLLLENGADVNAKDND--------------------- 39

Query: 174 EDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN 233
                          G + LH     G+ E+V+LLL+ GAD   +D  G+ P   A    
Sbjct: 40  ---------------GRTPLHLAAKNGHLEIVKLLLEKGADVNARDKDGNTPLHLAARNG 84

Query: 234 IKQILQKYAEKYADL 248
              +++   +  AD+
Sbjct: 85  NLDVVKLLLKHGADV 99

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats. Length = 126

>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

 Score = 69.5 bits (170), Expect = 5e-14
 Identities = 37/152 (24%), Positives = 59/152 (38%), Gaps = 21/152 (13%)

Query: 271 VGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFI 330
           VGQE AI  +  A++           P   L  G  G GKT LA+ +A  + R     F+
Sbjct: 1   VGQEEAIEALREALELP--------PPKNLLLYGPPGTGKTTLARAIANELFRPGAP-FL 51

Query: 331 RLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVL 390
            L+ S+  E   VA+L        GH     L +  +K    V+  DE+D         L
Sbjct: 52  YLNASDLLEGLVVAELF-------GHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNAL 104

Query: 391 LQLFDEGRLTDGKGKTIECKDAIFVMTSNLAS 422
           L++ +           I+ ++   +  +N   
Sbjct: 105 LRVLETLNDL-----RIDRENVRVIGATNRPL 131

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases. Length = 151

>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction only]

 Score = 67.1 bits (164), Expect = 4e-12
 Identities = 37/172 (21%), Positives = 62/172 (36%), Gaps = 27/172 (15%)

Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYI 321
           +   L+  +VG E  I +   A+    +           L  G  G+GKT LA+ LA  +
Sbjct: 18  IRSELEKVVVGDEEVIELALLALLAGGH----------VLLEGPPGVGKTLLARALARAL 67

Query: 322 HRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCP-----NAVVLF 376
                  F+R+  +      +   L+G    Y           R    P       ++L 
Sbjct: 68  GLP----FVRIQCTPDLLPSD---LLG-TYAYAALLLEPG-EFRFVPGPLFAAVRVILLL 118

Query: 377 DEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH 428
           DE+++A P+V   LL+  +E ++T     TI       V+      N     
Sbjct: 119 DEINRAPPEVQNALLEALEERQVTVPGLTTIRLPPPFIVI---ATQNPGEYE 167

Length = 329

>gnl|CDD|205076 pfam12796, Ank_2, Ankyrin repeats (3 copies)

 Score = 61.5 bits (150), Expect = 7e-12
 Identities = 33/92 (35%), Positives = 45/92 (48%), Gaps = 12/92 (13%)

Query: 62  CMYNNLLFASACSLALTLLEC-----QSIKDLTLFRAARYGSAKELKTFIENSKLDVNMR 116
               NL       L   LLE          D  L  AAR G+ + +K  +E+   DVN +
Sbjct: 5   AKNGNL------ELVKLLLEKGADVNLGDTDTALHLAARNGNLEIVKLLLEHGA-DVNAK 57

Query: 117 HPLGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
              G T LH+AA NG ++ V++LLE GA+ NL
Sbjct: 58  DKDGNTALHLAARNGNLEIVKLLLEHGADINL 89

Length = 91

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 60.5 bits (146), Expect = 6e-11
 Identities = 32/142 (22%), Positives = 50/142 (35%), Gaps = 9/142 (6%)

Query: 296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLG 355
              V L +G  G GKT LA+ LA  +        I +D  +  E+     L+    G   
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGPPGG-GVIYIDGEDILEEVLDQLLLIIVGGKKA 59

Query: 356 HDDGGQ----LTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKD 411
              G           +K    V++ DE+          LL L +E RL          K+
Sbjct: 60  SGSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRL---LLLLKSEKN 116

Query: 412 AIFVMTSNLASNEIAQHALQLR 433
              ++T+N   +      L+ R
Sbjct: 117 LTVILTTNDEKDLGP-ALLRRR 137

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Length = 148

>gnl|CDD|238125 cd00204, ANK, ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

 Score = 57.4 bits (139), Expect = 4e-10
 Identities = 37/120 (30%), Positives = 50/120 (41%), Gaps = 37/120 (30%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA+ G  + +K  +E    DVN R   G TPLH+AA NG +D V++LL+ GA+ N  
Sbjct: 44  LHLAAKNGHLEIVKLLLEK-GADVNARDKDGNTPLHLAARNGNLDVVKLLLKHGADVNAR 102

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      G + LH     G+ EVV+LLL
Sbjct: 103 DKD------------------------------------GRTPLHLAAKNGHLEVVKLLL 126

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats. Length = 126

>gnl|CDD|223738 COG0666, Arp, FOG: Ankyrin repeat [General function prediction only]

 Score = 60.2 bits (145), Expect = 4e-10
 Identities = 42/131 (32%), Positives = 60/131 (45%), Gaps = 11/131 (8%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGD-LFNTVHRTAAEKKMNPFEV-----LLKR 173
           G  PLH AA  G    V++LL +GA+ N  D   +T    AA     P        LL  
Sbjct: 73  GRLPLHSAASKGDDKIVKLLLASGADVNAKDADGDTPLHLAALNGNPPEGNIEVAKLLLE 132

Query: 174 EDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAED-- 231
                DV N      G + LH+  + G+ ++VELLL++GADP  +++ G    D A    
Sbjct: 133 AGADLDVNNLRD-EDGNTPLHWAALNGDADIVELLLEAGADPNSRNSYGVTALDPAAKNG 191

Query: 232 --ANIKQILQK 240
               +K +L K
Sbjct: 192 RIELVKLLLDK 202

Length = 235

>gnl|CDD|200936 pfam00023, Ank, Ankyrin repeat

 Score = 49.5 bits (119), Expect = 3e-08
 Identities = 18/31 (58%), Positives = 24/31 (77%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGD 150
           G TPLH+AA NG ++ V++LLEAGA+ N  D
Sbjct: 2   GNTPLHLAARNGHLEVVKLLLEAGADVNARD 32

Ankyrins are multifunctional adaptors that link specific proteins to the membrane-associated, spectrin- actin cytoskeleton. This repeat-domain is a 'membrane-binding' domain of up to 24 repeated units, and it mediates most of the protein's binding activities. Repeats 13-24 are especially active, with known sites of interaction for the Na/K ATPase, Cl/HCO(3) anion exchanger, voltage-gated sodium channel, clathrin heavy chain and L1 family cell adhesion molecules. The ANK repeats are found to form a contiguous spiral stack such that ion transporters like the anion exchanger associate in a large central cavity formed by the ANK repeat spiral, while clathrin and cell adhesion molecules associate with specific regions outside this cavity. Length = 33

>gnl|CDD|165206 PHA02875, PHA02875, ankyrin repeat protein; Provisional

 Score = 55.4 bits (133), Expect = 5e-08
 Identities = 32/130 (24%), Positives = 62/130 (47%), Gaps = 11/130 (8%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A   G  K ++  ++  K   ++ +  G TPLH+A I  K+D +++L+  GA+P++ 
Sbjct: 72  LHDAVEEGDVKAVEELLDLGKFADDVFYKDGMTPLHLATILKKLDIMKLLIARGADPDIP 131

Query: 150 --DLFNTVHRTAAEKKMNPFEVLLKREDEFN--DVLNPNMTFLGFSALHYGVVAGNTEVV 205
             D F+ +H       +   E+L+  +   +  D         G + L   +  G+  + 
Sbjct: 132 NTDKFSPLHLAVMMGDIKGIELLIDHKACLDIEDC-------CGCTPLIIAMAKGDIAIC 184

Query: 206 ELLLKSGADP 215
           ++LL SGA+ 
Sbjct: 185 KMLLDSGANI 194

Length = 413

>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily)

 Score = 51.5 bits (124), Expect = 6e-08
 Identities = 33/126 (26%), Positives = 54/126 (42%), Gaps = 15/126 (11%)

Query: 300 FLFLGSSGIGKTELAKQLAFYIHRDKKEAF-IRLDMSEYQEK--HEVAKLIGAPPGYLGH 356
            L +G  G GK+ELA++LA  +         +  D +E   K    +     +       
Sbjct: 2   VLLVGPPGTGKSELAERLAAALSNRPVFYVQLTRDTTEEDLKGRRNIDPGGAS------W 55

Query: 357 DDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDA---I 413
            DG  L +  ++    + + DE+++A+PDVL  LL L DE RL   +G  +         
Sbjct: 56  VDGP-LVRAARE--GEIAVLDEINRANPDVLNSLLSLLDERRLLLPEGGELVKAAPDGFR 112

Query: 414 FVMTSN 419
            + T N
Sbjct: 113 LIATMN 118

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 135

>gnl|CDD|222984 PHA03100, PHA03100, ankyrin repeat protein; Provisional

 Score = 53.5 bits (129), Expect = 2e-07
 Identities = 35/144 (24%), Positives = 61/144 (42%), Gaps = 23/144 (15%)

Query: 97  GSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDN--VRVLLEAGANPNLGDLFNT 154
            S   ++  ++N   +VN+++  G   LH+   + K+D   +++L++ G + N       
Sbjct: 119 NSYSIVEYLLDNGA-NVNIKNSDGENLLHLYLESNKIDLKILKLLIDKGVDIN------- 170

Query: 155 VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD 214
                     N    LL        +   ++   GF+ LHY V   N E V+ LL  GA+
Sbjct: 171 --------AKNRVNYLLSYG---VPINIKDV--YGFTPLHYAVYNNNPEFVKYLLDLGAN 217

Query: 215 PTVKDNSGHIPSDYAEDANIKQIL 238
           P + +  G  P   A   N K+I 
Sbjct: 218 PNLVNKYGDTPLHIAILNNNKEIF 241

Length = 422

>gnl|CDD|200936 pfam00023, Ank, Ankyrin repeat

 Score = 44.1 bits (105), Expect = 2e-06
 Identities = 14/32 (43%), Positives = 20/32 (62%)

Query: 189 GFSALHYGVVAGNTEVVELLLKSGADPTVKDN 220
           G + LH     G+ EVV+LLL++GAD   +D 
Sbjct: 2   GNTPLHLAARNGHLEVVKLLLEAGADVNARDK 33

Ankyrins are multifunctional adaptors that link specific proteins to the membrane-associated, spectrin- actin cytoskeleton. This repeat-domain is a 'membrane-binding' domain of up to 24 repeated units, and it mediates most of the protein's binding activities. Repeats 13-24 are especially active, with known sites of interaction for the Na/K ATPase, Cl/HCO(3) anion exchanger, voltage-gated sodium channel, clathrin heavy chain and L1 family cell adhesion molecules. The ANK repeats are found to form a contiguous spiral stack such that ion transporters like the anion exchanger associate in a large central cavity formed by the ANK repeat spiral, while clathrin and cell adhesion molecules associate with specific regions outside this cavity. Length = 33

>gnl|CDD|222980 PHA03095, PHA03095, ankyrin-like protein; Provisional

 Score = 50.4 bits (121), Expect = 2e-06
 Identities = 43/126 (34%), Positives = 59/126 (46%), Gaps = 17/126 (13%)

Query: 112 DVNMRHPLGWTPLHV--AAINGKV-DNVRVLLEAGANPNLGDL--FNTVH---RTAAEKK 163
           DVN R   G TPLH+     + KV D VR+LLEAGA+ N  +   F  +H     A    
Sbjct: 39  DVNFRGEYGKTPLHLYLHYSSEKVKDIVRLLLEAGADVNAPERCGFTPLHLYLYNATTLD 98

Query: 164 MNPFEVLLKREDEFNDVLNPNMTFLGFSALH-Y-GVVAGNTEVVELLLKSGADPTVKDNS 221
           +   ++L+K      DV   +   +G + LH Y      N +V+ LLL+ GAD    D  
Sbjct: 99  V--IKLLIKAG---ADVNAKD--KVGRTPLHVYLSGFNINPKVIRLLLRKGADVNALDLY 151

Query: 222 GHIPSD 227
           G  P  
Sbjct: 152 GMTPLA 157

Length = 471

>gnl|CDD|222980 PHA03095, PHA03095, ankyrin-like protein; Provisional

 Score = 49.6 bits (119), Expect = 3e-06
 Identities = 37/125 (29%), Positives = 51/125 (40%), Gaps = 41/125 (32%)

Query: 102 LKTFIENSKLDVNMRHPLGWTPLHV----AAINGKVDNVRVLLEAGANPNLGDLFNTVHR 157
           +K  I+    DVN +  +G TPLHV      IN KV  +R+LL  GA+ N  DL+     
Sbjct: 100 IKLLIKA-GADVNAKDKVGRTPLHVYLSGFNINPKV--IRLLLRKGADVNALDLYG---- 152

Query: 158 TAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTV 217
                 M P  VLLK      +                     N E++ LL+ +GAD   
Sbjct: 153 ------MTPLAVLLK----SRNA--------------------NVELLRLLIDAGADVYA 182

Query: 218 KDNSG 222
            D+  
Sbjct: 183 VDDRF 187

Length = 471

>gnl|CDD|205784 pfam13606, Ank_3, Ankyrin repeat

 Score = 43.0 bits (102), Expect = 5e-06
 Identities = 16/28 (57%), Positives = 22/28 (78%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPN 147
           G TPLH+AA NG ++ V++LLE GA+ N
Sbjct: 2   GNTPLHLAARNGNLELVKLLLEHGADIN 29

Ankyrins are multifunctional adaptors that link specific proteins to the membrane-associated, spectrin- actin cytoskeleton. This repeat-domain is a 'membrane-binding' domain of up to 24 repeated units, and it mediates most of the protein's binding activities. Length = 30

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 45.7 bits (109), Expect = 5e-06
 Identities = 19/109 (17%), Positives = 39/109 (35%), Gaps = 8/109 (7%)

Query: 295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK----HEVAKLIGAP 350
               + +  G SG GKT L ++LA    +      + ++            ++ + +G P
Sbjct: 2   RGAGIGVLTGESGSGKTTLLRRLA---RQLPNRRVVYVEAPSLGTPKDLLRKILRALGLP 58

Query: 351 PGYLGHDDG-GQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGR 398
                  +    +   LK+    +++ DE      + L  L  L+D   
Sbjct: 59  LSGGTTAELLEAILDALKRRGRPLLIIDEAQHLSLEALEELRDLYDLSE 107

Length = 124

>gnl|CDD|206028 pfam13857, Ank_5, Ankyrin repeats (many copies)

 Score = 43.1 bits (102), Expect = 8e-06
 Identities = 18/45 (40%), Positives = 28/45 (62%)

Query: 106 IENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD 150
           +E+  +D+N     G TPLH+AA  G ++ V+ LL+ G + NL D
Sbjct: 2   LEHGPIDLNATDGNGNTPLHLAAKYGALELVQWLLKPGVDLNLRD 46

Length = 56

>gnl|CDD|204486 pfam10431, ClpB_D2-small, C-terminal, D2-small domain, of ClpB protein

 Score = 42.4 bits (101), Expect = 3e-05
 Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 2/65 (3%)

Query: 494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGARSIKHEVERQV 552
           SK EL  +V  +L    K+ L +  I +       + +   GYD  YGAR ++  ++R++
Sbjct: 2   SKEELRQIVDLQLKRLQKR-LAERGITLELTDAAKDWLAEKGYDPEYGARPLRRAIQREI 60

Query: 553 VSQLA 557
              LA
Sbjct: 61  EDPLA 65

This is the C-terminal domain of ClpB protein, referred to as the D2-small domain, and is a mixed alpha-beta structure. Compared with the D1-small domain (included in AAA, pfam00004) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighboring subunit and thereby providing enough binding energy to stabilise the functional assembly. The domain is associated with two Clp_N, pfam02861, at the N-terminus as well as AAA, pfam00004 and AAA_2, pfam07724. Length = 81

>gnl|CDD|222277 pfam13637, Ank_4, Ankyrin repeats (many copies)

 Score = 41.5 bits (98), Expect = 3e-05
 Identities = 26/90 (28%), Positives = 35/90 (38%), Gaps = 36/90 (40%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G T LH AAI+G+++ V+ LLE G + N  D                             
Sbjct: 1   GRTALHKAAISGRLELVKYLLEKGVDINRTDED--------------------------- 33

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                    G +ALH     GN EV++LLL
Sbjct: 34  ---------GNTALHIAAENGNLEVLKLLL 54

Length = 54

>gnl|CDD|197603 smart00248, ANK, ankyrin repeats

 Score = 40.6 bits (96), Expect = 3e-05
 Identities = 15/29 (51%), Positives = 22/29 (75%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNL 148
           G TPLH+AA NG ++ V++LL+ GA+ N 
Sbjct: 2   GRTPLHLAAENGNLEVVKLLLDKGADINA 30

Ankyrin repeats are about 33 amino acids long and occur in at least four consecutive copies. They are involved in protein-protein interactions. The core of the repeat seems to be an helix-loop-helix structure. Length = 30

>gnl|CDD|222277 pfam13637, Ank_4, Ankyrin repeats (many copies)

 Score = 40.7 bits (96), Expect = 5e-05
 Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 89  TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLL 140
            L +AA  G  + +K  +E   +D+N     G T LH+AA NG ++ +++LL
Sbjct: 4   ALHKAAISGRLELVKYLLEK-GVDINRTDEDGNTALHIAAENGNLEVLKLLL 54

Length = 54

>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score = 43.0 bits (102), Expect = 5e-05
 Identities = 32/130 (24%), Positives = 45/130 (34%), Gaps = 33/130 (25%)

Query: 301 LFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGG 360
           L  G  G GKT LAK +A  +       FI +  SE      V+K +G     L      
Sbjct: 2   LLYGPPGTGKTTLAKAVAKELGAP----FIEISGSE-----LVSKYVGESEKRL-----R 47

Query: 361 QLTKRLKKCPNAVVLFDEVDKAHP-----------DVLTVLLQLFDEGRLTDGKGKTIEC 409
           +L +  KK    V+  DE+D                V+  LL   D    +  K      
Sbjct: 48  ELFEAAKKLAPCVIFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGFTSSLSK------ 101

Query: 410 KDAIFVMTSN 419
              I +  +N
Sbjct: 102 --VIVIAATN 109

AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes. Length = 131

>gnl|CDD|165206 PHA02875, PHA02875, ankyrin repeat protein; Provisional

 Score = 45.0 bits (106), Expect = 9e-05
 Identities = 34/121 (28%), Positives = 58/121 (47%), Gaps = 12/121 (9%)

Query: 114 NMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF----NT-VHRTAAEKKMNPFE 168
           ++++P   + LH A   G V  V  LL+ G   +  D+F     T +H     KK++  +
Sbjct: 62  DVKYPDIESELHDAVEEGDVKAVEELLDLGKFAD--DVFYKDGMTPLHLATILKKLDIMK 119

Query: 169 VLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDY 228
           +L+ R  +  D+ N +     FS LH  V+ G+ + +ELL+   A   ++D  G  P   
Sbjct: 120 LLIARGAD-PDIPNTDK----FSPLHLAVMMGDIKGIELLIDHKACLDIEDCCGCTPLII 174

Query: 229 A 229
           A
Sbjct: 175 A 175

Length = 413

>gnl|CDD|206028 pfam13857, Ank_5, Ankyrin repeats (many copies)

 Score = 40.0 bits (94), Expect = 9e-05
 Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 4/60 (6%)

Query: 170 LLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYA 229
           LL+      +  + N    G + LH     G  E+V+ LLK G D  ++D+ G    D A
Sbjct: 1   LLEHGPIDLNATDGN----GNTPLHLAAKYGALELVQWLLKPGVDLNLRDSDGLTALDLA 56

Length = 56

>gnl|CDD|140343 PTZ00322, PTZ00322, 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional

 Score = 44.5 bits (105), Expect = 2e-04
 Identities = 23/39 (58%), Positives = 25/39 (64%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD 150
           D N R   G TPLH+A  NG V  VRVLLE GA+P L D
Sbjct: 107 DPNCRDYDGRTPLHIACANGHVQVVRVLLEFGADPTLLD 145

Length = 664

>gnl|CDD|140343 PTZ00322, PTZ00322, 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional

 Score = 43.7 bits (103), Expect = 2e-04
 Identities = 30/115 (26%), Positives = 47/115 (40%), Gaps = 37/115 (32%)

Query: 125 HVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPN 184
            +AA +G     R+LL  GA+PN  D                                  
Sbjct: 88  QLAA-SGDAVGARILLTGGADPNCRD---------------------------------- 112

Query: 185 MTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
             + G + LH     G+ +VV +LL+ GADPT+ D  G  P + AE+   ++++Q
Sbjct: 113 --YDGRTPLHIACANGHVQVVRVLLEFGADPTLLDKDGKTPLELAEENGFREVVQ 165

Length = 664

>gnl|CDD|233119 TIGR00763, lon, ATP-dependent protease La

 Score = 43.8 bits (104), Expect = 3e-04
 Identities = 43/170 (25%), Positives = 77/170 (45%), Gaps = 41/170 (24%)

Query: 239 QKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL 298
            KY+++  DL+R KE  +   Y L+ ++K+RI+ +  A+  +   +K             
Sbjct: 302 GKYSKENLDLKRAKEILDEDHYGLK-KVKERIL-EYLAVQKLRGKMKGP----------- 348

Query: 299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKL-------IGAPP 351
           +   +G  G+GKT L K +A  ++R     F+R  +       + A++       +GA P
Sbjct: 349 ILCLVGPPGVGKTSLGKSIAKALNRK----FVRFSLGGV---RDEAEIRGHRRTYVGAMP 401

Query: 352 GYLGHDDGGQLTKRLKKCP--NAVVLFDEVDKA----HPDVLTVLLQLFD 395
                   G++ + LKK    N + L DE+DK       D  + LL++ D
Sbjct: 402 --------GRIIQGLKKAKTKNPLFLLDEIDKIGSSFRGDPASALLEVLD 443

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 775

>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain

 Score = 41.0 bits (96), Expect = 3e-04
 Identities = 32/152 (21%), Positives = 56/152 (36%), Gaps = 27/152 (17%)

Query: 269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLA---------- 318
           R+VG+E  +  +  A++R  +G      P   L  G SG GKT L ++L           
Sbjct: 1   RLVGREEELERLLDALRRARSG-----GPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKC 55

Query: 319 FYIHRDKKEAFI--------RLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCP 370
               R+   AF         +L      E   + + + A  G    +    L + L++  
Sbjct: 56  DQAERNPPYAFSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERLL 115

Query: 371 NA----VVLFDEVDKAHPDVLTVLLQLFDEGR 398
                 V++ D++  A  + L +L  L     
Sbjct: 116 ARARPLVLVLDDLQWADEESLDLLAALLRRLE 147

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Length = 154

>gnl|CDD|233120 TIGR00764, lon_rel, lon-related putative ATP-dependent protease

 Score = 42.5 bits (100), Expect = 5e-04
 Identities = 24/64 (37%), Positives = 36/64 (56%), Gaps = 10/64 (15%)

Query: 255 EERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELA 314
           E   + P+ +RL D+++GQE A+ II  A K+K N           L +G  G+GK+ LA
Sbjct: 5   ETTEEIPVPERLIDQVIGQEEAVEIIKKAAKQKRN----------VLLIGEPGVGKSMLA 54

Query: 315 KQLA 318
           K +A
Sbjct: 55  KAMA 58

This model represents a set of proteins with extensive C-terminal homology to the ATP-dependent protease La, product of the lon gene of E. coli. The model is based on a seed alignment containing only archaeal members, but several bacterial proteins match the model well. Because several species, including Thermotoga maritima and Treponema pallidum, contain both a close homolog of the lon protease and nearly full-length homolog of the members of this family, we suggest there may also be a functional division between the two families. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 608

>gnl|CDD|224142 COG1221, PspF, Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

 Score = 42.4 bits (100), Expect = 5e-04
 Identities = 24/100 (24%), Positives = 43/100 (43%), Gaps = 1/100 (1%)

Query: 301 LFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGG 360
           L +G +G GK   A+ +     R  +  FI  + + Y E  + A+L G   G      GG
Sbjct: 105 LIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQEAELFGHEKGAFTGAQGG 164

Query: 361 QLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLT 400
           +     ++     +  DE+ +  P+    LL++ +EG   
Sbjct: 165 K-AGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYR 203

Length = 403

>gnl|CDD|223738 COG0666, Arp, FOG: Ankyrin repeat [General function prediction only]

 Score = 41.3 bits (96), Expect = 6e-04
 Identities = 26/69 (37%), Positives = 35/69 (50%), Gaps = 1/69 (1%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF-NTVHRTAAEKKMNPFEVLLKREDEFN 178
           G TPLH AA+NG  D V +LLEAGA+PN  + +  T    AA+        LL  +    
Sbjct: 147 GNTPLHWAALNGDADIVELLLEAGADPNSRNSYGVTALDPAAKNGRIELVKLLLDKGLHL 206

Query: 179 DVLNPNMTF 187
            +L  N+  
Sbjct: 207 SLLKFNLEG 215

Length = 235

>gnl|CDD|165206 PHA02875, PHA02875, ankyrin repeat protein; Provisional

 Score = 41.9 bits (98), Expect = 8e-04
 Identities = 29/139 (20%), Positives = 61/139 (43%), Gaps = 9/139 (6%)

Query: 108 NSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG--DLFNTVHRTAAEKKMN 165
           +  ++ N     G +P+ +A      + +++L++ GA P++   D+ + +H    E  + 
Sbjct: 23  DIGINPNFEIYDGISPIKLAMKFRDSEAIKLLMKHGAIPDVKYPDIESELHDAVEEGDVK 82

Query: 166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
             E LL      +DV   +    G + LH   +    ++++LL+  GADP + +     P
Sbjct: 83  AVEELLDLGKFADDVFYKD----GMTPLHLATILKKLDIMKLLIARGADPDIPNTDKFSP 138

Query: 226 SDYA---EDANIKQILQKY 241
              A    D    ++L  +
Sbjct: 139 LHLAVMMGDIKGIELLIDH 157

Length = 413

>gnl|CDD|215625 PLN03192, PLN03192, Voltage-dependent potassium channel; Provisional

 Score = 42.2 bits (99), Expect = 9e-04
 Identities = 38/138 (27%), Positives = 60/138 (43%), Gaps = 10/138 (7%)

Query: 87  DLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP 146
              L   A  G+A  L+  ++ +KLD ++    G TPLH+AA  G  D V VLL+   N 
Sbjct: 526 ASNLLTVASTGNAALLEELLK-AKLDPDIGDSKGRTPLHIAASKGYEDCVLVLLKHACNV 584

Query: 147 NLGDLF-NTVHRTA-AEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEV 204
           ++ D   NT    A + K    F +L      F  + +P+        L       +   
Sbjct: 585 HIRDANGNTALWNAISAKHHKIFRILY----HFASISDPHA---AGDLLCTAAKRNDLTA 637

Query: 205 VELLLKSGADPTVKDNSG 222
           ++ LLK G +   +D+ G
Sbjct: 638 MKELLKQGLNVDSEDHQG 655

Length = 823

>gnl|CDD|222277 pfam13637, Ank_4, Ankyrin repeats (many copies)

 Score = 36.8 bits (86), Expect = 0.001
 Identities = 14/41 (34%), Positives = 21/41 (51%)

Query: 189 GFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYA 229
           G +ALH   ++G  E+V+ LL+ G D    D  G+     A
Sbjct: 1   GRTALHKAAISGRLELVKYLLEKGVDINRTDEDGNTALHIA 41

Length = 54

>gnl|CDD|165205 PHA02874, PHA02874, ankyrin repeat protein; Provisional

 Score = 41.5 bits (97), Expect = 0.001
 Identities = 49/202 (24%), Positives = 83/202 (41%), Gaps = 42/202 (20%)

Query: 78  TLLECQ---SIKDLT----LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAIN 130
           T+L+C    +IKD      L  A + G  + +K   E    DVN+    G  P+H+A  +
Sbjct: 109 TILDCGIDVNIKDAELKTFLHYAIKKGDLESIKMLFE-YGADVNIEDDNGCYPIHIAIKH 167

Query: 131 GKVDNVRVLLEAGANPNLGDLF--NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFL 188
              D +++LLE GA  N+ D    + +H  A        ++L+   +   +      T L
Sbjct: 168 NFFDIIKLLLEKGAYANVKDNNGESPLHNAAEYGDYACIKLLIDHGNHIMNKCKNGFTPL 227

Query: 189 --------------------------GFSALHYGV-VAGNTEVVELLLKSGADPTVKDNS 221
                                     G + LH+ +    + +++++LL   AD ++KDN 
Sbjct: 228 HNAIIHNRSAIELLINNASINDQDIDGSTPLHHAINPPCDIDIIDILLYHKADISIKDNK 287

Query: 222 GHIPSDYA-----EDANIKQIL 238
           G  P D A     +D  IK I+
Sbjct: 288 GENPIDTAFKYINKDPVIKDII 309

Length = 434

>gnl|CDD|165205 PHA02874, PHA02874, ankyrin repeat protein; Provisional

 Score = 41.1 bits (96), Expect = 0.001
 Identities = 41/162 (25%), Positives = 71/162 (43%), Gaps = 24/162 (14%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL- 148
           L  A R G AK ++ FI     D+N  +     PL  A   G  D +++L++ G + ++ 
Sbjct: 39  LIDAIRSGDAKIVELFI-KHGADINHINTKIPHPLLTAIKIGAHDIIKLLIDNGVDTSIL 97

Query: 149 --GDLFNTVHRTAAEK--KMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEV 204
               +   + +T  +    +N  +  LK             TFL     HY +  G+ E 
Sbjct: 98  PIPCIEKDMIKTILDCGIDVNIKDAELK-------------TFL-----HYAIKKGDLES 139

Query: 205 VELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYA 246
           +++L + GAD  ++D++G  P   A   N   I++   EK A
Sbjct: 140 IKMLFEYGADVNIEDDNGCYPIHIAIKHNFFDIIKLLLEKGA 181

Length = 434

>gnl|CDD|233161 TIGR00870, trp, transient-receptor-potential calcium channel protein

 Score = 41.2 bits (97), Expect = 0.002
 Identities = 35/138 (25%), Positives = 52/138 (37%), Gaps = 12/138 (8%)

Query: 87  DLTLFRAARYGSAKELKTFIENSK-LDVNMRHPLGWTPLHVAAINGKVDNVRVLLEA-GA 144
           +     AA  G    +   +E  K L++N    LG + L VAAI  +   +  LL     
Sbjct: 18  EKAFLPAAERGDLASVYRDLEEPKKLNINCPDRLGRSALFVAAIENENLELTELLLNLSC 77

Query: 145 NPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMT--------FLGFSALHYG 196
              +GD    +H  + E       +LL     F       +           G +ALH  
Sbjct: 78  RGAVGD--TLLHAISLEYVDAVEAILLHLLAAFRKSGPLELANDQYTSEFTPGITALHLA 135

Query: 197 VVAGNTEVVELLLKSGAD 214
               N E+V+LLL+ GA 
Sbjct: 136 AHRQNYEIVKLLLERGAS 153

The Transient Receptor Potential Ca2+ Channel (TRP-CC) Family (TC. 1.A.4)The TRP-CC family has also been called the store-operated calcium channel (SOC) family. The prototypical members include the Drosophila retinal proteinsTRP and TRPL (Montell and Rubin, 1989; Hardie and Minke, 1993). SOC members of the family mediate the entry of extracellular Ca2+ into cells in responseto depletion of intracellular Ca2+ stores (Clapham, 1996) and agonist stimulated production of inositol-1,4,5 trisphosphate (IP3). One member of the TRP-CCfamily, mammalian Htrp3, has been shown to form a tight complex with the IP3 receptor (TC #1.A.3.2.1). This interaction is apparently required for IP3 tostimulate Ca2+ release via Htrp3. The vanilloid receptor subtype 1 (VR1), which is the receptor for capsaicin (the ?hot? ingredient in chili peppers) and servesas a heat-activated ion channel in the pain pathway (Caterina et al., 1997), is also a member of this family. The stretch-inhibitable non-selective cation channel(SIC) is identical to the vanilloid receptor throughout all of its first 700 residues, but it exhibits a different sequence in its last 100 residues. VR1 and SICtransport monovalent cations as well as Ca2+. VR1 is about 10x more permeable to Ca2+ than to monovalent ions. Ca2+ overload probably causes cell deathafter chronic exposure to capsaicin. (McCleskey and Gold, 1999) [Transport and binding proteins, Cations and iron carrying compounds]. Length = 743

>gnl|CDD|197603 smart00248, ANK, ankyrin repeats

 Score = 35.3 bits (82), Expect = 0.003
 Identities = 14/29 (48%), Positives = 16/29 (55%)

Query: 189 GFSALHYGVVAGNTEVVELLLKSGADPTV 217
           G + LH     GN EVV+LLL  GAD   
Sbjct: 2   GRTPLHLAAENGNLEVVKLLLDKGADINA 30

Ankyrin repeats are about 33 amino acids long and occur in at least four consecutive copies. They are involved in protein-protein interactions. The core of the repeat seems to be an helix-loop-helix structure. Length = 30

>gnl|CDD|198154 smart01086, ClpB_D2-small, C-terminal, D2-small domain, of ClpB protein

 Score = 37.0 bits (87), Expect = 0.003
 Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 2/84 (2%)

Query: 494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQV 552
            K +L  +V   LN   K+ L +  I + +  +    LA+ GYD  YGAR ++  ++R++
Sbjct: 2   DKEDLVRIVDLPLNALQKR-LAEKGITLEFTDEALDWLAEKGYDPKYGARPLRRIIQREL 60

Query: 553 VSQLAAAHEKSVIGKGSFVRLYVQ 576
              LA       +  G  V + V 
Sbjct: 61  EDPLAELILSGELKDGDTVVVDVD 84

This is the C-terminal domain of ClpB protein, referred to as the D2-small domain, and is a mixed alpha-beta structure. Compared with the D1-small domain (included in AAA) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit and thereby providing enough binding energy to stabilise the functional assembly. The domain is associated with two Clp_N at the N-terminus as well as AAA and AAA_2. Length = 90

>gnl|CDD|165207 PHA02876, PHA02876, ankyrin repeat protein; Provisional

 Score = 40.4 bits (94), Expect = 0.003
 Identities = 39/134 (29%), Positives = 60/134 (44%), Gaps = 11/134 (8%)

Query: 86  KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAING-KVDNVRVLLEAGA 144
           K+  L  A++  S   L   +     DVN ++  G TPL++ A NG   +N+R L+  GA
Sbjct: 273 KNTPLHHASQAPSLSRLVPKLLERGADVNAKNIKGETPLYLMAKNGYDTENIRTLIMLGA 332

Query: 145 NPNLGD-LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGF---SALHYGVVAG 200
           + N  D L+ T    A+    N   V+   E      L  N+    +   + +HY  V  
Sbjct: 333 DVNAADRLYITPLHQASTLDRNKDIVITLLE------LGANVNARDYCDKTPIHYAAVRN 386

Query: 201 NTEVVELLLKSGAD 214
           N  ++  LL  GAD
Sbjct: 387 NVVIINTLLDYGAD 400

Length = 682

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	607
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	100.0
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	100.0
CHL00095	821	clpC Clp protease ATP binding subunit	100.0
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	100.0
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	100.0
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	100.0
KOG1051|consensus	898		100.0
PRK10865	857	protein disaggregation chaperone; Provisional	100.0
KOG4412|consensus	226		100.0
PHA02791	284	ankyrin-like protein; Provisional	100.0
KOG4412|consensus	226		100.0
PHA02874	434	ankyrin repeat protein; Provisional	100.0
PHA02875	413	ankyrin repeat protein; Provisional	99.98
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.98
PHA02791	284	ankyrin-like protein; Provisional	99.98
PHA03100	480	ankyrin repeat protein; Provisional	99.98
PHA03100	480	ankyrin repeat protein; Provisional	99.98
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.97
PHA03095	471	ankyrin-like protein; Provisional	99.97
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.97
KOG0510|consensus	929		99.97
PHA02878	477	ankyrin repeat protein; Provisional	99.97
PHA02716	764	CPXV016; CPX019; EVM010; Provisional	99.97
PHA02876	682	ankyrin repeat protein; Provisional	99.97
PHA03095	471	ankyrin-like protein; Provisional	99.97
PHA02946	446	ankyin-like protein; Provisional	99.97
PHA02989	494	ankyrin repeat protein; Provisional	99.97
PHA02716	764	CPXV016; CPX019; EVM010; Provisional	99.97
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.97
COG2204	464	AtoC Response regulator containing CheY-like recei	99.97
PHA02946	446	ankyin-like protein; Provisional	99.97
KOG0510|consensus	929		99.97
PHA02798	489	ankyrin-like protein; Provisional	99.97
PHA02878	477	ankyrin repeat protein; Provisional	99.97
KOG0509|consensus	600		99.97
PHA02874	434	ankyrin repeat protein; Provisional	99.96
KOG0509|consensus	600		99.96
PHA02875	413	ankyrin repeat protein; Provisional	99.96
PHA02859	209	ankyrin repeat protein; Provisional	99.96
PHA02876	682	ankyrin repeat protein; Provisional	99.96
KOG0508|consensus	615		99.95
PHA02917	661	ankyrin-like protein; Provisional	99.95
PHA02798	489	ankyrin-like protein; Provisional	99.95
KOG0508|consensus	615		99.94
PHA02795	437	ankyrin-like protein; Provisional	99.94
PHA02859	209	ankyrin repeat protein; Provisional	99.94
PHA02989	494	ankyrin repeat protein; Provisional	99.94
KOG4177|consensus	1143		99.93
KOG4177|consensus	1143		99.93
PHA02792	631	ankyrin-like protein; Provisional	99.93
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.93
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.93
PHA02730	672	ankyrin-like protein; Provisional	99.93
KOG0502|consensus	296		99.92
PLN03192	823	Voltage-dependent potassium channel; Provisional	99.92
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.92
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.92
PHA02795	437	ankyrin-like protein; Provisional	99.91
PHA02917	661	ankyrin-like protein; Provisional	99.91
PHA02730	672	ankyrin-like protein; Provisional	99.91
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.91
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	99.91
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.91
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.91
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.9
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.9
PLN03192	823	Voltage-dependent potassium channel; Provisional	99.9
KOG0514|consensus	452		99.9
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	99.9
KOG0507|consensus	854		99.89
KOG0745|consensus	564		99.89
TIGR00870	743	trp transient-receptor-potential calcium channel p	99.88
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.88
PHA02743	166	Viral ankyrin protein; Provisional	99.88
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	99.88
KOG0502|consensus	296		99.88
PHA02792	631	ankyrin-like protein; Provisional	99.87
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.87
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.87
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.87
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.87
KOG0505|consensus	527		99.87
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	99.87
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.86
PHA02741	169	hypothetical protein; Provisional	99.86
TIGR00870	743	trp transient-receptor-potential calcium channel p	99.86
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.86
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	99.86
PHA02884	300	ankyrin repeat protein; Provisional	99.85
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.85
KOG0512|consensus	228		99.85
KOG0514|consensus	452		99.84
KOG0505|consensus	527		99.83
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.83
PHA02743	166	Viral ankyrin protein; Provisional	99.83
PRK15115	444	response regulator GlrR; Provisional	99.83
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.83
PHA02736	154	Viral ankyrin protein; Provisional	99.82
PHA02741	169	hypothetical protein; Provisional	99.82
KOG0195|consensus	448		99.82
KOG2004|consensus	906		99.81
PHA02884	300	ankyrin repeat protein; Provisional	99.81
PHA02736	154	Viral ankyrin protein; Provisional	99.81
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.8
KOG2170|consensus	344		99.79
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.79
KOG0507|consensus	854		99.79
CHL00181	287	cbbX CbbX; Provisional	99.78
KOG4369|consensus	2131		99.77
KOG0512|consensus	228		99.76
KOG3676|consensus	782		99.74
PF12796	89	Ank_2: Ankyrin repeats (3 copies); InterPro: IPR02	99.72
KOG4369|consensus	2131		99.72
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	99.7
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.69
PTZ00322	664	6-phosphofructo-2-kinase/fructose-2,6-biphosphatas	99.69
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.68
KOG0195|consensus	448		99.67
PF12796	89	Ank_2: Ankyrin repeats (3 copies); InterPro: IPR02	99.67
cd00204	126	ANK ankyrin repeats; ankyrin repeats mediate prote	99.64
cd00204	126	ANK ankyrin repeats; ankyrin repeats mediate prote	99.64
KOG4214|consensus	117		99.61
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.6
KOG3676|consensus	782		99.56
COG0666	235	Arp FOG: Ankyrin repeat [General function predicti	99.55
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.54
COG4650	531	RtcR Sigma54-dependent transcription regulator con	99.47
KOG1710|consensus	396		99.45
COG0666	235	Arp FOG: Ankyrin repeat [General function predicti	99.45
KOG4214|consensus	117		99.43
PF13637	54	Ank_4: Ankyrin repeats (many copies); PDB: 3B95_A	99.41
KOG0515|consensus	752		99.4
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.39
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.38
PF13857	56	Ank_5: Ankyrin repeats (many copies); PDB: 1SW6_A	99.38
PF10431	81	ClpB_D2-small: C-terminal, D2-small domain, of Clp	99.38
PRK13342	413	recombination factor protein RarA; Reviewed	99.37
PRK13341	725	recombination factor protein RarA/unknown domain f	99.36
PF13637	54	Ank_4: Ankyrin repeats (many copies); PDB: 3B95_A	99.35
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.34
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.32
PRK13531	498	regulatory ATPase RavA; Provisional	99.31
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.3
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.3
PF13857	56	Ank_5: Ankyrin repeats (many copies); PDB: 1SW6_A	99.29
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.27
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.26
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.26
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.26
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	99.25
PLN03025	319	replication factor C subunit; Provisional	99.25
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.25
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.25
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.25
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.24
KOG0515|consensus	752		99.23
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.23
KOG0730|consensus	693		99.23
KOG2028|consensus	554		99.22
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.22
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.22
PRK12402	337	replication factor C small subunit 2; Reviewed	99.22
PHA02244	383	ATPase-like protein	99.22
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.22
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.21
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.19
KOG0989|consensus	346		99.19
KOG1710|consensus	396		99.19
PTZ00322	664	6-phosphofructo-2-kinase/fructose-2,6-biphosphatas	99.18
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.18
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.18
CHL00195	489	ycf46 Ycf46; Provisional	99.18
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.17
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.17
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.17
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.16
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.16
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.15
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.15
PRK13765	637	ATP-dependent protease Lon; Provisional	99.14
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.14
PHA02544	316	44 clamp loader, small subunit; Provisional	99.13
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.13
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.12
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.11
KOG0736|consensus	953		99.1
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.1
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.1
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	99.09
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.09
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.09
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.07
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.07
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.07
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.06
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.06
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.06
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.04
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.04
CHL00176	638	ftsH cell division protein; Validated	99.04
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.04
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.04
KOG0733|consensus	802		99.03
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.03
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.03
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.02
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.01
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.01
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.01
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.0
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.99
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.99
KOG0727|consensus	408		98.98
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.97
PF07726	131	AAA_3: ATPase family associated with various cellu	98.96
COG0714	329	MoxR-like ATPases [General function prediction onl	98.96
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	98.96
KOG0738|consensus	491		98.96
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.94
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	98.94
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.94
PRK04195	482	replication factor C large subunit; Provisional	98.93
PRK08084	235	DNA replication initiation factor; Provisional	98.93
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.93
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.92
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.92
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	98.92
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.92
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	98.9
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	98.9
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.9
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.88
PF00004	132	AAA: ATPase family associated with various cellula	98.87
PRK08727	233	hypothetical protein; Validated	98.86
smart00350	509	MCM minichromosome maintenance proteins.	98.86
PRK06893	229	DNA replication initiation factor; Validated	98.86
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.85
PF13606	30	Ank_3: Ankyrin repeat	98.85
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.85
KOG0991|consensus	333		98.84
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	98.84
PRK05642	234	DNA replication initiation factor; Validated	98.82
KOG0734|consensus	752		98.82
KOG0733|consensus	802		98.82
PF13606	30	Ank_3: Ankyrin repeat	98.82
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.79
KOG0818|consensus	669		98.79
PRK09862	506	putative ATP-dependent protease; Provisional	98.78
PF00023	33	Ank: Ankyrin repeat Hereditary spherocytosis; Inte	98.78
KOG0728|consensus	404		98.78
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	98.78
KOG0783|consensus	1267		98.76
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.75
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.75
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.75
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.73
PF00023	33	Ank: Ankyrin repeat Hereditary spherocytosis; Inte	98.72
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.72
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.71
PRK12422	445	chromosomal replication initiation protein; Provis	98.7
CHL00206	2281	ycf2 Ycf2; Provisional	98.7
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.7
KOG0739|consensus	439		98.7
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.7
KOG0744|consensus	423		98.69
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.69
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.69
KOG0506|consensus	622		98.67
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.66
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.66
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.65
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.65
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	98.65
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.61
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.61
KOG0735|consensus	952		98.59
KOG3609|consensus	822		98.58
KOG0506|consensus	622		98.58
PRK04132	846	replication factor C small subunit; Provisional	98.56
KOG0731|consensus	774		98.56
CHL00095	821	clpC Clp protease ATP binding subunit	98.55
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.53
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	98.53
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	98.52
KOG0818|consensus	669		98.52
KOG0783|consensus	1267		98.52
PRK09087	226	hypothetical protein; Validated	98.51
KOG0743|consensus	457		98.5
KOG0782|consensus	1004		98.48
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.47
KOG1942|consensus	456		98.45
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.45
PRK10865	857	protein disaggregation chaperone; Provisional	98.45
KOG0522|consensus	560		98.44
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	98.43
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.43
PRK06620	214	hypothetical protein; Validated	98.41
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.41
KOG0705|consensus	749		98.4
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.38
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.37
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.36
KOG0652|consensus	424		98.36
KOG0726|consensus	440		98.34
KOG0705|consensus	749		98.33
KOG0729|consensus	435		98.31
KOG0651|consensus	388		98.29
COG1241	682	MCM2 Predicted ATPase involved in replication cont	98.27
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	98.27
KOG0522|consensus	560		98.27
KOG0782|consensus	1004		98.26
KOG0737|consensus	386		98.24
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.22
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.22
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.21
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.21
PRK06964	342	DNA polymerase III subunit delta'; Validated	98.18
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	98.14
PRK15455	644	PrkA family serine protein kinase; Provisional	98.14
KOG0742|consensus	630		98.12
PRK12377	248	putative replication protein; Provisional	98.12
PRK08116	268	hypothetical protein; Validated	98.1
smart00382	148	AAA ATPases associated with a variety of cellular	98.08
KOG2035|consensus	351		98.06
KOG0521|consensus	785		98.06
KOG0732|consensus	1080		98.06
KOG0520|consensus	975		98.04
KOG0740|consensus	428		98.02
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.0
KOG2384|consensus	223		97.98
KOG0741|consensus	744		97.96
KOG0511|consensus	516		97.95
KOG2227|consensus	529		97.94
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.93
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.93
PF13173	128	AAA_14: AAA domain	97.92
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	97.89
PRK07276	290	DNA polymerase III subunit delta'; Validated	97.87
KOG0521|consensus	785		97.87
KOG0511|consensus	516		97.85
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	97.85
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	97.85
PRK05917	290	DNA polymerase III subunit delta'; Validated	97.85
KOG0520|consensus	975		97.85
KOG3609|consensus	822		97.83
KOG0480|consensus	764		97.83
KOG0478|consensus	804		97.77
KOG2384|consensus	223		97.76
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.74
PRK06835	329	DNA replication protein DnaC; Validated	97.72
KOG1969|consensus	877		97.7
PRK06526	254	transposase; Provisional	97.69
PRK07952	244	DNA replication protein DnaC; Validated	97.64
PF05729	166	NACHT: NACHT domain	97.61
PRK07132	299	DNA polymerase III subunit delta'; Validated	97.61
KOG0741|consensus	744		97.6
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.54
PRK05818	261	DNA polymerase III subunit delta'; Validated	97.54
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.53
PRK08181	269	transposase; Validated	97.51
PRK08939	306	primosomal protein DnaI; Reviewed	97.49
KOG0990|consensus	360		97.49
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.48
KOG0735|consensus	952		97.45
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.42
KOG0730|consensus	693		97.4
PRK09183	259	transposase/IS protein; Provisional	97.38
KOG2505|consensus	591		97.38
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.36
KOG1514|consensus	767		97.27
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.19
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	97.16
PRK06921	266	hypothetical protein; Provisional	97.13
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.01
smart00248	30	ANK ankyrin repeats. Ankyrin repeats are about 33	97.01
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.88
PHA01747	425	putative ATP-dependent protease	96.86
smart00248	30	ANK ankyrin repeats. Ankyrin repeats are about 33	96.83
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	96.72
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	96.71
PRK10536	262	hypothetical protein; Provisional	96.7
KOG0477|consensus	854		96.66
KOG0479|consensus	818		96.65
KOG0482|consensus	721		96.64
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	96.58
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.41
PRK14974	336	cell division protein FtsY; Provisional	96.38
KOG2680|consensus	454		96.38
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.33
PRK04296	190	thymidine kinase; Provisional	96.31
KOG0736|consensus	953		96.3
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.2
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	96.17
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.16
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	96.04
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.92
PRK06581	263	DNA polymerase III subunit delta'; Validated	95.92
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	95.86
COG1485	367	Predicted ATPase [General function prediction only	95.82
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	95.78
KOG2505|consensus	591		95.73
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.71
KOG0481|consensus	729		95.71
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.53
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.53
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	95.5
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.46
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.45
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.45
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	95.36
PF03158	192	DUF249: Multigene family 530 protein; InterPro: IP	95.32
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	95.28
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.1
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	94.87
PRK00771	437	signal recognition particle protein Srp54; Provisi	94.86
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	94.83
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	94.8
PHA02774	613	E1; Provisional	94.8
KOG3347|consensus	176		94.77
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	94.69
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	94.58
PF05609	465	LAP1C: Lamina-associated polypeptide 1C (LAP1C); I	94.48
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	94.38
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	94.29
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	94.26
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	94.16
PRK06696	223	uridine kinase; Validated	94.15
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	94.07
KOG2543|consensus	438		93.99
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	93.98
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	93.98
PRK10867	433	signal recognition particle protein; Provisional	93.95
COG4178	604	ABC-type uncharacterized transport system, permeas	93.94
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	93.86
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	93.85
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	93.83
KOG2228|consensus	408		93.78
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	93.73
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	93.73
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	93.63
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	93.57
PTZ00293	211	thymidine kinase; Provisional	93.46
PF06128	284	Shigella_OspC: Shigella flexneri OspC protein; Int	93.42
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	93.37
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	93.34
PF13337	457	Lon_2: Putative ATP-dependent Lon protease	93.31
cd03246	173	ABCC_Protease_Secretion This family represents the	93.31
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	93.3
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	93.26
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	93.18
PRK00131	175	aroK shikimate kinase; Reviewed	93.11
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	93.09
PLN03210	1153	Resistant to P. syringae 6; Provisional	93.05
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	92.93
PRK10875	615	recD exonuclease V subunit alpha; Provisional	92.9
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	92.9
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	92.9
PRK10416	318	signal recognition particle-docking protein FtsY;	92.89
TIGR00959	428	ffh signal recognition particle protein. This mode	92.87
PRK08118	167	topology modulation protein; Reviewed	92.87
KOG0922|consensus	674		92.83
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	92.81
PRK13695	174	putative NTPase; Provisional	92.59
KOG1808|consensus	1856		92.57
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	92.52
PF06128	284	Shigella_OspC: Shigella flexneri OspC protein; Int	92.48
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	92.43
cd03115	173	SRP The signal recognition particle (SRP) mediates	92.32
PRK05541	176	adenylylsulfate kinase; Provisional	92.25
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	92.23
PRK06547	172	hypothetical protein; Provisional	92.11
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	92.07
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	92.07
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	92.07
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	92.01
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	91.94
KOG2383|consensus	467		91.93
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	91.83
TIGR01967	1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	91.79
PRK04220	301	2-phosphoglycerate kinase; Provisional	91.76
PF03158	192	DUF249: Multigene family 530 protein; InterPro: IP	91.76
PRK07667	193	uridine kinase; Provisional	91.74
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	91.67
PRK06762	166	hypothetical protein; Provisional	91.61
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	91.56
TIGR00064	272	ftsY signal recognition particle-docking protein F	91.55
cd03215	182	ABC_Carb_Monos_II This family represents domain II	91.55
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	91.46
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	91.44
PRK08485	206	DNA polymerase III subunit delta'; Validated	91.41
PRK09435	332	membrane ATPase/protein kinase; Provisional	91.41
PRK07261	171	topology modulation protein; Provisional	91.26
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	91.25
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	91.25
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	91.19
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	91.1
PRK03846	198	adenylylsulfate kinase; Provisional	91.04
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	91.01
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	90.95
PRK05439	311	pantothenate kinase; Provisional	90.93

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.3e-57  Score=484.03  Aligned_cols=319  Identities=42%  Similarity=0.696  Sum_probs=286.2

Q ss_pred             HHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhH
Q psy1308         234 IKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTE  312 (607)
Q Consensus       234 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~  312 (607)
                      ..+++..+...+....  .+.+......|+..+.+.++||+.|++.++.++++...|+.++++|+ +|+|.||+|||||+
T Consensus       459 Ia~vv~~~TgIPv~~l--~~~e~~kll~le~~L~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTE  536 (786)
T COG0542         459 IAEVVARWTGIPVAKL--LEDEKEKLLNLERRLKKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTE  536 (786)
T ss_pred             HHHHHHHHHCCChhhh--chhhHHHHHHHHHHHhcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHH
Confidence            4445555554444422  23466678889999999999999999999999999999999999999 99999999999999


Q ss_pred             HHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHH
Q psy1308         313 LAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQ  392 (607)
Q Consensus       313 la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~  392 (607)
                      +|++||+.++.+ +..++++|||+|.+.|++++|+|+||||+||++||.+++.+++.|++||+||||||+||+|++.|||
T Consensus       537 LAkaLA~~Lfg~-e~aliR~DMSEy~EkHsVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQ  615 (786)
T COG0542         537 LAKALAEALFGD-EQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQ  615 (786)
T ss_pred             HHHHHHHHhcCC-CccceeechHHHHHHHHHHHHhCCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHH
Confidence            999999999987 7899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHH
Q psy1308         393 LFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILK  472 (607)
Q Consensus       393 ~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  472 (607)
                      +||+|+++|..|+++||+|++||||||+|++.+.+....                       .........++.+.+.++
T Consensus       616 VlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs~~i~~~~~~-----------------------~~~~~~~~~~~~v~~~l~  672 (786)
T COG0542         616 VLDDGRLTDGQGRTVDFRNTIIIMTSNAGSEEILRDADG-----------------------DDFADKEALKEAVMEELK  672 (786)
T ss_pred             HhcCCeeecCCCCEEecceeEEEEecccchHHHHhhccc-----------------------cccchhhhHHHHHHHHHH
Confidence            999999999999999999999999999999988764211                       000011123455678899


Q ss_pred             hccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHH
Q psy1308         473 RHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       473 ~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~  551 (607)
                      ++|+ |||++|+|++|+|.||+++++.+|+..++.++..++. .+++.+++++++.++|++ +|++.+|||+|++.|++.
T Consensus       673 ~~F~-PEFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~~L~-~~~i~l~~s~~a~~~l~~~gyd~~~GARpL~R~Iq~~  750 (786)
T COG0542         673 KHFR-PEFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKRLA-ERGITLELSDEAKDFLAEKGYDPEYGARPLRRAIQQE  750 (786)
T ss_pred             hhCC-HHHHhhcccEEeccCCCHHHHHHHHHHHHHHHHHHHH-hCCceEEECHHHHHHHHHhccCCCcCchHHHHHHHHH
Confidence            9998 9999999999999999999999999999999999998 459999999999999986 999999999999999999


Q ss_pred             HHHHHHHHHHhccCCCCCEEEEEEecCCc
Q psy1308         552 VVSQLAAAHEKSVIGKGSFVRLYVQWSKE  580 (607)
Q Consensus       552 i~~~l~~~~l~~~~~~~~~v~i~~~~~~~  580 (607)
                      |.++|++.++.+.+..|.++.|++.++..
T Consensus       751 i~~~La~~iL~g~~~~~~~v~v~~~~~~~  779 (786)
T COG0542         751 IEDPLADEILFGKIEDGGTVKVDVDDEKI  779 (786)
T ss_pred             HHHHHHHHHHhcccCCCcEEEEEecCceE
Confidence            99999999999999999999999998554

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=100.00  E-value=1.3e-43  Score=388.95  Aligned_cols=295  Identities=33%  Similarity=0.562  Sum_probs=264.6

Q ss_pred             HhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEe
Q psy1308         254 AEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRL  332 (607)
Q Consensus       254 ~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l  332 (607)
                      .+......|+..+.+.++||+.+++.+..++.....++.++++|. +++|+||+|+|||++|+.+|+.+.    .+++++
T Consensus       444 ~~~~~l~~l~~~L~~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~----~~~i~i  519 (758)
T PRK11034        444 SDRDTLKNLGDRLKMLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG----IELLRF  519 (758)
T ss_pred             hHHHHHHHHHHHhcceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC----CCcEEe
Confidence            345566788899999999999999999999999999999899998 899999999999999999999984    469999


Q ss_pred             ecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         333 DMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       333 ~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                      ||+.|.+.+.+.+++|.++||+|++.++.+++.++..|++|||||||||+||++++.|++++++|.++|..|++++|+|+
T Consensus       520 d~se~~~~~~~~~LiG~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~  599 (758)
T PRK11034        520 DMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNV  599 (758)
T ss_pred             echhhcccccHHHHcCCCCCcccccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP  492 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p  492 (607)
                      +||+|||.|.+.+.+..+++..             .  .      .     .....+.++.+|+ |||++|||.+++|.|
T Consensus       600 iiI~TsN~g~~~~~~~~~g~~~-------------~--~------~-----~~~~~~~~~~~f~-pefl~Rid~ii~f~~  652 (758)
T PRK11034        600 VLVMTTNAGVRETERKSIGLIH-------------Q--D------N-----STDAMEEIKKIFT-PEFRNRLDNIIWFDH  652 (758)
T ss_pred             EEEEeCCcCHHHHhhcccCccc-------------c--h------h-----hHHHHHHHHHhcC-HHHHccCCEEEEcCC
Confidence            9999999998876543221110             0  0      0     1112356678898 999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEE
Q psy1308         493 FSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFV  571 (607)
Q Consensus       493 l~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v  571 (607)
                      |+.+++.+|+..++.++.+++.. +++.++++++++++|++ +|++.+|||+|++.|++.+.+++++.++.+.+.+|+++
T Consensus       653 L~~~~l~~I~~~~l~~~~~~l~~-~~i~l~~~~~~~~~l~~~~~~~~~GAR~l~r~i~~~l~~~la~~il~~~~~~~~~~  731 (758)
T PRK11034        653 LSTDVIHQVVDKFIVELQAQLDQ-KGVSLEVSQEARDWLAEKGYDRAMGARPMARVIQDNLKKPLANELLFGSLVDGGQV  731 (758)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHH-CCCCceECHHHHHHHHHhCCCCCCCCchHHHHHHHHHHHHHHHHHHhCcccCCCEE
Confidence            99999999999999999998855 59999999999999986 99999999999999999999999999999999999999


Q ss_pred             EEEEecCCc
Q psy1308         572 RLYVQWSKE  580 (607)
Q Consensus       572 ~i~~~~~~~  580 (607)
                      +|++.+++.
T Consensus       732 ~v~~~~~~~  740 (758)
T PRK11034        732 TVALDKEKN  740 (758)
T ss_pred             EEEEECCce
Confidence            999987664

>CHL00095 clpC Clp protease ATP binding subunit

Probab=100.00  E-value=4.2e-43  Score=395.61  Aligned_cols=307  Identities=40%  Similarity=0.663  Sum_probs=272.3

Q ss_pred             hhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         255 EERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       255 ~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      +......|++.|.+.++||+.+++.+..++.+...++.++++|. +++|+||+|+|||++|+.+|+.++.. ..+++++|
T Consensus       496 ~~~~l~~l~~~L~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~-~~~~~~~d  574 (821)
T CHL00095        496 ESEKLLHMEETLHKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGS-EDAMIRLD  574 (821)
T ss_pred             HHHHHHHHHHHhcCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCC-ccceEEEE
Confidence            44556788999999999999999999999999999999999998 78999999999999999999999876 67899999


Q ss_pred             cccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceE
Q psy1308         334 MSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAI  413 (607)
Q Consensus       334 ~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~  413 (607)
                      |+.|.+.+.+.+++|+++||+|+++++.+++.++..|++||+||||||+||++++.|++++++|.++|..|++++|+|++
T Consensus       575 ~s~~~~~~~~~~l~g~~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i  654 (821)
T CHL00095        575 MSEYMEKHTVSKLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTL  654 (821)
T ss_pred             chhccccccHHHhcCCCCcccCcCccchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCcchHHHHHHH--hhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeec
Q psy1308         414 FVMTSNLASNEIAQHA--LQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFL  491 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~  491 (607)
                      ||||||.|...+....  +++...             ....   .........+.+.+.++++|+ |||++|+|.+++|.
T Consensus       655 ~I~Tsn~g~~~i~~~~~~~gf~~~-------------~~~~---~~~~~~~~~~~~~~~~~~~f~-peflnRid~ii~F~  717 (821)
T CHL00095        655 IIMTSNLGSKVIETNSGGLGFELS-------------ENQL---SEKQYKRLSNLVNEELKQFFR-PEFLNRLDEIIVFR  717 (821)
T ss_pred             EEEeCCcchHHHHhhccccCCccc-------------cccc---ccccHHHHHHHHHHHHHHhcC-HHHhccCCeEEEeC
Confidence            9999999998775321  111100             0000   000112234455677889998 99999999999999


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCE
Q psy1308         492 PFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSF  570 (607)
Q Consensus       492 pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~  570 (607)
                      ||+.+++.+|+...+.++.+++..+ ++.+.++++++++|++ +|++.+|||+|++.|++.+.++|++.++.+.+.+|++
T Consensus       718 pL~~~~l~~Iv~~~l~~l~~rl~~~-~i~l~~~~~~~~~La~~~~~~~~GAR~l~r~i~~~i~~~l~~~~l~~~~~~g~~  796 (821)
T CHL00095        718 QLTKNDVWEIAEIMLKNLFKRLNEQ-GIQLEVTERIKTLLIEEGYNPLYGARPLRRAIMRLLEDPLAEEVLSFKIKPGDI  796 (821)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHC-CcEEEECHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHHHHHHHHhCccCCCCE
Confidence            9999999999999999999998654 9999999999999987 8999999999999999999999999999999999999


Q ss_pred             EEEEEecCCc
Q psy1308         571 VRLYVQWSKE  580 (607)
Q Consensus       571 v~i~~~~~~~  580 (607)
                      ++|++.+++.
T Consensus       797 v~~~~~~~~~  806 (821)
T CHL00095        797 IIVDVNDEKE  806 (821)
T ss_pred             EEEEEeCCCc
Confidence            9999977763

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=100.00  E-value=1.1e-42  Score=389.41  Aligned_cols=297  Identities=32%  Similarity=0.581  Sum_probs=267.3

Q ss_pred             hhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         255 EERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       255 ~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      +......|+..+.+.++||+.+++.+...+.+...++.++++|+ +++|+||+|+|||++|+.+++.++.. ...++++|
T Consensus       553 e~~~l~~l~~~L~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~-~~~~~~~d  631 (852)
T TIGR03345       553 EIEAVLSLPDRLAERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGG-EQNLITIN  631 (852)
T ss_pred             HHHHHHHHHHHhcCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCC-CcceEEEe
Confidence            44567788999999999999999999999999999999999999 79999999999999999999999875 67899999


Q ss_pred             cccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceE
Q psy1308         334 MSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAI  413 (607)
Q Consensus       334 ~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~  413 (607)
                      |+.|.+.+.+.+|+|++|||+|++++|.+++.+++.|++||+||||||+||++++.|++++++|.++|..|++++|+|++
T Consensus       632 mse~~~~~~~~~l~g~~~gyvg~~~~g~L~~~v~~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~i  711 (852)
T TIGR03345       632 MSEFQEAHTVSRLKGSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTV  711 (852)
T ss_pred             HHHhhhhhhhccccCCCCCcccccccchHHHHHHhCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC
Q psy1308         414 FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF  493 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl  493 (607)
                      ||||||+|...+.+...+..                ..+      ........+...+.++|+ |||++|++ +++|.||
T Consensus       712 iI~TSNlg~~~~~~~~~~~~----------------~~~------~~~~~~~~~~~~~~~~f~-PEflnRi~-iI~F~pL  767 (852)
T TIGR03345       712 ILLTSNAGSDLIMALCADPE----------------TAP------DPEALLEALRPELLKVFK-PAFLGRMT-VIPYLPL  767 (852)
T ss_pred             EEEeCCCchHHHHHhccCcc----------------cCc------chHHHHHHHHHHHHHhcc-HHHhccee-EEEeCCC
Confidence            99999999998866431100                000      011223456678889998 99999997 8999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEE
Q psy1308         494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVR  572 (607)
Q Consensus       494 ~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~  572 (607)
                      +.+++.+|+...+..+.+++.+++++.++++++++++|++ +|++.+|||+|++.|++.|.++|++.++.+........+
T Consensus       768 s~e~l~~Iv~~~L~~l~~rl~~~~gi~l~i~d~a~~~La~~g~~~~~GAR~L~r~Ie~~i~~~la~~~l~~~~~~~~~~~  847 (852)
T TIGR03345       768 DDDVLAAIVRLKLDRIARRLKENHGAELVYSEALVEHIVARCTEVESGARNIDAILNQTLLPELSRQILERLAAGEPIER  847 (852)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHHcCCCCCChHHHHHHHHHHHHHHHHHHHHhChhcCCCeeE
Confidence            9999999999999999988877779999999999999987 999999999999999999999999999999998888888


Q ss_pred             EEEe
Q psy1308         573 LYVQ  576 (607)
Q Consensus       573 i~~~  576 (607)
                      |++.
T Consensus       848 ~~~~  851 (852)
T TIGR03345       848 IHLD  851 (852)
T ss_pred             EEEe
Confidence            8764

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=100.00  E-value=2.1e-41  Score=382.71  Aligned_cols=295  Identities=43%  Similarity=0.735  Sum_probs=266.8

Q ss_pred             hhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         255 EERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       255 ~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      +......|+..+.+.++||+.+++.+...+.+...++.++++|. +++|.||+|+|||++|+.+|+.++.. ..+++++|
T Consensus       552 e~~~l~~l~~~l~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~-~~~~i~~d  630 (852)
T TIGR03346       552 EREKLLHMEEVLHERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDD-EDAMVRID  630 (852)
T ss_pred             HHHHHHHHHHHhhcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCC-CCcEEEEe
Confidence            44566788889999999999999999999999999999999998 89999999999999999999999876 77899999


Q ss_pred             cccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceE
Q psy1308         334 MSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAI  413 (607)
Q Consensus       334 ~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~  413 (607)
                      |+.|.+.+.+.+++|++|||+|+++++.+++.++..|++||+||||||+||++++.|++++++|.++|..|++++|+|++
T Consensus       631 ~s~~~~~~~~~~l~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~i  710 (852)
T TIGR03346       631 MSEYMEKHSVARLIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTV  710 (852)
T ss_pred             chhhcccchHHHhcCCCCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC
Q psy1308         414 FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF  493 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl  493 (607)
                      ||||||.|.+.+.+...+                .     .    + .-....+...+.++|+ |||++|||.+++|.||
T Consensus       711 iI~TSn~g~~~~~~~~~~----------------~-----~----~-~~~~~~~~~~~~~~F~-pel~~Rid~IivF~PL  763 (852)
T TIGR03346       711 IIMTSNLGSQFIQELAGG----------------D-----D----Y-EEMREAVMEVLRAHFR-PEFLNRIDEIVVFHPL  763 (852)
T ss_pred             EEEeCCcchHhHhhhccc----------------c-----c----H-HHHHHHHHHHHHhhcC-HHHhcCcCeEEecCCc
Confidence            999999999877542100                0     0    0 0112344566788998 9999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEE
Q psy1308         494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVR  572 (607)
Q Consensus       494 ~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~  572 (607)
                      +++++.+|+..++..+.+++..+ ++.+.++++++++|++ +|++++|+|+|++.|++.+.++|++.++.+.+.+|.++.
T Consensus       764 ~~e~l~~I~~l~L~~l~~~l~~~-~~~l~i~~~a~~~L~~~~~~~~~gaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~~~  842 (852)
T TIGR03346       764 GREQIARIVEIQLGRLRKRLAER-KITLELSDAALDFLAEAGYDPVYGARPLKRAIQREIENPLAKKILAGEVADGDTIV  842 (852)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHC-CCeecCCHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHHHHHHHHhCCCCCCCEEE
Confidence            99999999999999999888654 8899999999999987 899999999999999999999999999999999999999


Q ss_pred             EEEecC
Q psy1308         573 LYVQWS  578 (607)
Q Consensus       573 i~~~~~  578 (607)
                      |++.++
T Consensus       843 ~~~~~~  848 (852)
T TIGR03346       843 VDVEGG  848 (852)
T ss_pred             EEeeCC
Confidence            999654

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=100.00  E-value=1.5e-41  Score=379.03  Aligned_cols=289  Identities=36%  Similarity=0.633  Sum_probs=261.4

Q ss_pred             hhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         255 EERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       255 ~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      +......++..+.+.++||+.+++.+...+.+...++.++++|. +++|+||+|+|||++|+.+++.+.    .+++++|
T Consensus       441 ~~~~l~~l~~~l~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~----~~~~~~d  516 (731)
T TIGR02639       441 DREKLKNLEKNLKAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG----VHLERFD  516 (731)
T ss_pred             HHHHHHHHHHHHhcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc----CCeEEEe
Confidence            44567788999999999999999999999999999999999998 899999999999999999999984    3599999


Q ss_pred             cccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceE
Q psy1308         334 MSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAI  413 (607)
Q Consensus       334 ~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~  413 (607)
                      |++|.+.+.+.+++|+++||+|+++++.+++.++..|++||+||||||++|++++.|++++++|.++|..|++++|+|++
T Consensus       517 ~se~~~~~~~~~lig~~~gyvg~~~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~i  596 (731)
T TIGR02639       517 MSEYMEKHTVSRLIGAPPGYVGFEQGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVI  596 (731)
T ss_pred             CchhhhcccHHHHhcCCCCCcccchhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC
Q psy1308         414 FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF  493 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl  493 (607)
                      ||+|||.|.+.+.+...++..                          ....+.....+++.|+ |||++|||.+++|.||
T Consensus       597 ii~Tsn~g~~~~~~~~~~f~~--------------------------~~~~~~~~~~~~~~f~-pef~~Rid~Vi~F~pL  649 (731)
T TIGR02639       597 LIMTSNAGASEMSKPPIGFGS--------------------------ENVESKSDKAIKKLFS-PEFRNRLDAIIHFNPL  649 (731)
T ss_pred             EEECCCcchhhhhhccCCcch--------------------------hhhHHHHHHHHHhhcC-hHHHhcCCeEEEcCCC
Confidence            999999998876542221110                          0012245567788898 9999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEE
Q psy1308         494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVR  572 (607)
Q Consensus       494 ~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~  572 (607)
                      +.+++.+|+..++.++.+++.. .++.+.++++++++|++ +|++.+|||+|+++|++.+.++|++.++.+.+..|+++.
T Consensus       650 s~e~l~~Iv~~~L~~l~~~l~~-~~~~l~i~~~a~~~La~~~~~~~~GaR~l~r~i~~~~~~~l~~~~l~~~~~~~~~~~  728 (731)
T TIGR02639       650 SEEVLEKIVQKFVDELSKQLNE-KNIKLELTDDAKKYLAEKGYDEEFGARPLARVIQEEIKKPLSDEILFGKLKKGGSVK  728 (731)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHh-CCCeEEeCHHHHHHHHHhCCCcccCchHHHHHHHHHhHHHHHHHHHhCcCCCCCEEE
Confidence            9999999999999999988865 49999999999999986 899999999999999999999999999999999999998


Q ss_pred             EEE
Q psy1308         573 LYV  575 (607)
Q Consensus       573 i~~  575 (607)
                      |++
T Consensus       729 ~~~  731 (731)
T TIGR02639       729 VDL  731 (731)
T ss_pred             EeC
Confidence            863

>KOG1051|consensus

Probab=100.00  E-value=2.5e-41  Score=365.83  Aligned_cols=321  Identities=42%  Similarity=0.662  Sum_probs=269.5

Q ss_pred             HHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHH
Q psy1308         237 ILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQ  316 (607)
Q Consensus       237 ~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~  316 (607)
                      ++..+...+.+..  ...+......|++.|...++||++++..++.++.+...|+.++..+.+++|.||+|+|||.+|++
T Consensus       533 ~~s~~tgip~~~~--~~~e~~~l~~L~~~L~~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAka  610 (898)
T KOG1051|consen  533 VVSRWTGIPVDRL--AEAEAERLKKLEERLHERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKA  610 (898)
T ss_pred             hhhhhcCCchhhh--hhhHHHHHHHHHHHHHhhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHH
Confidence            3344444443333  23345677889999999999999999999999999999999884444999999999999999999


Q ss_pred             HHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhcc
Q psy1308         317 LAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDE  396 (607)
Q Consensus       317 la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~  396 (607)
                      +|++++.. ++.|+++||++|.+   +++++|++|||+|++.++.+++.+++.|++|||||||||+|+++++.|++++|+
T Consensus       611 LA~~~Fgs-e~~~IriDmse~~e---vskligsp~gyvG~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~lD~  686 (898)
T KOG1051|consen  611 LAEYVFGS-EENFIRLDMSEFQE---VSKLIGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLDR  686 (898)
T ss_pred             HHHHHcCC-ccceEEechhhhhh---hhhccCCCcccccchhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHHhc
Confidence            99999987 88999999999987   999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHH----
Q psy1308         397 GRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILK----  472 (607)
Q Consensus       397 ~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~----  472 (607)
                      |+++|..|++++|+|+|||||||.+...+..... ....        ...      .+.........+..+.+...    
T Consensus       687 GrltDs~Gr~Vd~kN~I~IMTsn~~~~~i~~~~~-~~~~--------l~~------~~~~~~~~~~~k~~v~~~~~~~~~  751 (898)
T KOG1051|consen  687 GRLTDSHGREVDFKNAIFIMTSNVGSSAIANDAS-LEEK--------LLD------MDEKRGSYRLKKVQVSDAVRIYNK  751 (898)
T ss_pred             CccccCCCcEeeccceEEEEecccchHhhhcccc-cccc--------ccc------chhhhhhhhhhhhhhhhhhhcccc
Confidence            9999999999999999999999999887654321 0000        000      00000111111222334444    


Q ss_pred             hccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHH
Q psy1308         473 RHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       473 ~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~  551 (607)
                      .+|+ |||++|+|.++.|.|++.+++.+|+...+.++.+++.++ ++.+.+++.+.+++.. +|++.+|||++++.|++.
T Consensus       752 ~~~r-~Ef~nrid~i~lf~~l~~~~~~~i~~~~~~e~~~r~~~~-~~~~~v~~~~~~~v~~~~~d~~ygAr~ikr~i~~~  829 (898)
T KOG1051|consen  752 QFFR-KEFLNRIDELDLNLPLDRDELIEIVNKQLTEIEKRLEER-ELLLLVTDRVDDKVLFKGYDFDYGARPIKRSIEER  829 (898)
T ss_pred             cccC-hHHhcccceeeeecccchhhHhhhhhhHHHHHHHHhhhh-HHHHHHHHHHHhhhhhcCcChHHHhhHHHHHHHHH
Confidence            7787 999999999999999999999999999999999988765 5777889999999875 999999999999999999


Q ss_pred             HHHHHHHHHHhccCCCCCEEEEEEecCCcc
Q psy1308         552 VVSQLAAAHEKSVIGKGSFVRLYVQWSKEV  581 (607)
Q Consensus       552 i~~~l~~~~l~~~~~~~~~v~i~~~~~~~~  581 (607)
                      +.+.++..++ ++++++.+++|.+..+...
T Consensus       830 ~~~~la~~~l-~ei~~~~~~~i~~~~~~~~  858 (898)
T KOG1051|consen  830 FENRLAEALL-GEVEDGLTERILVADGWSQ  858 (898)
T ss_pred             HHHHHhhhhe-eeecCCceEEEEecccccc
Confidence            9999999999 9999999999999886654

>PRK10865 protein disaggregation chaperone; Provisional

Probab=100.00  E-value=2.4e-40  Score=372.08  Aligned_cols=315  Identities=37%  Similarity=0.677  Sum_probs=273.9

Q ss_pred             HHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhH
Q psy1308         234 IKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTE  312 (607)
Q Consensus       234 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~  312 (607)
                      ..+++..+...+.....  ..+......|++.+.+.++||+.+++.+...+.+...++.++++|. +++|+||+|+|||+
T Consensus       536 i~~vv~~~tgip~~~~~--~~~~~~l~~l~~~l~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~  613 (857)
T PRK10865        536 IAEVLARWTGIPVSRML--ESEREKLLRMEQELHHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTE  613 (857)
T ss_pred             HHHHHHHHHCCCchhhh--hhHHHHHHHHHHHhCCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHH
Confidence            34555555554444332  3345567788999999999999999999999999999999999998 89999999999999


Q ss_pred             HHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHH
Q psy1308         313 LAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQ  392 (607)
Q Consensus       313 la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~  392 (607)
                      +|+.|++.++.. ..+++.++|+.|...+.+.+++|++|||+|++.++.+++.++..|++||+||||+++++++++.|++
T Consensus       614 lA~aLa~~l~~~-~~~~i~id~se~~~~~~~~~LiG~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~  692 (857)
T PRK10865        614 LCKALANFMFDS-DDAMVRIDMSEFMEKHSVSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQ  692 (857)
T ss_pred             HHHHHHHHhhcC-CCcEEEEEhHHhhhhhhHHHHhCCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHH
Confidence            999999999865 6789999999999888899999999999999999999999999999999999999999999999999


Q ss_pred             hhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHH
Q psy1308         393 LFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILK  472 (607)
Q Consensus       393 ~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  472 (607)
                      ++++|.++|..|++++|+|++||+|||.|.+.+.+. ++..                        .+.. ..+.+...+.
T Consensus       693 ile~g~l~d~~gr~vd~rn~iiI~TSN~g~~~~~~~-~~~~------------------------~~~~-~~~~~~~~~~  746 (857)
T PRK10865        693 VLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDLIQER-FGEL------------------------DYAH-MKELVLGVVS  746 (857)
T ss_pred             HHhhCceecCCceEEeecccEEEEeCCcchHHHHHh-cccc------------------------chHH-HHHHHHHHHc
Confidence            999999999999999999999999999998877542 1000                        0001 1234456678


Q ss_pred             hccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHH
Q psy1308         473 RHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       473 ~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~  551 (607)
                      ++|+ |+|++|+|.+++|.||+.+++..|+..++..+.+++.+ .++.+.++++++++|+. +|++.+|||+|++.|++.
T Consensus       747 ~~f~-PELlnRld~iivF~PL~~edl~~Iv~~~L~~l~~rl~~-~gi~l~is~~al~~L~~~gy~~~~GARpL~r~I~~~  824 (857)
T PRK10865        747 HNFR-PEFINRIDEVVVFHPLGEQHIASIAQIQLQRLYKRLEE-RGYEIHISDEALKLLSENGYDPVYGARPLKRAIQQQ  824 (857)
T ss_pred             cccc-HHHHHhCCeeEecCCCCHHHHHHHHHHHHHHHHHHHHh-CCCcCcCCHHHHHHHHHcCCCccCChHHHHHHHHHH
Confidence            8897 99999999999999999999999999999998888754 48889999999999986 999999999999999999


Q ss_pred             HHHHHHHHHHhccCCCCCEEEEEEecCC
Q psy1308         552 VVSQLAAAHEKSVIGKGSFVRLYVQWSK  579 (607)
Q Consensus       552 i~~~l~~~~l~~~~~~~~~v~i~~~~~~  579 (607)
                      +.++|++.++.+.+.+|+++.|++.+++
T Consensus       825 i~~~la~~iL~g~~~~~~~~~~~~~~~~  852 (857)
T PRK10865        825 IENPLAQQILSGELVPGKVIRLEVNDDR  852 (857)
T ss_pred             HHHHHHHHHHcCcCCCCCEEEEEEECCE
Confidence            9999999999999999999999997554

>KOG4412|consensus

Probab=100.00  E-value=3.1e-36  Score=259.16  Aligned_cols=179  Identities=26%  Similarity=0.335  Sum_probs=161.6

Q ss_pred             CCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHH
Q psy1308          26 KRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTF  105 (607)
Q Consensus        26 ~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~L  105 (607)
                      .+-.|+|||||||..|+.+++.+|++.+....                      +++|..||||||.||..|+.++|+.|
T Consensus        34 ~dqD~Rt~LHwa~S~g~~eiv~fLlsq~nv~~----------------------ddkDdaGWtPlhia~s~g~~evVk~L   91 (226)
T KOG4412|consen   34 DDQDGRTPLHWACSFGHVEIVYFLLSQPNVKP----------------------DDKDDAGWTPLHIAASNGNDEVVKEL   91 (226)
T ss_pred             ccccCCceeeeeeecCchhHHHHHHhcCCCCC----------------------CCccccCCchhhhhhhcCcHHHHHHH
Confidence            34479999999999999999999987543332                      57899999999999999999999999


Q ss_pred             HhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCC
Q psy1308         106 IENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNP  183 (607)
Q Consensus       106 l~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~  183 (607)
                      +.+.++|+|..+..|+||||+|+..|..+|+.+|+++|+.++.+|.  .||||.||..|.++++++|+..|+.+|.+   
T Consensus        92 l~r~~advna~tn~G~T~LHyAagK~r~eIaqlLle~ga~i~~kD~~~qtplHRAAavGklkvie~Li~~~a~~n~q---  168 (226)
T KOG4412|consen   92 LNRSGADVNATTNGGQTCLHYAAGKGRLEIAQLLLEKGALIRIKDKQGQTPLHRAAAVGKLKVIEYLISQGAPLNTQ---  168 (226)
T ss_pred             hcCCCCCcceecCCCcceehhhhcCChhhHHHHHHhcCCCCcccccccCchhHHHHhccchhhHHHHHhcCCCCCcc---
Confidence            9995599999999999999999999999999999999999999987  56999999999999999999999998877   


Q ss_pred             CcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhh
Q psy1308         184 NMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDA  232 (607)
Q Consensus       184 ~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~  232 (607)
                        |.+|+||||.|...|+.++..+|+++|||+...|+.| ||+..|+..
T Consensus       169 --Dk~G~TpL~~al~e~~~d~a~lLV~~gAd~~~edke~-t~~~~a~~~  214 (226)
T KOG4412|consen  169 --DKYGFTPLHHALAEGHPDVAVLLVRAGADTDREDKEG-TALRIACNE  214 (226)
T ss_pred             --cccCccHHHHHHhccCchHHHHHHHhccceeeccccC-chHHHHHHH
Confidence              5569999999988899999999999999999999988 998877654

>PHA02791 ankyrin-like protein; Provisional

Probab=100.00  E-value=4.6e-34  Score=281.24  Aligned_cols=207  Identities=15%  Similarity=0.133  Sum_probs=180.7

Q ss_pred             hhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHH
Q psy1308          10 QLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLT   89 (607)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~   89 (607)
                      +++..+++.   ..+.++..|+||||+|+.+|+.+++++|+..+....                       .  .+|+||
T Consensus        13 ~~~~~Lis~---~a~~~D~~G~TpLh~Aa~~g~~eiv~~Ll~~ga~~n-----------------------~--~d~~Tp   64 (284)
T PHA02791         13 QLKSFLSSK---DAFKADVHGHSALYYAIADNNVRLVCTLLNAGALKN-----------------------L--LENEFP   64 (284)
T ss_pred             HHHHHHHhC---CCCCCCCCCCcHHHHHHHcCCHHHHHHHHHCcCCCc-----------------------C--CCCCCH
Confidence            455555553   224578889999999999999999999998765332                       1  136899


Q ss_pred             HHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--C-chHHHHHHcCCccH
Q psy1308          90 LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--F-NTVHRTAAEKKMNP  166 (607)
Q Consensus        90 Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~-~~l~~A~~~~~~~~  166 (607)
                      ||+|+..|+.++|++|++.| ++++.+|..|+||||+||..|+.+++++|+++|++++.++.  + ||||+|+..|+.++
T Consensus        65 Lh~Aa~~g~~eiV~lLL~~G-advn~~d~~G~TpLh~Aa~~g~~eivk~Ll~~gadin~~~~~g~~TpL~~Aa~~g~~ei  143 (284)
T PHA02791         65 LHQAATLEDTKIVKILLFSG-MDDSQFDDKGNTALYYAVDSGNMQTVKLFVKKNWRLMFYGKTGWKTSFYHAVMLNDVSI  143 (284)
T ss_pred             HHHHHHCCCHHHHHHHHHCC-CCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHCCCCcCccCCCCCcHHHHHHHHcCCHHH
Confidence            99999999999999999998 99999999999999999999999999999999999988654  3 69999999999999


Q ss_pred             HHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCC-CcchhhhhHHHHHHHHHHhh
Q psy1308         167 FEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP-SDYAEDANIKQILQKYAEKY  245 (607)
Q Consensus       167 ~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tp-l~~A~~~~~~~~~~~ll~~~  245 (607)
                      +++|++++++..  +.    ..|.||||+|+..|+.+++++|+++||+++.+|..|.|| ||+|+..|+.+++++|++.|
T Consensus       144 vk~LL~~~~~~~--d~----~~g~TpLh~Aa~~g~~eiv~lLL~~gAd~n~~d~~g~t~~L~~Aa~~~~~e~v~lLl~~G  217 (284)
T PHA02791        144 VSYFLSEIPSTF--DL----AILLSCIHITIKNGHVDMMILLLDYMTSTNTNNSLLFIPDIKLAIDNKDLEMLQALFKYD  217 (284)
T ss_pred             HHHHHhcCCccc--cc----ccCccHHHHHHHcCCHHHHHHHHHCCCCCCcccCCCCChHHHHHHHcCCHHHHHHHHHCC
Confidence            999999876432  11    138999999999999999999999999999999999987 99999999999999999999


Q ss_pred             hhHHhh
Q psy1308         246 ADLQRE  251 (607)
Q Consensus       246 ~~~~~~  251 (607)
                      ++....
T Consensus       218 a~in~~  223 (284)
T PHA02791        218 INIYSV  223 (284)
T ss_pred             CCCccC
Confidence            998643

>KOG4412|consensus

Probab=100.00  E-value=4e-34  Score=246.15  Aligned_cols=202  Identities=22%  Similarity=0.250  Sum_probs=173.2

Q ss_pred             CchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccC-CCCCHHHHHHHHcCCHHHHHHHHhc
Q psy1308          30 QSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQ-SIKDLTLFRAARYGSAKELKTFIEN  108 (607)
Q Consensus        30 g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~-~~g~t~Lh~A~~~g~~~~v~~Ll~~  108 (607)
                      +.++.+.+|......-++.+++...                      ..++.++ .+|+||||+||..|+.++|.+|++.
T Consensus         3 ~~~~~~~~~~~~~~~kveel~~s~~----------------------kSL~~r~dqD~Rt~LHwa~S~g~~eiv~fLlsq   60 (226)
T KOG4412|consen    3 YASLGKAICENCEEFKVEELIQSDP----------------------KSLNARDDQDGRTPLHWACSFGHVEIVYFLLSQ   60 (226)
T ss_pred             ccchHHHHHhhchHHHHHHHHhcCh----------------------hhhhccccccCCceeeeeeecCchhHHHHHHhc
Confidence            4567777776666655665543311                      2233444 4999999999999999999999987


Q ss_pred             CCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHc-CCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCc
Q psy1308         109 SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEA-GANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNM  185 (607)
Q Consensus       109 ~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~-ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~  185 (607)
                      .+..+|.+|..||||||.||..|+.++|+.|+.+ |+|+|..++  .||||||+..|..+++++|+++|+.++.+     
T Consensus        61 ~nv~~ddkDdaGWtPlhia~s~g~~evVk~Ll~r~~advna~tn~G~T~LHyAagK~r~eIaqlLle~ga~i~~k-----  135 (226)
T KOG4412|consen   61 PNVKPDDKDDAGWTPLHIAASNGNDEVVKELLNRSGADVNATTNGGQTCLHYAAGKGRLEIAQLLLEKGALIRIK-----  135 (226)
T ss_pred             CCCCCCCccccCCchhhhhhhcCcHHHHHHHhcCCCCCcceecCCCcceehhhhcCChhhHHHHHHhcCCCCccc-----
Confidence            6688999999999999999999999999999998 999999665  67999999999999999999999999887     


Q ss_pred             CcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccH
Q psy1308         186 TFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPL  262 (607)
Q Consensus       186 d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L  262 (607)
                      |..|.||||.|+.-|..+++++|+..|+.+|.+|..|+||||.|.-.|+.++...|++.|++....   |+.+ +++
T Consensus       136 D~~~qtplHRAAavGklkvie~Li~~~a~~n~qDk~G~TpL~~al~e~~~d~a~lLV~~gAd~~~e---dke~-t~~  208 (226)
T KOG4412|consen  136 DKQGQTPLHRAAAVGKLKVIEYLISQGAPLNTQDKYGFTPLHHALAEGHPDVAVLLVRAGADTDRE---DKEG-TAL  208 (226)
T ss_pred             ccccCchhHHHHhccchhhHHHHHhcCCCCCcccccCccHHHHHHhccCchHHHHHHHhccceeec---cccC-chH
Confidence            445999999999999999999999999999999999999999998888999999999999987643   3344 554

>PHA02874 ankyrin repeat protein; Provisional

Probab=100.00  E-value=1.2e-31  Score=285.42  Aligned_cols=247  Identities=20%  Similarity=0.225  Sum_probs=209.3

Q ss_pred             hhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCc------------
Q psy1308           9 RQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLA------------   76 (607)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~------------   76 (607)
                      -+.+..++.......+..+..|.||||+|++.|+.+++++|+..+......+..+.++++.|...+..            
T Consensus        14 ~~~v~~ll~~~~~~~n~~~~~~~tpL~~A~~~g~~~iv~~Ll~~Ga~~n~~~~~~~t~L~~A~~~~~~~iv~~Ll~~g~~   93 (434)
T PHA02874         14 IEAIEKIIKNKGNCINISVDETTTPLIDAIRSGDAKIVELFIKHGADINHINTKIPHPLLTAIKIGAHDIIKLLIDNGVD   93 (434)
T ss_pred             HHHHHHHHHcCCCCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHCCCC
Confidence            34556666555555556677899999999999999999999999988877778888898888544322            


Q ss_pred             ---------------------cchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHH
Q psy1308          77 ---------------------LTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDN  135 (607)
Q Consensus        77 ---------------------~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~  135 (607)
                                           ..++..+..|.||||+|+..|+.++|++|+++| +++|.+|..|.||||+|+..|+.++
T Consensus        94 ~~~~~~~~~~~~~i~~ll~~g~d~n~~~~~g~T~Lh~A~~~~~~~~v~~Ll~~g-ad~n~~d~~g~tpLh~A~~~~~~~i  172 (434)
T PHA02874         94 TSILPIPCIEKDMIKTILDCGIDVNIKDAELKTFLHYAIKKGDLESIKMLFEYG-ADVNIEDDNGCYPIHIAIKHNFFDI  172 (434)
T ss_pred             CCcchhccCCHHHHHHHHHCcCCCCCCCCCCccHHHHHHHCCCHHHHHHHHhCC-CCCCCcCCCCCCHHHHHHHCCcHHH
Confidence                                 223456788999999999999999999999998 9999999999999999999999999


Q ss_pred             HHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCC
Q psy1308         136 VRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGA  213 (607)
Q Consensus       136 v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~ga  213 (607)
                      +++|+++|++++..+.  +||||+|+..|+.+++++|+++|++++..+.     .|+||||+|+..+. +++.+|+ .|+
T Consensus       173 v~~Ll~~g~~~n~~~~~g~tpL~~A~~~g~~~iv~~Ll~~g~~i~~~~~-----~g~TpL~~A~~~~~-~~i~~Ll-~~~  245 (434)
T PHA02874        173 IKLLLEKGAYANVKDNNGESPLHNAAEYGDYACIKLLIDHGNHIMNKCK-----NGFTPLHNAIIHNR-SAIELLI-NNA  245 (434)
T ss_pred             HHHHHHCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHhCCCCCcCCCC-----CCCCHHHHHHHCCh-HHHHHHH-cCC
Confidence            9999999999988664  6799999999999999999999999876644     49999999999865 5666666 689


Q ss_pred             CCCccCCCCCCCCcchhhhh-HHHHHHHHHHhhhhHHhhHHHhhcccccHHHHH
Q psy1308         214 DPTVKDNSGHIPSDYAEDAN-IKQILQKYAEKYADLQREKEAEERRKYPLEQRL  266 (607)
Q Consensus       214 d~~~~d~~g~Tpl~~A~~~~-~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l  266 (607)
                      +++.+|..|+||||+|+..+ +.+++++|+..|++...   .+..+.+||..+.
T Consensus       246 ~in~~d~~G~TpLh~A~~~~~~~~iv~~Ll~~gad~n~---~d~~g~TpL~~A~  296 (434)
T PHA02874        246 SINDQDIDGSTPLHHAINPPCDIDIIDILLYHKADISI---KDNKGENPIDTAF  296 (434)
T ss_pred             CCCCcCCCCCCHHHHHHhcCCcHHHHHHHHHCcCCCCC---CCCCCCCHHHHHH
Confidence            99999999999999999875 78999999999998763   4677889985554

>PHA02875 ankyrin repeat protein; Provisional

Probab=99.98  E-value=2.5e-31  Score=281.81  Aligned_cols=227  Identities=19%  Similarity=0.213  Sum_probs=185.6

Q ss_pred             hhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCC
Q psy1308           8 RRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKD   87 (607)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~   87 (607)
                      .-+++..+++. ...++..+..|.||||+|+..|+.+++++|+..+....                       ..+..+.
T Consensus        14 ~~~iv~~Ll~~-g~~~n~~~~~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~-----------------------~~~~~~~   69 (413)
T PHA02875         14 ELDIARRLLDI-GINPNFEIYDGISPIKLAMKFRDSEAIKLLMKHGAIPD-----------------------VKYPDIE   69 (413)
T ss_pred             CHHHHHHHHHC-CCCCCccCCCCCCHHHHHHHcCCHHHHHHHHhCCCCcc-----------------------ccCCCcc
Confidence            33444455443 22334445567777777777777777777776654322                       3456789


Q ss_pred             HHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCcc
Q psy1308          88 LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMN  165 (607)
Q Consensus        88 t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~  165 (607)
                      ||||.|+..|+.++|++|++.+....+..+..|.||||+|+..|+.+++++|+++|++++..+.  .||||+|+..|+.+
T Consensus        70 t~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~g~tpL~~A~~~~~~~iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~  149 (413)
T PHA02875         70 SELHDAVEEGDVKAVEELLDLGKFADDVFYKDGMTPLHLATILKKLDIMKLLIARGADPDIPNTDKFSPLHLAVMMGDIK  149 (413)
T ss_pred             cHHHHHHHCCCHHHHHHHHHcCCcccccccCCCCCHHHHHHHhCCHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHH
Confidence            9999999999999999999998333456677899999999999999999999999999998664  67999999999999


Q ss_pred             HHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCC-CCCcchhhhhHHHHHHHHHHh
Q psy1308         166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGH-IPSDYAEDANIKQILQKYAEK  244 (607)
Q Consensus       166 ~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~-Tpl~~A~~~~~~~~~~~ll~~  244 (607)
                      ++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++..+..|. ||+|+|+..++.+++++|+++
T Consensus       150 ~v~~Ll~~g~~~~~~d~-----~g~TpL~~A~~~g~~eiv~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~iv~~Ll~~  224 (413)
T PHA02875        150 GIELLIDHKACLDIEDC-----CGCTPLIIAMAKGDIAICKMLLDSGANIDYFGKNGCVAALCYAIENNKIDIVRLFIKR  224 (413)
T ss_pred             HHHHHHhcCCCCCCCCC-----CCCCHHHHHHHcCCHHHHHHHHhCCCCCCcCCCCCCchHHHHHHHcCCHHHHHHHHHC
Confidence            99999999999887644     499999999999999999999999999999998875 789999999999999999999


Q ss_pred             hhhHHhhHHHhhcccccHH
Q psy1308         245 YADLQREKEAEERRKYPLE  263 (607)
Q Consensus       245 ~~~~~~~~~~~~~~~~~L~  263 (607)
                      |++.......+..+.+++.
T Consensus       225 gad~n~~~~~~~~~~t~l~  243 (413)
T PHA02875        225 GADCNIMFMIEGEECTILD  243 (413)
T ss_pred             CcCcchHhhcCCCchHHHH
Confidence            9998765555555666663

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.98  E-value=5e-31  Score=269.38  Aligned_cols=274  Identities=21%  Similarity=0.314  Sum_probs=203.6

Q ss_pred             cccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCC----CC------CCceeeeeccCCCChhHHHHHHHHHhccCcCCc
Q psy1308         259 KYPLEQRLKDRIVGQESAINIISAAIKRKENGWTD----DD------HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEA  328 (607)
Q Consensus       259 ~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~----~~------~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~  328 (607)
                      +..+...+.+.++||+.+++.+..++.++..+...    +.      .+.+++|.||+|+|||.+|+.+|+.+.    .+
T Consensus        68 p~~i~~~L~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~----~p  143 (413)
T TIGR00382        68 PKEIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILN----VP  143 (413)
T ss_pred             HHHHHHHhcceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcC----CC
Confidence            44567788889999999999999888654443321    11      123899999999999999999998774    45


Q ss_pred             eEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhh-------CCCeEEEEecCCccCH--------------HHH
Q psy1308         329 FIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK-------CPNAVVLFDEVDKAHP--------------DVL  387 (607)
Q Consensus       329 ~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~-------~~~~vl~lDEiek~~~--------------~~~  387 (607)
                      |..++++.+.           ++||+|.+.++.+...++.       +.++||||||||++++              .+|
T Consensus       144 f~~~da~~L~-----------~~gyvG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq  212 (413)
T TIGR00382       144 FAIADATTLT-----------EAGYVGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQ  212 (413)
T ss_pred             eEEechhhcc-----------ccccccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhhccccccccccchhHH
Confidence            8777776542           3578887666666665543       4568999999999998              699


Q ss_pred             HHHHHhhccceeec---CCCcEEecCceEEEEecCc---------chHHHHHHHhhhhhcccccccCCCCcccccCCCcc
Q psy1308         388 TVLLQLFDEGRLTD---GKGKTIECKDAIFVMTSNL---------ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLD  455 (607)
Q Consensus       388 ~~Ll~~~~~~~~~~---~~g~~~~~~~~~iI~tsn~---------~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (607)
                      +.||++++ |.+++   .+|+.+++.++++|+|||+         |.+.+.+.......         +....+....  
T Consensus       213 ~~LL~iLe-G~~~~v~~~~gr~~~~~~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~---------~gf~~~~~~~--  280 (413)
T TIGR00382       213 QALLKIIE-GTVANVPPQGGRKHPYQEFIQIDTSNILFICGGAFVGLEKIIKKRTGKSS---------IGFGAEVKKK--  280 (413)
T ss_pred             HHHHHHhh-ccceecccCCCccccCCCeEEEEcCCceeeecccccChHHHHHHHhhhcc---------cccccccccc--
Confidence            99999995 88876   6789999999999999999         55555443211100         0000000000  


Q ss_pred             hhcchhhhhhhhhHHHHhc-cCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhh---cCCcEEEeCHhHHHHH
Q psy1308         456 VTISRHFKDHVVQPILKRH-FRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALD---KHNINIVWDIDVETIL  531 (607)
Q Consensus       456 ~~~~~~~~~~~~~~~l~~~-f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~---~~~i~l~~~~~a~~~L  531 (607)
                      .............+++.++ |+ |||++|+|.+++|.||+.+++.+|+...++.+.+++..   ..++.++++++|+++|
T Consensus       281 ~~~~~~~~~~~~~~dl~~~g~~-PEflgRld~Iv~f~pL~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~L~~t~~a~~~I  359 (413)
T TIGR00382       281 SKEKADLLRQVEPEDLVKFGLI-PEFIGRLPVIATLEKLDEEALIAILTKPKNALVKQYQALFKMDNVELDFEEEALKAI  359 (413)
T ss_pred             chhhHHHHHHHHHHHHHHHhhH-HHHhCCCCeEeecCCCCHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEECHHHHHHH
Confidence            0001122334444566565 87 99999999999999999999999999987766655443   3499999999999999


Q ss_pred             Hc-cCCCCCCccchhHHHHHHHHHHHHHHH
Q psy1308         532 AD-GYDVHYGARSIKHEVERQVVSQLAAAH  560 (607)
Q Consensus       532 ~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~  560 (607)
                      ++ +|++.+|||+|++.|++.+.+.+.+.-
T Consensus       360 a~~~~~~~~GAR~Lr~iie~~l~~~m~e~p  389 (413)
T TIGR00382       360 AKKALERKTGARGLRSIVEGLLLDVMFDLP  389 (413)
T ss_pred             HHhCCCCCCCchHHHHHHHHhhHHHHhhCC
Confidence            97 899999999999999999999987763

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PHA02791 ankyrin-like protein; Provisional

Probab=99.98  E-value=3.8e-31  Score=260.61  Aligned_cols=204  Identities=16%  Similarity=0.169  Sum_probs=172.5

Q ss_pred             chhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCC
Q psy1308           7 QRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIK   86 (607)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g   86 (607)
                      ...+++..++..- ...+..  .|.||||+|+..|+.+++++|+..+....                       ..|..|
T Consensus        41 g~~eiv~~Ll~~g-a~~n~~--d~~TpLh~Aa~~g~~eiV~lLL~~Gadvn-----------------------~~d~~G   94 (284)
T PHA02791         41 NNVRLVCTLLNAG-ALKNLL--ENEFPLHQAATLEDTKIVKILLFSGMDDS-----------------------QFDDKG   94 (284)
T ss_pred             CCHHHHHHHHHCc-CCCcCC--CCCCHHHHHHHCCCHHHHHHHHHCCCCCC-----------------------CCCCCC
Confidence            3444555555442 222333  36899999999999999999987765433                       567899


Q ss_pred             CHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCC-cHHHHHHHcCCHHHHHHHHHcCCCC-CCCCCCchHHHHHHcCCc
Q psy1308          87 DLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGW-TPLHVAAINGKVDNVRVLLEAGANP-NLGDLFNTVHRTAAEKKM  164 (607)
Q Consensus        87 ~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~-tpLh~A~~~g~~~~v~~Ll~~ga~~-~~~d~~~~l~~A~~~~~~  164 (607)
                      +||||+||..|+.+++++|++++ ++++.++..|+ ||||+|+..|+.++|++|++++++. +...+.||||+|+..|+.
T Consensus        95 ~TpLh~Aa~~g~~eivk~Ll~~g-adin~~~~~g~~TpL~~Aa~~g~~eivk~LL~~~~~~~d~~~g~TpLh~Aa~~g~~  173 (284)
T PHA02791         95 NTALYYAVDSGNMQTVKLFVKKN-WRLMFYGKTGWKTSFYHAVMLNDVSIVSYFLSEIPSTFDLAILLSCIHITIKNGHV  173 (284)
T ss_pred             CCHHHHHHHcCCHHHHHHHHHCC-CCcCccCCCCCcHHHHHHHHcCCHHHHHHHHhcCCcccccccCccHHHHHHHcCCH
Confidence            99999999999999999999999 99999999885 8999999999999999999997654 323468999999999999


Q ss_pred             cHHHHHHhcCCCccccCCCCcCcCCcch-hhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHH
Q psy1308         165 NPFEVLLKREDEFNDVLNPNMTFLGFSA-LHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAE  243 (607)
Q Consensus       165 ~~~~~Ll~~g~~~~~~~~~~~d~~g~Tp-Lh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~  243 (607)
                      +++++|+++|++++..+.     .|.|| ||+|+..|+.++|++|+++|+|++.+|..| |||      ++.|++++|++
T Consensus       174 eiv~lLL~~gAd~n~~d~-----~g~t~~L~~Aa~~~~~e~v~lLl~~Ga~in~~~~~~-~~l------~~~e~~~~ll~  241 (284)
T PHA02791        174 DMMILLLDYMTSTNTNNS-----LLFIPDIKLAIDNKDLEMLQALFKYDINIYSVNLEN-VLL------DDAEIAKMIIE  241 (284)
T ss_pred             HHHHHHHHCCCCCCcccC-----CCCChHHHHHHHcCCHHHHHHHHHCCCCCccCcccC-ccC------CCHHHHHHHHH
Confidence            999999999999987644     48877 999999999999999999999999999955 777      78899999999


Q ss_pred             hhhhHH
Q psy1308         244 KYADLQ  249 (607)
Q Consensus       244 ~~~~~~  249 (607)
                      +.++..
T Consensus       242 ~~~~~~  247 (284)
T PHA02791        242 KHVEYK  247 (284)
T ss_pred             hhhhhc
Confidence            887654

>PHA03100 ankyrin repeat protein; Provisional

Probab=99.98  E-value=2.8e-31  Score=287.30  Aligned_cols=238  Identities=17%  Similarity=0.183  Sum_probs=208.5

Q ss_pred             CCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHH-----HH----------HccCccchhccCCCC
Q psy1308          22 QKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLF-----AS----------ACSLALTLLECQSIK   86 (607)
Q Consensus        22 ~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~-----a~----------~~~~~~~~~~~~~~g   86 (607)
                      .....+..+.||||+|+..|+.+++++|+..+.........+.++++.     |.          +...+..++..+..|
T Consensus        27 ~~~~~~~~~~t~L~~A~~~~~~~ivk~Ll~~g~~~~~~~~~~~t~L~~~~~~~a~~~~~~~iv~~Ll~~ga~i~~~d~~g  106 (480)
T PHA03100         27 LNDYSYKKPVLPLYLAKEARNIDVVKILLDNGADINSSTKNNSTPLHYLSNIKYNLTDVKEIVKLLLEYGANVNAPDNNG  106 (480)
T ss_pred             cchhhhcccchhhhhhhccCCHHHHHHHHHcCCCCCCccccCcCHHHHHHHHHHHhhchHHHHHHHHHCCCCCCCCCCCC
Confidence            334456678999999999999999999999998888777788889988     64          334555667788899


Q ss_pred             CHHHHHHH--HcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcC--CHHHHHHHHHcCCCCCCCCC--CchHHHHHH
Q psy1308          87 DLTLFRAA--RYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAING--KVDNVRVLLEAGANPNLGDL--FNTVHRTAA  160 (607)
Q Consensus        87 ~t~Lh~A~--~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g--~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~  160 (607)
                      .||||+|+  ..|+.+++++|++.| ++++.++..|.||||+|+..|  +.+++++|+++|++++..+.  +||||+|+.
T Consensus       107 ~tpL~~A~~~~~~~~~iv~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~~iv~~Ll~~g~din~~d~~g~tpL~~A~~  185 (480)
T PHA03100        107 ITPLLYAISKKSNSYSIVEYLLDNG-ANVNIKNSDGENLLHLYLESNKIDLKILKLLIDKGVDINAKNRYGYTPLHIAVE  185 (480)
T ss_pred             CchhhHHHhcccChHHHHHHHHHcC-CCCCccCCCCCcHHHHHHHcCCChHHHHHHHHHCCCCcccccCCCCCHHHHHHH
Confidence            99999999  999999999999998 999999999999999999999  99999999999999988664  679999999


Q ss_pred             cCCccHHHHHHhcCCCccccCCCCcCcCC------cchhhHHHhcCC--HHHHHHHHhcCCCCCccCCCCCCCCcchhhh
Q psy1308         161 EKKMNPFEVLLKREDEFNDVLNPNMTFLG------FSALHYGVVAGN--TEVVELLLKSGADPTVKDNSGHIPSDYAEDA  232 (607)
Q Consensus       161 ~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g------~TpLh~A~~~g~--~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~  232 (607)
                      .|+.+++++|+++|++++..+..     |      .||||+|+..|+  .+++++|+++|++++.+|..|.||||+|+..
T Consensus       186 ~~~~~iv~~Ll~~ga~~~~~~~~-----~~~~~~~~t~l~~a~~~~~~~~~iv~~Ll~~g~din~~d~~g~TpL~~A~~~  260 (480)
T PHA03100        186 KGNIDVIKFLLDNGADINAGDIE-----TLLFTIFETPLHIAACYNEITLEVVNYLLSYGVPINIKDVYGFTPLHYAVYN  260 (480)
T ss_pred             hCCHHHHHHHHHcCCCccCCCCC-----CCcHHHHHhHHHHHHHhCcCcHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHc
Confidence            99999999999999998876443     6      899999999999  9999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHh
Q psy1308         233 NIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKD  268 (607)
Q Consensus       233 ~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~  268 (607)
                      ++.+++++|++.|++..   ..+..|.+|+..+...
T Consensus       261 ~~~~iv~~Ll~~gad~n---~~d~~g~tpl~~A~~~  293 (480)
T PHA03100        261 NNPEFVKYLLDLGANPN---LVNKYGDTPLHIAILN  293 (480)
T ss_pred             CCHHHHHHHHHcCCCCC---ccCCCCCcHHHHHHHh
Confidence            99999999999999765   4467788888777653

>PHA03100 ankyrin repeat protein; Provisional

Probab=99.98  E-value=1.6e-31  Score=289.28  Aligned_cols=238  Identities=24%  Similarity=0.315  Sum_probs=213.4

Q ss_pred             hchhhhHHHHHhhcccCCCCCCcCCchHHHH-----HHhcCChhHHHHHhcCCCcccccccccCChHHHHH--Hc-----
Q psy1308           6 VQRRQLVLCILSNYFKQKPYKRGFQSSKLFY-----TTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFAS--AC-----   73 (607)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~-----A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~--~~-----   73 (607)
                      ....+++..++... ...+..+..|.||||+     |+..++.+++++|+..+......+..+.++++.|.  ..     
T Consensus        45 ~~~~~ivk~Ll~~g-~~~~~~~~~~~t~L~~~~~~~a~~~~~~~iv~~Ll~~ga~i~~~d~~g~tpL~~A~~~~~~~~~i  123 (480)
T PHA03100         45 ARNIDVVKILLDNG-ADINSSTKNNSTPLHYLSNIKYNLTDVKEIVKLLLEYGANVNAPDNNGITPLLYAISKKSNSYSI  123 (480)
T ss_pred             cCCHHHHHHHHHcC-CCCCCccccCcCHHHHHHHHHHHhhchHHHHHHHHHCCCCCCCCCCCCCchhhHHHhcccChHHH
Confidence            34456666776553 4456667789999999     99999999999999999988888888999999988  33     


Q ss_pred             -----cCccchhccCCCCCHHHHHHHHcC--CHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCC
Q psy1308          74 -----SLALTLLECQSIKDLTLFRAARYG--SAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP  146 (607)
Q Consensus        74 -----~~~~~~~~~~~~g~t~Lh~A~~~g--~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~  146 (607)
                           ..+..++..+..|.||||+|+..|  +.+++++|+++| ++++.+|..|.||||+|+..|+.+++++|+++|+++
T Consensus       124 v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~~iv~~Ll~~g-~din~~d~~g~tpL~~A~~~~~~~iv~~Ll~~ga~~  202 (480)
T PHA03100        124 VEYLLDNGANVNIKNSDGENLLHLYLESNKIDLKILKLLIDKG-VDINAKNRYGYTPLHIAVEKGNIDVIKFLLDNGADI  202 (480)
T ss_pred             HHHHHHcCCCCCccCCCCCcHHHHHHHcCCChHHHHHHHHHCC-CCcccccCCCCCHHHHHHHhCCHHHHHHHHHcCCCc
Confidence                 344455678899999999999999  999999999999 999999999999999999999999999999999999


Q ss_pred             CCCCC--------CchHHHHHHcCC--ccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCC
Q psy1308         147 NLGDL--------FNTVHRTAAEKK--MNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPT  216 (607)
Q Consensus       147 ~~~d~--------~~~l~~A~~~~~--~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~  216 (607)
                      +..+.        .+|||+|+..++  .+++++|+++|++++..+.     .|.||||+|+..|+.+++++|+++|+|++
T Consensus       203 ~~~~~~~~~~~~~~t~l~~a~~~~~~~~~iv~~Ll~~g~din~~d~-----~g~TpL~~A~~~~~~~iv~~Ll~~gad~n  277 (480)
T PHA03100        203 NAGDIETLLFTIFETPLHIAACYNEITLEVVNYLLSYGVPINIKDV-----YGFTPLHYAVYNNNPEFVKYLLDLGANPN  277 (480)
T ss_pred             cCCCCCCCcHHHHHhHHHHHHHhCcCcHHHHHHHHHcCCCCCCCCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCCC
Confidence            98654        579999999999  9999999999999988754     49999999999999999999999999999


Q ss_pred             ccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHh
Q psy1308         217 VKDNSGHIPSDYAEDANIKQILQKYAEKYADLQR  250 (607)
Q Consensus       217 ~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~  250 (607)
                      .+|..|.||+|+|+..++.++++.|++.|++...
T Consensus       278 ~~d~~g~tpl~~A~~~~~~~iv~~Ll~~g~~i~~  311 (480)
T PHA03100        278 LVNKYGDTPLHIAILNNNKEIFKLLLNNGPSIKT  311 (480)
T ss_pred             ccCCCCCcHHHHHHHhCCHHHHHHHHhcCCCHHH
Confidence            9999999999999999999999999999987663

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=99.97  E-value=2.5e-31  Score=265.73  Aligned_cols=228  Identities=19%  Similarity=0.298  Sum_probs=201.1

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++.++..+.+.+.....+      ...+++.|++||||..+||+||+...+. ..||+.+||+...++...++|||
T Consensus       224 ~iIG~S~am~~ll~~i~~VA~S------d~tVLi~GETGtGKElvAraIH~~S~R~-~kPfV~~NCAAlPesLlESELFG  296 (550)
T COG3604         224 GIIGRSPAMRQLLKEIEVVAKS------DSTVLIRGETGTGKELVARAIHQLSPRR-DKPFVKLNCAALPESLLESELFG  296 (550)
T ss_pred             cceecCHHHHHHHHHHHHHhcC------CCeEEEecCCCccHHHHHHHHHhhCccc-CCCceeeeccccchHHHHHHHhc
Confidence            6999999999999999877654      4579999999999999999999999887 88999999999999999999999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +..| |+|...  ...+.++.+++|++|||||..+|.++|.+||.++++|.|...+|...-.-++++|++||.+-+..+ 
T Consensus       297 HeKGAFTGA~~--~r~GrFElAdGGTLFLDEIGelPL~lQaKLLRvLQegEieRvG~~r~ikVDVRiIAATNRDL~~~V-  373 (550)
T COG3604         297 HEKGAFTGAIN--TRRGRFELADGGTLFLDEIGELPLALQAKLLRVLQEGEIERVGGDRTIKVDVRVIAATNRDLEEMV-  373 (550)
T ss_pred             ccccccccchh--ccCcceeecCCCeEechhhccCCHHHHHHHHHHHhhcceeecCCCceeEEEEEEEeccchhHHHHH-
Confidence            9988 887533  345678889999999999999999999999999999999999988888889999999996655443 


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC---CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF---SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl---~~~~~~~i~~~  504 (607)
                                                                 ..+.|| .+||+|++.+.++.|.   +++|+.-++..
T Consensus       374 -------------------------------------------~~G~FR-aDLYyRLsV~Pl~lPPLRER~~DIplLA~~  409 (550)
T COG3604         374 -------------------------------------------RDGEFR-ADLYYRLSVFPLELPPLRERPEDIPLLAGY  409 (550)
T ss_pred             -------------------------------------------HcCcch-hhhhhcccccccCCCCcccCCccHHHHHHH
Confidence                                                       346687 9999999999888886   56899999999


Q ss_pred             HHHHHHHHHhhcCCc-EEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNI-NIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQ  555 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i-~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~  555 (607)
                      ++++...++    |. .+.++++|++.|.+ |.||+|+|+|+++|+|.+...
T Consensus       410 Fle~~~~~~----gr~~l~ls~~Al~~L~~-y~wPGNVRELen~veRavlla  456 (550)
T COG3604         410 FLEKFRRRL----GRAILSLSAEALELLSS-YEWPGNVRELENVVERAVLLA  456 (550)
T ss_pred             HHHHHHHhc----CCcccccCHHHHHHHHc-CCCCCcHHHHHHHHHHHHHHh
Confidence            998776654    55 89999999999997 999999999999999987755

>PHA03095 ankyrin-like protein; Provisional

Probab=99.97  E-value=1.5e-30  Score=281.06  Aligned_cols=247  Identities=17%  Similarity=0.169  Sum_probs=214.4

Q ss_pred             hHHHHHhhcccCCCCCCcCCchHHHHHHhcC---ChhHHHHHhcCCCcccccccccCChHHHHHHcc-----------Cc
Q psy1308          11 LVLCILSNYFKQKPYKRGFQSSKLFYTTQST---QADFKSCLSVFPKIRQSNNTCMYNNLLFASACS-----------LA   76 (607)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g---~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~-----------~~   76 (607)
                      .+..+++ .....+..+.+|+||||+|+..+   +.+++++|+..+...+..+..+.+++|.|...+           .+
T Consensus        29 ~v~~Ll~-~ga~vn~~~~~g~t~Lh~a~~~~~~~~~~iv~~Ll~~Gadin~~~~~g~TpLh~A~~~~~~~~iv~lLl~~g  107 (471)
T PHA03095         29 EVRRLLA-AGADVNFRGEYGKTPLHLYLHYSSEKVKDIVRLLLEAGADVNAPERCGFTPLHLYLYNATTLDVIKLLIKAG  107 (471)
T ss_pred             HHHHHHH-cCCCcccCCCCCCCHHHHHHHhcCCChHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHcCCcHHHHHHHHHcC
Confidence            4444443 34556778889999999999999   999999999999999998889999999987555           33


Q ss_pred             cchhccCCCCCHHHHHHH--HcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcC--CHHHHHHHHHcCCCCCCCCC-
Q psy1308          77 LTLLECQSIKDLTLFRAA--RYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAING--KVDNVRVLLEAGANPNLGDL-  151 (607)
Q Consensus        77 ~~~~~~~~~g~t~Lh~A~--~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g--~~~~v~~Ll~~ga~~~~~d~-  151 (607)
                      ..++..+..|.||||+|+  ..++.+++++|++.| ++++.+|..|.||||+|+..+  +.+++++|+++|++++..|. 
T Consensus       108 a~in~~~~~g~tpLh~a~~~~~~~~~iv~~Ll~~g-ad~~~~d~~g~tpL~~a~~~~~~~~~iv~~Ll~~g~~~~~~d~~  186 (471)
T PHA03095        108 ADVNAKDKVGRTPLHVYLSGFNINPKVIRLLLRKG-ADVNALDLYGMTPLAVLLKSRNANVELLRLLIDAGADVYAVDDR  186 (471)
T ss_pred             CCCCCCCCCCCCHHHHHhhCCcCCHHHHHHHHHcC-CCCCccCCCCCCHHHHHHHcCCCCHHHHHHHHHcCCCCcccCCC
Confidence            455778899999999999  567899999999999 999999999999999998876  68999999999999988764 


Q ss_pred             -CchHHHHHHc--CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCH--HHHHHHHhcCCCCCccCCCCCCCC
Q psy1308         152 -FNTVHRTAAE--KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNT--EVVELLLKSGADPTVKDNSGHIPS  226 (607)
Q Consensus       152 -~~~l~~A~~~--~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~--~~v~~Ll~~gad~~~~d~~g~Tpl  226 (607)
                       +||||+++..  ++.++++.|+++|++++..+.     .|+||||+|+..|+.  .+++.|++.|+++|.+|..|+|||
T Consensus       187 g~t~Lh~~~~~~~~~~~i~~~Ll~~g~~~~~~d~-----~g~tpLh~Aa~~~~~~~~~v~~ll~~g~din~~d~~g~TpL  261 (471)
T PHA03095        187 FRSLLHHHLQSFKPRARIVRELIRAGCDPAATDM-----LGNTPLHSMATGSSCKRSLVLPLLIAGISINARNRYGQTPL  261 (471)
T ss_pred             CCCHHHHHHHHCCCcHHHHHHHHHcCCCCcccCC-----CCCCHHHHHHhcCCchHHHHHHHHHcCCCCCCcCCCCCCHH
Confidence             6799999876  677899999999999988754     499999999999975  688999999999999999999999


Q ss_pred             cchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHH
Q psy1308         227 DYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLK  267 (607)
Q Consensus       227 ~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~  267 (607)
                      |+|+..|+.+++++|+..|++..   ..+..|.+||..+..
T Consensus       262 h~A~~~~~~~~v~~LL~~gad~n---~~~~~g~tpl~~A~~  299 (471)
T PHA03095        262 HYAAVFNNPRACRRLIALGADIN---AVSSDGNTPLSLMVR  299 (471)
T ss_pred             HHHHHcCCHHHHHHHHHcCCCCc---ccCCCCCCHHHHHHH
Confidence            99999999999999999999876   446788999966543

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=99.97  E-value=4.5e-31  Score=267.91  Aligned_cols=228  Identities=22%  Similarity=0.331  Sum_probs=203.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++|.+.++..+.+..++....      +.++++.|++||||..+|+.||+...+. +.||+++||++.+++...++||
T Consensus       245 ~~Iig~S~~m~~~~~~akr~A~t------dstVLi~GESGTGKElfA~~IH~~S~R~-~~PFIaiNCaAiPe~LlESELF  317 (560)
T COG3829         245 DDIIGESPAMLRVLELAKRIAKT------DSTVLILGESGTGKELFARAIHNLSPRA-NGPFIAINCAAIPETLLESELF  317 (560)
T ss_pred             hhhccCCHHHHHHHHHHHhhcCC------CCcEEEecCCCccHHHHHHHHHhcCccc-CCCeEEEecccCCHHHHHHHHh
Confidence            46899999999998888887654      4589999999999999999999999887 8999999999999999999999


Q ss_pred             cCCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHH
Q psy1308         348 GAPPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA  426 (607)
Q Consensus       348 g~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~  426 (607)
                      |+.+| |+|...+|. .+.++.+++|+||||||..+|..+|..||++++++++...+|......+++||.+||....++.
T Consensus       318 Gye~GAFTGA~~~GK-~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVRIIAATN~nL~~~i  396 (560)
T COG3829         318 GYEKGAFTGASKGGK-PGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVRIIAATNRNLEKMI  396 (560)
T ss_pred             CcCCccccccccCCC-CcceeeccCCeEEehhhccCCHHHHHHHHHHHhhceEEecCCCCceeeEEEEEeccCcCHHHHH
Confidence            99999 999987765 6889999999999999999999999999999999999999999888899999999997666554


Q ss_pred             HHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC---CHHHHHHHHH
Q psy1308         427 QHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF---SKSELHTLVC  503 (607)
Q Consensus       427 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl---~~~~~~~i~~  503 (607)
                      +                                            ++.|| .+||||++.+.++.|.   +++|+..++.
T Consensus       397 ~--------------------------------------------~G~FR-eDLYYRLNV~~i~iPPLReR~eDI~~L~~  431 (560)
T COG3829         397 A--------------------------------------------EGTFR-EDLYYRLNVIPITIPPLRERKEDIPLLAE  431 (560)
T ss_pred             h--------------------------------------------cCcch-hhheeeeceeeecCCCcccCcchHHHHHH
Confidence            3                                            35587 9999999999888776   6689999999


Q ss_pred             HHHHHHHHHHhhcCCcEEE-eCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         504 RELNFWAKKALDKHNINIV-WDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       504 ~~l~~~~~~~~~~~~i~l~-~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      .+|..+.+++    +..+. ++++++..|.+ |+||+|+|+|+|.||+.+.
T Consensus       432 ~Fl~k~s~~~----~~~v~~ls~~a~~~L~~-y~WPGNVRELeNviER~v~  477 (560)
T COG3829         432 YFLDKFSRRY----GRNVKGLSPDALALLLR-YDWPGNVRELENVIERAVN  477 (560)
T ss_pred             HHHHHHHHHc----CCCcccCCHHHHHHHHh-CCCCchHHHHHHHHHHHHh
Confidence            9999877765    44454 99999999996 9999999999999999775

>KOG0510|consensus

Probab=99.97  E-value=6.1e-31  Score=273.40  Aligned_cols=233  Identities=24%  Similarity=0.196  Sum_probs=203.5

Q ss_pred             HHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCcc---------------ch
Q psy1308          15 ILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLAL---------------TL   79 (607)
Q Consensus        15 ~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~---------------~~   79 (607)
                      ++..|..+.+..+..|+||||+||..++.+..+.|++.+..+...+..++.++|.|...+...               .+
T Consensus       139 ~Ll~~~~dvnl~de~~~TpLh~A~~~~~~E~~k~Li~~~a~~~K~~~~~~~~iH~aa~s~s~e~mEi~l~~~g~~r~~~i  218 (929)
T KOG0510|consen  139 LLLDYGADVNLEDENGFTPLHLAARKNKVEAKKELINKGADPCKSDIDGNFPIHEAARSGSKECMEIFLPEHGYERQTHI  218 (929)
T ss_pred             HHHHhcCCccccccCCCchhhHHHhcChHHHHHHHHhcCCCCCcccCcCCchHHHHHHhcchhhhhhhhccccchhhccc
Confidence            445667788888999999999999999999889999999999999999999999986554332               34


Q ss_pred             hccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCC--------------CccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCC
Q psy1308          80 LECQSIKDLTLFRAARYGSAKELKTFIENSKLD--------------VNMRHPLGWTPLHVAAINGKVDNVRVLLEAGAN  145 (607)
Q Consensus        80 ~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~--------------~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~  145 (607)
                      +-.++.|.||||.|+..|++++++.+|+.+..+              +|..|.+|.||||+||..|+.+++..|+..|++
T Consensus       219 n~~~n~~~~pLhlAve~g~~e~lk~~L~n~~~~a~~~~~~~~q~kelv~~~d~dg~tpLH~a~r~G~~~svd~Ll~~Ga~  298 (929)
T KOG0510|consen  219 NFDNNEKATPLHLAVEGGDIEMLKMCLQNGKKIADVQLDAMQQEKELVNDEDNDGCTPLHYAARQGGPESVDNLLGFGAS  298 (929)
T ss_pred             ccccCCCCcchhhhhhcCCHHHHHHHHhCccccchhhhHHHHHHHHHhhcccccCCchHHHHHHcCChhHHHHHHHcCCc
Confidence            566789999999999999999999999987433              445688999999999999999999999999999


Q ss_pred             CCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCC---ccCC
Q psy1308         146 PNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPT---VKDN  220 (607)
Q Consensus       146 ~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~---~~d~  220 (607)
                      ++.++.  .+|||.||.+|++++++-||+ ..  +...-+..|..|.||||.|+..||..++++|++.||+..   ..|.
T Consensus       299 I~~kn~d~~spLH~AA~yg~~ntv~rLL~-~~--~~rllne~D~~g~tpLHlaa~~gH~~v~qlLl~~GA~~~~~~e~D~  375 (929)
T KOG0510|consen  299 INSKNKDEESPLHFAAIYGRINTVERLLQ-ES--DTRLLNESDLHGMTPLHLAAKSGHDRVVQLLLNKGALFLNMSEADS  375 (929)
T ss_pred             ccccCCCCCCchHHHHHcccHHHHHHHHh-Cc--CccccccccccCCCchhhhhhcCHHHHHHHHHhcChhhhccccccc
Confidence            999654  679999999999999999999 22  223334557889999999999999999999999999887   5699


Q ss_pred             CCCCCCcchhhhhHHHHHHHHHHhhhhHHh
Q psy1308         221 SGHIPSDYAEDANIKQILQKYAEKYADLQR  250 (607)
Q Consensus       221 ~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~  250 (607)
                      +|.||||+|+..|+..+|++|+.+|+++..
T Consensus       376 dg~TaLH~Aa~~g~~~av~~Li~~Ga~I~~  405 (929)
T KOG0510|consen  376 DGNTALHLAAKYGNTSAVQKLISHGADIGV  405 (929)
T ss_pred             CCchhhhHHHHhccHHHHHHHHHcCCceee
Confidence            999999999999999999999999999854

>PHA02878 ankyrin repeat protein; Provisional

Probab=99.97  E-value=1.4e-30  Score=280.58  Aligned_cols=234  Identities=19%  Similarity=0.155  Sum_probs=200.2

Q ss_pred             CCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccch--------hccCCCCCHHHHHHH
Q psy1308          23 KPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTL--------LECQSIKDLTLFRAA   94 (607)
Q Consensus        23 ~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~--------~~~~~~g~t~Lh~A~   94 (607)
                      .+..+..+.||||+||..|+.+++++|+..+......+..+.+++|.|+..+....+        ......+.+|+|.|+
T Consensus        30 ~~~~~~~~~tPLh~A~~~g~~e~vk~Ll~~gadvn~~d~~g~TpLh~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~l~~a~  109 (477)
T PHA02878         30 STSASLIPFIPLHQAVEARNLDVVKSLLTRGHNVNQPDHRDLTPLHIICKEPNKLGMKEMIRSINKCSVFYTLVAIKDAF  109 (477)
T ss_pred             cCcccccCcchHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCccHhHHHHHHHHHhccccccchhhHHHHH
Confidence            344567899999999999999999999999998888899999999999876543221        111256788999999


Q ss_pred             HcCCHH---------------------------------HHHHHHhcCCCCCccCCCC-CCcHHHHHHHcCCHHHHHHHH
Q psy1308          95 RYGSAK---------------------------------ELKTFIENSKLDVNMRHPL-GWTPLHVAAINGKVDNVRVLL  140 (607)
Q Consensus        95 ~~g~~~---------------------------------~v~~Ll~~~~~~~~~~d~~-g~tpLh~A~~~g~~~~v~~Ll  140 (607)
                      ..|+.+                                 ++++|+++| +++|.++.. |+||||+|+..|+.+++++|+
T Consensus       110 ~~~~~ei~~~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~Ll~~g-adin~~~~~~g~tpLh~A~~~~~~~iv~~Ll  188 (477)
T PHA02878        110 NNRNVEIFKIILTNRYKNIQTIDLVYIDKKSKDDIIEAEITKLLLSYG-ADINMKDRHKGNTALHYATENKDQRLTELLL  188 (477)
T ss_pred             HcCCHHHHHHHHhCcccCcccCcHHHHhhccchhhHHHHHHHHHHHcC-CCCCccCCCCCCCHHHHHHhCCCHHHHHHHH
Confidence            888755                                 556666666 899999998 999999999999999999999


Q ss_pred             HcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhc-CCHHHHHHHHhcCCCCCc
Q psy1308         141 EAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA-GNTEVVELLLKSGADPTV  217 (607)
Q Consensus       141 ~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~-g~~~~v~~Ll~~gad~~~  217 (607)
                      ++|++++..|.  +||||+|+..++.+++++|+++|++++..+.     .|+||||+|+.. ++.+++++|+++|++++.
T Consensus       189 ~~gad~n~~d~~g~tpLh~A~~~~~~~iv~~Ll~~ga~in~~d~-----~g~TpLh~A~~~~~~~~iv~~Ll~~gadvn~  263 (477)
T PHA02878        189 SYGANVNIPDKTNNSPLHHAVKHYNKPIVHILLENGASTDARDK-----CGNTPLHISVGYCKDYDILKLLLEHGVDVNA  263 (477)
T ss_pred             HCCCCCCCcCCCCCCHHHHHHHhCCHHHHHHHHHcCCCCCCCCC-----CCCCHHHHHHHhcCCHHHHHHHHHcCCCCCc
Confidence            99999998764  6799999999999999999999999987754     499999999976 799999999999999999


Q ss_pred             cCC-CCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHH
Q psy1308         218 KDN-SGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLK  267 (607)
Q Consensus       218 ~d~-~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~  267 (607)
                      ++. .|.||||+|  .++.+++++|++.|++..   ..+..|.+||..++.
T Consensus       264 ~~~~~g~TpLh~A--~~~~~~v~~Ll~~gadin---~~d~~g~TpL~~A~~  309 (477)
T PHA02878        264 KSYILGLTALHSS--IKSERKLKLLLEYGADIN---SLNSYKLTPLSSAVK  309 (477)
T ss_pred             cCCCCCCCHHHHH--ccCHHHHHHHHHCCCCCC---CcCCCCCCHHHHHHH
Confidence            986 799999999  466789999999999876   446788999966554

>PHA02716 CPXV016; CPX019; EVM010; Provisional

Probab=99.97  E-value=7.6e-31  Score=285.24  Aligned_cols=238  Identities=13%  Similarity=0.065  Sum_probs=185.4

Q ss_pred             hHHHHHhhcccCCCCCCcCCchHHHHHHhcCCh--hHHHHHhcCCCcccccccccCChHHHHHH----------------
Q psy1308          11 LVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQA--DFKSCLSVFPKIRQSNNTCMYNNLLFASA----------------   72 (607)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~--~~v~~L~~~~~~~~~~~~~~~~~l~~a~~----------------   72 (607)
                      ++..++++ ....+.++..|.||||+|+..|+.  +++++|++.|+.+...+..+.++++.+..                
T Consensus       194 IVklLLe~-GADVN~kD~~G~TPLH~Aa~~g~~~~eIVklLLe~GADVN~kD~~G~TPLh~Ai~~a~n~~~EIvkiLie~  272 (764)
T PHA02716        194 ILEWLCNN-GVNVNLQNNHLITPLHTYLITGNVCASVIKKIIELGGDMDMKCVNGMSPIMTYIINIDNINPEITNIYIES  272 (764)
T ss_pred             HHHHHHHc-CCCCCCCCCCCCCHHHHHHHcCCCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHhhhccCHHHHHHHHHh
Confidence            44444433 345667788899999999999864  89999999999988888888898886421                


Q ss_pred             -------------------------------ccCccchhccCCCCCHHHHHHHH--cCCHHHHHHHHhcCCCCCccCCCC
Q psy1308          73 -------------------------------CSLALTLLECQSIKDLTLFRAAR--YGSAKELKTFIENSKLDVNMRHPL  119 (607)
Q Consensus        73 -------------------------------~~~~~~~~~~~~~g~t~Lh~A~~--~g~~~~v~~Ll~~~~~~~~~~d~~  119 (607)
                                                     +..+..++..|..|+||||+|+.  .++.+++++|++.| +++|.+|..
T Consensus       273 ~d~n~~~~~~~~L~~~i~AA~~g~leiVklLLe~GAdIN~kD~~G~TPLH~Aaa~~~~~~eIVklLLe~G-ADIN~kD~~  351 (764)
T PHA02716        273 LDGNKVKNIPMILHSYITLARNIDISVVYSFLQPGVKLHYKDSAGRTCLHQYILRHNISTDIIKLLHEYG-NDLNEPDNI  351 (764)
T ss_pred             ccccccccchhhhHHHHHHHHcCCHHHHHHHHhCCCceeccCCCCCCHHHHHHHHhCCCchHHHHHHHcC-CCCccCCCC
Confidence                                           12233446678899999998764  46789999999998 999999999


Q ss_pred             CCcHHHHHHH--------------cCCHHHHHHHHHcCCCCCCCCC--CchHHHH----HHcCCccHHHHHHhcCCCccc
Q psy1308         120 GWTPLHVAAI--------------NGKVDNVRVLLEAGANPNLGDL--FNTVHRT----AAEKKMNPFEVLLKREDEFND  179 (607)
Q Consensus       120 g~tpLh~A~~--------------~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A----~~~~~~~~~~~Ll~~g~~~~~  179 (607)
                      |+||||+|+.              .++.+++++|+++|++++.+|.  +||||.+    ...++.+++++|++.|+....
T Consensus       352 G~TPLH~A~~~lav~~~ld~~~~~~~~~eVVklLL~~GADIn~kn~~G~TPLh~y~~~a~n~~~~dIvklLis~~~~~~~  431 (764)
T PHA02716        352 GNTVLHTYLSMLSVVNILDPETDNDIRLDVIQCLISLGADITAVNCLGYTPLTSYICTAQNYMYYDIIDCLISDKVLNMV  431 (764)
T ss_pred             CCCHHHHHHHhhhhhccccccccccChHHHHHHHHHCCCCCCCcCCCCCChHHHHHHHHHhcChHHHHHHHHhCcchhhh
Confidence            9999999875              3688999999999999998765  6699842    224678888988887642110


Q ss_pred             --------------------------------------------------------cCCCCcCcCCcchhhHHHhcCCH-
Q psy1308         180 --------------------------------------------------------VLNPNMTFLGFSALHYGVVAGNT-  202 (607)
Q Consensus       180 --------------------------------------------------------~~~~~~d~~g~TpLh~A~~~g~~-  202 (607)
                                                                              .+.+..|..|+||||+|+..|+. 
T Consensus       432 ~~~~~q~ll~~~d~~~~~lhh~~a~~~~~~~~~~~~~~~~~~~~~~~v~~~~ii~~~nvN~~D~~G~TPLh~Aa~~g~~~  511 (764)
T PHA02716        432 KHRILQDLLIRVDDTPCIIHHIIAKYNIPTDLYTDEYEPYDSTKIHDVYHCAIIERYNNAVCETSGMTPLHVSIISHTNA  511 (764)
T ss_pred             hhhhhhhhhhccCcchhhHHHHHHhcCcchhhhhhhhhhccccccchhhHHHHHhhccccccCCCCCCHHHHHHHcCCcc
Confidence                                                                    01123466799999999999876 


Q ss_pred             ----HHHHHHHhcCCCCCccCCCCCCCCcchhhhhHH-----HHHHHHHHhhhhHHh
Q psy1308         203 ----EVVELLLKSGADPTVKDNSGHIPSDYAEDANIK-----QILQKYAEKYADLQR  250 (607)
Q Consensus       203 ----~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~-----~~~~~ll~~~~~~~~  250 (607)
                          +++++|++.|+|+|.+|.+|+||||+|+.+|+.     ++++.|++++++...
T Consensus       512 ~v~~e~~k~LL~~GADIN~~d~~G~TPLh~A~~~g~~~~~~~eIvk~LL~~ga~~~~  568 (764)
T PHA02716        512 NIVMDSFVYLLSIQYNINIPTKNGVTPLMLTMRNNRLSGHQWYIVKNILDKRPNVDI  568 (764)
T ss_pred             chhHHHHHHHHhCCCCCcccCCCCCCHHHHHHHcCCccccHHHHHHHHHhcCCCcch
Confidence                445999999999999999999999999998855     999999999887653

>PHA02876 ankyrin repeat protein; Provisional

Probab=99.97  E-value=5.1e-30  Score=288.11  Aligned_cols=242  Identities=19%  Similarity=0.183  Sum_probs=177.5

Q ss_pred             HhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCcc------------------
Q psy1308          16 LSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLAL------------------   77 (607)
Q Consensus        16 ~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~------------------   77 (607)
                      +.......+..+.+|.||||+||+.|+.+++++|+..+.........+.++++.|...+...                  
T Consensus       164 Ll~~Gadvn~~d~~G~TpLh~Aa~~G~~~iv~~LL~~Gad~n~~~~~g~t~L~~A~~~~~~~ivk~Ll~~~~~~~~~~~~  243 (682)
T PHA02876        164 LLEGGADVNAKDIYCITPIHYAAERGNAKMVNLLLSYGADVNIIALDDLSVLECAVDSKNIDTIKAIIDNRSNINKNDLS  243 (682)
T ss_pred             HHhCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCcCccCCCCCCHHHHHHHcCCHHHHHHHHhcCCCCCCCcHH
Confidence            33445566778889999999999999999999999999888877778888888886544321                  


Q ss_pred             ---------------------chhccCCCCCHHHHHHHHcCCH-HHHHHHHhcCCCCCccCCCCCCcHHHHHHHcC-CHH
Q psy1308          78 ---------------------TLLECQSIKDLTLFRAARYGSA-KELKTFIENSKLDVNMRHPLGWTPLHVAAING-KVD  134 (607)
Q Consensus        78 ---------------------~~~~~~~~g~t~Lh~A~~~g~~-~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g-~~~  134 (607)
                                           ..+..+..|.||||+|+..|+. +++++|++.| ++++.+|..|.||||+|+..| +.+
T Consensus       244 L~~ai~~~~~~~~~~Ll~~g~~vn~~d~~g~TpLh~Aa~~~~~~~iv~lLl~~g-adin~~d~~g~TpLh~Aa~~g~~~~  322 (682)
T PHA02876        244 LLKAIRNEDLETSLLLYDAGFSVNSIDDCKNTPLHHASQAPSLSRLVPKLLERG-ADVNAKNIKGETPLYLMAKNGYDTE  322 (682)
T ss_pred             HHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHhCCCHHHHHHHHHHCC-CCCCCcCCCCCCHHHHHHHhCCCHH
Confidence                                 2334556677777777777775 4677777777 777777777777777777777 477


Q ss_pred             HHHHHHHcCCCCCCCCC--CchHHHHHHc-CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhc
Q psy1308         135 NVRVLLEAGANPNLGDL--FNTVHRTAAE-KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKS  211 (607)
Q Consensus       135 ~v~~Ll~~ga~~~~~d~--~~~l~~A~~~-~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~  211 (607)
                      ++++|+..|++++..|.  +||||+|+.. ++.+++++|++.|++++..+.     .|+||||+|+..|+.+++++|+++
T Consensus       323 ~v~~Ll~~gadin~~d~~g~TpLh~A~~~~~~~~iv~lLl~~gadin~~d~-----~G~TpLh~Aa~~~~~~iv~~Ll~~  397 (682)
T PHA02876        323 NIRTLIMLGADVNAADRLYITPLHQASTLDRNKDIVITLLELGANVNARDY-----CDKTPIHYAAVRNNVVIINTLLDY  397 (682)
T ss_pred             HHHHHHHcCCCCCCcccCCCcHHHHHHHhCCcHHHHHHHHHcCCCCccCCC-----CCCCHHHHHHHcCCHHHHHHHHHC
Confidence            77777777777777654  4577777764 356677777777777776533     377777777777777777777777


Q ss_pred             CCCCCccCCCCCCCCcchhhhh-HHHHHHHHHHhhhhHHhhHHHhhcccccHHHHH
Q psy1308         212 GADPTVKDNSGHIPSDYAEDAN-IKQILQKYAEKYADLQREKEAEERRKYPLEQRL  266 (607)
Q Consensus       212 gad~~~~d~~g~Tpl~~A~~~~-~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l  266 (607)
                      |++++..+..|.||||+|+..+ ...+++.|++.|++..   ..+..|.+||+.+.
T Consensus       398 gad~~~~~~~g~T~Lh~A~~~~~~~~~vk~Ll~~gadin---~~d~~G~TpLh~Aa  450 (682)
T PHA02876        398 GADIEALSQKIGTALHFALCGTNPYMSVKTLIDRGANVN---SKNKDLSTPLHYAC  450 (682)
T ss_pred             CCCccccCCCCCchHHHHHHcCCHHHHHHHHHhCCCCCC---cCCCCCChHHHHHH
Confidence            7777777777777777776543 3456777777777654   34566777775443

>PHA03095 ankyrin-like protein; Provisional

Probab=99.97  E-value=7.1e-30  Score=275.73  Aligned_cols=235  Identities=17%  Similarity=0.105  Sum_probs=206.3

Q ss_pred             hhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcC-ChhHHHHHhcCCCcccccccccCChHHHHHH------------cc
Q psy1308           8 RRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQST-QADFKSCLSVFPKIRQSNNTCMYNNLLFASA------------CS   74 (607)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g-~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~------------~~   74 (607)
                      ..+++..++ ......+..+..|.||||+|+..| +.+++++|+..+......+..+.+++|.|..            +.
T Consensus        62 ~~~iv~~Ll-~~Gadin~~~~~g~TpLh~A~~~~~~~~iv~lLl~~ga~in~~~~~g~tpLh~a~~~~~~~~~iv~~Ll~  140 (471)
T PHA03095         62 VKDIVRLLL-EAGADVNAPERCGFTPLHLYLYNATTLDVIKLLIKAGADVNAKDKVGRTPLHVYLSGFNINPKVIRLLLR  140 (471)
T ss_pred             hHHHHHHHH-HCCCCCCCCCCCCCCHHHHHHHcCCcHHHHHHHHHcCCCCCCCCCCCCCHHHHHhhCCcCCHHHHHHHHH
Confidence            334444454 344556777889999999999999 5999999999999999889999999999862            22


Q ss_pred             CccchhccCCCCCHHHHHHHHcC--CHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHc--CCHHHHHHHHHcCCCCCCCC
Q psy1308          75 LALTLLECQSIKDLTLFRAARYG--SAKELKTFIENSKLDVNMRHPLGWTPLHVAAIN--GKVDNVRVLLEAGANPNLGD  150 (607)
Q Consensus        75 ~~~~~~~~~~~g~t~Lh~A~~~g--~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~--g~~~~v~~Ll~~ga~~~~~d  150 (607)
                      .+..++..+..|.||||+|+..+  +.+++++|+++| ++++..|..|+||||+|+..  ++.+++++|+++|++++.+|
T Consensus       141 ~gad~~~~d~~g~tpL~~a~~~~~~~~~iv~~Ll~~g-~~~~~~d~~g~t~Lh~~~~~~~~~~~i~~~Ll~~g~~~~~~d  219 (471)
T PHA03095        141 KGADVNALDLYGMTPLAVLLKSRNANVELLRLLIDAG-ADVYAVDDRFRSLLHHHLQSFKPRARIVRELIRAGCDPAATD  219 (471)
T ss_pred             cCCCCCccCCCCCCHHHHHHHcCCCCHHHHHHHHHcC-CCCcccCCCCCCHHHHHHHHCCCcHHHHHHHHHcCCCCcccC
Confidence            34456778899999999999876  689999999999 99999999999999999975  78899999999999999977


Q ss_pred             C--CchHHHHHHcCCc--cHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCC
Q psy1308         151 L--FNTVHRTAAEKKM--NPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPS  226 (607)
Q Consensus       151 ~--~~~l~~A~~~~~~--~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl  226 (607)
                      .  +||||+|+..++.  .+++.|++.|++++..+.     .|+||||+|+..|+.+++++|+++|||++.+|.+|+|||
T Consensus       220 ~~g~tpLh~Aa~~~~~~~~~v~~ll~~g~din~~d~-----~g~TpLh~A~~~~~~~~v~~LL~~gad~n~~~~~g~tpl  294 (471)
T PHA03095        220 MLGNTPLHSMATGSSCKRSLVLPLLIAGISINARNR-----YGQTPLHYAAVFNNPRACRRLIALGADINAVSSDGNTPL  294 (471)
T ss_pred             CCCCCHHHHHHhcCCchHHHHHHHHHcCCCCCCcCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCCcccCCCCCCHH
Confidence            5  6799999999986  578899999999988754     499999999999999999999999999999999999999


Q ss_pred             cchhhhhHHHHHHHHHHhhhhHH
Q psy1308         227 DYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       227 ~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      |+|+..++.++++.|+..+++..
T Consensus       295 ~~A~~~~~~~~v~~LL~~~~~~~  317 (471)
T PHA03095        295 SLMVRNNNGRAVRAALAKNPSAE  317 (471)
T ss_pred             HHHHHhCCHHHHHHHHHhCCCHH
Confidence            99999999999999999987765

>PHA02946 ankyin-like protein; Provisional

Probab=99.97  E-value=7.4e-30  Score=269.81  Aligned_cols=226  Identities=12%  Similarity=0.114  Sum_probs=125.6

Q ss_pred             hHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHcc------------Cccc
Q psy1308          11 LVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACS------------LALT   78 (607)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~------------~~~~   78 (607)
                      ++..++++ ....+.++..|+||||+||..|+.+++++|+..+..+...+..+.+++|+|....            .+..
T Consensus        54 iv~~Ll~~-Gadvn~~d~~G~TpLh~Aa~~g~~eiv~lLL~~GAdin~~d~~g~TpLh~A~~~~~~~~e~v~lLl~~Gad  132 (446)
T PHA02946         54 FVEELLHR-GYSPNETDDDGNYPLHIASKINNNRIVAMLLTHGADPNACDKQHKTPLYYLSGTDDEVIERINLLVQYGAK  132 (446)
T ss_pred             HHHHHHHC-cCCCCccCCCCCCHHHHHHHcCCHHHHHHHHHCcCCCCCCCCCCCCHHHHHHHcCCchHHHHHHHHHcCCC
Confidence            44444443 3456677888889999999999999999888887766655555555555543221            1112


Q ss_pred             hh-ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcC--CHHHHHHHHHcCCCCCCCCC--Cc
Q psy1308          79 LL-ECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAING--KVDNVRVLLEAGANPNLGDL--FN  153 (607)
Q Consensus        79 ~~-~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g--~~~~v~~Ll~~ga~~~~~d~--~~  153 (607)
                      ++ ..+..|.|||| ||..|+.+++++|++.| ++++.+|..|+||||+|+..+  +.+++++|+++|++++.+|.  +|
T Consensus       133 in~~~d~~g~tpL~-aa~~~~~~vv~~Ll~~g-ad~~~~d~~G~t~Lh~A~~~~~~~~~~v~~Ll~~Gadin~~d~~G~T  210 (446)
T PHA02946        133 INNSVDEEGCGPLL-ACTDPSERVFKKIMSIG-FEARIVDKFGKNHIHRHLMSDNPKASTISWMMKLGISPSKPDHDGNT  210 (446)
T ss_pred             cccccCCCCCcHHH-HHHCCChHHHHHHHhcc-ccccccCCCCCCHHHHHHHhcCCCHHHHHHHHHcCCCCcccCCCCCC
Confidence            22 13455555554 44445555555555555 555555555566655555433  24555555555555555432  44


Q ss_pred             hHHHHHHcC--CccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCC-HHHHHHHHhcCCCCC--------------
Q psy1308         154 TVHRTAAEK--KMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGN-TEVVELLLKSGADPT--------------  216 (607)
Q Consensus       154 ~l~~A~~~~--~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~-~~~v~~Ll~~gad~~--------------  216 (607)
                      |||+|+..+  +.+++++|+. |++++..+.     .|.||||+|+..++ .+++++|+++|++.+              
T Consensus       211 pLH~Aa~~~~~~~~iv~lLl~-gadin~~d~-----~G~TpLh~A~~~~~~~~~~~~Ll~~g~~~~~~~~~~a~~~~~~~  284 (446)
T PHA02946        211 PLHIVCSKTVKNVDIINLLLP-STDVNKQNK-----FGDSPLTLLIKTLSPAHLINKLLSTSNVITDQTVNICIFYDRDD  284 (446)
T ss_pred             HHHHHHHcCCCcHHHHHHHHc-CCCCCCCCC-----CCCCHHHHHHHhCChHHHHHHHHhCCCCCCCcHHHHHHHcCchH
Confidence            566555543  4455555553 555554422     25566665555555 355555555554321              


Q ss_pred             ------cc-CCCCCCCCcchhhhhHHHHHHHHHHhh
Q psy1308         217 ------VK-DNSGHIPSDYAEDANIKQILQKYAEKY  245 (607)
Q Consensus       217 ------~~-d~~g~Tpl~~A~~~~~~~~~~~ll~~~  245 (607)
                            .. +..|+||||+|+.+|+.+++++|++++
T Consensus       285 ~~e~l~~~g~~~~~TpLh~Aa~~g~~eivk~Ll~~~  320 (446)
T PHA02946        285 VLEIINDKGKQYDSTDFKMAVEVGSIRCVKYLLDND  320 (446)
T ss_pred             HHHHHHHcCcccCCCHHHHHHHcCCHHHHHHHHHCC
Confidence                  11 123445555555555555555555544

>PHA02989 ankyrin repeat protein; Provisional

Probab=99.97  E-value=8.4e-30  Score=275.38  Aligned_cols=234  Identities=14%  Similarity=0.080  Sum_probs=182.8

Q ss_pred             hhHHHHHhhcccCCCCCCcCCchHHHHHHhc--CChhHHHHHhcCCCcccccccccCChHHHHH----------------
Q psy1308          10 QLVLCILSNYFKQKPYKRGFQSSKLFYTTQS--TQADFKSCLSVFPKIRQSNNTCMYNNLLFAS----------------   71 (607)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~--g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~----------------   71 (607)
                      +.+..+++. ....+.. ..|.||||+++..  ++.+++++|++.|+.++..+ .+.++++.+.                
T Consensus        17 ~~v~~LL~~-GadvN~~-~~g~t~l~~~~~~~~~~~~iv~~Ll~~GAdvn~~~-~~~tpL~~a~~~~~~~~~~~~~iv~~   93 (494)
T PHA02989         17 NALEFLLRT-GFDVNEE-YRGNSILLLYLKRKDVKIKIVKLLIDNGADVNYKG-YIETPLCAVLRNREITSNKIKKIVKL   93 (494)
T ss_pred             HHHHHHHHc-CCCcccc-cCCCCHHHHHHhcCCCChHHHHHHHHcCCCccCCC-CCCCcHHHHHhccCcchhhHHHHHHH
Confidence            344445533 3334444 5689998765544  37899999999999887654 3477887653                


Q ss_pred             HccCccchhccCCCCCHHHHHHHHc---CCHHHHHHHHhcCCCCC-ccCCCCCCcHHHHHHHc--CCHHHHHHHHHcCCC
Q psy1308          72 ACSLALTLLECQSIKDLTLFRAARY---GSAKELKTFIENSKLDV-NMRHPLGWTPLHVAAIN--GKVDNVRVLLEAGAN  145 (607)
Q Consensus        72 ~~~~~~~~~~~~~~g~t~Lh~A~~~---g~~~~v~~Ll~~~~~~~-~~~d~~g~tpLh~A~~~--g~~~~v~~Ll~~ga~  145 (607)
                      ++..+..++..+..|.||||.|+..   |+.++|++|+++| +|+ +.+|..|+||||+|+..  ++.++|++|+++|++
T Consensus        94 Ll~~Gadin~~d~~g~tpL~~a~~~~~~~~~eiv~~Ll~~G-adin~~~d~~g~tpLh~a~~~~~~~~~iv~~Ll~~Gad  172 (494)
T PHA02989         94 LLKFGADINLKTFNGVSPIVCFIYNSNINNCDMLRFLLSKG-INVNDVKNSRGYNLLHMYLESFSVKKDVIKILLSFGVN  172 (494)
T ss_pred             HHHCCCCCCCCCCCCCcHHHHHHHhcccCcHHHHHHHHHCC-CCcccccCCCCCCHHHHHHHhccCCHHHHHHHHHcCCC
Confidence            2345667788899999999998766   6899999999999 999 89999999999999764  689999999999999


Q ss_pred             CCC-C--CCCchHHHHHHcC----CccHHHHHHhcCCCccccCC---------------------------------CCc
Q psy1308         146 PNL-G--DLFNTVHRTAAEK----KMNPFEVLLKREDEFNDVLN---------------------------------PNM  185 (607)
Q Consensus       146 ~~~-~--d~~~~l~~A~~~~----~~~~~~~Ll~~g~~~~~~~~---------------------------------~~~  185 (607)
                      ++. .  .+.||||+|+..+    +.+++++|+++|++++..+.                                 +..
T Consensus       173 i~~~~~~~g~tpL~~a~~~~~~~~~~~iv~~Ll~~Ga~vn~~~~~~~t~l~~~~~~~~~~~~~~~~il~~l~~~advn~~  252 (494)
T PHA02989        173 LFEKTSLYGLTPMNIYLRNDIDVISIKVIKYLIKKGVNIETNNNGSESVLESFLDNNKILSKKEFKVLNFILKYIKINKK  252 (494)
T ss_pred             ccccccccCCChHHHHHhcccccccHHHHHHHHhCCCCccccCCccccHHHHHHHhchhhcccchHHHHHHHhCCCCCCC
Confidence            987 3  3578999998764    88999999999999887652                                 234


Q ss_pred             CcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhh
Q psy1308         186 TFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYAD  247 (607)
Q Consensus       186 d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~  247 (607)
                      |..|+||||+|+..|+.+++++|+++|+|++.+|..|+||||+|+..++.++++.|++.++.
T Consensus       253 d~~G~TpL~~Aa~~~~~~~v~~LL~~Gadin~~d~~G~TpL~~A~~~~~~~iv~~LL~~~p~  314 (494)
T PHA02989        253 DKKGFNPLLISAKVDNYEAFNYLLKLGDDIYNVSKDGDTVLTYAIKHGNIDMLNRILQLKPG  314 (494)
T ss_pred             CCCCCCHHHHHHHhcCHHHHHHHHHcCCCccccCCCCCCHHHHHHHcCCHHHHHHHHhcCCC
Confidence            56677888888877888888888888888888887888888888877777777777766543

>PHA02716 CPXV016; CPX019; EVM010; Provisional

Probab=99.97  E-value=8.6e-30  Score=277.04  Aligned_cols=196  Identities=14%  Similarity=0.106  Sum_probs=116.9

Q ss_pred             hhHHHHHhhcccCCCCC-CcCCchHHHHHHh--cCChhHHHHHhcCCCcccccccccCChHHHHHHcc------------
Q psy1308          10 QLVLCILSNYFKQKPYK-RGFQSSKLFYTTQ--STQADFKSCLSVFPKIRQSNNTCMYNNLLFASACS------------   74 (607)
Q Consensus        10 ~~~~~~~~~~~~~~~~~-~~~g~t~L~~A~~--~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~------------   74 (607)
                      +++..+++.-....+.. +..|+||||+|+.  +++.+++++|++.+......+..+.+++|.|...+            
T Consensus       156 eiVk~LLe~G~ADIN~~~d~~G~TpLH~A~~n~~~~~eIVklLLe~GADVN~kD~~G~TPLH~Aa~~g~~~~eIVklLLe  235 (764)
T PHA02716        156 DLIKYMVDVGIVNLNYVCKKTGYGILHAYLGNMYVDIDILEWLCNNGVNVNLQNNHLITPLHTYLITGNVCASVIKKIIE  235 (764)
T ss_pred             HHHHHHHHCCCCCcccccCCCCCcHHHHHHHhccCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCHHHHHHHHH
Confidence            34445554432344555 7789999999865  46789999999888777766666666666664333            


Q ss_pred             CccchhccCCCCCHHHHHH-------------------------------------HHcCCHHHHHHHHhcCCCCCccCC
Q psy1308          75 LALTLLECQSIKDLTLFRA-------------------------------------ARYGSAKELKTFIENSKLDVNMRH  117 (607)
Q Consensus        75 ~~~~~~~~~~~g~t~Lh~A-------------------------------------~~~g~~~~v~~Ll~~~~~~~~~~d  117 (607)
                      .+..++.++..|+||||+|                                     +..|+.+++++|+++| +++|.+|
T Consensus       236 ~GADVN~kD~~G~TPLh~Ai~~a~n~~~EIvkiLie~~d~n~~~~~~~~L~~~i~AA~~g~leiVklLLe~G-AdIN~kD  314 (764)
T PHA02716        236 LGGDMDMKCVNGMSPIMTYIINIDNINPEITNIYIESLDGNKVKNIPMILHSYITLARNIDISVVYSFLQPG-VKLHYKD  314 (764)
T ss_pred             cCCCCCCCCCCCCCHHHHHHHhhhccCHHHHHHHHHhccccccccchhhhHHHHHHHHcCCHHHHHHHHhCC-CceeccC
Confidence            2233445566666666643                                     2345556666666665 6666666


Q ss_pred             CCCCcHHHHHHH--cCCHHHHHHHHHcCCCCCCCCC--CchHHHHHH--------------cCCccHHHHHHhcCCCccc
Q psy1308         118 PLGWTPLHVAAI--NGKVDNVRVLLEAGANPNLGDL--FNTVHRTAA--------------EKKMNPFEVLLKREDEFND  179 (607)
Q Consensus       118 ~~g~tpLh~A~~--~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~--------------~~~~~~~~~Ll~~g~~~~~  179 (607)
                      ..|+||||+|+.  .++.+++++|+++|++++.+|.  +||||+|+.              .++.+++++|+++|++++.
T Consensus       315 ~~G~TPLH~Aaa~~~~~~eIVklLLe~GADIN~kD~~G~TPLH~A~~~lav~~~ld~~~~~~~~~eVVklLL~~GADIn~  394 (764)
T PHA02716        315 SAGRTCLHQYILRHNISTDIIKLLHEYGNDLNEPDNIGNTVLHTYLSMLSVVNILDPETDNDIRLDVIQCLISLGADITA  394 (764)
T ss_pred             CCCCCHHHHHHHHhCCCchHHHHHHHcCCCCccCCCCCCCHHHHHHHhhhhhccccccccccChHHHHHHHHHCCCCCCC
Confidence            666666666543  3456666666666666666553  446666543              2455666666666666665


Q ss_pred             cCCCCcCcCCcchhhH----HHhcCCHHHHHHHHhc
Q psy1308         180 VLNPNMTFLGFSALHY----GVVAGNTEVVELLLKS  211 (607)
Q Consensus       180 ~~~~~~d~~g~TpLh~----A~~~g~~~~v~~Ll~~  211 (607)
                      .+..     |+||||.    |...++.+++++|++.
T Consensus       395 kn~~-----G~TPLh~y~~~a~n~~~~dIvklLis~  425 (764)
T PHA02716        395 VNCL-----GYTPLTSYICTAQNYMYYDIIDCLISD  425 (764)
T ss_pred             cCCC-----CCChHHHHHHHHHhcChHHHHHHHHhC
Confidence            5333     6666662    1123455565555554

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.97  E-value=3e-29  Score=258.36  Aligned_cols=291  Identities=21%  Similarity=0.290  Sum_probs=201.0

Q ss_pred             ccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCC-------CCCC-ceeeeeccCCCChhHHHHHHHHHhccCcCCce
Q psy1308         258 RKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTD-------DDHP-LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAF  329 (607)
Q Consensus       258 ~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~-------~~~p-~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~  329 (607)
                      .+..+...|.+.++||+.+++.+..++..+......       ...+ .+++|.||+|+|||.+|+.+|..+.    .+|
T Consensus        61 ~p~~i~~~L~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~----~pf  136 (412)
T PRK05342         61 TPKEIKAHLDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD----VPF  136 (412)
T ss_pred             CHHHHHHHHhhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC----CCc
Confidence            344567778889999999999998877543222211       1112 3799999999999999999998874    469


Q ss_pred             EEeecccccccchhHhhhcCCCCCccCCCCchhhHH-------HhhCCCeEEEEecCCccCHH--------------HHH
Q psy1308         330 IRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKR-------LKKCPNAVVLFDEVDKAHPD--------------VLT  388 (607)
Q Consensus       330 ~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~-------~~~~~~~vl~lDEiek~~~~--------------~~~  388 (607)
                      +.++++.+..           .||+|.+....+..+       ++.+.++||||||||++++.              +|+
T Consensus       137 ~~id~~~l~~-----------~gyvG~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~  205 (412)
T PRK05342        137 AIADATTLTE-----------AGYVGEDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQ  205 (412)
T ss_pred             eecchhhccc-----------CCcccchHHHHHHHHHHhccccHHHcCCcEEEEechhhhccccCCCCcCCCcccHHHHH
Confidence            9999987643           467776554444433       34567899999999999763              999


Q ss_pred             HHHHhhccce--eecCCCcEEecCceEEEEecCc---------chHHHHHHHhhhhhcccccccCCCCcccccCCCcchh
Q psy1308         389 VLLQLFDEGR--LTDGKGKTIECKDAIFVMTSNL---------ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVT  457 (607)
Q Consensus       389 ~Ll~~~~~~~--~~~~~g~~~~~~~~~iI~tsn~---------~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  457 (607)
                      .||++|+...  +++.+|++.++.+.++|+|||+         |.+.+.+......  ...+       ..+........
T Consensus       206 ~LL~~Leg~~~~v~~~gg~~~~~~~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~~~--~~gf-------~~~~~~~~~~~  276 (412)
T PRK05342        206 ALLKILEGTVASVPPQGGRKHPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKK--GIGF-------GAEVKSKKEKR  276 (412)
T ss_pred             HHHHHHhcCeEEeCCCCCcCcCCCCeEEeccCCceeeecccccCcHHHHHHHHhhc--ccCC-------ccccccccccc
Confidence            9999998443  2456777777777788888877         4444443221110  0000       00000000000


Q ss_pred             cchhhhhhhhhHHHHhc-cCChhhhccccceeeeccCCHHHHHHHHHHHHHHH----HHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         458 ISRHFKDHVVQPILKRH-FRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFW----AKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       458 ~~~~~~~~~~~~~l~~~-f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~----~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                      ......+.+..+.|.+. |+ |||++|+|.+++|.||+.+++.+|+...++.+    .+.+ ...++.++++++++++|+
T Consensus       277 ~~~~~~~~~~~~dL~~~gf~-PEflgRld~iv~f~~L~~~~L~~Il~~~~~~l~~q~~~~l-~~~~i~L~~t~~al~~Ia  354 (412)
T PRK05342        277 TEGELLKQVEPEDLIKFGLI-PEFIGRLPVVATLEELDEEALVRILTEPKNALVKQYQKLF-EMDGVELEFTDEALEAIA  354 (412)
T ss_pred             hhHHHHHhcCHHHHHHHhhh-HHHhCCCCeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHH-HhCCcEEEECHHHHHHHH
Confidence            01233344444556665 77 99999999999999999999999998654444    3444 446999999999999999


Q ss_pred             c-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEEEEEec
Q psy1308         533 D-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQW  577 (607)
Q Consensus       533 ~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~~~~  577 (607)
                      + +|+..+|||+|++.|++.+.+++.+.-...+   ...++|+.+.
T Consensus       355 ~~~~~~~~GAR~Lrriie~~l~~~~~~~p~~~~---~~~v~I~~~~  397 (412)
T PRK05342        355 KKAIERKTGARGLRSILEEILLDVMFELPSRED---VEKVVITKEV  397 (412)
T ss_pred             HhCCCCCCCCchHHHHHHHHhHHHHHhccccCC---CceEEECHHH
Confidence            7 8999999999999999999999976643222   2345554443

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.97  E-value=1.4e-30  Score=265.84  Aligned_cols=236  Identities=20%  Similarity=0.267  Sum_probs=204.8

Q ss_pred             HhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhh
Q psy1308         267 KDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       267 ~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~l  346 (607)
                      ...++|++.++..+.+.+.+....      ..++++.|++||||..+||.||+...+. +.||+++||+.++.+...++|
T Consensus       140 ~~~liG~S~am~~l~~~i~kvA~s------~a~VLI~GESGtGKElvAr~IH~~S~R~-~~PFVavNcaAip~~l~ESEL  212 (464)
T COG2204         140 GGELVGESPAMQQLRRLIAKVAPS------DASVLITGESGTGKELVARAIHQASPRA-KGPFIAVNCAAIPENLLESEL  212 (464)
T ss_pred             cCCceecCHHHHHHHHHHHHHhCC------CCCEEEECCCCCcHHHHHHHHHhhCccc-CCCceeeecccCCHHHHHHHh
Confidence            346999999999999999888754      4589999999999999999999999887 789999999999999999999


Q ss_pred             hcCCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHH
Q psy1308         347 IGAPPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEI  425 (607)
Q Consensus       347 lg~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i  425 (607)
                      ||+.+| |+|....  ..+.++.+++|++|||||+.+|.++|..||.+++++.++..+|......+++||.+||.+.++.
T Consensus       213 FGhekGAFTGA~~~--r~G~fE~A~GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~vdvRiIaaT~~dL~~~  290 (464)
T COG2204         213 FGHEKGAFTGAITR--RIGRFEQANGGTLFLDEIGEMPLELQVKLLRVLQEREFERVGGNKPIKVDVRIIAATNRDLEEE  290 (464)
T ss_pred             hcccccCcCCcccc--cCcceeEcCCceEEeeccccCCHHHHHHHHHHHHcCeeEecCCCcccceeeEEEeecCcCHHHH
Confidence            999988 8886443  4578999999999999999999999999999999999999999888889999999999766554


Q ss_pred             HHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC---CHHHHHHHH
Q psy1308         426 AQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF---SKSELHTLV  502 (607)
Q Consensus       426 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl---~~~~~~~i~  502 (607)
                      ..                                            .+.|+ ++||+|++.+.+..|.   +++||..++
T Consensus       291 v~--------------------------------------------~G~FR-eDLyyRLnV~~i~iPpLRER~EDIp~L~  325 (464)
T COG2204         291 VA--------------------------------------------AGRFR-EDLYYRLNVVPLRLPPLRERKEDIPLLA  325 (464)
T ss_pred             HH--------------------------------------------cCCcH-HHHHhhhccceecCCcccccchhHHHHH
Confidence            32                                            45687 9999999998777775   668999999


Q ss_pred             HHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHH
Q psy1308         503 CRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAH  560 (607)
Q Consensus       503 ~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~  560 (607)
                      .+++.+.+.+...   -...++++++..|.. |+||+|+|+|+|++++.+.-.-...+
T Consensus       326 ~hfl~~~~~~~~~---~~~~~s~~a~~~L~~-y~WPGNVREL~N~ver~~il~~~~~i  379 (464)
T COG2204         326 EHFLKRFAAELGR---PPKGFSPEALAALLA-YDWPGNVRELENVVERAVILSEGPEI  379 (464)
T ss_pred             HHHHHHHHHHcCC---CCCCCCHHHHHHHHh-CCCChHHHHHHHHHHHHHhcCCcccc
Confidence            9999988876532   256899999999996 99999999999999998765443333

>PHA02946 ankyin-like protein; Provisional

Probab=99.97  E-value=3.7e-30  Score=272.12  Aligned_cols=203  Identities=15%  Similarity=0.167  Sum_probs=133.2

Q ss_pred             CchHHHHHHh--cCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHh
Q psy1308          30 QSSKLFYTTQ--STQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIE  107 (607)
Q Consensus        30 g~t~L~~A~~--~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~  107 (607)
                      +.++||.++.  .++.+++++|+..+..+.                       ..|..|.||||+||..|+.++|++|++
T Consensus        37 ~~~~Lh~~~~~~~~~~~iv~~Ll~~Gadvn-----------------------~~d~~G~TpLh~Aa~~g~~eiv~lLL~   93 (446)
T PHA02946         37 NYHILHAYCGIKGLDERFVEELLHRGYSPN-----------------------ETDDDGNYPLHIASKINNNRIVAMLLT   93 (446)
T ss_pred             CChHHHHHHHhcCCCHHHHHHHHHCcCCCC-----------------------ccCCCCCCHHHHHHHcCCHHHHHHHHH
Confidence            3688888764  446788999988776554                       456667777777777777777777777


Q ss_pred             cCCCCCccCCCCCCcHHHHHHHcC--CHHHHHHHHHcCCCCCC---CCCCchHHHHHHcCCccHHHHHHhcCCCccccCC
Q psy1308         108 NSKLDVNMRHPLGWTPLHVAAING--KVDNVRVLLEAGANPNL---GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLN  182 (607)
Q Consensus       108 ~~~~~~~~~d~~g~tpLh~A~~~g--~~~~v~~Ll~~ga~~~~---~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~  182 (607)
                      +| +++|.+|..|+||||+|+..+  ..+++++|+++|++++.   .++.|||| ||..++.+++++|+++|++++..+.
T Consensus        94 ~G-Adin~~d~~g~TpLh~A~~~~~~~~e~v~lLl~~Gadin~~~d~~g~tpL~-aa~~~~~~vv~~Ll~~gad~~~~d~  171 (446)
T PHA02946         94 HG-ADPNACDKQHKTPLYYLSGTDDEVIERINLLVQYGAKINNSVDEEGCGPLL-ACTDPSERVFKKIMSIGFEARIVDK  171 (446)
T ss_pred             Cc-CCCCCCCCCCCCHHHHHHHcCCchHHHHHHHHHcCCCcccccCCCCCcHHH-HHHCCChHHHHHHHhccccccccCC
Confidence            66 777777777777777766654  35667777777777763   23345665 5556667777777777776665533


Q ss_pred             CCcCcCCcchhhHHHhcC--CHHHHHHHHhcCCCCCccCCCCCCCCcchhhhh--HHHHHHHHHHhhhhHHhhHHHhhcc
Q psy1308         183 PNMTFLGFSALHYGVVAG--NTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN--IKQILQKYAEKYADLQREKEAEERR  258 (607)
Q Consensus       183 ~~~d~~g~TpLh~A~~~g--~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~--~~~~~~~ll~~~~~~~~~~~~~~~~  258 (607)
                           .|+||||+|+..+  +.+++++|+++|+|++.+|.+|+||||+|+..+  +.+++++|+. +++..   ..+..+
T Consensus       172 -----~G~t~Lh~A~~~~~~~~~~v~~Ll~~Gadin~~d~~G~TpLH~Aa~~~~~~~~iv~lLl~-gadin---~~d~~G  242 (446)
T PHA02946        172 -----FGKNHIHRHLMSDNPKASTISWMMKLGISPSKPDHDGNTPLHIVCSKTVKNVDIINLLLP-STDVN---KQNKFG  242 (446)
T ss_pred             -----CCCCHHHHHHHhcCCCHHHHHHHHHcCCCCcccCCCCCCHHHHHHHcCCCcHHHHHHHHc-CCCCC---CCCCCC
Confidence                 3777777766543  356677777777777777777777777777654  5666666663 45443   335566


Q ss_pred             cccHHHHH
Q psy1308         259 KYPLEQRL  266 (607)
Q Consensus       259 ~~~L~~~l  266 (607)
                      .+||+.+.
T Consensus       243 ~TpLh~A~  250 (446)
T PHA02946        243 DSPLTLLI  250 (446)
T ss_pred             CCHHHHHH
Confidence            66664433

>KOG0510|consensus

Probab=99.97  E-value=3.9e-30  Score=267.47  Aligned_cols=296  Identities=16%  Similarity=0.154  Sum_probs=235.7

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHH----------HccCccchhccCCCCCHHHHHH
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFAS----------ACSLALTLLECQSIKDLTLFRA   93 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~----------~~~~~~~~~~~~~~g~t~Lh~A   93 (607)
                      ..+|.+|+||||+|+.....+.+++|++.++..+..+..+..++|.|.          +..++.+.+..|..|.||||+|
T Consensus        82 ~a~D~~~n~~l~~a~~~~~~~~i~~Lls~gad~~~~n~~~~aplh~A~~~~~~s~L~~Ll~~~~dvnl~de~~~TpLh~A  161 (929)
T KOG0510|consen   82 YAKDSADNTPLHAAVEYNQGDKIQVLLSYGADTPLRNLNKNAPLHLAADSGNYSCLKLLLDYGADVNLEDENGFTPLHLA  161 (929)
T ss_pred             hhhhcccCchhHHHhhcchHHHHHHHHhcCCCCChhhhhccCchhhccccchHHHHHHHHHhcCCccccccCCCchhhHH
Confidence            447889999999999999999999999999999999999999998884          3445566788899999999999


Q ss_pred             HHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHH-----cCCCCCCCCC--CchHHHHHHcCCccH
Q psy1308          94 ARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLE-----AGANPNLGDL--FNTVHRTAAEKKMNP  166 (607)
Q Consensus        94 ~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~-----~ga~~~~~d~--~~~l~~A~~~~~~~~  166 (607)
                      |..++.+..+.|++.+ +++-..|.+|++|+|.|+.+|..++.++.+.     .+..+|..+.  .+|||.|+..|++++
T Consensus       162 ~~~~~~E~~k~Li~~~-a~~~K~~~~~~~~iH~aa~s~s~e~mEi~l~~~g~~r~~~in~~~n~~~~pLhlAve~g~~e~  240 (929)
T KOG0510|consen  162 ARKNKVEAKKELINKG-ADPCKSDIDGNFPIHEAARSGSKECMEIFLPEHGYERQTHINFDNNEKATPLHLAVEGGDIEM  240 (929)
T ss_pred             HhcChHHHHHHHHhcC-CCCCcccCcCCchHHHHHHhcchhhhhhhhccccchhhcccccccCCCCcchhhhhhcCCHHH
Confidence            9999999889999988 9999999999999999999999999999997     5677777554  569999999999999


Q ss_pred             HHHHHhcCCCccccCC----------CCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHH
Q psy1308         167 FEVLLKREDEFNDVLN----------PNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQ  236 (607)
Q Consensus       167 ~~~Ll~~g~~~~~~~~----------~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~  236 (607)
                      ++.+|+.|+.......          +..|.+|.||||+||..|+.++++.|+..|++++.+++++.||||.|+..|+..
T Consensus       241 lk~~L~n~~~~a~~~~~~~~q~kelv~~~d~dg~tpLH~a~r~G~~~svd~Ll~~Ga~I~~kn~d~~spLH~AA~yg~~n  320 (929)
T KOG0510|consen  241 LKMCLQNGKKIADVQLDAMQQEKELVNDEDNDGCTPLHYAARQGGPESVDNLLGFGASINSKNKDEESPLHFAAIYGRIN  320 (929)
T ss_pred             HHHHHhCccccchhhhHHHHHHHHHhhcccccCCchHHHHHHcCChhHHHHHHHcCCcccccCCCCCCchHHHHHcccHH
Confidence            9999998876543321          346788999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHH
Q psy1308         237 ILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQ  316 (607)
Q Consensus       237 ~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~  316 (607)
                      .++.|++ -.+....++.|..+.+||      ++..+++.-+.+.-.+++......          .+            
T Consensus       321 tv~rLL~-~~~~rllne~D~~g~tpL------Hlaa~~gH~~v~qlLl~~GA~~~~----------~~------------  371 (929)
T KOG0510|consen  321 TVERLLQ-ESDTRLLNESDLHGMTPL------HLAAKSGHDRVVQLLLNKGALFLN----------MS------------  371 (929)
T ss_pred             HHHHHHh-CcCccccccccccCCCch------hhhhhcCHHHHHHHHHhcChhhhc----------cc------------
Confidence            9999998 445555667788899999      444444444444444443332110          00            


Q ss_pred             HHHHhccCcCCceEEeecccccccchhHhhhcCCCCCcc
Q psy1308         317 LAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLG  355 (607)
Q Consensus       317 la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g  355 (607)
                            ..+.+++++++.|...++....+.|-+...++|
T Consensus       372 ------e~D~dg~TaLH~Aa~~g~~~av~~Li~~Ga~I~  404 (929)
T KOG0510|consen  372 ------EADSDGNTALHLAAKYGNTSAVQKLISHGADIG  404 (929)
T ss_pred             ------ccccCCchhhhHHHHhccHHHHHHHHHcCCcee
Confidence                  114667777777777777666655544444444

>PHA02798 ankyrin-like protein; Provisional

Probab=99.97  E-value=1.2e-29  Score=273.86  Aligned_cols=221  Identities=19%  Similarity=0.160  Sum_probs=185.8

Q ss_pred             cCCchHHHHH--HhcCChhHHHHHhcCCCcccccccccCChHHHHH---------------HccCccchhccCCCCCHHH
Q psy1308          28 GFQSSKLFYT--TQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFAS---------------ACSLALTLLECQSIKDLTL   90 (607)
Q Consensus        28 ~~g~t~L~~A--~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~---------------~~~~~~~~~~~~~~g~t~L   90 (607)
                      ..|.|+++.+  ...++.+++++|++.|..+...+.++.++++.+.               +...+..++..|..|.|||
T Consensus        34 ~~~~~~~~~yl~~~~~~~~iv~~Ll~~Gadvn~~d~~g~TpL~~~~~n~~~~~~~~~iv~~Ll~~GadiN~~d~~G~TpL  113 (489)
T PHA02798         34 VNEYSIFQKYLQRDSPSTDIVKLFINLGANVNGLDNEYSTPLCTILSNIKDYKHMLDIVKILIENGADINKKNSDGETPL  113 (489)
T ss_pred             cccchHHHHHHhCCCCCHHHHHHHHHCCCCCCCCCCCCCChHHHHHHhHHhHHhHHHHHHHHHHCCCCCCCCCCCcCcHH
Confidence            4566776533  3445889999999999988888888888887653               3345566788899999999


Q ss_pred             HHHHHcC---CHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCC---HHHHHHHHHcCCCCCCCC---CCchHHHHHHc
Q psy1308          91 FRAARYG---SAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGK---VDNVRVLLEAGANPNLGD---LFNTVHRTAAE  161 (607)
Q Consensus        91 h~A~~~g---~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~---~~~v~~Ll~~ga~~~~~d---~~~~l~~A~~~  161 (607)
                      |+|+.++   +.+++++|+++| ++++.+|..|.||||+|++.++   .+++++|+++|++++..+   +.||||.++..
T Consensus       114 h~a~~~~~~~~~~iv~~Ll~~G-advn~~d~~g~tpL~~a~~~~~~~~~~vv~~Ll~~gadin~~~~~~~~t~Lh~~~~~  192 (489)
T PHA02798        114 YCLLSNGYINNLEILLFMIENG-ADTTLLDKDGFTMLQVYLQSNHHIDIEIIKLLLEKGVDINTHNNKEKYDTLHCYFKY  192 (489)
T ss_pred             HHHHHcCCcChHHHHHHHHHcC-CCccccCCCCCcHHHHHHHcCCcchHHHHHHHHHhCCCcccccCcCCCcHHHHHHHh
Confidence            9999986   789999999999 9999999999999999999988   999999999999999864   35799988765


Q ss_pred             ----CCccHHHHHHhcCCCccccC----------------------------------CCCcCcCCcchhhHHHhcCCHH
Q psy1308         162 ----KKMNPFEVLLKREDEFNDVL----------------------------------NPNMTFLGFSALHYGVVAGNTE  203 (607)
Q Consensus       162 ----~~~~~~~~Ll~~g~~~~~~~----------------------------------~~~~d~~g~TpLh~A~~~g~~~  203 (607)
                          ++.+++++|+++|++++..+                                  -+.+|..|+||||+|+.+|+.+
T Consensus       193 ~~~~~~~~ivk~Li~~Ga~i~~~~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~dvN~~d~~G~TPL~~A~~~~~~~  272 (489)
T PHA02798        193 NIDRIDADILKLFVDNGFIINKENKSHKKKFMEYLNSLLYDNKRFKKNILDFIFSYIDINQVDELGFNPLYYSVSHNNRK  272 (489)
T ss_pred             ccccCCHHHHHHHHHCCCCcccCCccccchHHHHHHHHHhhcccchHHHHHHHHhcCCCCCcCcCCccHHHHHHHcCcHH
Confidence                47899999999998877532                                  1235667999999999999999


Q ss_pred             HHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHH
Q psy1308         204 VVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       204 ~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      ++++|+++|||++.+|..|+||||+|+..++.++++.|++.+++..
T Consensus       273 ~v~~LL~~GAdin~~d~~G~TpL~~A~~~~~~~iv~~lL~~~~~~~  318 (489)
T PHA02798        273 IFEYLLQLGGDINIITELGNTCLFTAFENESKFIFNSILNKKPNKN  318 (489)
T ss_pred             HHHHHHHcCCcccccCCCCCcHHHHHHHcCcHHHHHHHHccCCCHH
Confidence            9999999999999999999999999999999999999998887765

>PHA02878 ankyrin repeat protein; Provisional

Probab=99.97  E-value=2.7e-29  Score=270.66  Aligned_cols=233  Identities=16%  Similarity=0.110  Sum_probs=188.9

Q ss_pred             hhhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHH---------------
Q psy1308           4 ILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLL---------------   68 (607)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~---------------   68 (607)
                      +.....+++..++++ ....+..+..|+||||+||..|+.+++++|+..+.....  ..+.++++               
T Consensus        45 ~~~g~~e~vk~Ll~~-gadvn~~d~~g~TpLh~A~~~g~~~~v~~Ll~~~~~~~~--~~~~~~l~~a~~~~~~ei~~~Ll  121 (477)
T PHA02878         45 VEARNLDVVKSLLTR-GHNVNQPDHRDLTPLHIICKEPNKLGMKEMIRSINKCSV--FYTLVAIKDAFNNRNVEIFKIIL  121 (477)
T ss_pred             HHcCCHHHHHHHHHC-CCCCCCCCCCCCCHHHHHHHCccHhHHHHHHHHHhcccc--ccchhhHHHHHHcCCHHHHHHHH
Confidence            334555667777754 345667788999999999999999999999875432221  11111111               


Q ss_pred             ----------------------------HHHHccCccchhccCCC-CCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCC
Q psy1308          69 ----------------------------FASACSLALTLLECQSI-KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPL  119 (607)
Q Consensus        69 ----------------------------~a~~~~~~~~~~~~~~~-g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~  119 (607)
                                                  ...+...+..++..+.. |.||||+||..|+.+++++|++.| +++|.+|..
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~Ll~~gadin~~~~~~g~tpLh~A~~~~~~~iv~~Ll~~g-ad~n~~d~~  200 (477)
T PHA02878        122 TNRYKNIQTIDLVYIDKKSKDDIIEAEITKLLLSYGADINMKDRHKGNTALHYATENKDQRLTELLLSYG-ANVNIPDKT  200 (477)
T ss_pred             hCcccCcccCcHHHHhhccchhhHHHHHHHHHHHcCCCCCccCCCCCCCHHHHHHhCCCHHHHHHHHHCC-CCCCCcCCC
Confidence                                        11233455566677777 999999999999999999999999 999999999


Q ss_pred             CCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHc-CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHH
Q psy1308         120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAE-KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYG  196 (607)
Q Consensus       120 g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~-~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A  196 (607)
                      |+||||+|+..|+.+++++|+++|++++.+|.  +||||+|+.. ++.+++++|+++|++++..+.    ..|+||||+|
T Consensus       201 g~tpLh~A~~~~~~~iv~~Ll~~ga~in~~d~~g~TpLh~A~~~~~~~~iv~~Ll~~gadvn~~~~----~~g~TpLh~A  276 (477)
T PHA02878        201 NNSPLHHAVKHYNKPIVHILLENGASTDARDKCGNTPLHISVGYCKDYDILKLLLEHGVDVNAKSY----ILGLTALHSS  276 (477)
T ss_pred             CCCHHHHHHHhCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHhcCCHHHHHHHHHcCCCCCccCC----CCCCCHHHHH
Confidence            99999999999999999999999999999775  6799999976 789999999999999987653    2499999999


Q ss_pred             HhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhh-HHHHHHHHHHhhh
Q psy1308         197 VVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN-IKQILQKYAEKYA  246 (607)
Q Consensus       197 ~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~-~~~~~~~ll~~~~  246 (607)
                        .++.+++++|+++|+|++.+|..|+||||+|+..+ ..++++.|+....
T Consensus       277 --~~~~~~v~~Ll~~gadin~~d~~g~TpL~~A~~~~~~~~~~~~li~~~~  325 (477)
T PHA02878        277 --IKSERKLKLLLEYGADINSLNSYKLTPLSSAVKQYLCINIGRILISNIC  325 (477)
T ss_pred             --ccCHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHHcCccchHHHHHHHHH
Confidence              57889999999999999999999999999999753 4567777776543

>KOG0509|consensus

Probab=99.97  E-value=1.9e-30  Score=265.39  Aligned_cols=200  Identities=27%  Similarity=0.251  Sum_probs=178.1

Q ss_pred             chHHHHHHhcCChhHHHHHhcC-CCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcC
Q psy1308          31 SSKLFYTTQSTQADFKSCLSVF-PKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENS  109 (607)
Q Consensus        31 ~t~L~~A~~~g~~~~v~~L~~~-~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~  109 (607)
                      .+-++.|++.|.++.++.|++. +..+                       +..|.+|.|+||+||.+++++++++|+++|
T Consensus        45 ~~~~v~A~q~G~l~~v~~lve~~g~~v-----------------------~~~D~~g~tlLHWAAiNNrl~v~r~li~~g  101 (600)
T KOG0509|consen   45 LDDIVKATQYGELETVKELVESEGESV-----------------------NNPDREGVTLLHWAAINNRLDVARYLISHG  101 (600)
T ss_pred             hhhhhhHhhcchHHHHHHHHhhcCcCC-----------------------CCCCcCCccceeHHHHcCcHHHHHHHHHcC
Confidence            4668999999999999999876 4333                       467889999999999999999999999999


Q ss_pred             CCCCccCC-CCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCc--hHHHHHHcCCccHHHHHHhcCCCccccCCCCcC
Q psy1308         110 KLDVNMRH-PLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFN--TVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMT  186 (607)
Q Consensus       110 ~~~~~~~d-~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~--~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d  186 (607)
                       +++|..+ ..|.|||||||++|+..+|.+|+++||||+.+|.+|  |+|.|++.++.-.+.+||.+|++++..|++   
T Consensus       102 -advn~~gG~l~stPLHWAar~G~~~vv~lLlqhGAdpt~~D~~G~~~lHla~~~~~~~~vayll~~~~d~d~~D~~---  177 (600)
T KOG0509|consen  102 -ADVNAIGGVLGSTPLHWAARNGHISVVDLLLQHGADPTLKDKQGLTPLHLAAQFGHTALVAYLLSKGADIDLRDNN---  177 (600)
T ss_pred             -CCccccCCCCCCCcchHHHHcCcHHHHHHHHHcCCCCceecCCCCcHHHHHHHhCchHHHHHHHHhcccCCCcCCC---
Confidence             9999998 678999999999999999999999999999998765  999999999999999999999999988666   


Q ss_pred             cCCcchhhHHHhcCCHHHHHHHHhcCCCCCccC-CCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccH
Q psy1308         187 FLGFSALHYGVVAGNTEVVELLLKSGADPTVKD-NSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPL  262 (607)
Q Consensus       187 ~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d-~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L  262 (607)
                        |+||||||+..|+...+..||+.|+++...| +.|.||||+|+..|+..++..+++.+++...   .+.+|.+|+
T Consensus       178 --grTpLmwAaykg~~~~v~~LL~f~a~~~~~d~~~g~TpLHwa~~~gN~~~v~Ll~~g~~~~d~---~~~~g~tp~  249 (600)
T KOG0509|consen  178 --GRTPLMWAAYKGFALFVRRLLKFGASLLLTDDNHGNTPLHWAVVGGNLTAVKLLLEGGADLDK---TNTNGKTPF  249 (600)
T ss_pred             --CCCHHHHHHHhcccHHHHHHHHhcccccccccccCCchHHHHHhcCCcceEehhhhcCCcccc---cccCCCCHH
Confidence              9999999999999988999999999999998 9999999999999999999955555555543   233456665

>PHA02874 ankyrin repeat protein; Provisional

Probab=99.96  E-value=9.5e-29  Score=263.27  Aligned_cols=236  Identities=17%  Similarity=0.157  Sum_probs=196.9

Q ss_pred             hhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcc-----------------------ccccc
Q psy1308           5 LVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIR-----------------------QSNNT   61 (607)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~-----------------------~~~~~   61 (607)
                      .....+++..++. .....+..+..|.||||+|+..|+.+++++|+..+...                       ...+.
T Consensus        44 ~~g~~~iv~~Ll~-~Ga~~n~~~~~~~t~L~~A~~~~~~~iv~~Ll~~g~~~~~~~~~~~~~~~i~~ll~~g~d~n~~~~  122 (434)
T PHA02874         44 RSGDAKIVELFIK-HGADINHINTKIPHPLLTAIKIGAHDIIKLLIDNGVDTSILPIPCIEKDMIKTILDCGIDVNIKDA  122 (434)
T ss_pred             HcCCHHHHHHHHH-CCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCcchhccCCHHHHHHHHHCcCCCCCCCC
Confidence            3445556666654 34455667788999999999999999999999876532                       23356


Q ss_pred             ccCChHHHHHHcc----------CccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcC
Q psy1308          62 CMYNNLLFASACS----------LALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAING  131 (607)
Q Consensus        62 ~~~~~l~~a~~~~----------~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g  131 (607)
                      .+.+++|.|+..+          .+..++..|..|.||||+|+..|+.+++++|+++| ++++.+|..|+||||+|+..|
T Consensus       123 ~g~T~Lh~A~~~~~~~~v~~Ll~~gad~n~~d~~g~tpLh~A~~~~~~~iv~~Ll~~g-~~~n~~~~~g~tpL~~A~~~g  201 (434)
T PHA02874        123 ELKTFLHYAIKKGDLESIKMLFEYGADVNIEDDNGCYPIHIAIKHNFFDIIKLLLEKG-AYANVKDNNGESPLHNAAEYG  201 (434)
T ss_pred             CCccHHHHHHHCCCHHHHHHHHhCCCCCCCcCCCCCCHHHHHHHCCcHHHHHHHHHCC-CCCCCCCCCCCCHHHHHHHcC
Confidence            7789999986443          44556778899999999999999999999999999 999999999999999999999


Q ss_pred             CHHHHHHHHHcCCCCCCCC--CCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcC-CHHHHHHH
Q psy1308         132 KVDNVRVLLEAGANPNLGD--LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAG-NTEVVELL  208 (607)
Q Consensus       132 ~~~~v~~Ll~~ga~~~~~d--~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g-~~~~v~~L  208 (607)
                      +.+++++|+++|++++..+  ++||||.|+..+. +++++|+ .|++++..     |..|+||||+|+..+ +.+++++|
T Consensus       202 ~~~iv~~Ll~~g~~i~~~~~~g~TpL~~A~~~~~-~~i~~Ll-~~~~in~~-----d~~G~TpLh~A~~~~~~~~iv~~L  274 (434)
T PHA02874        202 DYACIKLLIDHGNHIMNKCKNGFTPLHNAIIHNR-SAIELLI-NNASINDQ-----DIDGSTPLHHAINPPCDIDIIDIL  274 (434)
T ss_pred             CHHHHHHHHhCCCCCcCCCCCCCCHHHHHHHCCh-HHHHHHH-cCCCCCCc-----CCCCCCHHHHHHhcCCcHHHHHHH
Confidence            9999999999999998865  4679999999765 5667666 57887765     445999999999876 78999999


Q ss_pred             HhcCCCCCccCCCCCCCCcchhhhh-HHHHHHHHHHhhhhHH
Q psy1308         209 LKSGADPTVKDNSGHIPSDYAEDAN-IKQILQKYAEKYADLQ  249 (607)
Q Consensus       209 l~~gad~~~~d~~g~Tpl~~A~~~~-~~~~~~~ll~~~~~~~  249 (607)
                      +++|+|++.+|..|+||||+|+..+ ..++++.++..+....
T Consensus       275 l~~gad~n~~d~~g~TpL~~A~~~~~~~~~ik~ll~~~~~~~  316 (434)
T PHA02874        275 LYHKADISIKDNKGENPIDTAFKYINKDPVIKDIIANAVLIK  316 (434)
T ss_pred             HHCcCCCCCCCCCCCCHHHHHHHhCCccHHHHHHHHhcCchh
Confidence            9999999999999999999999887 7788898988776543

>KOG0509|consensus

Probab=99.96  E-value=2.2e-29  Score=257.65  Aligned_cols=195  Identities=24%  Similarity=0.248  Sum_probs=175.3

Q ss_pred             hHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHH
Q psy1308          11 LVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTL   90 (607)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~L   90 (607)
                      -+..++.......+..|..|-|+||+||.+++.+++++|++.++.++..                      ....+.|||
T Consensus        59 ~v~~lve~~g~~v~~~D~~g~tlLHWAAiNNrl~v~r~li~~gadvn~~----------------------gG~l~stPL  116 (600)
T KOG0509|consen   59 TVKELVESEGESVNNPDREGVTLLHWAAINNRLDVARYLISHGADVNAI----------------------GGVLGSTPL  116 (600)
T ss_pred             HHHHHHhhcCcCCCCCCcCCccceeHHHHcCcHHHHHHHHHcCCCcccc----------------------CCCCCCCcc
Confidence            3444554446666777889999999999999999999999998877632                      235788999


Q ss_pred             HHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHH
Q psy1308          91 FRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFE  168 (607)
Q Consensus        91 h~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~  168 (607)
                      |+||++|++.+|++|+++| +|++.+|.+|.||||+|++.|+..+|-+|+.+|+|++.+|.  .||||+||..|+...+.
T Consensus       117 HWAar~G~~~vv~lLlqhG-Adpt~~D~~G~~~lHla~~~~~~~~vayll~~~~d~d~~D~~grTpLmwAaykg~~~~v~  195 (600)
T KOG0509|consen  117 HWAARNGHISVVDLLLQHG-ADPTLKDKQGLTPLHLAAQFGHTALVAYLLSKGADIDLRDNNGRTPLMWAAYKGFALFVR  195 (600)
T ss_pred             hHHHHcCcHHHHHHHHHcC-CCCceecCCCCcHHHHHHHhCchHHHHHHHHhcccCCCcCCCCCCHHHHHHHhcccHHHH
Confidence            9999999999999999999 99999999999999999999999999999999999999886  56999999999988899


Q ss_pred             HHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhh
Q psy1308         169 VLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDA  232 (607)
Q Consensus       169 ~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~  232 (607)
                      .|++.|+.++..+++    .|+||||+|+..|+..++.+|++.|++.+.+|.+|.||+.+|.++
T Consensus       196 ~LL~f~a~~~~~d~~----~g~TpLHwa~~~gN~~~v~Ll~~g~~~~d~~~~~g~tp~~LA~~~  255 (600)
T KOG0509|consen  196 RLLKFGASLLLTDDN----HGNTPLHWAVVGGNLTAVKLLLEGGADLDKTNTNGKTPFDLAQER  255 (600)
T ss_pred             HHHHhcccccccccc----cCCchHHHHHhcCCcceEehhhhcCCcccccccCCCCHHHHHHHh
Confidence            999999999988644    499999999999999999977788899999999999999999887

>PHA02875 ankyrin repeat protein; Provisional

Probab=99.96  E-value=1.5e-28  Score=260.53  Aligned_cols=198  Identities=16%  Similarity=0.162  Sum_probs=169.5

Q ss_pred             hchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCC
Q psy1308           6 VQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSI   85 (607)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~   85 (607)
                      ....+++..++.. ...++..+..+.||||+|+..|+.+++++|+..+....                      ...+..
T Consensus        45 ~~~~~~v~~Ll~~-ga~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~~~~~~~----------------------~~~~~~  101 (413)
T PHA02875         45 FRDSEAIKLLMKH-GAIPDVKYPDIESELHDAVEEGDVKAVEELLDLGKFAD----------------------DVFYKD  101 (413)
T ss_pred             cCCHHHHHHHHhC-CCCccccCCCcccHHHHHHHCCCHHHHHHHHHcCCccc----------------------ccccCC
Confidence            3444555555543 34455556778999999999999999999998765432                      134567


Q ss_pred             CCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCC
Q psy1308          86 KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKK  163 (607)
Q Consensus        86 g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~  163 (607)
                      |.||||+|+..|+.+++++|++.| ++++.++..|.||||+|+..|+.+++++|+++|++++.+|.  +||||+|+..|+
T Consensus       102 g~tpL~~A~~~~~~~iv~~Ll~~g-ad~~~~~~~g~tpLh~A~~~~~~~~v~~Ll~~g~~~~~~d~~g~TpL~~A~~~g~  180 (413)
T PHA02875        102 GMTPLHLATILKKLDIMKLLIARG-ADPDIPNTDKFSPLHLAVMMGDIKGIELLIDHKACLDIEDCCGCTPLIIAMAKGD  180 (413)
T ss_pred             CCCHHHHHHHhCCHHHHHHHHhCC-CCCCCCCCCCCCHHHHHHHcCCHHHHHHHHhcCCCCCCCCCCCCCHHHHHHHcCC
Confidence            999999999999999999999999 99999999999999999999999999999999999998765  679999999999


Q ss_pred             ccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCcc---CCCCCCCCcchhh
Q psy1308         164 MNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVK---DNSGHIPSDYAED  231 (607)
Q Consensus       164 ~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~---d~~g~Tpl~~A~~  231 (607)
                      .+++++|+++|++++..+..    .+.||+|+|+..|+.+++++|+++|+|++..   +..+.||+++++.
T Consensus       181 ~eiv~~Ll~~ga~~n~~~~~----~~~t~l~~A~~~~~~~iv~~Ll~~gad~n~~~~~~~~~~t~l~~~~~  247 (413)
T PHA02875        181 IAICKMLLDSGANIDYFGKN----GCVAALCYAIENNKIDIVRLFIKRGADCNIMFMIEGEECTILDMICN  247 (413)
T ss_pred             HHHHHHHHhCCCCCCcCCCC----CCchHHHHHHHcCCHHHHHHHHHCCcCcchHhhcCCCchHHHHHHHh
Confidence            99999999999999987554    1468999999999999999999999999876   6778899987653

>PHA02859 ankyrin repeat protein; Provisional

Probab=99.96  E-value=1.1e-28  Score=234.55  Aligned_cols=175  Identities=18%  Similarity=0.196  Sum_probs=153.9

Q ss_pred             CcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcC--CHHHHHH
Q psy1308          27 RGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYG--SAKELKT  104 (607)
Q Consensus        27 ~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g--~~~~v~~  104 (607)
                      .+.+.||||+|+..|+.++++.|+...                          +..+..|.||||+|+..+  +.+++++
T Consensus        18 ~~~~~~pL~~A~~~~~~~~vk~Li~~~--------------------------n~~~~~g~TpLh~a~~~~~~~~eiv~~   71 (209)
T PHA02859         18 FYRYCNPLFYYVEKDDIEGVKKWIKFV--------------------------NDCNDLYETPIFSCLEKDKVNVEILKF   71 (209)
T ss_pred             hhccCcHHHHHHHhCcHHHHHHHHHhh--------------------------hccCccCCCHHHHHHHcCCCCHHHHHH
Confidence            345689999999999999999997431                          356788999999999865  8999999


Q ss_pred             HHhcCCCCCccCC-CCCCcHHHHHHHc---CCHHHHHHHHHcCCCCCCCCC--CchHHHHHHc--CCccHHHHHHhcCCC
Q psy1308         105 FIENSKLDVNMRH-PLGWTPLHVAAIN---GKVDNVRVLLEAGANPNLGDL--FNTVHRTAAE--KKMNPFEVLLKREDE  176 (607)
Q Consensus       105 Ll~~~~~~~~~~d-~~g~tpLh~A~~~---g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~--~~~~~~~~Ll~~g~~  176 (607)
                      |+++| +++|.++ ..|+||||+|+..   ++.+++++|+++|+++|.+|.  .||||+|+..  ++.+++++|+++|++
T Consensus        72 Ll~~g-advn~~~~~~g~TpLh~a~~~~~~~~~eiv~~Ll~~gadin~~d~~G~TpLh~a~~~~~~~~~iv~~Li~~gad  150 (209)
T PHA02859         72 LIENG-ADVNFKTRDNNLSALHHYLSFNKNVEPEILKILIDSGSSITEEDEDGKNLLHMYMCNFNVRINVIKLLIDSGVS  150 (209)
T ss_pred             HHHCC-CCCCccCCCCCCCHHHHHHHhCccccHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHhccCCHHHHHHHHHcCCC
Confidence            99999 9999997 4899999998864   479999999999999999765  6799998864  678999999999999


Q ss_pred             ccccCCCCcCcCCcchhhH-HHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhh
Q psy1308         177 FNDVLNPNMTFLGFSALHY-GVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN  233 (607)
Q Consensus       177 ~~~~~~~~~d~~g~TpLh~-A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~  233 (607)
                      ++..+.     .|.||||. |+..++.+++++|+++|+|++.+|..|+||||+|...+
T Consensus       151 in~~d~-----~g~t~Lh~~a~~~~~~~iv~~Ll~~Gadi~~~d~~g~tpl~la~~~~  203 (209)
T PHA02859        151 FLNKDF-----DNNNILYSYILFHSDKKIFDFLTSLGIDINETNKSGYNCYDLIKFRN  203 (209)
T ss_pred             cccccC-----CCCcHHHHHHHhcCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHhhhh
Confidence            987744     49999995 56788999999999999999999999999999998765

>PHA02876 ankyrin repeat protein; Provisional

Probab=99.96  E-value=2.3e-28  Score=274.74  Aligned_cols=253  Identities=23%  Similarity=0.220  Sum_probs=211.5

Q ss_pred             hhhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCC-----------------------------
Q psy1308           4 ILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPK-----------------------------   54 (607)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~-----------------------------   54 (607)
                      +.....+++..+++. ....+..+..|.||||+|+..|+.+++++|+....                             
T Consensus       186 a~~G~~~iv~~LL~~-Gad~n~~~~~g~t~L~~A~~~~~~~ivk~Ll~~~~~~~~~~~~L~~ai~~~~~~~~~~Ll~~g~  264 (682)
T PHA02876        186 AERGNAKMVNLLLSY-GADVNIIALDDLSVLECAVDSKNIDTIKAIIDNRSNINKNDLSLLKAIRNEDLETSLLLYDAGF  264 (682)
T ss_pred             HHCCCHHHHHHHHHC-CCCcCccCCCCCCHHHHHHHcCCHHHHHHHHhcCCCCCCCcHHHHHHHHcCCHHHHHHHHHCCC
Confidence            344455566666543 44455667788999999999999999888775443                             


Q ss_pred             cccccccccCChHHHHHHccC-----------ccchhccCCCCCHHHHHHHHcC-CHHHHHHHHhcCCCCCccCCCCCCc
Q psy1308          55 IRQSNNTCMYNNLLFASACSL-----------ALTLLECQSIKDLTLFRAARYG-SAKELKTFIENSKLDVNMRHPLGWT  122 (607)
Q Consensus        55 ~~~~~~~~~~~~l~~a~~~~~-----------~~~~~~~~~~g~t~Lh~A~~~g-~~~~v~~Ll~~~~~~~~~~d~~g~t  122 (607)
                      .....+.++.+++|+|+..+.           +..++..|..|.||||+|+..| +.++++.|+..| ++++.+|..|.|
T Consensus       265 ~vn~~d~~g~TpLh~Aa~~~~~~~iv~lLl~~gadin~~d~~g~TpLh~Aa~~g~~~~~v~~Ll~~g-adin~~d~~g~T  343 (682)
T PHA02876        265 SVNSIDDCKNTPLHHASQAPSLSRLVPKLLERGADVNAKNIKGETPLYLMAKNGYDTENIRTLIMLG-ADVNAADRLYIT  343 (682)
T ss_pred             CCCCCCCCCCCHHHHHHhCCCHHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHhCCCHHHHHHHHHcC-CCCCCcccCCCc
Confidence            233445678999999875443           3345678899999999999999 699999999999 999999999999


Q ss_pred             HHHHHHHc-CCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhc
Q psy1308         123 PLHVAAIN-GKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA  199 (607)
Q Consensus       123 pLh~A~~~-g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~  199 (607)
                      |||+|+.. ++.+++++|+++|++++.+|.  +||||+|+..|+.+++++|+++|++++..+..     |.||||+|+..
T Consensus       344 pLh~A~~~~~~~~iv~lLl~~gadin~~d~~G~TpLh~Aa~~~~~~iv~~Ll~~gad~~~~~~~-----g~T~Lh~A~~~  418 (682)
T PHA02876        344 PLHQASTLDRNKDIVITLLELGANVNARDYCDKTPIHYAAVRNNVVIINTLLDYGADIEALSQK-----IGTALHFALCG  418 (682)
T ss_pred             HHHHHHHhCCcHHHHHHHHHcCCCCccCCCCCCCHHHHHHHcCCHHHHHHHHHCCCCccccCCC-----CCchHHHHHHc
Confidence            99999985 578999999999999999775  67999999999999999999999999887554     99999999976


Q ss_pred             CC-HHHHHHHHhcCCCCCccCCCCCCCCcchhhhh-HHHHHHHHHHhhhhHHhhHHHhhcccccHHHHH
Q psy1308         200 GN-TEVVELLLKSGADPTVKDNSGHIPSDYAEDAN-IKQILQKYAEKYADLQREKEAEERRKYPLEQRL  266 (607)
Q Consensus       200 g~-~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~-~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l  266 (607)
                      ++ ..++++|+++|++++.+|..|+||||+|+..+ +.+++++|++.|++..   ..+..+.+|+..+.
T Consensus       419 ~~~~~~vk~Ll~~gadin~~d~~G~TpLh~Aa~~~~~~~iv~lLl~~Gad~n---~~d~~g~tpl~~a~  484 (682)
T PHA02876        419 TNPYMSVKTLIDRGANVNSKNKDLSTPLHYACKKNCKLDVIEMLLDNGADVN---AINIQNQYPLLIAL  484 (682)
T ss_pred             CCHHHHHHHHHhCCCCCCcCCCCCChHHHHHHHhCCcHHHHHHHHHCCCCCC---CCCCCCCCHHHHHH
Confidence            65 56799999999999999999999999999876 6899999999999876   44678889986554

>KOG0508|consensus

Probab=99.95  E-value=1.2e-28  Score=241.40  Aligned_cols=198  Identities=21%  Similarity=0.275  Sum_probs=172.9

Q ss_pred             CcCCchHHHHHHhcCChhHHHHHhcCCC-cccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHH
Q psy1308          27 RGFQSSKLFYTTQSTQADFKSCLSVFPK-IRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTF  105 (607)
Q Consensus        27 ~~~g~t~L~~A~~~g~~~~v~~L~~~~~-~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~L  105 (607)
                      ...|.|||..||++||.++|++|++... .......               ....-....|.+||-.|+..||+++|+.|
T Consensus        39 ~~~g~tPL~iaaRnGH~~vVeyLle~~~a~~e~~Gs---------------V~FDge~IegappLWaAsaAGHl~vVk~L  103 (615)
T KOG0508|consen   39 VQNGGTPLLIAARNGHADVVEYLLEHCRASPEQGGS---------------VRFDGETIEGAPPLWAASAAGHLEVVKLL  103 (615)
T ss_pred             ccCCCCceeeehhcCcHHHHHHHHHHhcCCccCCce---------------EEeCCcccCCCchhhHHhccCcHHHHHHH
Confidence            4457899999999999999999998532 2222111               11123346789999999999999999999


Q ss_pred             HhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCC
Q psy1308         106 IENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNP  183 (607)
Q Consensus       106 l~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~  183 (607)
                      ++++ +++|.......|||--||..|+.++||+|+++|+|+++.|.  .|.||+||..|+.+++++|++.|+|+|.+...
T Consensus       104 ~~~g-a~VN~tT~TNStPLraACfDG~leivKyLvE~gad~~IanrhGhTcLmIa~ykGh~~I~qyLle~gADvn~ks~k  182 (615)
T KOG0508|consen  104 LRRG-ASVNDTTRTNSTPLRAACFDGHLEIVKYLVEHGADPEIANRHGHTCLMIACYKGHVDIAQYLLEQGADVNAKSYK  182 (615)
T ss_pred             HHhc-CccccccccCCccHHHHHhcchhHHHHHHHHcCCCCcccccCCCeeEEeeeccCchHHHHHHHHhCCCcchhccc
Confidence            9999 99999998899999999999999999999999999999776  56999999999999999999999999988544


Q ss_pred             CcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhh
Q psy1308         184 NMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYA  246 (607)
Q Consensus       184 ~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~  246 (607)
                           |+|+||.|++.|+.+++++|+++|+.+.. |..|.|||..|+..|+.++|.+|+....
T Consensus       183 -----GNTALH~caEsG~vdivq~Ll~~ga~i~~-d~~GmtPL~~Aa~tG~~~iVe~L~~~~~  239 (615)
T KOG0508|consen  183 -----GNTALHDCAESGSVDIVQLLLKHGAKIDV-DGHGMTPLLLAAVTGHTDIVERLLQCET  239 (615)
T ss_pred             -----CchHHHhhhhcccHHHHHHHHhCCceeee-cCCCCchHHHHhhhcchHHHHHHhcCCc
Confidence                 99999999999999999999999998865 5669999999999999999999996433

>PHA02917 ankyrin-like protein; Provisional

Probab=99.95  E-value=8.4e-27  Score=255.73  Aligned_cols=217  Identities=12%  Similarity=0.090  Sum_probs=180.8

Q ss_pred             CCCCcCCchHHHHHHhc---CChhHHHHHhcCCCcccccccccCChHHHHHHccCcc-------ch-hc---cC-CCCCH
Q psy1308          24 PYKRGFQSSKLFYTTQS---TQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLAL-------TL-LE---CQ-SIKDL   88 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~---g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~-------~~-~~---~~-~~g~t   88 (607)
                      +.++..|+||||+||..   |+.+++++|+..+......+..+.++++.|+..++..       .+ ..   .+ .+..+
T Consensus        26 ~~~d~~g~t~Lh~a~~~~~~~~~~~v~~Ll~~ga~v~~~~~~g~TpL~~Aa~~g~~~v~~~~~~~Ll~~~~~~n~~~~~~  105 (661)
T PHA02917         26 DTRNQFKNNALHAYLFNEHCNNVEVVKLLLDSGTNPLHKNWRQLTPLEEYTNSRHVKVNKDIAMALLEATGYSNINDFNI  105 (661)
T ss_pred             cccCCCCCcHHHHHHHhhhcCcHHHHHHHHHCCCCccccCCCCCCHHHHHHHcCChhHHHHHHHHHHhccCCCCCCCcch
Confidence            44588999999997555   8899999999999999988999999999998766521       11 11   11 12347


Q ss_pred             HHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHH--HcCCHHHHHHHHHcCCCCCCCCC---------------
Q psy1308          89 TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAA--INGKVDNVRVLLEAGANPNLGDL---------------  151 (607)
Q Consensus        89 ~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~--~~g~~~~v~~Ll~~ga~~~~~d~---------------  151 (607)
                      ++|+|+.+|+.++|++|+++| +|+|.+|..|+||||+|+  ..|+.++|++|+++|+++|..|.               
T Consensus       106 ~~~~a~~~~~~e~vk~Ll~~G-adin~~d~~g~T~L~~~~a~~~~~~eivklLi~~Ga~vn~~d~~~~~g~~~~~~~~~~  184 (661)
T PHA02917        106 FSYMKSKNVDVDLIKVLVEHG-FDLSVKCENHRSVIENYVMTDDPVPEIIDLFIENGCSVLYEDEDDEYGYAYDDYQPRN  184 (661)
T ss_pred             HHHHHhhcCCHHHHHHHHHcC-CCCCccCCCCccHHHHHHHccCCCHHHHHHHHHcCCCccccccccccccccccccccc
Confidence            788899999999999999999 999999999999999654  57899999999999999986542               


Q ss_pred             -CchHHHHHH-----------cCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCH--HHHHHHHhcCCCCC-
Q psy1308         152 -FNTVHRTAA-----------EKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNT--EVVELLLKSGADPT-  216 (607)
Q Consensus       152 -~~~l~~A~~-----------~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~--~~v~~Ll~~gad~~-  216 (607)
                       .||||+|+.           .++.+++++|+++|++++..+..     |+||||+|+.+|+.  ++|++|++ |++++ 
T Consensus       185 ~~t~L~~a~~~~~~~~~~~~~~~~~eiv~~Li~~Gadvn~~d~~-----G~TpLh~A~~~g~~~~eivk~Li~-g~d~~~  258 (661)
T PHA02917        185 CGTVLHLYIISHLYSESDTRAYVRPEVVKCLINHGIKPSSIDKN-----YCTALQYYIKSSHIDIDIVKLLMK-GIDNTA  258 (661)
T ss_pred             cccHHHHHHhhcccccccccccCcHHHHHHHHHCCCCcccCCCC-----CCcHHHHHHHcCCCcHHHHHHHHh-CCcccc
Confidence             489999986           45889999999999999987544     99999999999985  79999985 88875 


Q ss_pred             ---ccCCCCCCCCcchhhh---------hHHHHHHHHHHhhhh
Q psy1308         217 ---VKDNSGHIPSDYAEDA---------NIKQILQKYAEKYAD  247 (607)
Q Consensus       217 ---~~d~~g~Tpl~~A~~~---------~~~~~~~~ll~~~~~  247 (607)
                         ..|..|.||+++|+.-         ...++++.|++.|++
T Consensus       259 ~~~~~~~~~~~~~~~a~yl~~~~~~~~~v~~~iv~~Li~~Ga~  301 (661)
T PHA02917        259 YSYIDDLTCCTRGIMADYLNSDYRYNKDVDLDLVKLFLENGKP  301 (661)
T ss_pred             cccccCcccccchHHHHHHHhhccccccchHHHHHHHHhCCCC
Confidence               4677889999999842         177999999999976

>PHA02798 ankyrin-like protein; Provisional

Probab=99.95  E-value=8.8e-27  Score=251.57  Aligned_cols=189  Identities=20%  Similarity=0.221  Sum_probs=164.0

Q ss_pred             HHccCccchhccCCCCCHHHHHHHHc-----CCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcC---CHHHHHHHHHc
Q psy1308          71 SACSLALTLLECQSIKDLTLFRAARY-----GSAKELKTFIENSKLDVNMRHPLGWTPLHVAAING---KVDNVRVLLEA  142 (607)
Q Consensus        71 ~~~~~~~~~~~~~~~g~t~Lh~A~~~-----g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g---~~~~v~~Ll~~  142 (607)
                      .++..+..++..+..|.||||.|+.+     ++.+++++|+++| +|+|.+|..|+||||+|+..+   +.+++++|+++
T Consensus        56 ~Ll~~Gadvn~~d~~g~TpL~~~~~n~~~~~~~~~iv~~Ll~~G-adiN~~d~~G~TpLh~a~~~~~~~~~~iv~~Ll~~  134 (489)
T PHA02798         56 LFINLGANVNGLDNEYSTPLCTILSNIKDYKHMLDIVKILIENG-ADINKKNSDGETPLYCLLSNGYINNLEILLFMIEN  134 (489)
T ss_pred             HHHHCCCCCCCCCCCCCChHHHHHHhHHhHHhHHHHHHHHHHCC-CCCCCCCCCcCcHHHHHHHcCCcChHHHHHHHHHc
Confidence            45667778888999999999999875     6799999999999 999999999999999999986   78999999999


Q ss_pred             CCCCCCCCC--CchHHHHHHcCC---ccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhc----CCHHHHHHHHhcCC
Q psy1308         143 GANPNLGDL--FNTVHRTAAEKK---MNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA----GNTEVVELLLKSGA  213 (607)
Q Consensus       143 ga~~~~~d~--~~~l~~A~~~~~---~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~----g~~~~v~~Ll~~ga  213 (607)
                      |++++..|.  +||||+|+..++   .+++++|+++|++++..++.    .|.||||.++..    ++.+++++|+++|+
T Consensus       135 Gadvn~~d~~g~tpL~~a~~~~~~~~~~vv~~Ll~~gadin~~~~~----~~~t~Lh~~~~~~~~~~~~~ivk~Li~~Ga  210 (489)
T PHA02798        135 GADTTLLDKDGFTMLQVYLQSNHHIDIEIIKLLLEKGVDINTHNNK----EKYDTLHCYFKYNIDRIDADILKLFVDNGF  210 (489)
T ss_pred             CCCccccCCCCCcHHHHHHHcCCcchHHHHHHHHHhCCCcccccCc----CCCcHHHHHHHhccccCCHHHHHHHHHCCC
Confidence            999999765  679999999998   89999999999999876432    389999988764    47889999888876


Q ss_pred             CC---------------------------------------CccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHH
Q psy1308         214 DP---------------------------------------TVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEA  254 (607)
Q Consensus       214 d~---------------------------------------~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~  254 (607)
                      ++                                       |.+|..|+||||+|+..++.+++++|++.|++..   ..
T Consensus       211 ~i~~~~~~~~~~~~~~l~~l~~~~~~~~~~i~~~l~~~~dvN~~d~~G~TPL~~A~~~~~~~~v~~LL~~GAdin---~~  287 (489)
T PHA02798        211 IINKENKSHKKKFMEYLNSLLYDNKRFKKNILDFIFSYIDINQVDELGFNPLYYSVSHNNRKIFEYLLQLGGDIN---II  287 (489)
T ss_pred             CcccCCccccchHHHHHHHHHhhcccchHHHHHHHHhcCCCCCcCcCCccHHHHHHHcCcHHHHHHHHHcCCccc---cc
Confidence            44                                       4567789999999999999999999999999976   45


Q ss_pred             hhcccccHHHHHH
Q psy1308         255 EERRKYPLEQRLK  267 (607)
Q Consensus       255 ~~~~~~~L~~~l~  267 (607)
                      +..|.+||..+..
T Consensus       288 d~~G~TpL~~A~~  300 (489)
T PHA02798        288 TELGNTCLFTAFE  300 (489)
T ss_pred             CCCCCcHHHHHHH
Confidence            6788999966654

>KOG0508|consensus

Probab=99.94  E-value=2.7e-27  Score=232.07  Aligned_cols=216  Identities=17%  Similarity=0.236  Sum_probs=178.7

Q ss_pred             HHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCcc
Q psy1308          36 YTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNM  115 (607)
Q Consensus        36 ~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~  115 (607)
                      -|++.|+...+..|+.......                  ...+.....+|.|||..||++||.++|++|+++.++++..
T Consensus        10 naa~~g~l~~l~~ll~~~s~~e------------------i~~l~~~~~~g~tPL~iaaRnGH~~vVeyLle~~~a~~e~   71 (615)
T KOG0508|consen   10 NAARDGKLQLLAKLLINSSNEE------------------IISLIGEVQNGGTPLLIAARNGHADVVEYLLEHCRASPEQ   71 (615)
T ss_pred             HHhhhhhHHHHHHHHhCCchHH------------------HHHHhccccCCCCceeeehhcCcHHHHHHHHHHhcCCccC
Confidence            5677777777776654422100                  1112245678889999999999999999999976677665


Q ss_pred             CC--------CCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCc
Q psy1308         116 RH--------PLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNM  185 (607)
Q Consensus       116 ~d--------~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~  185 (607)
                      ..        ..|-+||-.|+..||.++|+.|+++|+++|....  .|||.-||..|+.+++++|+++|+|++..+..  
T Consensus        72 ~GsV~FDge~IegappLWaAsaAGHl~vVk~L~~~ga~VN~tT~TNStPLraACfDG~leivKyLvE~gad~~Ianrh--  149 (615)
T KOG0508|consen   72 GGSVRFDGETIEGAPPLWAASAAGHLEVVKLLLRRGASVNDTTRTNSTPLRAACFDGHLEIVKYLVEHGADPEIANRH--  149 (615)
T ss_pred             CceEEeCCcccCCCchhhHHhccCcHHHHHHHHHhcCccccccccCCccHHHHHhcchhHHHHHHHHcCCCCcccccC--
Confidence            42        4688999999999999999999999999998543  57999999999999999999999999988555  


Q ss_pred             CcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHH
Q psy1308         186 TFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQR  265 (607)
Q Consensus       186 d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~  265 (607)
                         |.|.||+||..||.+++++|++.|||+|.++..|+|+||.|++.|+.++++.|+..++.+.    .+..|.+||.  
T Consensus       150 ---GhTcLmIa~ykGh~~I~qyLle~gADvn~ks~kGNTALH~caEsG~vdivq~Ll~~ga~i~----~d~~GmtPL~--  220 (615)
T KOG0508|consen  150 ---GHTCLMIACYKGHVDIAQYLLEQGADVNAKSYKGNTALHDCAESGSVDIVQLLLKHGAKID----VDGHGMTPLL--  220 (615)
T ss_pred             ---CCeeEEeeeccCchHHHHHHHHhCCCcchhcccCchHHHhhhhcccHHHHHHHHhCCceee----ecCCCCchHH--
Confidence               9999999999999999999999999999999999999999999999999999999998875    3667999993  


Q ss_pred             HHhHhhhhHHHHHHHH
Q psy1308         266 LKDRIVGQESAINIIS  281 (607)
Q Consensus       266 l~~~i~Gq~~ai~~l~  281 (607)
                       ....-|....++.+.
T Consensus       221 -~Aa~tG~~~iVe~L~  235 (615)
T KOG0508|consen  221 -LAAVTGHTDIVERLL  235 (615)
T ss_pred             -HHhhhcchHHHHHHh
Confidence             334556666666554

>PHA02795 ankyrin-like protein; Provisional

Probab=99.94  E-value=1.4e-26  Score=236.30  Aligned_cols=189  Identities=13%  Similarity=0.096  Sum_probs=163.4

Q ss_pred             HHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHH--cCCHHHHHHHHhcCCCCC
Q psy1308          36 YTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAAR--YGSAKELKTFIENSKLDV  113 (607)
Q Consensus        36 ~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~--~g~~~~v~~Ll~~~~~~~  113 (607)
                      +|+..+..+++++|+..+.......                 .+...+..++|+||+|+.  .|+.++|++|+++| +|+
T Consensus        83 ~~~~~~~k~~~~~l~s~~~~~~~~~-----------------~~~~~~~~~~~~L~~~~~n~~n~~eiV~~LI~~G-ADI  144 (437)
T PHA02795         83 LFAYITYKDIISALVSKNYMEDIFS-----------------IIIKNCNSVQDLLLYYLSNAYVEIDIVDFMVDHG-AVI  144 (437)
T ss_pred             HHhhcchHHHHHHHHhcccccchhh-----------------hhhhccccccHHHHHHHHhcCCCHHHHHHHHHCC-CCC
Confidence            8888888899998888776544210                 001356779999999999  89999999999999 999


Q ss_pred             ccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCC--------CCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCc
Q psy1308         114 NMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG--------DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNM  185 (607)
Q Consensus       114 ~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~--------d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~  185 (607)
                      +..  ++.||||+|+..++.+++++|+++|++.+..        .+.+++|.|+..++.+++++|+++|+++|..+.   
T Consensus       145 n~~--~~~t~lh~A~~~~~~eIVk~Lls~Ga~~~n~~~~~l~~~~~~t~l~~a~~~~~~eIve~LIs~GADIN~kD~---  219 (437)
T PHA02795        145 YKI--ECLNAYFRGICKKESSVVEFILNCGIPDENDVKLDLYKIIQYTRGFLVDEPTVLEIYKLCIPYIEDINQLDA---  219 (437)
T ss_pred             CCC--CCCCHHHHHHHcCcHHHHHHHHhcCCcccccccchhhhhhccchhHHHHhcCHHHHHHHHHhCcCCcCcCCC---
Confidence            985  4589999999999999999999999854322        145689999999999999999999999998754   


Q ss_pred             CcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhh--------HHHHHHHHHHhhhhHH
Q psy1308         186 TFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN--------IKQILQKYAEKYADLQ  249 (607)
Q Consensus       186 d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~--------~~~~~~~ll~~~~~~~  249 (607)
                        .|.||||+|+..|+.+++++|+++||+++.+|..|+||||+|+..|        +.+++++|+++|++..
T Consensus       220 --~G~TpLh~Aa~~g~~eiVelLL~~GAdIN~~d~~G~TpLh~Aa~~g~~~~~~~~~~eIvelLL~~gadI~  289 (437)
T PHA02795        220 --GGRTLLYRAIYAGYIDLVSWLLENGANVNAVMSNGYTCLDVAVDRGSVIARRETHLKILEILLREPLSID  289 (437)
T ss_pred             --CCCCHHHHHHHcCCHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHcCCcccccccHHHHHHHHHhCCCCCC
Confidence              4999999999999999999999999999999999999999999988        5799999999988765

>PHA02859 ankyrin repeat protein; Provisional

Probab=99.94  E-value=2.8e-26  Score=218.11  Aligned_cols=176  Identities=18%  Similarity=0.125  Sum_probs=152.1

Q ss_pred             CCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcC--CHHHHHHHHHcCCCCCCCC---CCchHHH
Q psy1308          83 QSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAING--KVDNVRVLLEAGANPNLGD---LFNTVHR  157 (607)
Q Consensus        83 ~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g--~~~~v~~Ll~~ga~~~~~d---~~~~l~~  157 (607)
                      .+.+.||||+|+..|+.++|+.|++.    ++..|..|.||||+|+..+  +.+++++|+++|++++.++   ++||||+
T Consensus        18 ~~~~~~pL~~A~~~~~~~~vk~Li~~----~n~~~~~g~TpLh~a~~~~~~~~eiv~~Ll~~gadvn~~~~~~g~TpLh~   93 (209)
T PHA02859         18 FYRYCNPLFYYVEKDDIEGVKKWIKF----VNDCNDLYETPIFSCLEKDKVNVEILKFLIENGADVNFKTRDNNLSALHH   93 (209)
T ss_pred             hhccCcHHHHHHHhCcHHHHHHHHHh----hhccCccCCCHHHHHHHcCCCCHHHHHHHHHCCCCCCccCCCCCCCHHHH
Confidence            45678999999999999999999975    4678899999999999855  8999999999999999874   4689999


Q ss_pred             HHHc---CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHh--cCCHHHHHHHHhcCCCCCccCCCCCCCCcc-hhh
Q psy1308         158 TAAE---KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVV--AGNTEVVELLLKSGADPTVKDNSGHIPSDY-AED  231 (607)
Q Consensus       158 A~~~---~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~--~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~-A~~  231 (607)
                      |+..   ++.+++++|+++|++++..+.     .|.||||+|+.  .++.+++++|+++|++++.+|..|.||||. |+.
T Consensus        94 a~~~~~~~~~eiv~~Ll~~gadin~~d~-----~G~TpLh~a~~~~~~~~~iv~~Li~~gadin~~d~~g~t~Lh~~a~~  168 (209)
T PHA02859         94 YLSFNKNVEPEILKILIDSGSSITEEDE-----DGKNLLHMYMCNFNVRINVIKLLIDSGVSFLNKDFDNNNILYSYILF  168 (209)
T ss_pred             HHHhCccccHHHHHHHHHCCCCCCCcCC-----CCCCHHHHHHHhccCCHHHHHHHHHcCCCcccccCCCCcHHHHHHHh
Confidence            8864   478999999999999987744     49999999876  468999999999999999999999999995 566


Q ss_pred             hhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHh
Q psy1308         232 ANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRI  270 (607)
Q Consensus       232 ~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i  270 (607)
                      .++.+++++|++.|++..   ..+..+.+|+.-+..+.+
T Consensus       169 ~~~~~iv~~Ll~~Gadi~---~~d~~g~tpl~la~~~~~  204 (209)
T PHA02859        169 HSDKKIFDFLTSLGIDIN---ETNKSGYNCYDLIKFRNL  204 (209)
T ss_pred             cCCHHHHHHHHHcCCCCC---CCCCCCCCHHHHHhhhhh
Confidence            789999999999999876   446788899966655443

>PHA02989 ankyrin repeat protein; Provisional

Probab=99.94  E-value=7e-26  Score=244.88  Aligned_cols=219  Identities=16%  Similarity=0.153  Sum_probs=177.1

Q ss_pred             hcCChhHHHHHhcCCCcccccccccCChHHHHHHc------------cCccchhccCCCCCHHHHHHHHcC------CHH
Q psy1308          39 QSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASAC------------SLALTLLECQSIKDLTLFRAARYG------SAK  100 (607)
Q Consensus        39 ~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~------------~~~~~~~~~~~~g~t~Lh~A~~~g------~~~  100 (607)
                      .....+++++|++.|..++.. ..+.++++.+...            ..+..++..+ .+.||||.|+.++      +.+
T Consensus        12 ~~~~~~~v~~LL~~GadvN~~-~~g~t~l~~~~~~~~~~~~iv~~Ll~~GAdvn~~~-~~~tpL~~a~~~~~~~~~~~~~   89 (494)
T PHA02989         12 DTVDKNALEFLLRTGFDVNEE-YRGNSILLLYLKRKDVKIKIVKLLIDNGADVNYKG-YIETPLCAVLRNREITSNKIKK   89 (494)
T ss_pred             CcCcHHHHHHHHHcCCCcccc-cCCCCHHHHHHhcCCCChHHHHHHHHcCCCccCCC-CCCCcHHHHHhccCcchhhHHH
Confidence            357899999999999988776 4567777654322            3344445444 5799999998765      468


Q ss_pred             HHHHHHhcCCCCCccCCCCCCcHHHHHHHc---CCHHHHHHHHHcCCCC-CCCC--CCchHHHHHHc--CCccHHHHHHh
Q psy1308         101 ELKTFIENSKLDVNMRHPLGWTPLHVAAIN---GKVDNVRVLLEAGANP-NLGD--LFNTVHRTAAE--KKMNPFEVLLK  172 (607)
Q Consensus       101 ~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~---g~~~~v~~Ll~~ga~~-~~~d--~~~~l~~A~~~--~~~~~~~~Ll~  172 (607)
                      +|++|+++| +|+|.+|..|+||||+|+..   |+.+++++|+++|+|+ +..|  ++||||+|+..  ++.+++++|++
T Consensus        90 iv~~Ll~~G-adin~~d~~g~tpL~~a~~~~~~~~~eiv~~Ll~~Gadin~~~d~~g~tpLh~a~~~~~~~~~iv~~Ll~  168 (494)
T PHA02989         90 IVKLLLKFG-ADINLKTFNGVSPIVCFIYNSNINNCDMLRFLLSKGINVNDVKNSRGYNLLHMYLESFSVKKDVIKILLS  168 (494)
T ss_pred             HHHHHHHCC-CCCCCCCCCCCcHHHHHHHhcccCcHHHHHHHHHCCCCcccccCCCCCCHHHHHHHhccCCHHHHHHHHH
Confidence            999999999 99999999999999998765   6899999999999999 6655  56799998765  57899999999


Q ss_pred             cCCCccccCCCCcCcCCcchhhHHHhcC----CHHHHHHHHhcCCCCCcc------------------------------
Q psy1308         173 REDEFNDVLNPNMTFLGFSALHYGVVAG----NTEVVELLLKSGADPTVK------------------------------  218 (607)
Q Consensus       173 ~g~~~~~~~~~~~d~~g~TpLh~A~~~g----~~~~v~~Ll~~gad~~~~------------------------------  218 (607)
                      +|++++...    +..|.||||+|+..+    +.+++++|+++|++++.+                              
T Consensus       169 ~Gadi~~~~----~~~g~tpL~~a~~~~~~~~~~~iv~~Ll~~Ga~vn~~~~~~~t~l~~~~~~~~~~~~~~~~il~~l~  244 (494)
T PHA02989        169 FGVNLFEKT----SLYGLTPMNIYLRNDIDVISIKVIKYLIKKGVNIETNNNGSESVLESFLDNNKILSKKEFKVLNFIL  244 (494)
T ss_pred             cCCCccccc----cccCCChHHHHHhcccccccHHHHHHHHhCCCCccccCCccccHHHHHHHhchhhcccchHHHHHHH
Confidence            999988631    345999999997764    899999999999876544                              


Q ss_pred             --------CCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHH
Q psy1308         219 --------DNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLK  267 (607)
Q Consensus       219 --------d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~  267 (607)
                              |..|+||||+|+..++.+++++|++.|++..   ..+..|.+||+.+..
T Consensus       245 ~~advn~~d~~G~TpL~~Aa~~~~~~~v~~LL~~Gadin---~~d~~G~TpL~~A~~  298 (494)
T PHA02989        245 KYIKINKKDKKGFNPLLISAKVDNYEAFNYLLKLGDDIY---NVSKDGDTVLTYAIK  298 (494)
T ss_pred             hCCCCCCCCCCCCCHHHHHHHhcCHHHHHHHHHcCCCcc---ccCCCCCCHHHHHHH
Confidence                    4568999999999999999999999998876   446778888866554

>KOG4177|consensus

Probab=99.93  E-value=1e-26  Score=257.19  Aligned_cols=219  Identities=21%  Similarity=0.241  Sum_probs=156.2

Q ss_pred             CCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHcc-----------CccchhccCCCCCHHHH
Q psy1308          23 KPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACS-----------LALTLLECQSIKDLTLF   91 (607)
Q Consensus        23 ~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~-----------~~~~~~~~~~~g~t~Lh   91 (607)
                      ++..+.-|-||||.|+.+++.++++.++..+.........+++++|++...+           .+...+.....|.||||
T Consensus       400 ~~~~gk~gvTplh~aa~~~~~~~v~l~l~~gA~~~~~~~lG~T~lhvaa~~g~~~~~~~~l~~~g~~~n~~s~~G~T~Lh  479 (1143)
T KOG4177|consen  400 PNSAGKNGVTPLHVAAHYGNPRVVKLLLKRGASPNAKAKLGYTPLHVAAKKGRYLQIARLLLQYGADPNAVSKQGFTPLH  479 (1143)
T ss_pred             cccCCCCCcceeeehhhccCcceEEEEeccCCChhhHhhcCCChhhhhhhcccHhhhhhhHhhcCCCcchhccccCcchh
Confidence            4444555555555555555555555555555555555555555555554333           11223444455666666


Q ss_pred             HHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHH
Q psy1308          92 RAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEV  169 (607)
Q Consensus        92 ~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~  169 (607)
                      .|+..|+.++++.|++.+ +..+.....|.|+||+|...+...+++.++++|++++.+++  +||||.|+.+|++++|++
T Consensus       480 laaq~Gh~~~~~llle~~-~~~~~~~~~~l~~lhla~~~~~v~~~~~l~~~ga~v~~~~~r~~TpLh~A~~~g~v~~Vkf  558 (1143)
T KOG4177|consen  480 LAAQEGHTEVVQLLLEGG-ANDNLDAKKGLTPLHLAADEDTVKVAKILLEHGANVDLRTGRGYTPLHVAVHYGNVDLVKF  558 (1143)
T ss_pred             hhhccCCchHHHHhhhcC-CccCccchhccchhhhhhhhhhHHHHHHHhhcCCceehhcccccchHHHHHhcCCchHHHH
Confidence            666666666666666655 55555555666666666666666666666666777766555  579999999999999999


Q ss_pred             HHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhh
Q psy1308         170 LLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYAD  247 (607)
Q Consensus       170 Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~  247 (607)
                      ||++|++++..++     .|+||||.||..|+.+|+.+|+++||++|..|.+|.|||++|+..|+.++++.+...+++
T Consensus       559 LLe~gAdv~ak~~-----~G~TPLH~Aa~~G~~~i~~LLlk~GA~vna~d~~g~TpL~iA~~lg~~~~~k~l~~~~~~  631 (1143)
T KOG4177|consen  559 LLEHGADVNAKDK-----LGYTPLHQAAQQGHNDIAELLLKHGASVNAADLDGFTPLHIAVRLGYLSVVKLLKVVTAT  631 (1143)
T ss_pred             hhhCCccccccCC-----CCCChhhHHHHcChHHHHHHHHHcCCCCCcccccCcchhHHHHHhcccchhhHHHhccCc
Confidence            9999999998864     399999999999999999999999999999999999999999999999999999988877

>KOG4177|consensus

Probab=99.93  E-value=1.9e-26  Score=255.20  Aligned_cols=237  Identities=24%  Similarity=0.275  Sum_probs=212.2

Q ss_pred             CCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHcc----------CccchhccCCCCCHHHH
Q psy1308          22 QKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACS----------LALTLLECQSIKDLTLF   91 (607)
Q Consensus        22 ~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~----------~~~~~~~~~~~g~t~Lh   91 (607)
                      +.....+.|.||+|.|+.+|..+++++++..+...+..+..+.+++|.+....          .....+.++..|.||+|
T Consensus       366 ~~~~a~~k~~~pl~la~~~g~~~~v~Lll~~ga~~~~~gk~gvTplh~aa~~~~~~~v~l~l~~gA~~~~~~~lG~T~lh  445 (1143)
T KOG4177|consen  366 QRRQAEEKGFTPLHLAVKSGRVSVVELLLEAGADPNSAGKNGVTPLHVAAHYGNPRVVKLLLKRGASPNAKAKLGYTPLH  445 (1143)
T ss_pred             ccCcccccCCcchhhhcccCchhHHHhhhhccCCcccCCCCCcceeeehhhccCcceEEEEeccCCChhhHhhcCCChhh
Confidence            34456778999999999999999999999999999999999999999986433          34455778899999999


Q ss_pred             HHHHcC-CHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC--CCchHHHHHHcCCccHHH
Q psy1308          92 RAARYG-SAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD--LFNTVHRTAAEKKMNPFE  168 (607)
Q Consensus        92 ~A~~~g-~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d--~~~~l~~A~~~~~~~~~~  168 (607)
                      .|+..| ..+++..+++.+ .++|.....|.||||+|+..|+.+++..|++.++..+...  +.+++|.|+..+...+++
T Consensus       446 vaa~~g~~~~~~~~l~~~g-~~~n~~s~~G~T~Lhlaaq~Gh~~~~~llle~~~~~~~~~~~~l~~lhla~~~~~v~~~~  524 (1143)
T KOG4177|consen  446 VAAKKGRYLQIARLLLQYG-ADPNAVSKQGFTPLHLAAQEGHTEVVQLLLEGGANDNLDAKKGLTPLHLAADEDTVKVAK  524 (1143)
T ss_pred             hhhhcccHhhhhhhHhhcC-CCcchhccccCcchhhhhccCCchHHHHhhhcCCccCccchhccchhhhhhhhhhHHHHH
Confidence            999999 888888888888 9999999999999999999999999999999997666643  456999999999999999


Q ss_pred             HHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhH
Q psy1308         169 VLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADL  248 (607)
Q Consensus       169 ~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~  248 (607)
                      .++++|++++.....     |.||||.||.+|+.++|++||++|||++.+++.|+||||.|+..|+.+|+.+|+++|++.
T Consensus       525 ~l~~~ga~v~~~~~r-----~~TpLh~A~~~g~v~~VkfLLe~gAdv~ak~~~G~TPLH~Aa~~G~~~i~~LLlk~GA~v  599 (1143)
T KOG4177|consen  525 ILLEHGANVDLRTGR-----GYTPLHVAVHYGNVDLVKFLLEHGADVNAKDKLGYTPLHQAAQQGHNDIAELLLKHGASV  599 (1143)
T ss_pred             HHhhcCCceehhccc-----ccchHHHHHhcCCchHHHHhhhCCccccccCCCCCChhhHHHHcChHHHHHHHHHcCCCC
Confidence            999999999988655     999999999999999999999999999999999999999999999999999999999998


Q ss_pred             HhhHHHhhcccccHHHHHH
Q psy1308         249 QREKEAEERRKYPLEQRLK  267 (607)
Q Consensus       249 ~~~~~~~~~~~~~L~~~l~  267 (607)
                      +   ..+.++.++|..+..
T Consensus       600 n---a~d~~g~TpL~iA~~  615 (1143)
T KOG4177|consen  600 N---AADLDGFTPLHIAVR  615 (1143)
T ss_pred             C---cccccCcchhHHHHH
Confidence            7   557788888865544

>PHA02792 ankyrin-like protein; Provisional

Probab=99.93  E-value=5e-25  Score=232.91  Aligned_cols=255  Identities=11%  Similarity=-0.002  Sum_probs=203.9

Q ss_pred             hhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHh-cCChhHHHHHhcCCCcccccccccCChHHHHHHc----------
Q psy1308           5 LVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQ-STQADFKSCLSVFPKIRQSNNTCMYNNLLFASAC----------   73 (607)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~-~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~----------   73 (607)
                      .+..-+++..++++ ....+.++..|+||+|+|+. .++.+++++|+..|+.......+++++++....-          
T Consensus        81 ~n~~lElvk~LI~~-GAdvN~~~n~~~~~l~ya~~~~~~~eivk~Ll~~Gad~~~~~~~g~~~~~~~~~~~~~~~~~~~~  159 (631)
T PHA02792         81 DNIDIELLKLLISK-GLEINSIKNGINIVEKYATTSNPNVDVFKLLLDKGIPTCSNIQYGYKIIIEQITRAEYYNWDDEL  159 (631)
T ss_pred             hcccHHHHHHHHHc-CCCcccccCCCCcceeEeecCCCChHHHHHHHHCCCCcccccccCcchhhhhcccccccchhhhc
Confidence            34556778888887 44556667778999999976 6999999999999998888888888877654321          


Q ss_pred             ---cCccchhccCCCCCHHHHHHHHcC-------CHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcC--CHHHHHHHHH
Q psy1308          74 ---SLALTLLECQSIKDLTLFRAARYG-------SAKELKTFIENSKLDVNMRHPLGWTPLHVAAING--KVDNVRVLLE  141 (607)
Q Consensus        74 ---~~~~~~~~~~~~g~t~Lh~A~~~g-------~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g--~~~~v~~Ll~  141 (607)
                         ..+..++..|..|.||||+|+.++       +.++++.|+++| ++++.+|..|.||||+|+.+.  ..|++++|++
T Consensus       160 ~~~~~~~~i~~~~~~g~t~L~~~i~~~s~~~~~~~~~v~k~Li~~g-~~~~~~d~~g~t~l~~~~~~~~i~~ei~~~L~~  238 (631)
T PHA02792        160 DDYDYDYTTDYDDRMGKTVLYYYIITRSQDGYATSLDVINYLISHE-KEMRYYTYREHTTLYYYVDKCDIKREIFDALFD  238 (631)
T ss_pred             cccccccccccCCCCCCchHHHHHhhCCcccccCCHHHHHHHHhCC-CCcCccCCCCChHHHHHHHcccchHHHHHHHHh
Confidence               112345677888999999999999       899999999999 999999999999999999988  7788888876


Q ss_pred             cCC----------------------CCCC--C------------------------------------------------
Q psy1308         142 AGA----------------------NPNL--G------------------------------------------------  149 (607)
Q Consensus       142 ~ga----------------------~~~~--~------------------------------------------------  149 (607)
                      .--                      +++.  .                                                
T Consensus       239 ~~~~~~~~~~~l~~y~~~~~~~~~~~id~~iv~~ll~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~q~~l~~Yl~~~~  318 (631)
T PHA02792        239 SNYSGNELMNILSNYLRKQYRNKNHKIDNYIVDKLLSGHDTFYILELCNSLRNNIIISSILKRYTDSIQDLLSEYVSYHT  318 (631)
T ss_pred             ccccccchHhHHHHHHHHHhccCccCccHHHHHHHHhCCCccchhhhhhhhhhhhHHHHHHHHHhHHHHHHHHHHHhcCC
Confidence            311                      0110  0                                                


Q ss_pred             -------------------CCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCH---HHHHH
Q psy1308         150 -------------------DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNT---EVVEL  207 (607)
Q Consensus       150 -------------------d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~---~~v~~  207 (607)
                                         ....+++.|+..|+.+++++|+++|++++..+.+   ..+.||||+|+.....   +++++
T Consensus       319 v~ieiIK~LId~Ga~~~r~~~~n~~~~Aa~~gn~eIVelLIs~GADIN~kD~~---g~~~TpLh~A~~n~~~~v~~Ilkl  395 (631)
T PHA02792        319 VYINVIKCMIDEGATLYRFKHINKYFQKFDNRDPKVVEYILKNGNVVVEDDDN---IINIMPLFPTLSIHESDVLSILKL  395 (631)
T ss_pred             ccHHHHHHHHHCCCccccCCcchHHHHHHHcCCHHHHHHHHHcCCchhhhcCC---CCChhHHHHHHHhccHhHHHHHHH
Confidence                               0122678888999999999999999999876543   2257999998876654   46888


Q ss_pred             HHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHH
Q psy1308         208 LLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLK  267 (607)
Q Consensus       208 Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~  267 (607)
                      |+++|||+|.+|..|+||||+|+..++.+++++|+++|++..   ..+..+.+++..+..
T Consensus       396 LIs~GADIN~kD~~G~TPLh~Aa~~~n~eivelLLs~GADIN---~kD~~G~TpL~~A~~  452 (631)
T PHA02792        396 CKPYIDDINKIDKHGRSILYYCIESHSVSLVEWLIDNGADIN---ITTKYGSTCIGICVI  452 (631)
T ss_pred             HHhcCCccccccccCcchHHHHHHcCCHHHHHHHHHCCCCCC---CcCCCCCCHHHHHHH
Confidence            999999999999999999999999999999999999999876   446778888865543

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.93  E-value=6.7e-26  Score=206.45  Aligned_cols=154  Identities=46%  Similarity=0.790  Sum_probs=127.4

Q ss_pred             CCc-eeeeeccCCCChhHHHHHHHHHhc-cCcCCceEEeecccccc----cchhHhhhcCCCCCccCCCCchhhHHHhhC
Q psy1308         296 HPL-VFLFLGSSGIGKTELAKQLAFYIH-RDKKEAFIRLDMSEYQE----KHEVAKLIGAPPGYLGHDDGGQLTKRLKKC  369 (607)
Q Consensus       296 ~p~-~~ll~G~~G~GKt~la~~la~~l~-~~~~~~~~~l~~a~~~~----~~~~~~llg~~~g~~g~~~~~~l~~~~~~~  369 (607)
                      +|. +++|+||+|+|||++++.+++.++ .. ..+++.+||+.|..    ...+.+++|.+++|+++.+.          
T Consensus         1 ~p~~~~ll~GpsGvGKT~la~~la~~l~~~~-~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~~~~----------   69 (171)
T PF07724_consen    1 RPKSNFLLAGPSGVGKTELAKALAELLFVGS-ERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGAEEG----------   69 (171)
T ss_dssp             S-SEEEEEESSTTSSHHHHHHHHHHHHT-SS-CCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHHHHH----------
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHHhccCC-ccchHHHhhhcccccchHHhhhhhhhhcccceeeccch----------
Confidence            466 899999999999999999999998 55 88999999999999    88889999988888775332          


Q ss_pred             CCeEEEEecCCccCH-----------HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccc
Q psy1308         370 PNAVVLFDEVDKAHP-----------DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEE  438 (607)
Q Consensus       370 ~~~vl~lDEiek~~~-----------~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~  438 (607)
                        +|||||||||+++           .+|+.||+++|+|++++..|++++++|++||||||.+...+.......      
T Consensus        70 --gVVllDEidKa~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~~~~~~~~~~~------  141 (171)
T PF07724_consen   70 --GVVLLDEIDKAHPSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGAEEIIDASRSG------  141 (171)
T ss_dssp             --TEEEEETGGGCSHTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSSTHHHHHCHHHC------
T ss_pred             --hhhhhHHHhhccccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEecccccchhhhhhccc------
Confidence              3999999999999           999999999999999999999999999999999999999887643211      


Q ss_pred             cccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccce
Q psy1308         439 FSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEI  487 (607)
Q Consensus       439 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~i  487 (607)
                                        ..............+..+|+ |||++||+.+
T Consensus       142 ------------------~~~~~~~~~~~~~~~~~~f~-pEf~~Ri~~i  171 (171)
T PF07724_consen  142 ------------------EAIEQEQEEQIRDLVEYGFR-PEFLGRIDVI  171 (171)
T ss_dssp             ------------------TCCHHHHCHHHHHHHHHTS--HHHHTTSSEE
T ss_pred             ------------------cccHHHHHHHHHHHHHcCCC-HHHHccCCcC
Confidence                              00111123334567788897 9999999864

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.93  E-value=6.1e-25  Score=222.07  Aligned_cols=226  Identities=20%  Similarity=0.296  Sum_probs=184.0

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcC
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGA  349 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~  349 (607)
                      ++|++.++..+...+.+....      ..++++.|++||||+.+|+.||....+. ..+|+.+||+...+......+||.
T Consensus         1 liG~S~~m~~~~~~~~~~a~~------~~pVLI~GE~GtGK~~lAr~iH~~s~r~-~~pfv~vnc~~~~~~~l~~~lfG~   73 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPL------DRPVLIIGERGTGKELIAARLHYLSKRW-QGPLVKLNCAALSENLLDSELFGH   73 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCC------CCCEEEECCCCChHHHHHHHHHHhcCcc-CCCeEEEeCCCCChHHHHHHHhcc
Confidence            467888888888888777543      4578999999999999999999987765 789999999999887777889998


Q ss_pred             CCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHH
Q psy1308         350 PPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       350 ~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                      ..| |.|...  ...+.++.+.+|+||||||+.+++++|..|+++++++.+...++......++++|++|+.+.....  
T Consensus        74 ~~g~~~ga~~--~~~G~~~~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l~~~~--  149 (329)
T TIGR02974        74 EAGAFTGAQK--RHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALA--  149 (329)
T ss_pred             ccccccCccc--ccCCchhhCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhHHHHh--
Confidence            776 666432  234667888999999999999999999999999999998887776666788999999995544332  


Q ss_pred             HhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccce-eeeccCC--HHHHHHHHHHH
Q psy1308         429 ALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEI-VYFLPFS--KSELHTLVCRE  505 (607)
Q Consensus       429 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~i-v~f~pl~--~~~~~~i~~~~  505 (607)
                                                                ..+.|+ ++|++|++.+ |...||+  ++|+..++..+
T Consensus       150 ------------------------------------------~~g~fr-~dL~~rl~~~~i~lPpLReR~eDI~~L~~~f  186 (329)
T TIGR02974       150 ------------------------------------------AEGRFR-ADLLDRLAFDVITLPPLRERQEDIMLLAEHF  186 (329)
T ss_pred             ------------------------------------------hcCchH-HHHHHHhcchhcCCCchhhhhhhHHHHHHHH
Confidence                                                      134576 9999999764 5556664  68999999999


Q ss_pred             HHHHHHHHhhcCCcE--EEeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         506 LNFWAKKALDKHNIN--IVWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       506 l~~~~~~~~~~~~i~--l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      +.++..+.    +..  ..++++|++.|.. |+||+|+|+|+++|++.+..
T Consensus       187 l~~~~~~~----~~~~~~~ls~~a~~~L~~-y~WPGNvrEL~n~i~~~~~~  232 (329)
T TIGR02974       187 AIRMAREL----GLPLFPGFTPQAREQLLE-YHWPGNVRELKNVVERSVYR  232 (329)
T ss_pred             HHHHHHHh----CCCCCCCcCHHHHHHHHh-CCCCchHHHHHHHHHHHHHh
Confidence            98876654    333  5799999999996 99999999999999987764

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>PHA02730 ankyrin-like protein; Provisional

Probab=99.93  E-value=7.7e-25  Score=234.00  Aligned_cols=207  Identities=12%  Similarity=0.018  Sum_probs=168.1

Q ss_pred             HHHhhcccCCCCCCcCCchHHHHHHhcC---ChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHH
Q psy1308          14 CILSNYFKQKPYKRGFQSSKLFYTTQST---QADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTL   90 (607)
Q Consensus        14 ~~~~~~~~~~~~~~~~g~t~L~~A~~~g---~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~L   90 (607)
                      ..+..+......++..|+||||+|+..|   +.+++++|++.|+...                       .+|..|+|||
T Consensus        25 ~~~~~~~~in~~kd~~G~TaLh~A~~~~~~~~~eivklLLs~GAdin-----------------------~kD~~G~TPL   81 (672)
T PHA02730         25 LEIETCHNLSKHIDRRGNNALHCYVSNKCDTDIKIVRLLLSRGVERL-----------------------CRNNEGLTPL   81 (672)
T ss_pred             HHHHHhcchhhhcCCCCCcHHHHHHHcCCcCcHHHHHHHHhCCCCCc-----------------------ccCCCCCChH
Confidence            3344443433567888999999999997   5999999988876544                       6788999999


Q ss_pred             HHHHHcC--CHHHHHHHHhcC-CCCCccCCCCCCcHHHHHHH--cCCHHHHHHHHH-cCCCCCCC-------CCCchHHH
Q psy1308          91 FRAARYG--SAKELKTFIENS-KLDVNMRHPLGWTPLHVAAI--NGKVDNVRVLLE-AGANPNLG-------DLFNTVHR  157 (607)
Q Consensus        91 h~A~~~g--~~~~v~~Ll~~~-~~~~~~~d~~g~tpLh~A~~--~g~~~~v~~Ll~-~ga~~~~~-------d~~~~l~~  157 (607)
                      |+|+..+  +.++|++|+++| +++++..+..+.+|||.++.  +++.++|++|+. .+++++..       .+.+|+++
T Consensus        82 h~Aa~~~~~~~eIv~~Ll~~~~~~~~~~~~~~~d~~l~~y~~s~n~~~~~vk~Li~~~~~~~~~~~~~~~~~~~~~~~yl  161 (672)
T PHA02730         82 GVYSKRKYVKSQIVHLLISSYSNASNELTSNINDFDLYSYMSSDNIDLRLLKYLIVDKRIRPSKNTNYYIHCLGLVDIYV  161 (672)
T ss_pred             HHHHHcCCCcHHHHHHHHhcCCCCCcccccccCCchHHHHHHhcCCcHHHHHHHHHhcCCChhhhhhhhccccchhhhhH
Confidence            9999977  799999999997 25668888889999999988  899999999996 77888765       23569999


Q ss_pred             HHHcCCccHHHHHHhcCCCccccC--CC-CcCcCCcchhhHH------HhcCCHHHHHHHHhcCCCCCccCCCCCCCCcc
Q psy1308         158 TAAEKKMNPFEVLLKREDEFNDVL--NP-NMTFLGFSALHYG------VVAGNTEVVELLLKSGADPTVKDNSGHIPSDY  228 (607)
Q Consensus       158 A~~~~~~~~~~~Ll~~g~~~~~~~--~~-~~d~~g~TpLh~A------~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~  228 (607)
                      ++..++.+++++|+++|++++...  .. ..+..+.|.||++      ...++.+++++|+++|||+|.+|..|+||||+
T Consensus       162 ~~~~~~~eIvklLi~~g~~v~g~~~~~~~~~~~~c~~~l~~~il~~~~~~~n~~eiv~lLIs~GadIN~kd~~G~TpLh~  241 (672)
T PHA02730        162 TTPNPRPEVLLWLLKSECYSTGYVFRSCMYDSDRCKNSLHYYILSHRESESLSKDVIKCLIDNNVSIHGRDEGGSLPIQY  241 (672)
T ss_pred             hcCCCchHHHHHHHHcCCcccccccccccccCCccchhHHHHHHhhhhhhccCHHHHHHHHHCCCCCCCCCCCCCCHHHH
Confidence            999999999999999999996321  11 1122234555533      45679999999999999999999999999995


Q ss_pred             --hhhhhHHHHHHHHHH
Q psy1308         229 --AEDANIKQILQKYAE  243 (607)
Q Consensus       229 --A~~~~~~~~~~~ll~  243 (607)
                        |+..++.+++++|++
T Consensus       242 ~~~~~~~~~eiv~~Li~  258 (672)
T PHA02730        242 YWSCSTIDIEIVKLLIK  258 (672)
T ss_pred             HHHcCcccHHHHHHHHh
Confidence              566678999999998

>KOG0502|consensus

Probab=99.92  E-value=2.1e-25  Score=198.10  Aligned_cols=213  Identities=25%  Similarity=0.255  Sum_probs=178.2

Q ss_pred             cCCchHHHHHHhcCChhHHHHHhcCCC-cccccccccCChHHHHHHccCc----------cchhccCCCCCHHHHHHHHc
Q psy1308          28 GFQSSKLFYTTQSTQADFKSCLSVFPK-IRQSNNTCMYNNLLFASACSLA----------LTLLECQSIKDLTLFRAARY   96 (607)
Q Consensus        28 ~~g~t~L~~A~~~g~~~~v~~L~~~~~-~~~~~~~~~~~~l~~a~~~~~~----------~~~~~~~~~g~t~Lh~A~~~   96 (607)
                      ..|.+-+--|...++.+++..+..... ........++..++.+.-++..          ..-+..+-.+++|+.+++..
T Consensus        60 ~lge~~~~~~~~s~nsd~~v~s~~~~~~~~~~t~p~g~~~~~v~ap~~s~~k~sttltN~~rgnevs~~p~s~~slsVhq  139 (296)
T KOG0502|consen   60 ALGESLLTVAVRSGNSDVAVQSAQLDPDAIDETDPEGWSALLVAAPCGSVDKVSTTLTNGARGNEVSLMPWSPLSLSVHQ  139 (296)
T ss_pred             hcCCcccchhhhcCCcHHHHHhhccCCCCCCCCCchhhhhhhhcCCCCCcceeeeeecccccCCccccccCChhhHHHHH
Confidence            345566667888889888777665432 2223344466777666544422          22356677899999999999


Q ss_pred             CCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcC
Q psy1308          97 GSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKRE  174 (607)
Q Consensus        97 g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g  174 (607)
                      .+++.+..+.+   ..+|..|..|.|||.||+..|++++|++|++.|||++....  .++|.+|+..|..+++++||.++
T Consensus       140 l~L~~~~~~~~---n~VN~~De~GfTpLiWAaa~G~i~vV~fLL~~GAdp~~lgk~resALsLAt~ggytdiV~lLL~r~  216 (296)
T KOG0502|consen  140 LHLDVVDLLVN---NKVNACDEFGFTPLIWAAAKGHIPVVQFLLNSGADPDALGKYRESALSLATRGGYTDIVELLLTRE  216 (296)
T ss_pred             HHHHHHHHHhh---ccccCccccCchHhHHHHhcCchHHHHHHHHcCCChhhhhhhhhhhHhHHhcCChHHHHHHHHhcC
Confidence            99999888776   46899999999999999999999999999999999998554  56999999999999999999999


Q ss_pred             CCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHH
Q psy1308         175 DEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       175 ~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      .++|..     |++|.|||-||+..||.+||+.|+..|||++..+..|.+++..|...|+. +|+..+++.+.+.
T Consensus       217 vdVNvy-----DwNGgTpLlyAvrgnhvkcve~Ll~sGAd~t~e~dsGy~~mdlAValGyr-~Vqqvie~h~lkl  285 (296)
T KOG0502|consen  217 VDVNVY-----DWNGGTPLLYAVRGNHVKCVESLLNSGADVTQEDDSGYWIMDLAVALGYR-IVQQVIEKHALKL  285 (296)
T ss_pred             CCccee-----ccCCCceeeeeecCChHHHHHHHHhcCCCcccccccCCcHHHHHHHhhhH-HHHHHHHHHHHHH
Confidence            999987     45599999999999999999999999999999999999999999999998 8888888887765

>PLN03192 Voltage-dependent potassium channel; Provisional

Probab=99.92  E-value=9.5e-25  Score=248.72  Aligned_cols=171  Identities=18%  Similarity=0.172  Sum_probs=100.9

Q ss_pred             CchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcC
Q psy1308          30 QSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENS  109 (607)
Q Consensus        30 g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~  109 (607)
                      +.++||.||..|+.++++.|+..+...                       +..|..|.||||+||..|+.+++++|+++|
T Consensus       525 ~~~~L~~Aa~~g~~~~l~~Ll~~G~d~-----------------------n~~d~~G~TpLh~Aa~~g~~~~v~~Ll~~g  581 (823)
T PLN03192        525 MASNLLTVASTGNAALLEELLKAKLDP-----------------------DIGDSKGRTPLHIAASKGYEDCVLVLLKHA  581 (823)
T ss_pred             chhHHHHHHHcCCHHHHHHHHHCCCCC-----------------------CCCCCCCCCHHHHHHHcChHHHHHHHHhcC
Confidence            345566666666666666665544322                       244555666666666666666666666655


Q ss_pred             CCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCC
Q psy1308         110 KLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLG  189 (607)
Q Consensus       110 ~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g  189 (607)
                       +++|.+|.+|+||||+|+..|+.+++++|++.++..+..++.++||.|+..|+.+++++|+++|+++|..+.     .|
T Consensus       582 -adin~~d~~G~TpL~~A~~~g~~~iv~~L~~~~~~~~~~~~~~~L~~Aa~~g~~~~v~~Ll~~Gadin~~d~-----~G  655 (823)
T PLN03192        582 -CNVHIRDANGNTALWNAISAKHHKIFRILYHFASISDPHAAGDLLCTAAKRNDLTAMKELLKQGLNVDSEDH-----QG  655 (823)
T ss_pred             -CCCCCcCCCCCCHHHHHHHhCCHHHHHHHHhcCcccCcccCchHHHHHHHhCCHHHHHHHHHCCCCCCCCCC-----CC
Confidence             666666666666666666666666666666655555554455566666666666666666666666555433     26


Q ss_pred             cchhhHHHhcCCHHHHHHHHhcCCCCCccCCCC-CCCCcch
Q psy1308         190 FSALHYGVVAGNTEVVELLLKSGADPTVKDNSG-HIPSDYA  229 (607)
Q Consensus       190 ~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g-~Tpl~~A  229 (607)
                      +||||+|+..|+.+++++|+++|||++..|..| .||++++
T Consensus       656 ~TpLh~A~~~g~~~iv~~Ll~~GAdv~~~~~~g~~t~~~l~  696 (823)
T PLN03192        656 ATALQVAMAEDHVDMVRLLIMNGADVDKANTDDDFSPTELR  696 (823)
T ss_pred             CCHHHHHHHCCcHHHHHHHHHcCCCCCCCCCCCCCCHHHHH
Confidence            666666666666666666666666666666555 5555443

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.92  E-value=3e-24  Score=215.78  Aligned_cols=230  Identities=20%  Similarity=0.325  Sum_probs=185.9

Q ss_pred             HHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         265 RLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       265 ~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      .....++|.+...+.+.+.++.....      -.++++.|++|+||+.+|+.||....+....||+.+||+.|+++....
T Consensus        75 ~~~~~LIG~~~~~~~~~eqik~~ap~------~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~~~~  148 (403)
T COG1221          75 EALDDLIGESPSLQELREQIKAYAPS------GLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQEA  148 (403)
T ss_pred             hhhhhhhccCHHHHHHHHHHHhhCCC------CCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhCcCHHHH
Confidence            34457899999999988888874321      347999999999999999999965544248899999999999999999


Q ss_pred             hhhcCCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchH
Q psy1308         345 KLIGAPPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASN  423 (607)
Q Consensus       345 ~llg~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~  423 (607)
                      +|||+.+| |+|...  .-.+.++.+++|++|+|||..+|++.|..|++++|+|.++..++......++++|++|+....
T Consensus       149 eLFG~~kGaftGa~~--~k~Glfe~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVRli~AT~~~l~  226 (403)
T COG1221         149 ELFGHEKGAFTGAQG--GKAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICATTEDLE  226 (403)
T ss_pred             HHhccccceeecccC--CcCchheecCCCEEehhhhhhCCHhHHHHHHHHHHcCceEecCCCCCcCCCceeeeccccCHH
Confidence            99999988 898433  346889999999999999999999999999999999999998888888899999999995544


Q ss_pred             HHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccc-ceeeeccC--CHHHHHH
Q psy1308         424 EIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRIN-EIVYFLPF--SKSELHT  500 (607)
Q Consensus       424 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~-~iv~f~pl--~~~~~~~  500 (607)
                      ....                                            .+    .+|++|+. .+|...||  +++|+..
T Consensus       227 ~~~~--------------------------------------------~g----~dl~~rl~~~~I~LPpLrER~~Di~~  258 (403)
T COG1221         227 EAVL--------------------------------------------AG----ADLTRRLNILTITLPPLRERKEDILL  258 (403)
T ss_pred             HHHH--------------------------------------------hh----cchhhhhcCceecCCChhhchhhHHH
Confidence            3211                                            00    37788554 45555556  5688888


Q ss_pred             HHHHHHHHHHHHHhhcCCcEEEe-CHhHHHHHHccCCCCCCccchhHHHHHHHHHH
Q psy1308         501 LVCRELNFWAKKALDKHNINIVW-DIDVETILADGYDVHYGARSIKHEVERQVVSQ  555 (607)
Q Consensus       501 i~~~~l~~~~~~~~~~~~i~l~~-~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~  555 (607)
                      +++.++...++++    +..+.. +++++..|.. |+|++|+|+|++.|++.+...
T Consensus       259 L~e~Fl~~~~~~l----~~~~~~~~~~a~~~L~~-y~~pGNirELkN~Ve~~~~~~  309 (403)
T COG1221         259 LAEHFLKSEARRL----GLPLSVDSPEALRALLA-YDWPGNIRELKNLVERAVAQA  309 (403)
T ss_pred             HHHHHHHHHHHHc----CCCCCCCCHHHHHHHHh-CCCCCcHHHHHHHHHHHHHHh
Confidence            8999999888775    444433 3689998885 999999999999999876644

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.92  E-value=3e-23  Score=195.92  Aligned_cols=277  Identities=21%  Similarity=0.340  Sum_probs=198.9

Q ss_pred             ccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCC----CCCCC---CceeeeeccCCCChhHHHHHHHHHhccCcCCceE
Q psy1308         258 RKYPLEQRLKDRIVGQESAINIISAAIKRKENGW----TDDDH---PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFI  330 (607)
Q Consensus       258 ~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~----~~~~~---p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~  330 (607)
                      ....+...|..+++||+.+.+.++-++..+...+    .+..-   ...+++.||+|+|||.||+.||+.++    -||.
T Consensus        51 tP~eik~~Ld~YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~Ln----VPFa  126 (408)
T COG1219          51 TPKEIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILN----VPFA  126 (408)
T ss_pred             ChHHHHHHhhhheecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhC----CCee
Confidence            3445667788999999999999876664432221    11111   12689999999999999999999995    4698


Q ss_pred             EeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCC-------CeEEEEecCCccC--------------HHHHHH
Q psy1308         331 RLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCP-------NAVVLFDEVDKAH--------------PDVLTV  389 (607)
Q Consensus       331 ~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~-------~~vl~lDEiek~~--------------~~~~~~  389 (607)
                      .-|....++           .||+|.+....+..++.++.       .|++++|||||..              ..||.+
T Consensus       127 iADATtLTE-----------AGYVGEDVENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQA  195 (408)
T COG1219         127 IADATTLTE-----------AGYVGEDVENILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQA  195 (408)
T ss_pred             eccccchhh-----------ccccchhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHH
Confidence            889888764           68999888888888776654       7999999999974              239999


Q ss_pred             HHHhhcccee---ecCCCc--------EEecCceEEEEecCcch-HHHHHHHhhhhhcccccccCCCCcccccCCCcchh
Q psy1308         390 LLQLFDEGRL---TDGKGK--------TIECKDAIFVMTSNLAS-NEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVT  457 (607)
Q Consensus       390 Ll~~~~~~~~---~~~~g~--------~~~~~~~~iI~tsn~~~-~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  457 (607)
                      ||++++ |++   ...+|+        .+|.+|.+||+...... +.+.....+.+         .+.+..+........
T Consensus       196 LLKiiE-GTvasVPPqGGRKHP~Qe~iqvDT~NILFIcgGAF~GlekiI~~R~~~~---------~iGF~a~~~~~~~~~  265 (408)
T COG1219         196 LLKIIE-GTVASVPPQGGRKHPQQEFIQVDTSNILFICGGAFAGLEKIIKKRLGKK---------GIGFGAEVKSKSKKK  265 (408)
T ss_pred             HHHHHc-CceeccCCCCCCCCCccceEEEcccceeEEeccccccHHHHHHHhccCC---------cccccccccchhhhh
Confidence            999998 443   334565        47899999999876544 44444322111         111111111111111


Q ss_pred             cchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHH---HhhcCCcEEEeCHhHHHHHHc-
Q psy1308         458 ISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKK---ALDKHNINIVWDIDVETILAD-  533 (607)
Q Consensus       458 ~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~---~~~~~~i~l~~~~~a~~~L~~-  533 (607)
                      .......++..++|.++-..|||++|+..+....+|+.+++.+|+...-+.+.++   +++..+++|+++++|+..+++ 
T Consensus       266 ~~~~~l~~vepeDLvkFGLIPEfIGRlPvia~L~~Lde~aLv~ILtePkNAlvKQYq~Lf~~d~V~L~F~~~AL~~IA~~  345 (408)
T COG1219         266 EEGELLKQVEPEDLVKFGLIPEFIGRLPVIATLEELDEDALVQILTEPKNALVKQYQKLFEMDGVELEFTEEALKAIAKK  345 (408)
T ss_pred             hHHHHHHhcChHHHHHcCCcHHHhcccceeeehhhcCHHHHHHHHhcccHHHHHHHHHHhcccCceEEEcHHHHHHHHHH
Confidence            1123334445556666533599999999999999999999999997755544444   556668999999999999986 


Q ss_pred             cCCCCCCccchhHHHHHHHHHHHHHH
Q psy1308         534 GYDVHYGARSIKHEVERQVVSQLAAA  559 (607)
Q Consensus       534 ~~~~~~GaR~L~~~i~~~i~~~l~~~  559 (607)
                      +.....|||.||..+|..+.+-+.+.
T Consensus       346 A~~rkTGARGLRsI~E~~lld~Mfel  371 (408)
T COG1219         346 AIERKTGARGLRSIIEELLLDVMFEL  371 (408)
T ss_pred             HHHhccchhHHHHHHHHHHHHHHhhC
Confidence            78889999999999999999887655

>PHA02795 ankyrin-like protein; Provisional

Probab=99.91  E-value=2.3e-24  Score=220.09  Aligned_cols=193  Identities=11%  Similarity=-0.025  Sum_probs=167.3

Q ss_pred             HHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCc------cCCCCCCcHHHHHHH--cCCHHHHHH
Q psy1308          67 LLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVN------MRHPLGWTPLHVAAI--NGKVDNVRV  138 (607)
Q Consensus        67 l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~------~~d~~g~tpLh~A~~--~g~~~~v~~  138 (607)
                      ..+.....++..++....+|     +|+..+..+++++|+++| +++|      .++..++|+||+|+.  .|+.++|++
T Consensus        63 ~~~~~~~~~~~~i~~~~~~~-----~~~~~~~k~~~~~l~s~~-~~~~~~~~~~~~~~~~~~~L~~~~~n~~n~~eiV~~  136 (437)
T PHA02795         63 VLYDYFRIHRDNIDQYIVDR-----LFAYITYKDIISALVSKN-YMEDIFSIIIKNCNSVQDLLLYYLSNAYVEIDIVDF  136 (437)
T ss_pred             HHHHHHHHcCcchhhhhhhh-----HHhhcchHHHHHHHHhcc-cccchhhhhhhccccccHHHHHHHHhcCCCHHHHHH
Confidence            34445566666666666666     999999999999999999 9988      788889999999999  899999999


Q ss_pred             HHHcCCCCCCCCCCchHHHHHHcCCccHHHHHHhcCCCcccc-CCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCc
Q psy1308         139 LLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDV-LNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTV  217 (607)
Q Consensus       139 Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~-~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~  217 (607)
                      |+++|||++..++.||+|+|+..++.+++++|+++|++.+.. +.+..+..|.||+|.|+..++.+++++|+++|||+|.
T Consensus       137 LI~~GADIn~~~~~t~lh~A~~~~~~eIVk~Lls~Ga~~~n~~~~~l~~~~~~t~l~~a~~~~~~eIve~LIs~GADIN~  216 (437)
T PHA02795        137 MVDHGAVIYKIECLNAYFRGICKKESSVVEFILNCGIPDENDVKLDLYKIIQYTRGFLVDEPTVLEIYKLCIPYIEDINQ  216 (437)
T ss_pred             HHHCCCCCCCCCCCCHHHHHHHcCcHHHHHHHHhcCCcccccccchhhhhhccchhHHHHhcCHHHHHHHHHhCcCCcCc
Confidence            999999999988899999999999999999999999853222 1111124488999999999999999999999999999


Q ss_pred             cCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHh
Q psy1308         218 KDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKD  268 (607)
Q Consensus       218 ~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~  268 (607)
                      +|..|+||||+|+..|+.+++++|++.|++..   ..+..|.+||+.+...
T Consensus       217 kD~~G~TpLh~Aa~~g~~eiVelLL~~GAdIN---~~d~~G~TpLh~Aa~~  264 (437)
T PHA02795        217 LDAGGRTLLYRAIYAGYIDLVSWLLENGANVN---AVMSNGYTCLDVAVDR  264 (437)
T ss_pred             CCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCC---CcCCCCCCHHHHHHHc
Confidence            99999999999999999999999999999887   4567899999776654

>PHA02917 ankyrin-like protein; Provisional

Probab=99.91  E-value=4.3e-24  Score=234.44  Aligned_cols=201  Identities=14%  Similarity=0.030  Sum_probs=157.0

Q ss_pred             hhHHHHHhcCCCcccccccccCChHHHHH-------------HccCccchhccCCCCCHHHHHHHHcCCHH----HHHHH
Q psy1308          43 ADFKSCLSVFPKIRQSNNTCMYNNLLFAS-------------ACSLALTLLECQSIKDLTLFRAARYGSAK----ELKTF  105 (607)
Q Consensus        43 ~~~v~~L~~~~~~~~~~~~~~~~~l~~a~-------------~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~----~v~~L  105 (607)
                      .+.++.|+..+......+..+.+++|.|+             ++..+...+..+..|.||||+|+..|+.+    +++.|
T Consensus        12 ~~~~~~l~~~~~~~~~~d~~g~t~Lh~a~~~~~~~~~~~v~~Ll~~ga~v~~~~~~g~TpL~~Aa~~g~~~v~~~~~~~L   91 (661)
T PHA02917         12 LDELKQMLRDRDPNDTRNQFKNNALHAYLFNEHCNNVEVVKLLLDSGTNPLHKNWRQLTPLEEYTNSRHVKVNKDIAMAL   91 (661)
T ss_pred             HHHHHHHHhccCcccccCCCCCcHHHHHHHhhhcCcHHHHHHHHHCCCCccccCCCCCCHHHHHHHcCChhHHHHHHHHH
Confidence            46678787777776666778888998853             23445566778888999999999988854    55778


Q ss_pred             HhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHH--HcCCccHHHHHHhcCCCccccC
Q psy1308         106 IENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTA--AEKKMNPFEVLLKREDEFNDVL  181 (607)
Q Consensus       106 l~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~--~~~~~~~~~~Ll~~g~~~~~~~  181 (607)
                      ++.+ ...|..+  ..+++|+|+..|+.++|++|+++|+|+|.+|.  +||||+|+  ..|+.+++++|+++|++++..+
T Consensus        92 l~~~-~~~n~~~--~~~~~~~a~~~~~~e~vk~Ll~~Gadin~~d~~g~T~L~~~~a~~~~~~eivklLi~~Ga~vn~~d  168 (661)
T PHA02917         92 LEAT-GYSNIND--FNIFSYMKSKNVDVDLIKVLVEHGFDLSVKCENHRSVIENYVMTDDPVPEIIDLFIENGCSVLYED  168 (661)
T ss_pred             Hhcc-CCCCCCC--cchHHHHHhhcCCHHHHHHHHHcCCCCCccCCCCccHHHHHHHccCCCHHHHHHHHHcCCCccccc
Confidence            7765 2244433  23677888889999999999999999999764  67999654  4689999999999999998654


Q ss_pred             CCCcCcCC-----------cchhhHHHh-----------cCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHH--HH
Q psy1308         182 NPNMTFLG-----------FSALHYGVV-----------AGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIK--QI  237 (607)
Q Consensus       182 ~~~~d~~g-----------~TpLh~A~~-----------~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~--~~  237 (607)
                      ..  +..|           .||||+|+.           .++.++|++|+++|||++.+|.+|+||||+|+.+|+.  ++
T Consensus       169 ~~--~~~g~~~~~~~~~~~~t~L~~a~~~~~~~~~~~~~~~~~eiv~~Li~~Gadvn~~d~~G~TpLh~A~~~g~~~~ei  246 (661)
T PHA02917        169 ED--DEYGYAYDDYQPRNCGTVLHLYIISHLYSESDTRAYVRPEVVKCLINHGIKPSSIDKNYCTALQYYIKSSHIDIDI  246 (661)
T ss_pred             cc--cccccccccccccccccHHHHHHhhcccccccccccCcHHHHHHHHHCCCCcccCCCCCCcHHHHHHHcCCCcHHH
Confidence            32  2234           599999986           4689999999999999999999999999999999874  79


Q ss_pred             HHHHHHhhhhHH
Q psy1308         238 LQKYAEKYADLQ  249 (607)
Q Consensus       238 ~~~ll~~~~~~~  249 (607)
                      ++.|+. |++..
T Consensus       247 vk~Li~-g~d~~  257 (661)
T PHA02917        247 VKLLMK-GIDNT  257 (661)
T ss_pred             HHHHHh-CCccc
Confidence            999874 76544

>PHA02730 ankyrin-like protein; Provisional

Probab=99.91  E-value=1.7e-23  Score=223.68  Aligned_cols=233  Identities=16%  Similarity=0.140  Sum_probs=171.5

Q ss_pred             hhhHHHHHhhcccCCCCCCcCCchHHHH--HHhcCChhHHHHHhcCCC----cccccccccCChHHH-------------
Q psy1308           9 RQLVLCILSNYFKQKPYKRGFQSSKLFY--TTQSTQADFKSCLSVFPK----IRQSNNTCMYNNLLF-------------   69 (607)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~~~g~t~L~~--A~~~g~~~~v~~L~~~~~----~~~~~~~~~~~~l~~-------------   69 (607)
                      .+++..++++ ....+.++..|.||||+  |+..|+.+++++|++.-.    .......|..+-++-             
T Consensus       215 ~eiv~lLIs~-GadIN~kd~~G~TpLh~~~~~~~~~~eiv~~Li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  293 (672)
T PHA02730        215 KDVIKCLIDN-NVSIHGRDEGGSLPIQYYWSCSTIDIEIVKLLIKDVDTCSVYDDISQPYIRGVLADYLNKRFRVTPYNV  293 (672)
T ss_pred             HHHHHHHHHC-CCCCCCCCCCCCCHHHHHHHcCcccHHHHHHHHhccccccccccccchhhhhhHHHhhhhhhhcccCCc
Confidence            3445555544 46778899999999995  666788999999998111    101111111111100             


Q ss_pred             -----HHHccCc----c---chhccCCCCCH---------------------HHHHHHHcC---CHHHHHHHHhcCCCCC
Q psy1308          70 -----ASACSLA----L---TLLECQSIKDL---------------------TLFRAARYG---SAKELKTFIENSKLDV  113 (607)
Q Consensus        70 -----a~~~~~~----~---~~~~~~~~g~t---------------------~Lh~A~~~g---~~~~v~~Ll~~~~~~~  113 (607)
                           -.++...    .   .+...+..|.+                     .||.-...+   +.+++++|+++| +++
T Consensus       294 d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~i~~~~~~~~~~~~q~~l~~Y~~~~~~v~ieIvelLIs~G-AdI  372 (672)
T PHA02730        294 DMEIVNLLIEGRHTLIDVMRSITSYDSREYNHYIIDNILKRFRQQDESIVQAMLINYLHYGDMVSIPILRCMLDNG-ATM  372 (672)
T ss_pred             chHHHHHHhhccCcchhhhhccccccccccchhHHHHHHHhhhccchhHHHHHHHHHHhcCCcCcHHHHHHHHHCC-CCC
Confidence                 0000000    0   01124555543                     677777766   589999999999 999


Q ss_pred             ccCCCCCCcHHHHHHHcCC----HHHHHHHHHcCC--CCCCCCC--CchHHH--HHH-cC---------CccHHHHHHhc
Q psy1308         114 NMRHPLGWTPLHVAAINGK----VDNVRVLLEAGA--NPNLGDL--FNTVHR--TAA-EK---------KMNPFEVLLKR  173 (607)
Q Consensus       114 ~~~d~~g~tpLh~A~~~g~----~~~v~~Ll~~ga--~~~~~d~--~~~l~~--A~~-~~---------~~~~~~~Ll~~  173 (607)
                      |.. ..|+||||+|+..++    .+++++|+++|+  ++|.+|.  .||||.  ++. .+         ..+++++|+.+
T Consensus       373 N~k-~~G~TpLH~Aa~~nnn~i~~eIvelLIs~Ga~~dIN~kd~~G~T~Lh~~i~a~~~n~~~~~~e~~~~~ivk~LIs~  451 (672)
T PHA02730        373 DKT-TDNNYPLHDYFVNNNNIVDVNVVRFIVENNGHMAINHVSNNGRLCMYGLILSRFNNCGYHCYETILIDVFDILSKY  451 (672)
T ss_pred             CcC-CCCCcHHHHHHHHcCCcchHHHHHHHHHcCCCccccccccCCCchHhHHHHHHhccccccccchhHHHHHHHHHhc
Confidence            986 799999999998875    899999999998  5777654  679984  332 32         12469999999


Q ss_pred             CCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCC-CCCCCCcchhhh--hHHHHHHHHHHhhhhHH
Q psy1308         174 EDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDN-SGHIPSDYAEDA--NIKQILQKYAEKYADLQ  249 (607)
Q Consensus       174 g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~-~g~Tpl~~A~~~--~~~~~~~~ll~~~~~~~  249 (607)
                      |++++..+..     |+||||+|+..++.+++++|+++||+++.+|. .|.||||+|+..  ++.++++.|++++++..
T Consensus       452 GADINakD~~-----G~TPLh~Aa~~~~~eive~LI~~GAdIN~~d~~~g~TaL~~Aa~~~~~~~eIv~~LLs~ga~i~  525 (672)
T PHA02730        452 MDDIDMIDNE-----NKTLLYYAVDVNNIQFARRLLEYGASVNTTSRSIINTAIQKSSYRRENKTKLVDLLLSYHPTLE  525 (672)
T ss_pred             ccchhccCCC-----CCCHHHHHHHhCCHHHHHHHHHCCCCCCCCCCcCCcCHHHHHHHhhcCcHHHHHHHHHcCCCHH
Confidence            9999988555     99999999999999999999999999999997 599999999874  78999999999998765

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.91  E-value=1.7e-23  Score=222.01  Aligned_cols=225  Identities=18%  Similarity=0.270  Sum_probs=182.6

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHH--------hccCcCCceEEeeccccccc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFY--------IHRDKKEAFIRLDMSEYQEK  340 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~--------l~~~~~~~~~~l~~a~~~~~  340 (607)
                      .++|++.++..+...+.+....      +.++++.|++||||+.+|+.|+..        ..+. ..||+.+||+.+++.
T Consensus       220 ~iiG~S~~m~~~~~~i~~~A~s------~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~-~~pfv~inCaal~e~  292 (538)
T PRK15424        220 DLLGQSPQMEQVRQTILLYARS------SAAVLIQGETGTGKELAAQAIHREYFARHDARQGKK-SHPFVAVNCGAIAES  292 (538)
T ss_pred             heeeCCHHHHHHHHHHHHHhCC------CCcEEEECCCCCCHHHHHHHHHHhhcccccccCccC-CCCeEEeecccCChh
Confidence            4899999999999888876643      347999999999999999999998        4444 789999999999988


Q ss_pred             chhHhhhcCCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         341 HEVAKLIGAPPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       341 ~~~~~llg~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      ...++|||+..| ++|...+ ...++++.+.+|+||||||+.+++++|..|+++++++.+...+|...-..++++|++|+
T Consensus       293 lleseLFG~~~gaftga~~~-~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~r~G~~~~~~~dvRiIaat~  371 (538)
T PRK15424        293 LLEAELFGYEEGAFTGSRRG-GRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATH  371 (538)
T ss_pred             hHHHHhcCCccccccCcccc-ccCCchhccCCCEEEEcChHhCCHHHHHHHHhhhhcCeEEecCCCceeccceEEEEecC
Confidence            888999998877 6665332 22467888999999999999999999999999999999998777766667899999999


Q ss_pred             cchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHH
Q psy1308         420 LASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKS  496 (607)
Q Consensus       420 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~  496 (607)
                      .+.....+                                            .+.|+ ++|++|++.+.+..| |  +++
T Consensus       372 ~~L~~~v~--------------------------------------------~g~Fr-~dL~yrL~~~~I~lPPLReR~e  406 (538)
T PRK15424        372 CDLEEDVR--------------------------------------------QGRFR-RDLFYRLSILRLQLPPLRERVA  406 (538)
T ss_pred             CCHHHHHh--------------------------------------------cccch-HHHHHHhcCCeecCCChhhchh
Confidence            66554322                                            34576 999999988766655 4  558


Q ss_pred             HHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHH-------HHHHccCCCCCCccchhHHHHHHHH
Q psy1308         497 ELHTLVCRELNFWAKKALDKHNINIVWDIDVE-------TILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       497 ~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~-------~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      |+..++..++.+...+.    +.  .++++++       +.|.. |+||+|+|+|++++++.+.
T Consensus       407 DI~~L~~~fl~~~~~~~----~~--~~~~~a~~~~~~a~~~L~~-y~WPGNvREL~nvier~~i  463 (538)
T PRK15424        407 DILPLAESFLKQSLAAL----SA--PFSAALRQGLQQCETLLLH-YDWPGNVRELRNLMERLAL  463 (538)
T ss_pred             HHHHHHHHHHHHHHHHc----CC--CCCHHHHHhhHHHHHHHHh-CCCCchHHHHHHHHHHHHH
Confidence            99999999998765543    22  2666665       56664 9999999999999999766

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=99.91  E-value=1.8e-23  Score=199.97  Aligned_cols=224  Identities=20%  Similarity=0.299  Sum_probs=186.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..+++++..++.+...-++...-      ..++++.|.+||||..+||+-+....+. ..||..++|+...++...+++|
T Consensus       204 ~~~v~~S~~mk~~v~qA~k~Aml------DAPLLI~GeTGTGKdLlAkaCH~~S~R~-~~pFlalNCA~lPe~~aEsElF  276 (511)
T COG3283         204 EQIVAVSPKMKHVVEQAQKLAML------DAPLLITGETGTGKDLLAKACHLASPRH-SKPFLALNCASLPEDAAESELF  276 (511)
T ss_pred             HHHhhccHHHHHHHHHHHHhhcc------CCCeEEecCCCchHHHHHHHHhhcCccc-CCCeeEeecCCCchhHhHHHHh
Confidence            46788888888776665555432      1268999999999999999999888776 8899999999999999999999


Q ss_pred             cCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      |+.||..|      -.++++.+++|+||+|||..++|.+|.+||.++.+|.|...++..-..-++++|+||......+.+
T Consensus       277 G~apg~~g------k~GffE~AngGTVlLDeIgEmSp~lQaKLLRFL~DGtFRRVGee~Ev~vdVRVIcatq~nL~~lv~  350 (511)
T COG3283         277 GHAPGDEG------KKGFFEQANGGTVLLDEIGEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQVNLVELVQ  350 (511)
T ss_pred             cCCCCCCC------ccchhhhccCCeEEeehhhhcCHHHHHHHHHHhcCCceeecCCcceEEEEEEEEecccccHHHHHh
Confidence            99988333      246789999999999999999999999999999999999987766667799999999976665543


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC---CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF---SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl---~~~~~~~i~~~  504 (607)
                                                                  ++.|| .++++|++....-.|.   ..+++..+++.
T Consensus       351 --------------------------------------------~g~fR-eDLfyRLNVLtl~~PpLRer~~di~pL~e~  385 (511)
T COG3283         351 --------------------------------------------KGKFR-EDLFYRLNVLTLNLPPLRERPQDIMPLAEL  385 (511)
T ss_pred             --------------------------------------------cCchH-HHHHHHhheeeecCCccccCcccchHHHHH
Confidence                                                        34576 9999999987666664   45789999999


Q ss_pred             HHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      ++.+.++++.-   -.-+++++.+.+|.+ |.|++|+|+|++.|-|++.
T Consensus       386 Fv~q~s~elg~---p~pkl~~~~~~~L~~-y~WpGNVRqL~N~iyRA~s  430 (511)
T COG3283         386 FVQQFSDELGV---PRPKLAADLLTVLTR-YAWPGNVRQLKNAIYRALT  430 (511)
T ss_pred             HHHHHHHHhCC---CCCccCHHHHHHHHH-cCCCccHHHHHHHHHHHHH
Confidence            99988877632   256899999999997 9999999999999988654

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.91  E-value=5.9e-23  Score=223.17  Aligned_cols=227  Identities=21%  Similarity=0.335  Sum_probs=185.5

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++..+..+.+.+.+....      ..++++.|++||||+.+|+.||....+. ..+|+.+||+.+.+......+||
T Consensus       197 ~liG~s~~~~~~~~~~~~~a~~------~~pvli~Ge~GtGK~~lA~~ih~~s~r~-~~pfv~i~c~~~~~~~~~~~lfg  269 (534)
T TIGR01817       197 GIIGKSPAMRQVVDQARVVARS------NSTVLLRGESGTGKELIAKAIHYLSPRA-KRPFVKVNCAALSETLLESELFG  269 (534)
T ss_pred             ceEECCHHHHHHHHHHHHHhCc------CCCEEEECCCCccHHHHHHHHHHhCCCC-CCCeEEeecCCCCHHHHHHHHcC
Confidence            6899999999999888877643      4478999999999999999999988765 77999999999988777788999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +.+| +.|...  ...+.++.+.+|+||||||+++++++|..|+++++++.+...++......++++|++|+.+......
T Consensus       270 ~~~~~~~~~~~--~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~~l~~~~~  347 (534)
T TIGR01817       270 HEKGAFTGAIA--QRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEAVA  347 (534)
T ss_pred             CCCCccCCCCc--CCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCCCHHHHHH
Confidence            8776 555322  1234567788999999999999999999999999999988776665566789999999965543321


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeec-cCC--HHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFL-PFS--KSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~-pl~--~~~~~~i~~~  504 (607)
                                                                  .+.|+ ++|++|++.+.+.. ||+  ++|+..|+..
T Consensus       348 --------------------------------------------~~~f~-~~L~~rl~~~~i~lPpLreR~eDi~~L~~~  382 (534)
T TIGR01817       348 --------------------------------------------KGEFR-ADLYYRINVVPIFLPPLRERREDIPLLAEA  382 (534)
T ss_pred             --------------------------------------------cCCCC-HHHHHHhcCCeeeCCCcccccccHHHHHHH
Confidence                                                        34576 99999998865555 464  6899999999


Q ss_pred             HHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      ++..+..+.    +..+.+++++++.|.. |+||+|+|+|+++|++.+..
T Consensus       383 ~l~~~~~~~----~~~~~~s~~a~~~L~~-~~WPGNvrEL~~v~~~a~~~  427 (534)
T TIGR01817       383 FLEKFNREN----GRPLTITPSAIRVLMS-CKWPGNVRELENCLERTATL  427 (534)
T ss_pred             HHHHHHHHc----CCCCCCCHHHHHHHHh-CCCCChHHHHHHHHHHHHHh
Confidence            998876543    3346899999999996 99999999999999998764

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.91  E-value=2.1e-23  Score=221.76  Aligned_cols=226  Identities=20%  Similarity=0.280  Sum_probs=185.2

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++.++..+...+.+....      +.++++.|++||||+.+|+.||....+. ..||+.+||+.+++....+++||
T Consensus       213 ~iiG~S~~m~~~~~~i~~~A~~------~~pVLI~GE~GTGKe~lA~~IH~~S~r~-~~pfv~inC~~l~e~lleseLFG  285 (526)
T TIGR02329       213 DLLGASAPMEQVRALVRLYARS------DATVLILGESGTGKELVAQAIHQLSGRR-DFPFVAINCGAIAESLLEAELFG  285 (526)
T ss_pred             heeeCCHHHHHHHHHHHHHhCC------CCcEEEECCCCcCHHHHHHHHHHhcCcC-CCCEEEeccccCChhHHHHHhcC
Confidence            4899999999998888776543      4579999999999999999999987665 78999999999998887889999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +..| |+|...+ ...++++.+.+|+||||||+.+++++|..|+++++++.+...++......++++|++|+.......+
T Consensus       286 ~~~gaftga~~~-~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIaat~~~l~~~v~  364 (526)
T TIGR02329       286 YEEGAFTGARRG-GRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHCALTTAVQ  364 (526)
T ss_pred             Cccccccccccc-ccccchhhcCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEeccCCCHHHHhh
Confidence            9877 6665432 2356788899999999999999999999999999999998877666666788999999966554322


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~~~~~i~~~  504 (607)
                                                                  .+.|+ ++|++|++.+.+..| |  .++|+..++..
T Consensus       365 --------------------------------------------~g~fr-~dL~~rL~~~~I~lPPLReR~eDI~~L~~~  399 (526)
T TIGR02329       365 --------------------------------------------QGRFR-RDLFYRLSILRIALPPLRERPGDILPLAAE  399 (526)
T ss_pred             --------------------------------------------hcchh-HHHHHhcCCcEEeCCCchhchhHHHHHHHH
Confidence                                                        34476 999999987655555 5  55899999999


Q ss_pred             HHHHHHHHHhhcCCcEEEeCHhHHHH-------HHccCCCCCCccchhHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINIVWDIDVETI-------LADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l~~~~~a~~~-------L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      ++.++..+.    +  +.+++++++.       |.. |+||+|+|+|++++++.+..
T Consensus       400 fl~~~~~~~----~--~~~~~~a~~~~~~~~~~L~~-y~WPGNvrEL~nvier~~i~  449 (526)
T TIGR02329       400 YLVQAAAAL----R--LPDSEAAAQVLAGVADPLQR-YPWPGNVRELRNLVERLALE  449 (526)
T ss_pred             HHHHHHHHc----C--CCCCHHHHHHhHHHHHHHHh-CCCCchHHHHHHHHHHHHHh
Confidence            998765532    2  3488998887       775 99999999999999998764

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.90  E-value=1e-22  Score=219.17  Aligned_cols=229  Identities=17%  Similarity=0.252  Sum_probs=187.0

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++..+..+...+.+....      +.++++.|++||||+.+|+.|+....+. ..+|+.+||+.+.+.....++||
T Consensus       188 ~iig~s~~~~~~~~~i~~~a~~------~~pVlI~Ge~GtGK~~~A~~ih~~s~r~-~~p~v~v~c~~~~~~~~e~~lfG  260 (509)
T PRK05022        188 EMIGQSPAMQQLKKEIEVVAAS------DLNVLILGETGVGKELVARAIHAASPRA-DKPLVYLNCAALPESLAESELFG  260 (509)
T ss_pred             ceeecCHHHHHHHHHHHHHhCC------CCcEEEECCCCccHHHHHHHHHHhCCcC-CCCeEEEEcccCChHHHHHHhcC
Confidence            5899999999999999887644      4589999999999999999999988765 77999999999987766778999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +..| +.|...  ...+.++.+.+|+||||||+.+++++|..|+++++++.+...++......++++|++|+....... 
T Consensus       261 ~~~g~~~ga~~--~~~g~~~~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~~-  337 (509)
T PRK05022        261 HVKGAFTGAIS--NRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLREEV-  337 (509)
T ss_pred             ccccccCCCcc--cCCcchhhcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCCCHHHHH-
Confidence            8766 555422  123456788899999999999999999999999999998877666666678999999996554332 


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~~~~~i~~~  504 (607)
                                                                 ..+.|+ ++|++|++.+.+..| |  .++|+..++.+
T Consensus       338 -------------------------------------------~~~~f~-~dL~~rl~~~~i~lPpLreR~eDI~~L~~~  373 (509)
T PRK05022        338 -------------------------------------------RAGRFR-ADLYHRLSVFPLSVPPLRERGDDVLLLAGY  373 (509)
T ss_pred             -------------------------------------------HcCCcc-HHHHhcccccEeeCCCchhchhhHHHHHHH
Confidence                                                       234576 999999988755555 5  55899999999


Q ss_pred             HHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQ  555 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~  555 (607)
                      ++.++..++..   -.+.+++++++.|.. |+||+|+|+|+++|++.+...
T Consensus       374 fl~~~~~~~~~---~~~~~s~~a~~~L~~-y~WPGNvrEL~~~i~ra~~~~  420 (509)
T PRK05022        374 FLEQNRARLGL---RSLRLSPAAQAALLA-YDWPGNVRELEHVISRAALLA  420 (509)
T ss_pred             HHHHHHHHcCC---CCCCCCHHHHHHHHh-CCCCCcHHHHHHHHHHHHHhc
Confidence            99887665421   246899999999996 999999999999999987654

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.90  E-value=5.5e-23  Score=208.25  Aligned_cols=229  Identities=20%  Similarity=0.262  Sum_probs=181.2

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|.+..+..+.+.+.+....      +.++++.|++||||+.+|+.|+....+. ..+|+.+||+.+++......+||
T Consensus         7 ~liG~S~~~~~~~~~i~~~a~~------~~pVlI~GE~GtGK~~lA~~iH~~s~r~-~~pfv~v~c~~~~~~~~~~~lfg   79 (326)
T PRK11608          7 NLLGEANSFLEVLEQVSRLAPL------DKPVLIIGERGTGKELIASRLHYLSSRW-QGPFISLNCAALNENLLDSELFG   79 (326)
T ss_pred             ccEECCHHHHHHHHHHHHHhCC------CCCEEEECCCCCcHHHHHHHHHHhCCcc-CCCeEEEeCCCCCHHHHHHHHcc
Confidence            4789999999998888877643      4579999999999999999999877654 67999999999887655678898


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ...| +.|....  ..+.++.+.+|+||||||+.+++.+|..|+.+++++.+...++......+++||+||+........
T Consensus        80 ~~~~~~~g~~~~--~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~~l~~l~~  157 (326)
T PRK11608         80 HEAGAFTGAQKR--HPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVA  157 (326)
T ss_pred             ccccccCCcccc--cCCchhccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCchhHHHHHH
Confidence            7765 4443221  235667888999999999999999999999999999988766655555789999999965544322


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccce-eeeccC--CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEI-VYFLPF--SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~i-v~f~pl--~~~~~~~i~~~  504 (607)
                                                                  .+.|+ ++|++||+.+ |...||  ..+|+..++..
T Consensus       158 --------------------------------------------~g~f~-~dL~~~l~~~~i~lPpLReR~eDI~~L~~~  192 (326)
T PRK11608        158 --------------------------------------------EGKFR-ADLLDRLAFDVVQLPPLRERQSDIMLMAEH  192 (326)
T ss_pred             --------------------------------------------cCCch-HHHHHhcCCCEEECCChhhhhhhHHHHHHH
Confidence                                                        34576 9999999765 445556  45899999999


Q ss_pred             HHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      ++..+..++..  .+...++++++..|.. |+||+|+|+|++++++.+..
T Consensus       193 fl~~~~~~~~~--~~~~~~s~~al~~L~~-y~WPGNvrEL~~vl~~a~~~  239 (326)
T PRK11608        193 FAIQMCRELGL--PLFPGFTERARETLLN-YRWPGNIRELKNVVERSVYR  239 (326)
T ss_pred             HHHHHHHHhCC--CCCCCCCHHHHHHHHh-CCCCcHHHHHHHHHHHHHHh
Confidence            99887654421  1225789999999996 99999999999999997763

>PLN03192 Voltage-dependent potassium channel; Provisional

Probab=99.90  E-value=1.1e-23  Score=240.16  Aligned_cols=162  Identities=22%  Similarity=0.257  Sum_probs=150.0

Q ss_pred             cCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHH
Q psy1308          82 CQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTA  159 (607)
Q Consensus        82 ~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~  159 (607)
                      .+..+.++||.||..|+.++++.|++.| +|+|.+|..|+||||+||..|+.+++++|+++|+++|.+|.  +||||+|+
T Consensus       521 ~~~~~~~~L~~Aa~~g~~~~l~~Ll~~G-~d~n~~d~~G~TpLh~Aa~~g~~~~v~~Ll~~gadin~~d~~G~TpL~~A~  599 (823)
T PLN03192        521 DDPNMASNLLTVASTGNAALLEELLKAK-LDPDIGDSKGRTPLHIAASKGYEDCVLVLLKHACNVHIRDANGNTALWNAI  599 (823)
T ss_pred             CCccchhHHHHHHHcCCHHHHHHHHHCC-CCCCCCCCCCCCHHHHHHHcChHHHHHHHHhcCCCCCCcCCCCCCHHHHHH
Confidence            3446789999999999999999999998 99999999999999999999999999999999999999764  67999999


Q ss_pred             HcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHH
Q psy1308         160 AEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQ  239 (607)
Q Consensus       160 ~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~  239 (607)
                      ..|+.+++++|++.++..+.       ..|.||||+|+..|+.+++++|+++|+|+|.+|.+|+||||+|+..|+.++++
T Consensus       600 ~~g~~~iv~~L~~~~~~~~~-------~~~~~~L~~Aa~~g~~~~v~~Ll~~Gadin~~d~~G~TpLh~A~~~g~~~iv~  672 (823)
T PLN03192        600 SAKHHKIFRILYHFASISDP-------HAAGDLLCTAAKRNDLTAMKELLKQGLNVDSEDHQGATALQVAMAEDHVDMVR  672 (823)
T ss_pred             HhCCHHHHHHHHhcCcccCc-------ccCchHHHHHHHhCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCcHHHHH
Confidence            99999999999988876542       23789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhHHhh
Q psy1308         240 KYAEKYADLQRE  251 (607)
Q Consensus       240 ~ll~~~~~~~~~  251 (607)
                      +|+++|++....
T Consensus       673 ~Ll~~GAdv~~~  684 (823)
T PLN03192        673 LLIMNGADVDKA  684 (823)
T ss_pred             HHHHcCCCCCCC
Confidence            999999987744

>KOG0514|consensus

Probab=99.90  E-value=4.3e-24  Score=203.45  Aligned_cols=161  Identities=20%  Similarity=0.244  Sum_probs=146.9

Q ss_pred             chhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHc-----CCHHHHHHHHHcCCCCCCC---
Q psy1308          78 TLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAIN-----GKVDNVRVLLEAGANPNLG---  149 (607)
Q Consensus        78 ~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~-----g~~~~v~~Ll~~ga~~~~~---  149 (607)
                      .+|-.|.+|+|+||||+..+++++|+.||+.|-|++|.+|.-|+||+++|+-.     .+.++|..|...| |+|++   
T Consensus       260 vVNlaDsNGNTALHYsVSHaNF~VV~~LLDSgvC~VD~qNrAGYtpiMLaALA~lk~~~d~~vV~~LF~mg-nVNaKAsQ  338 (452)
T KOG0514|consen  260 VVNLADSNGNTALHYAVSHANFDVVSILLDSGVCDVDQQNRAGYTPVMLAALAKLKQPADRTVVERLFKMG-DVNAKASQ  338 (452)
T ss_pred             HhhhhcCCCCeeeeeeecccchHHHHHHhccCcccccccccccccHHHHHHHHhhcchhhHHHHHHHHhcc-Ccchhhhh
Confidence            34678999999999999999999999999999999999999999999998754     4678899998775 77774   


Q ss_pred             CCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhc-CCCCCccCCCCCCCCcc
Q psy1308         150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKS-GADPTVKDNSGHIPSDY  228 (607)
Q Consensus       150 d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~-gad~~~~d~~g~Tpl~~  228 (607)
                      -++|+|++|+..|+.++++.||..|+|+|.+++.     |.|+||+||++||.+++++||.. +||+...|.+|.|+|.+
T Consensus       339 ~gQTALMLAVSHGr~d~vk~LLacgAdVNiQDdD-----GSTALMCA~EHGhkEivklLLA~p~cd~sLtD~DgSTAl~I  413 (452)
T KOG0514|consen  339 HGQTALMLAVSHGRVDMVKALLACGADVNIQDDD-----GSTALMCAAEHGHKEIVKLLLAVPSCDISLTDVDGSTALSI  413 (452)
T ss_pred             hcchhhhhhhhcCcHHHHHHHHHccCCCccccCC-----ccHHHhhhhhhChHHHHHHHhccCcccceeecCCCchhhhh
Confidence            5688999999999999999999999999998665     99999999999999999999985 79999999999999999


Q ss_pred             hhhhhHHHHHHHHHHh
Q psy1308         229 AEDANIKQILQKYAEK  244 (607)
Q Consensus       229 A~~~~~~~~~~~ll~~  244 (607)
                      |...|+.+|..+|-.+
T Consensus       414 Aleagh~eIa~mlYa~  429 (452)
T KOG0514|consen  414 ALEAGHREIAVMLYAH  429 (452)
T ss_pred             HHhcCchHHHHHHHHH
Confidence            9999999999887655

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=99.90  E-value=9.6e-23  Score=219.16  Aligned_cols=227  Identities=20%  Similarity=0.321  Sum_probs=183.1

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|.+.++..+...+++....      ..+++++|++||||+.+|++++....+. ..+|+.+||+.+++......+||
T Consensus       205 ~~ig~s~~~~~~~~~~~~~A~~------~~pvlI~GE~GtGK~~lA~aiH~~s~r~-~~pfv~inca~~~~~~~e~elFG  277 (520)
T PRK10820        205 QIVAVSPKMRQVVEQARKLAML------DAPLLITGDTGTGKDLLAYACHLRSPRG-KKPFLALNCASIPDDVVESELFG  277 (520)
T ss_pred             ceeECCHHHHHHHHHHHHHhCC------CCCEEEECCCCccHHHHHHHHHHhCCCC-CCCeEEeccccCCHHHHHHHhcC
Confidence            5889999998888887766543      3468999999999999999999887664 78999999999988777788999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +.+| |.|...+  ..+.++.+.+|+||||||+.+++.+|..|+++++++.+...++......+++||++|+.....+.+
T Consensus       278 ~~~~~~~~~~~~--~~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~l~~l~~  355 (520)
T PRK10820        278 HAPGAYPNALEG--KKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQ  355 (520)
T ss_pred             CCCCCcCCcccC--CCChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCCHHHHHH
Confidence            8765 5544322  235677888999999999999999999999999999988776655556788999999966554432


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~~~~~i~~~  504 (607)
                                                                  ++.|+ ++|++|++.+.+..| |  +++|+..++..
T Consensus       356 --------------------------------------------~g~f~-~dL~~rL~~~~i~lPpLreR~~Di~~L~~~  390 (520)
T PRK10820        356 --------------------------------------------KGEFR-EDLYYRLNVLTLNLPPLRDRPQDIMPLTEL  390 (520)
T ss_pred             --------------------------------------------cCCcc-HHHHhhcCeeEEeCCCcccChhHHHHHHHH
Confidence                                                        34476 999999987655555 5  45789999999


Q ss_pred             HHHHHHHHHhhcCCc-EEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNI-NIVWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i-~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      ++..+..+.    +. ...++++++++|.. |+||+|+|+|+++|++.+..
T Consensus       391 fl~~~~~~~----g~~~~~ls~~a~~~L~~-y~WPGNvreL~nvl~~a~~~  436 (520)
T PRK10820        391 FVARFADEQ----GVPRPKLAADLNTVLTR-YGWPGNVRQLKNAIYRALTQ  436 (520)
T ss_pred             HHHHHHHHc----CCCCCCcCHHHHHHHhc-CCCCCHHHHHHHHHHHHHHh
Confidence            998876643    33 35799999999996 99999999999999998764

>KOG0507|consensus

Probab=99.89  E-value=6.7e-23  Score=212.32  Aligned_cols=257  Identities=19%  Similarity=0.171  Sum_probs=201.6

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHH
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELK  103 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~  103 (607)
                      +-.+.+|.|+||.||.+|+.++++.|++.....                       .-+|..|.+|||+|+++|+.++|+
T Consensus        43 n~qd~~gfTalhha~Lng~~~is~llle~ea~l-----------------------dl~d~kg~~plhlaaw~g~~e~vk   99 (854)
T KOG0507|consen   43 NLQDYSGFTLLHHAVLNGQNQISKLLLDYEALL-----------------------DLCDTKGILPLHLAAWNGNLEIVK   99 (854)
T ss_pred             cccCccchhHHHHHHhcCchHHHHHHhcchhhh-----------------------hhhhccCcceEEehhhcCcchHHH
Confidence            345778999999999999999999998764322                       245688999999999999999999


Q ss_pred             HHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccc--
Q psy1308         104 TFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFND--  179 (607)
Q Consensus       104 ~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~--  179 (607)
                      .++.++ ..+|..+..|.||||.|++.||.+++.+|+.+|+|+-.++.  .|+|-.|++.|..++++.|+...-++..  
T Consensus       100 mll~q~-d~~na~~~e~~tplhlaaqhgh~dvv~~Ll~~~adp~i~nns~~t~ldlA~qfgr~~Vvq~ll~~~~~~~~~~  178 (854)
T KOG0507|consen  100 MLLLQT-DILNAVNIENETPLHLAAQHGHLEVVFYLLKKNADPFIRNNSKETVLDLASRFGRAEVVQMLLQKKFPVQSSL  178 (854)
T ss_pred             HHHhcc-cCCCcccccCcCccchhhhhcchHHHHHHHhcCCCccccCcccccHHHHHHHhhhhHHHHHHhhhccchhhcc
Confidence            999999 88999999999999999999999999999999999999876  5699999999999999999987322211  


Q ss_pred             -cCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcc
Q psy1308         180 -VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERR  258 (607)
Q Consensus       180 -~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~  258 (607)
                       ......+..+-+|||+|+.+||.++++.|++.|.|+|....+| |+||.|+..|..+++..|++.|-...   ..+..+
T Consensus       179 ~~~~~~~~~~~~~plHlaakngh~~~~~~ll~ag~din~~t~~g-talheaalcgk~evvr~ll~~gin~h---~~n~~~  254 (854)
T KOG0507|consen  179 RVGDIKRPFPAIYPLHLAAKNGHVECMQALLEAGFDINYTTEDG-TALHEAALCGKAEVVRFLLEIGINTH---IKNQHG  254 (854)
T ss_pred             cCCCCCCCCCCcCCcchhhhcchHHHHHHHHhcCCCcccccccc-hhhhhHhhcCcchhhhHHHhhccccc---cccccc
Confidence             1123356678999999999999999999999999999998887 99999999999999999999987665   334555


Q ss_pred             cccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHH
Q psy1308         259 KYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQL  317 (607)
Q Consensus       259 ~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~l  317 (607)
                      .+.|...    +--|+...-.+.-+++....    .+.|+ ..+.|..+++++.+-+..
T Consensus       255 qtaldil----~d~~~~~~~ei~ga~~~~~~----~~~~l-t~inG~~~~~~~t~gq~s  304 (854)
T KOG0507|consen  255 QTALDII----IDLQENRRYEIAGAVKNFEQ----WKEPL-TIINGMRRSPRQTVGQWS  304 (854)
T ss_pred             hHHHHHH----Hhcchhhhhhhhhhhhcccc----ccCcc-ceecccCCcchhhhhcCc
Confidence            5555211    11233333333333332222    23344 335677778887766543

>KOG0745|consensus

Probab=99.89  E-value=2.5e-22  Score=196.91  Aligned_cols=241  Identities=22%  Similarity=0.342  Sum_probs=168.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhh-------CCC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK-------CPN  371 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~-------~~~  371 (607)
                      .++++||+|+|||.|++.||+.++    -||...||..++.           .||+|.+-...+..++..       +..
T Consensus       228 NvLllGPtGsGKTllaqTLAr~ld----VPfaIcDcTtLTQ-----------AGYVGeDVEsvi~KLl~~A~~nVekAQq  292 (564)
T KOG0745|consen  228 NVLLLGPTGSGKTLLAQTLARVLD----VPFAICDCTTLTQ-----------AGYVGEDVESVIQKLLQEAEYNVEKAQQ  292 (564)
T ss_pred             cEEEECCCCCchhHHHHHHHHHhC----CCeEEecccchhh-----------cccccccHHHHHHHHHHHccCCHHHHhc
Confidence            688999999999999999999994    4699999998864           689998777777776544       457


Q ss_pred             eEEEEecCCccC--------------HHHHHHHHHhhccceeecC--CC---------cEEecCceEEEEecCcch-HHH
Q psy1308         372 AVVLFDEVDKAH--------------PDVLTVLLQLFDEGRLTDG--KG---------KTIECKDAIFVMTSNLAS-NEI  425 (607)
Q Consensus       372 ~vl~lDEiek~~--------------~~~~~~Ll~~~~~~~~~~~--~g---------~~~~~~~~~iI~tsn~~~-~~i  425 (607)
                      |||||||+||+.              ..||..||+++| |.++..  +|         ..+|.+|++||+...... +.+
T Consensus       293 GIVflDEvDKi~~~~~~i~~~RDVsGEGVQQaLLKllE-GtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGAF~~Ldk~  371 (564)
T KOG0745|consen  293 GIVFLDEVDKITKKAESIHTSRDVSGEGVQQALLKLLE-GTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGAFVGLDKI  371 (564)
T ss_pred             CeEEEehhhhhcccCccccccccccchhHHHHHHHHhc-ccEEcccCCCCCCCCCCCeEEEeccceEEEecccccchHHH
Confidence            999999999975              239999999998 555543  22         257999999998765433 222


Q ss_pred             HHH-----HhhhhhcccccccCCCCcccccCCCcchhc-chhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHH
Q psy1308         426 AQH-----ALQLRKEGEEFSKRTPSISKSQGSNLDVTI-SRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELH  499 (607)
Q Consensus       426 ~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~  499 (607)
                      ...     .++|.....   +..-..+......+.... +....+.....+|-.+--.|||.+||..+++|.+|+++++.
T Consensus       372 I~rR~~d~slGFg~~s~---~~vr~~~~~~s~~~~~~~~~~~lL~~~~~~DLisfGmIPEfVGRfPVlVplh~L~~~~Lv  448 (564)
T KOG0745|consen  372 ISRRLDDKSLGFGAPSS---KGVRANMATKSGVENDAEKRDELLEKVESGDLISFGMIPEFVGRFPVLVPLHSLDEDQLV  448 (564)
T ss_pred             HHHhhcchhcccCCCCC---ccchhhcccccCcchhHHHHHHHHhhccccchhhhcCcHHHhcccceEeeccccCHHHHH
Confidence            221     222221110   000000000000011111 11133333334444442249999999999999999999999


Q ss_pred             HHHHHHHHHHHHH---HhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHH
Q psy1308         500 TLVCRELNFWAKK---ALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAA  558 (607)
Q Consensus       500 ~i~~~~l~~~~~~---~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~  558 (607)
                      +++...-+.+..+   ++...+++|.++++|++.+++ +.....|||.||..+|+++.+++.+
T Consensus       449 ~VLtEPknaL~~Qyk~lf~~~nV~L~fTe~Al~~IAq~Al~r~TGARgLRsIlE~~Lleamfe  511 (564)
T KOG0745|consen  449 RVLTEPKNALGKQYKKLFGMDNVELHFTEKALEAIAQLALKRKTGARGLRSILESLLLEAMFE  511 (564)
T ss_pred             HHHhcchhhHHHHHHHHhccCCeeEEecHHHHHHHHHHHHhhccchHHHHHHHHHHHhhhccc
Confidence            9997766655555   445567899999999999987 7889999999999999999988754

>TIGR00870 trp transient-receptor-potential calcium channel protein

Probab=99.88  E-value=1.4e-22  Score=229.87  Aligned_cols=189  Identities=16%  Similarity=0.124  Sum_probs=142.8

Q ss_pred             CCcCCchHHH-HHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcC---CHHH
Q psy1308          26 KRGFQSSKLF-YTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYG---SAKE  101 (607)
Q Consensus        26 ~~~~g~t~L~-~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g---~~~~  101 (607)
                      .+..|+|||| .|+.+++.+++++|+..+.                           .+..|.||||.|+..+   ...+
T Consensus        48 ~d~~G~t~Lh~~A~~~~~~eiv~lLl~~g~---------------------------~~~~G~T~Lh~A~~~~~~~v~~l  100 (743)
T TIGR00870        48 PDRLGRSALFVAAIENENLELTELLLNLSC---------------------------RGAVGDTLLHAISLEYVDAVEAI  100 (743)
T ss_pred             cCccchhHHHHHHHhcChHHHHHHHHhCCC---------------------------CCCcChHHHHHHHhccHHHHHHH
Confidence            4455666666 5666666666666655432                           4678999999999732   2234


Q ss_pred             HHHHHhcCCC-----CCc----cCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC----------------CCchHH
Q psy1308         102 LKTFIENSKL-----DVN----MRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD----------------LFNTVH  156 (607)
Q Consensus       102 v~~Ll~~~~~-----~~~----~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d----------------~~~~l~  156 (607)
                      +.++...++.     .++    ..+..|.||||+||..|+.++|++|+++|++++.++                +.+|||
T Consensus       101 l~~l~~~~~~~~~~~~~~~~~~~~~~~G~TpLhlAa~~~~~eiVklLL~~GAdv~~~~~~~~~~~~~~~~~~~~g~tpL~  180 (743)
T TIGR00870       101 LLHLLAAFRKSGPLELANDQYTSEFTPGITALHLAAHRQNYEIVKLLLERGASVPARACGDFFVKSQGVDSFYHGESPLN  180 (743)
T ss_pred             HHHHhhcccccCchhhhccccccccCCCCcHHHHHHHhCCHHHHHHHHhCCCCCCcCcCCchhhcCCCCCcccccccHHH
Confidence            4444443311     011    123569999999999999999999999999998652                457999


Q ss_pred             HHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcC---------CHHHHHHHHhcCCCC-------CccCC
Q psy1308         157 RTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAG---------NTEVVELLLKSGADP-------TVKDN  220 (607)
Q Consensus       157 ~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g---------~~~~v~~Ll~~gad~-------~~~d~  220 (607)
                      .|+..|+.+++++|+++|++++..+.     .|+||||+|+..+         ...+.+++++.+++.       +..|.
T Consensus       181 ~Aa~~~~~~iv~lLl~~gadin~~d~-----~g~T~Lh~A~~~~~~~~~~~~l~~~~~~~l~~ll~~~~~~~el~~i~N~  255 (743)
T TIGR00870       181 AAACLGSPSIVALLSEDPADILTADS-----LGNTLLHLLVMENEFKAEYEELSCQMYNFALSLLDKLRDSKELEVILNH  255 (743)
T ss_pred             HHHHhCCHHHHHHHhcCCcchhhHhh-----hhhHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHhccCChHhhhhhcCC
Confidence            99999999999999999999987754     4999999999987         334666777665543       77899


Q ss_pred             CCCCCCcchhhhhHHHHHHHHHHhhh
Q psy1308         221 SGHIPSDYAEDANIKQILQKYAEKYA  246 (607)
Q Consensus       221 ~g~Tpl~~A~~~~~~~~~~~ll~~~~  246 (607)
                      +|.||||+|+..|+.++++.+++.+.
T Consensus       256 ~g~TPL~~A~~~g~~~l~~lLL~~~~  281 (743)
T TIGR00870       256 QGLTPLKLAAKEGRIVLFRLKLAIKY  281 (743)
T ss_pred             CCCCchhhhhhcCCccHHHHHHHHHH
Confidence            99999999999999999999998643

after chronic exposure to capsaicin. (McCleskey and Gold, 1999).

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.88  E-value=2.2e-21  Score=215.74  Aligned_cols=299  Identities=17%  Similarity=0.217  Sum_probs=216.4

Q ss_pred             HHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHH
Q psy1308         236 QILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAK  315 (607)
Q Consensus       236 ~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~  315 (607)
                      ..+.++++-+.....   .+..........|.+...|.+.+.+.+.+.+...... .... .-.++|+||+|+|||.+++
T Consensus       293 ~yl~~~~~~pw~~~~---~~~~~~~~~~~~l~~~~~g~~~vK~~i~~~l~~~~~~-~~~~-g~~i~l~GppG~GKTtl~~  367 (784)
T PRK10787        293 GYIDWMVQVPWNARS---KVKKDLRQAQEILDTDHYGLERVKDRILEYLAVQSRV-NKIK-GPILCLVGPPGVGKTSLGQ  367 (784)
T ss_pred             HHHHHHHhCCCCCCC---cccccHHHHHHHhhhhccCHHHHHHHHHHHHHHHHhc-ccCC-CceEEEECCCCCCHHHHHH
Confidence            344555555554332   1223333445567778999999999998776643321 1111 2268899999999999999


Q ss_pred             HHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhC--CCeEEEEecCCccCHHH----HHH
Q psy1308         316 QLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKC--PNAVVLFDEVDKAHPDV----LTV  389 (607)
Q Consensus       316 ~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~--~~~vl~lDEiek~~~~~----~~~  389 (607)
                      .+++.+..    +|.+++++...+   ...+.|....|.|...|. +...+..+  .++++||||||+++++.    ++.
T Consensus       368 ~ia~~l~~----~~~~i~~~~~~d---~~~i~g~~~~~~g~~~G~-~~~~l~~~~~~~~villDEidk~~~~~~g~~~~a  439 (784)
T PRK10787        368 SIAKATGR----KYVRMALGGVRD---EAEIRGHRRTYIGSMPGK-LIQKMAKVGVKNPLFLLDEIDKMSSDMRGDPASA  439 (784)
T ss_pred             HHHHHhCC----CEEEEEcCCCCC---HHHhccchhccCCCCCcH-HHHHHHhcCCCCCEEEEEChhhcccccCCCHHHH
Confidence            99998854    488888776643   466777777788876554 44444443  36799999999999876    599


Q ss_pred             HHHhhccc---eeecCC-CcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhh
Q psy1308         390 LLQLFDEG---RLTDGK-GKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDH  465 (607)
Q Consensus       390 Ll~~~~~~---~~~~~~-g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (607)
                      |+++++.+   .+.|.- ....|+++++||+|+|.-                                            
T Consensus       440 Llevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~--------------------------------------------  475 (784)
T PRK10787        440 LLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSM--------------------------------------------  475 (784)
T ss_pred             HHHHhccccEEEEecccccccccCCceEEEEcCCCC--------------------------------------------
Confidence            99999854   455542 345788999999999821                                            


Q ss_pred             hhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHH-HHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccch
Q psy1308         466 VVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELN-FWAKKALDKHNINIVWDIDVETILADGYDVHYGARSI  544 (607)
Q Consensus       466 ~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~-~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L  544 (607)
                              .+ +|.|++|+ .++.|.|++.+++.+|+.+++. +...+. ...+..+.++++++++|+++|++..|||+|
T Consensus       476 --------~i-~~aLl~R~-~ii~~~~~t~eek~~Ia~~~L~~k~~~~~-~l~~~~l~i~~~ai~~ii~~yt~e~GaR~L  544 (784)
T PRK10787        476 --------NI-PAPLLDRM-EVIRLSGYTEDEKLNIAKRHLLPKQIERN-ALKKGELTVDDSAIIGIIRYYTREAGVRSL  544 (784)
T ss_pred             --------CC-CHHHhcce-eeeecCCCCHHHHHHHHHHhhhHHHHHHh-CCCCCeEEECHHHHHHHHHhCCcccCCcHH
Confidence                    02 38999999 5899999999999999999996 333333 334568999999999998889999999999


Q ss_pred             hHHHHHHHHHHHHHHHHhccCCCCCEEEEEEecCCcccccCCCCceEEEEEeccCcccccc
Q psy1308         545 KHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFID  605 (607)
Q Consensus       545 ~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  605 (607)
                      ++.|++.+...+++.++.+..   ..++|+.++-..+++.+...........+.|...|++
T Consensus       545 eR~I~~i~r~~l~~~~~~~~~---~~v~v~~~~~~~~lg~~~~~~~~~~~~~~~G~~~gla  602 (784)
T PRK10787        545 EREISKLCRKAVKQLLLDKSL---KHIEINGDNLHDYLGVQRFDYGRADNENRVGQVTGLA  602 (784)
T ss_pred             HHHHHHHHHHHHHHHHhcCCC---ceeeecHHHHHHHhCCCccccchhhcCCCceEEEEeE
Confidence            999999999999988876654   4688888887777765554433333344556665554

>PHA02743 Viral ankyrin protein; Provisional

Probab=99.88  E-value=3.8e-22  Score=182.63  Aligned_cols=144  Identities=17%  Similarity=0.133  Sum_probs=124.9

Q ss_pred             CccchhccCCCCCHHHHHHHHcCCH----HHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHH---HHHHHHcCCCCC
Q psy1308          75 LALTLLECQSIKDLTLFRAARYGSA----KELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDN---VRVLLEAGANPN  147 (607)
Q Consensus        75 ~~~~~~~~~~~g~t~Lh~A~~~g~~----~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~---v~~Ll~~ga~~~  147 (607)
                      +....+..+.++.++||.||+.|+.    +++++|++.+ .+++.+|..|+||||+|+..|+.++   +++|+++|+++|
T Consensus         9 ~~~~~~~~~~~~~~~l~~a~~~g~~~~l~~~~~~l~~~g-~~~~~~d~~g~t~Lh~Aa~~g~~~~~~~i~~Ll~~Gadin   87 (166)
T PHA02743          9 NNLGAVEIDEDEQNTFLRICRTGNIYELMEVAPFISGDG-HLLHRYDHHGRQCTHMVAWYDRANAVMKIELLVNMGADIN   87 (166)
T ss_pred             cchHHhhhccCCCcHHHHHHHcCCHHHHHHHHHHHhhcc-hhhhccCCCCCcHHHHHHHhCccCHHHHHHHHHHcCCCCC
Confidence            3344456778889999999999998    5666777877 8899999999999999999988654   899999999999


Q ss_pred             CCC---CCchHHHHHHcCCccHHHHHHh-cCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCC
Q psy1308         148 LGD---LFNTVHRTAAEKKMNPFEVLLK-REDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGH  223 (607)
Q Consensus       148 ~~d---~~~~l~~A~~~~~~~~~~~Ll~-~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~  223 (607)
                      .++   ++||||+|+..++.+++++|+. .|++++..+.     .|+||||+|+..++.+++++|+++|++++.++..|.
T Consensus        88 ~~d~~~g~TpLh~A~~~g~~~iv~~Ll~~~gad~~~~d~-----~g~tpL~~A~~~~~~~iv~~Ll~~ga~~~~~~~~~~  162 (166)
T PHA02743         88 ARELGTGNTLLHIAASTKNYELAEWLCRQLGVNLGAINY-----QHETAYHIAYKMRDRRMMEILRANGAVCDDPLSIGL  162 (166)
T ss_pred             CCCCCCCCcHHHHHHHhCCHHHHHHHHhccCCCccCcCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcccCCc
Confidence            875   4679999999999999999995 7999887644     499999999999999999999999999999998875


Q ss_pred             C
Q psy1308         224 I  224 (607)
Q Consensus       224 T  224 (607)
                      .
T Consensus       163 ~  163 (166)
T PHA02743        163 S  163 (166)
T ss_pred             c
Confidence            3

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=99.88  E-value=8.7e-22  Score=218.80  Aligned_cols=224  Identities=14%  Similarity=0.248  Sum_probs=180.4

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|.+.++..+...+.+....      ..++++.|++||||+.+|+.|+....+. ..+|+.+||+.++......++||
T Consensus       326 ~l~g~s~~~~~~~~~~~~~a~~------~~pvli~Ge~GtGK~~~A~~ih~~s~r~-~~pfv~vnc~~~~~~~~~~elfg  398 (638)
T PRK11388        326 HMPQDSPQMRRLIHFGRQAAKS------SFPVLLCGEEGVGKALLAQAIHNESERA-AGPYIAVNCQLYPDEALAEEFLG  398 (638)
T ss_pred             ceEECCHHHHHHHHHHHHHhCc------CCCEEEECCCCcCHHHHHHHHHHhCCcc-CCCeEEEECCCCChHHHHHHhcC
Confidence            4788999998888877776543      3468999999999999999999988765 77999999999988766788998


Q ss_pred             CCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHH
Q psy1308         349 APPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                      +..+.   . .....+.++.+.+|+||||||+.+++++|..|+++++++.++..++......++++|+||+.+.....+ 
T Consensus       399 ~~~~~---~-~~~~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~~l~~~~~-  473 (638)
T PRK11388        399 SDRTD---S-ENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAMLVE-  473 (638)
T ss_pred             CCCcC---c-cCCCCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccCCHHHHHh-
Confidence            75331   1 112234567788999999999999999999999999999998877665555688999999966544322 


Q ss_pred             HhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHHHHHHHHHHH
Q psy1308         429 ALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKSELHTLVCRE  505 (607)
Q Consensus       429 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~~~~~i~~~~  505 (607)
                                                                 .+.|+ ++|++||+.+.+..| |  .++|+..++..+
T Consensus       474 -------------------------------------------~~~f~-~dL~~~l~~~~i~lPpLreR~~Di~~L~~~~  509 (638)
T PRK11388        474 -------------------------------------------QNRFS-RQLYYALHAFEITIPPLRMRREDIPALVNNK  509 (638)
T ss_pred             -------------------------------------------cCCCh-HHHhhhhceeEEeCCChhhhhhHHHHHHHHH
Confidence                                                       24576 999999988766555 4  447999999999


Q ss_pred             HHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         506 LNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       506 l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      +.++..+.    +..+.+++++++.|.. |+||+|+|+|+++|++.+.
T Consensus       510 l~~~~~~~----~~~~~~s~~a~~~L~~-y~WPGNvreL~~~l~~~~~  552 (638)
T PRK11388        510 LRSLEKRF----STRLKIDDDALARLVS-YRWPGNDFELRSVIENLAL  552 (638)
T ss_pred             HHHHHHHh----CCCCCcCHHHHHHHHc-CCCCChHHHHHHHHHHHHH
Confidence            98876543    3346799999999997 9999999999999998765

>KOG0502|consensus

Probab=99.88  E-value=3.6e-22  Score=177.61  Aligned_cols=236  Identities=20%  Similarity=0.185  Sum_probs=192.1

Q ss_pred             CCCCCCcCCchHHHHHHhcCChhHHHHHhc--------CCCcccc-cccccCChHHHHHHccCccchhccCCCCCHHHHH
Q psy1308          22 QKPYKRGFQSSKLFYTTQSTQADFKSCLSV--------FPKIRQS-NNTCMYNNLLFASACSLALTLLECQSIKDLTLFR   92 (607)
Q Consensus        22 ~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~--------~~~~~~~-~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~   92 (607)
                      .+.+.++..-..++.++..|-.+.-..|..        .+..... .-..+.+.....+...........+..|++++|.
T Consensus        23 ~p~~~ns~q~a~~~~~~~m~~t~p~~~l~~~~s~~~~~lge~~~~~~~~s~nsd~~v~s~~~~~~~~~~t~p~g~~~~~v  102 (296)
T KOG0502|consen   23 LPVTMNSTQIAELFEQVEMGTTEPRCALTAEISALRNALGESLLTVAVRSGNSDVAVQSAQLDPDAIDETDPEGWSALLV  102 (296)
T ss_pred             CCCCCChHHHHHHHHHhhccccchhHHHHHHHHHHHHhcCCcccchhhhcCCcHHHHHhhccCCCCCCCCCchhhhhhhh
Confidence            455666666777888888887776555552        2221111 1233444555555666666677888899999999


Q ss_pred             HHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHHHHHh
Q psy1308          93 AARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLK  172 (607)
Q Consensus        93 A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~Ll~  172 (607)
                      |+-.|+...+..+|.++ +..|..+-.+++|+++++...+.+.+..|.+...+-...-+.|||+||++.|++.++++||+
T Consensus       103 ~ap~~s~~k~sttltN~-~rgnevs~~p~s~~slsVhql~L~~~~~~~~n~VN~~De~GfTpLiWAaa~G~i~vV~fLL~  181 (296)
T KOG0502|consen  103 AAPCGSVDKVSTTLTNG-ARGNEVSLMPWSPLSLSVHQLHLDVVDLLVNNKVNACDEFGFTPLIWAAAKGHIPVVQFLLN  181 (296)
T ss_pred             cCCCCCcceeeeeeccc-ccCCccccccCChhhHHHHHHHHHHHHHHhhccccCccccCchHhHHHHhcCchHHHHHHHH
Confidence            99999999999999998 89999999999999999999999998888876554444445779999999999999999999


Q ss_pred             cCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhH
Q psy1308         173 REDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREK  252 (607)
Q Consensus       173 ~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~  252 (607)
                      .|++++.....     ..|+|++|+..|..++|++||.++.|+|..|.+|-|||-+|++.++.+|++.|+..|++..   
T Consensus       182 ~GAdp~~lgk~-----resALsLAt~ggytdiV~lLL~r~vdVNvyDwNGgTpLlyAvrgnhvkcve~Ll~sGAd~t---  253 (296)
T KOG0502|consen  182 SGADPDALGKY-----RESALSLATRGGYTDIVELLLTREVDVNVYDWNGGTPLLYAVRGNHVKCVESLLNSGADVT---  253 (296)
T ss_pred             cCCChhhhhhh-----hhhhHhHHhcCChHHHHHHHHhcCCCcceeccCCCceeeeeecCChHHHHHHHHhcCCCcc---
Confidence            99999988554     7899999999999999999999999999999999999999999999999999999999987   


Q ss_pred             HHhhcccccHHHHH
Q psy1308         253 EAEERRKYPLEQRL  266 (607)
Q Consensus       253 ~~~~~~~~~L~~~l  266 (607)
                      ..+..|.+.+.-+.
T Consensus       254 ~e~dsGy~~mdlAV  267 (296)
T KOG0502|consen  254 QEDDSGYWIMDLAV  267 (296)
T ss_pred             cccccCCcHHHHHH
Confidence            34556666654443

>PHA02792 ankyrin-like protein; Provisional

Probab=99.87  E-value=1.4e-21  Score=206.81  Aligned_cols=217  Identities=15%  Similarity=0.094  Sum_probs=170.1

Q ss_pred             CCCCcCCchHHHHHHhcC-------ChhHHHHHhcCCCcccccccccCChHHHHHHccCcc------------------c
Q psy1308          24 PYKRGFQSSKLFYTTQST-------QADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLAL------------------T   78 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g-------~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~------------------~   78 (607)
                      +.++..|+||||+|+.++       +.+++++|++++......+.++.++++.+.......                  .
T Consensus       169 ~~~~~~g~t~L~~~i~~~s~~~~~~~~~v~k~Li~~g~~~~~~d~~g~t~l~~~~~~~~i~~ei~~~L~~~~~~~~~~~~  248 (631)
T PHA02792        169 DYDDRMGKTVLYYYIITRSQDGYATSLDVINYLISHEKEMRYYTYREHTTLYYYVDKCDIKREIFDALFDSNYSGNELMN  248 (631)
T ss_pred             ccCCCCCCchHHHHHhhCCcccccCCHHHHHHHHhCCCCcCccCCCCChHHHHHHHcccchHHHHHHHHhccccccchHh
Confidence            456778999999999999       899999999999998888888999999885333000                  0


Q ss_pred             ----------------h---------------------hccCCC-------------CCHHHHHHHHcC--CHHHHHHHH
Q psy1308          79 ----------------L---------------------LECQSI-------------KDLTLFRAARYG--SAKELKTFI  106 (607)
Q Consensus        79 ----------------~---------------------~~~~~~-------------g~t~Lh~A~~~g--~~~~v~~Ll  106 (607)
                                      +                     ...+.+             -+-.||.-..++  +.+++++|+
T Consensus       249 ~l~~y~~~~~~~~~~~id~~iv~~ll~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~q~~l~~Yl~~~~v~ieiIK~LI  328 (631)
T PHA02792        249 ILSNYLRKQYRNKNHKIDNYIVDKLLSGHDTFYILELCNSLRNNIIISSILKRYTDSIQDLLSEYVSYHTVYINVIKCMI  328 (631)
T ss_pred             HHHHHHHHHhccCccCccHHHHHHHHhCCCccchhhhhhhhhhhhHHHHHHHHHhHHHHHHHHHHHhcCCccHHHHHHHH
Confidence                            0                     000000             012255555566  678999999


Q ss_pred             hcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCC----chHHHHHHcCCcc---HHHHHHhcCCCccc
Q psy1308         107 ENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF----NTVHRTAAEKKMN---PFEVLLKREDEFND  179 (607)
Q Consensus       107 ~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~----~~l~~A~~~~~~~---~~~~Ll~~g~~~~~  179 (607)
                      ++| ++.+  ...+..+++.||..|+.++|++|+++|||++.+|..    ||||+|+.....+   ++++|+++|+++|.
T Consensus       329 d~G-a~~~--r~~~~n~~~~Aa~~gn~eIVelLIs~GADIN~kD~~g~~~TpLh~A~~n~~~~v~~IlklLIs~GADIN~  405 (631)
T PHA02792        329 DEG-ATLY--RFKHINKYFQKFDNRDPKVVEYILKNGNVVVEDDDNIINIMPLFPTLSIHESDVLSILKLCKPYIDDINK  405 (631)
T ss_pred             HCC-Cccc--cCCcchHHHHHHHcCCHHHHHHHHHcCCchhhhcCCCCChhHHHHHHHhccHhHHHHHHHHHhcCCcccc
Confidence            999 7765  223567899999999999999999999999987753    6999877766543   58899999999998


Q ss_pred             cCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhh----------hhHHHHHHHHHHhhhhH
Q psy1308         180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAED----------ANIKQILQKYAEKYADL  248 (607)
Q Consensus       180 ~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~----------~~~~~~~~~ll~~~~~~  248 (607)
                      .+..     |+||||+|+..++.+++++|+++|++++.+|..|+||||+|+.          ....++++.|++++++.
T Consensus       406 kD~~-----G~TPLh~Aa~~~n~eivelLLs~GADIN~kD~~G~TpL~~A~~~~~~~~~~i~~~~~~il~lLLs~~p~i  479 (631)
T PHA02792        406 IDKH-----GRSILYYCIESHSVSLVEWLIDNGADINITTKYGSTCIGICVILAHACIPEIAELYIKILEIILSKLPTI  479 (631)
T ss_pred             cccc-----CcchHHHHHHcCCHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHHHhcccHHHHHHHHHHHHHHHhcCCCh
Confidence            7554     9999999999999999999999999999999999999999975          23355666676666554

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.87  E-value=9.7e-22  Score=197.63  Aligned_cols=246  Identities=20%  Similarity=0.355  Sum_probs=172.2

Q ss_pred             ccHHHHHHhHhhhhHHHHHHHHHHHHHh--hCCCC----CCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         260 YPLEQRLKDRIVGQESAINIISAAIKRK--ENGWT----DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       260 ~~L~~~l~~~i~Gq~~ai~~l~~~i~~~--~~~~~----~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      ..+...|.+.++||+.+++.+..++...  ..+..    .+..|..++|+||+|+|||++|+.|++.+.    .+|+.+|
T Consensus         7 ~~I~~~Ld~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~----~~fi~vD   82 (443)
T PRK05201          7 REIVSELDKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAN----APFIKVE   82 (443)
T ss_pred             HHHHHHhccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhC----Chheeec
Confidence            3456778889999999999999888653  12222    222356899999999999999999999984    4599999


Q ss_pred             cccccccc----h----hH--------------------------------hhhcCC-----------------------
Q psy1308         334 MSEYQEKH----E----VA--------------------------------KLIGAP-----------------------  350 (607)
Q Consensus       334 ~a~~~~~~----~----~~--------------------------------~llg~~-----------------------  350 (607)
                      ++.+.+..    .    +.                                .+++..                       
T Consensus        83 ~t~f~e~GyvG~d~e~~ir~L~~~A~~~~~~~~~~~~~~~a~~~~e~ri~~~l~~~~~~~~~~~~~~~~~~~~r~~~~~~  162 (443)
T PRK05201         83 ATKFTEVGYVGRDVESIIRDLVEIAVKMVREEKREKVREKAEEAAEERILDALLPPAKNNWGEEEEKEEISATRQKFRKK  162 (443)
T ss_pred             chhhccCCcccCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhCCCccCCccccccchhhhHHHHHHHHH
Confidence            88665420    0    01                                111100                       


Q ss_pred             ----------------C-CC-ccCCCC-c-----------------------------------------------hhhH
Q psy1308         351 ----------------P-GY-LGHDDG-G-----------------------------------------------QLTK  364 (607)
Q Consensus       351 ----------------~-g~-~g~~~~-~-----------------------------------------------~l~~  364 (607)
                                      . +. .+...+ +                                               ....
T Consensus       163 l~~g~ldd~~iei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~eA~~~l~~~e~~~lid~~~v~~~  242 (443)
T PRK05201        163 LREGELDDKEIEIEVAEAAPMMEIMGPPGMEEMTIQLQDMFGNLGPKKKKKRKLKVKEARKILIEEEAAKLIDMEEIKQE  242 (443)
T ss_pred             HHcCCcCCcEEEEEecCCCCcccCCCCcchhHHHHHHHHHHHhhCCCCCceEEeEHHHHHHHHHHHHHHhccChHHHHHH
Confidence                            0 00 000000 0                                               0012


Q ss_pred             HHhhC-CCeEEEEecCCccC------------HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhh
Q psy1308         365 RLKKC-PNAVVLFDEVDKAH------------PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQ  431 (607)
Q Consensus       365 ~~~~~-~~~vl~lDEiek~~------------~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~  431 (607)
                      +++.+ ..||||+|||||+.            ..||..||+++|...+.- .-.+++..+++||++......        
T Consensus       243 ai~~ae~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~-k~~~i~T~~ILFI~~GAF~~~--------  313 (443)
T PRK05201        243 AIERVEQNGIVFIDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVST-KYGMVKTDHILFIASGAFHVS--------  313 (443)
T ss_pred             HHHHHHcCCEEEEEcchhhcccCCCCCCCCCccchhcccccccccceeee-cceeEECCceeEEecCCcCCC--------
Confidence            23443 78999999999974            239999999998544443 445789999999999774210        


Q ss_pred             hhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHH----HHH
Q psy1308         432 LRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCR----ELN  507 (607)
Q Consensus       432 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~----~l~  507 (607)
                                         .+           ++         +- |||.+||+.++.+.||+.+++..|+..    .+.
T Consensus       314 -------------------kp-----------~D---------lI-PEl~GR~Pi~v~L~~L~~~dL~~ILteP~nsLik  353 (443)
T PRK05201        314 -------------------KP-----------SD---------LI-PELQGRFPIRVELDALTEEDFVRILTEPKASLIK  353 (443)
T ss_pred             -------------------Ch-----------hh---------cc-HHHhCccceEEECCCCCHHHHHHHhcCChhHHHH
Confidence                               00           11         23 999999999999999999999999954    444


Q ss_pred             HHHHHHhhcCCcEEEeCHhHHHHHHc-cCC-----CCCCccchhHHHHHHHHHHHHHH
Q psy1308         508 FWAKKALDKHNINIVWDIDVETILAD-GYD-----VHYGARSIKHEVERQVVSQLAAA  559 (607)
Q Consensus       508 ~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~-----~~~GaR~L~~~i~~~i~~~l~~~  559 (607)
                      .+.. +....|++|+++++|++.|++ ++.     ...|||.|+.++|+.+.+...+.
T Consensus       354 Qy~~-Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtI~E~~L~d~~Fe~  410 (443)
T PRK05201        354 QYQA-LLATEGVTLEFTDDAIRRIAEIAYQVNEKTENIGARRLHTVMEKLLEDISFEA  410 (443)
T ss_pred             HHHH-HHhhcCcEEEEcHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhccC
Confidence            4443 344569999999999999986 554     58999999999999888876544

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=99.87  E-value=1.2e-21  Score=210.86  Aligned_cols=228  Identities=21%  Similarity=0.312  Sum_probs=184.4

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|.+..+..+...+......      ..++++.|++|+||+.+|+.++...... ..+|+.+||+.+........+||
T Consensus       139 ~lig~s~~~~~l~~~~~~~~~~------~~~vli~Ge~GtGK~~lA~~ih~~s~~~-~~~~i~i~c~~~~~~~~~~~lfg  211 (469)
T PRK10923        139 DIIGEAPAMQDVFRIIGRLSRS------SISVLINGESGTGKELVAHALHRHSPRA-KAPFIALNMAAIPKDLIESELFG  211 (469)
T ss_pred             cceecCHHHHHHHHHHHHHhcc------CCeEEEEeCCCCcHHHHHHHHHhcCCCC-CCCeEeeeCCCCCHHHHHHHhcC
Confidence            4778888888877777654432      3479999999999999999999987765 78999999999988777788999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +..| |.|....  ..+.++.+.+|++|||||+.+++++|..|+++++++.+...+|......+++||+||+.+.....+
T Consensus       212 ~~~g~~~~~~~~--~~g~~~~a~~Gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~  289 (469)
T PRK10923        212 HEKGAFTGANTI--RQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQRVQ  289 (469)
T ss_pred             CCCCCCCCCCcC--CCCCeeECCCCEEEEeccccCCHHHHHHHHHHHhcCcEEeCCCCCeEEeeEEEEEeCCCCHHHHHH
Confidence            8877 6664332  234577888999999999999999999999999999999887776667899999999965544322


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC---CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF---SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl---~~~~~~~i~~~  504 (607)
                                                                  .+.|+ ++|++|++.+.+..|.   +++|+..++..
T Consensus       290 --------------------------------------------~~~~~-~~L~~~l~~~~i~~PpLreR~~Di~~l~~~  324 (469)
T PRK10923        290 --------------------------------------------EGKFR-EDLFHRLNVIRVHLPPLRERREDIPRLARH  324 (469)
T ss_pred             --------------------------------------------cCCch-HHHHHHhcceeecCCCcccchhhHHHHHHH
Confidence                                                        34476 9999999877666664   56899999999


Q ss_pred             HHHHHHHHHhhcCCcE-EEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNIN-IVWDIDVETILADGYDVHYGARSIKHEVERQVVSQ  555 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~-l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~  555 (607)
                      ++..+..+.    +.. ..+++++++.|.. |+||+|+|+|+++|++.+...
T Consensus       325 ~l~~~~~~~----~~~~~~~~~~a~~~L~~-~~wpgNv~eL~~~i~~~~~~~  371 (469)
T PRK10923        325 FLQVAAREL----GVEAKLLHPETEAALTR-LAWPGNVRQLENTCRWLTVMA  371 (469)
T ss_pred             HHHHHHHHc----CCCCCCcCHHHHHHHHh-CCCCChHHHHHHHHHHHHHhC
Confidence            998876543    333 4689999999996 999999999999999987643

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=99.87  E-value=2.6e-21  Score=201.88  Aligned_cols=303  Identities=17%  Similarity=0.198  Sum_probs=225.3

Q ss_pred             HHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHH
Q psy1308         235 KQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELA  314 (607)
Q Consensus       235 ~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la  314 (607)
                      ...+..++.-+.....   .++.......+.|.....|-+...+.+.+.+.-....  ..-+-..++|+||||+|||.|+
T Consensus       293 RnYlDwll~lPW~~~s---k~~~Dl~~a~~iLd~dHYGLekVKeRIlEyLAV~~l~--~~~kGpILcLVGPPGVGKTSLg  367 (782)
T COG0466         293 RNYLDWLLDLPWGKRS---KDKLDLKKAEKILDKDHYGLEKVKERILEYLAVQKLT--KKLKGPILCLVGPPGVGKTSLG  367 (782)
T ss_pred             HHHHHHHHhCCCcccc---chhhhHHHHHHHhcccccCchhHHHHHHHHHHHHHHh--ccCCCcEEEEECCCCCCchhHH
Confidence            3444555555554332   2333334445567777889999999988877544322  1112236899999999999999


Q ss_pred             HHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCC--CeEEEEecCCccCHHHH----H
Q psy1308         315 KQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCP--NAVVLFDEVDKAHPDVL----T  388 (607)
Q Consensus       315 ~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~--~~vl~lDEiek~~~~~~----~  388 (607)
                      +.||+.+++.    |+++......+   ++++-|+...|+|+..|..+. .+.++.  +.+++||||||+..+.+    .
T Consensus       368 kSIA~al~Rk----fvR~sLGGvrD---EAEIRGHRRTYIGamPGrIiQ-~mkka~~~NPv~LLDEIDKm~ss~rGDPaS  439 (782)
T COG0466         368 KSIAKALGRK----FVRISLGGVRD---EAEIRGHRRTYIGAMPGKIIQ-GMKKAGVKNPVFLLDEIDKMGSSFRGDPAS  439 (782)
T ss_pred             HHHHHHhCCC----EEEEecCcccc---HHHhccccccccccCChHHHH-HHHHhCCcCCeEEeechhhccCCCCCChHH
Confidence            9999999776    99999988755   678889999999987775554 444443  88999999999976644    7


Q ss_pred             HHHHhhc---cceeecC-CCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhh
Q psy1308         389 VLLQLFD---EGRLTDG-KGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKD  464 (607)
Q Consensus       389 ~Ll~~~~---~~~~~~~-~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  464 (607)
                      +||.++|   +..|.|. -....|.++++||+|+|.- +                                         
T Consensus       440 ALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl-~-----------------------------------------  477 (782)
T COG0466         440 ALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSL-D-----------------------------------------  477 (782)
T ss_pred             HHHhhcCHhhcCchhhccccCccchhheEEEeecCcc-c-----------------------------------------
Confidence            8999997   6667764 3566899999999999921 0                                         


Q ss_pred             hhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccch
Q psy1308         465 HVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSI  544 (607)
Q Consensus       465 ~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L  544 (607)
                               .. +..|+.|+ ++|....++.+|-.+|+.++|-.-+-+-.....-.+.++++|+..|.+.|..+.|+|.|
T Consensus       478 ---------tI-P~PLlDRM-EiI~lsgYt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~ai~~iI~~YTREAGVR~L  546 (782)
T COG0466         478 ---------TI-PAPLLDRM-EVIRLSGYTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKDIIRYYTREAGVRNL  546 (782)
T ss_pred             ---------cC-ChHHhcce-eeeeecCCChHHHHHHHHHhcchHHHHHcCCCccceeecHHHHHHHHHHHhHhhhhhHH
Confidence                     01 37799999 78899999999999999999875443322222347999999999998789999999999


Q ss_pred             hHHHHHHHHHHHHHHHHhccCCCCCEEEEEEecCCcccccCCCCceEEEEEeccCccccccc
Q psy1308         545 KHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFIDV  606 (607)
Q Consensus       545 ~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  606 (607)
                      ++.|.+.+.... ..++.++..  ..+.|+..+-..+++.+.+......+..+.|.+.|+|.
T Consensus       547 eR~i~ki~RK~~-~~i~~~~~k--~~~~i~~~~l~~yLG~~~f~~~~~~~~~~vGvVtGLAW  605 (782)
T COG0466         547 EREIAKICRKAA-KKILLKKEK--SIVKIDEKNLKKYLGVPVFRYGKAEEEDQVGVVTGLAW  605 (782)
T ss_pred             HHHHHHHHHHHH-HHHHhcCcc--cceeeCHHHHHHHhCCcccCccccccCCCCeeEeeeee
Confidence            999998666555 455554332  22678888888999888888777888888888888764

>TIGR00763 lon ATP-dependent protease La

Probab=99.87  E-value=4.4e-21  Score=215.83  Aligned_cols=285  Identities=19%  Similarity=0.229  Sum_probs=200.2

Q ss_pred             ccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc
Q psy1308         258 RKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY  337 (607)
Q Consensus       258 ~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~  337 (607)
                      ....+.+.+...++|++.+++.+...+....... .. ++.+++|+||+|+|||.+++.+++.+..    +|++++++..
T Consensus       310 ~~~~~~~~l~~~~~G~~~~k~~i~~~~~~~~~~~-~~-~~~~lll~GppG~GKT~lAk~iA~~l~~----~~~~i~~~~~  383 (775)
T TIGR00763       310 DLKRAKEILDEDHYGLKKVKERILEYLAVQKLRG-KM-KGPILCLVGPPGVGKTSLGKSIAKALNR----KFVRFSLGGV  383 (775)
T ss_pred             hHHHHHHHhhhhcCChHHHHHHHHHHHHHHHhhc-CC-CCceEEEECCCCCCHHHHHHHHHHHhcC----CeEEEeCCCc
Confidence            3445667788889999999999988665443211 11 2237999999999999999999999854    4889988765


Q ss_pred             cccchhHhhhcCCCCCccCCCCchhhHHHhhC--CCeEEEEecCCccCHHH----HHHHHHhhcc---ceeecC-CCcEE
Q psy1308         338 QEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKC--PNAVVLFDEVDKAHPDV----LTVLLQLFDE---GRLTDG-KGKTI  407 (607)
Q Consensus       338 ~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~--~~~vl~lDEiek~~~~~----~~~Ll~~~~~---~~~~~~-~g~~~  407 (607)
                      .+   ...+.|....|+|...+. +...+..+  ..+|+||||||++++..    .+.|+++++.   +.+.|. -+..+
T Consensus       384 ~~---~~~i~g~~~~~~g~~~g~-i~~~l~~~~~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~  459 (775)
T TIGR00763       384 RD---EAEIRGHRRTYVGAMPGR-IIQGLKKAKTKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPF  459 (775)
T ss_pred             cc---HHHHcCCCCceeCCCCch-HHHHHHHhCcCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCcee
Confidence            33   456677777788875543 33444432  35699999999997653    4889999984   667765 36778


Q ss_pred             ecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccce
Q psy1308         408 ECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEI  487 (607)
Q Consensus       408 ~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~i  487 (607)
                      ++++++||+|||..                                                   ..+. |+|++|+ .+
T Consensus       460 d~s~v~~I~TtN~~---------------------------------------------------~~i~-~~L~~R~-~v  486 (775)
T TIGR00763       460 DLSKVIFIATANSI---------------------------------------------------DTIP-RPLLDRM-EV  486 (775)
T ss_pred             ccCCEEEEEecCCc---------------------------------------------------hhCC-HHHhCCe-eE
Confidence            99999999999931                                                   1133 8999999 57


Q ss_pred             eeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHHHhccCCC
Q psy1308         488 VYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGK  567 (607)
Q Consensus       488 v~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~  567 (607)
                      +.|.|++.++..+|+..++.....+........+.++++++.+|+++|+...|+|.|++.|++.+.....+.+..+....
T Consensus       487 i~~~~~~~~e~~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~g~R~l~r~i~~~~~~~~~~~~~~~~~~~  566 (775)
T TIGR00763       487 IELSGYTEEEKLEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREAGVRNLERQIEKICRKAAVKLVEQGEKKK  566 (775)
T ss_pred             EecCCCCHHHHHHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhcCChHHHHHHHHHHHHHHHHHHhccCccc
Confidence            89999999999999998886422221111123689999999999888999999999999999988777444433355443


Q ss_pred             CC--EEEEEEecCCcccccCCCCceEEEEEeccCcccccc
Q psy1308         568 GS--FVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFID  605 (607)
Q Consensus       568 ~~--~v~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  605 (607)
                      +.  .+.|+.++-..+++.+.+......+..+.|.+.|++
T Consensus       567 ~~~~~v~i~~~~~~~~lg~~~~~~~~~~~~~~~G~v~gla  606 (775)
T TIGR00763       567 SEAESVVITPDNLKKYLGKPVFTYERAYEVTPPGVVMGLA  606 (775)
T ss_pred             CCcccccCCHHHHHHhcCccccccchhccCCCCeEEEEEE
Confidence            33  355555555666655544433333333445555544

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>KOG0505|consensus

Probab=99.87  E-value=1e-21  Score=197.29  Aligned_cols=189  Identities=24%  Similarity=0.261  Sum_probs=145.7

Q ss_pred             HHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCC
Q psy1308          34 LFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDV  113 (607)
Q Consensus        34 L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~  113 (607)
                      +.-||..|..+=+..|+..+...                       +..+.+|.|+||.||...+.+||++|++.+ +++
T Consensus        44 ~l~A~~~~d~~ev~~ll~~ga~~-----------------------~~~n~DglTalhq~~id~~~e~v~~l~e~g-a~V   99 (527)
T KOG0505|consen   44 FLEACSRGDLEEVRKLLNRGASP-----------------------NLCNVDGLTALHQACIDDNLEMVKFLVENG-ANV   99 (527)
T ss_pred             HHhccccccHHHHHHHhccCCCc-----------------------cccCCccchhHHHHHhcccHHHHHHHHHhc-CCc
Confidence            66788899999999998887332                       367789999999999999999999999999 999


Q ss_pred             ccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCC--ch------------HHHHHHcCCcc--------------
Q psy1308         114 NMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF--NT------------VHRTAAEKKMN--------------  165 (607)
Q Consensus       114 ~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~--~~------------l~~A~~~~~~~--------------  165 (607)
                      |..|..||||||.|+..||..++++|+.+|+++-..+..  .|            +-.+...-.++              
T Consensus       100 n~~d~e~wtPlhaaascg~~~i~~~li~~gA~~~avNsdg~~P~dl~e~ea~~~~l~~~~~r~gi~iea~R~~~e~~ml~  179 (527)
T KOG0505|consen  100 NAQDNEGWTPLHAAASCGYLNIVEYLIQHGANLLAVNSDGNMPYDLAEDEATLDVLETEMARQGIDIEAARKAEEQTMLD  179 (527)
T ss_pred             cccccccCCcchhhcccccHHHHHHHHHhhhhhhhccCCCCCccccccCcchhHHHHHHHHHhcccHHHHhhhhHHHHHH
Confidence            999999999999999999999999999999987654431  12            11111111111              


Q ss_pred             HHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhh
Q psy1308         166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKY  245 (607)
Q Consensus       166 ~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~  245 (607)
                      =+...+..|...+....     .|.|.||.|+.+|..++..+|+++|.+++++|.+||||||.|+..|..+++++|+.++
T Consensus       180 D~~q~l~~G~~~d~~~~-----rG~T~lHvAaa~Gy~e~~~lLl~ag~~~~~~D~dgWtPlHAAA~Wg~~~~~elL~~~g  254 (527)
T KOG0505|consen  180 DARQWLNAGAELDARHA-----RGATALHVAAANGYTEVAALLLQAGYSVNIKDYDGWTPLHAAAHWGQEDACELLVEHG  254 (527)
T ss_pred             HHHHHHhcccccccccc-----ccchHHHHHHhhhHHHHHHHHHHhccCcccccccCCCcccHHHHhhhHhHHHHHHHhh
Confidence            11222335555544422     2888888888888888888888888888888888888888888888888888888888


Q ss_pred             hhHHhh
Q psy1308         246 ADLQRE  251 (607)
Q Consensus       246 ~~~~~~  251 (607)
                      ++....
T Consensus       255 a~~d~~  260 (527)
T KOG0505|consen  255 ADMDAK  260 (527)
T ss_pred             cccchh
Confidence            877644

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=99.87  E-value=6.5e-21  Score=212.97  Aligned_cols=227  Identities=19%  Similarity=0.299  Sum_probs=183.0

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++..+..+...+......      ..++++.|++||||+.+|+.|+...... ..+|+.+||+.+........+||
T Consensus       377 ~liG~S~~~~~~~~~~~~~a~~------~~pVLI~GE~GTGK~~lA~~ih~~s~r~-~~~~v~i~c~~~~~~~~~~~lfg  449 (686)
T PRK15429        377 EIIGRSEAMYSVLKQVEMVAQS------DSTVLILGETGTGKELIARAIHNLSGRN-NRRMVKMNCAAMPAGLLESDLFG  449 (686)
T ss_pred             ceeecCHHHHHHHHHHHHHhCC------CCCEEEECCCCcCHHHHHHHHHHhcCCC-CCCeEEEecccCChhHhhhhhcC
Confidence            5889999999998888776543      3479999999999999999999988665 77999999999987666778999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ...| +.|...  ...+.++.+.+|+||||||+.+++++|..|+.+++++.+...++......++++|++|+.+......
T Consensus       450 ~~~~~~~g~~~--~~~g~le~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~~~  527 (686)
T PRK15429        450 HERGAFTGASA--QRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVA  527 (686)
T ss_pred             ccccccccccc--chhhHHHhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCCHHHHHH
Confidence            7665 444221  2235577888999999999999999999999999999988877666666789999999966544322


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~~~~~i~~~  504 (607)
                                                                  .+.|+ ++|++|++.+.+..| |  .++|+..++..
T Consensus       528 --------------------------------------------~~~f~-~~L~~~l~~~~i~lPpLreR~~Di~~L~~~  562 (686)
T PRK15429        528 --------------------------------------------DREFR-SDLYYRLNVFPIHLPPLRERPEDIPLLVKA  562 (686)
T ss_pred             --------------------------------------------cCccc-HHHHhccCeeEEeCCChhhhHhHHHHHHHH
Confidence                                                        34576 999999988755555 5  55899999999


Q ss_pred             HHHHHHHHHhhcCCcEE-EeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINI-VWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l-~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      ++.++..+.    +..+ .+++++++.|.. |+||+|+|+|+++|++.+..
T Consensus       563 ~l~~~~~~~----~~~~~~~s~~al~~L~~-y~WPGNvrEL~~~i~~a~~~  608 (686)
T PRK15429        563 FTFKIARRM----GRNIDSIPAETLRTLSN-MEWPGNVRELENVIERAVLL  608 (686)
T ss_pred             HHHHHHHHc----CCCCCCcCHHHHHHHHh-CCCCCcHHHHHHHHHHHHHh
Confidence            998876654    3334 689999999996 99999999999999998763

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=99.86  E-value=2.4e-21  Score=176.03  Aligned_cols=148  Identities=21%  Similarity=0.379  Sum_probs=118.6

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcC
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGA  349 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~  349 (607)
                      ++|.+.++..+.+.+++....      |.++++.|++||||+.+|+.||+...+. +.||+.+||+.++......+|||.
T Consensus         1 liG~s~~m~~~~~~~~~~a~~------~~pVlI~GE~GtGK~~lA~~IH~~s~r~-~~pfi~vnc~~~~~~~~e~~LFG~   73 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASS------DLPVLITGETGTGKELLARAIHNNSPRK-NGPFISVNCAALPEELLESELFGH   73 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTS------TS-EEEECSTTSSHHHHHHHHHHCSTTT-TS-EEEEETTTS-HHHHHHHHHEB
T ss_pred             CEeCCHHHHHHHHHHHHHhCC------CCCEEEEcCCCCcHHHHHHHHHHhhhcc-cCCeEEEehhhhhcchhhhhhhcc
Confidence            468888999998888877644      5689999999999999999999987765 789999999999988888999998


Q ss_pred             CCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHH
Q psy1308         350 PPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA  426 (607)
Q Consensus       350 ~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~  426 (607)
                      ..| +.|...  ...++++.+.+|+||||||+.+++++|..|+++++++++...++......+++||++|+.+.++..
T Consensus        74 ~~~~~~~~~~--~~~G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~~l~~~v  149 (168)
T PF00158_consen   74 EKGAFTGARS--DKKGLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSKDLEELV  149 (168)
T ss_dssp             CSSSSTTTSS--EBEHHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS-HHHHH
T ss_pred             cccccccccc--ccCCceeeccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCcCHHHHH
Confidence            776 444322  234889999999999999999999999999999999999988776666789999999996655543

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PHA02741 hypothetical protein; Provisional

Probab=99.86  E-value=2.3e-21  Score=178.28  Aligned_cols=132  Identities=23%  Similarity=0.249  Sum_probs=92.1

Q ss_pred             hccCCCCCHHHHHHHHcCCHHHHHHHHhcC-----CCCCccCCCCCCcHHHHHHHcCC----HHHHHHHHHcCCCCCCCC
Q psy1308          80 LECQSIKDLTLFRAARYGSAKELKTFIENS-----KLDVNMRHPLGWTPLHVAAINGK----VDNVRVLLEAGANPNLGD  150 (607)
Q Consensus        80 ~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~-----~~~~~~~d~~g~tpLh~A~~~g~----~~~v~~Ll~~ga~~~~~d  150 (607)
                      +..+..|.||||+||..|+.++++.|+...     +++++.+|..|+||||+|+..|+    .+++++|+++|++++.++
T Consensus        15 ~~~~~~g~t~Lh~Aa~~g~~~~v~~l~~~~~~~~~ga~in~~d~~g~T~Lh~A~~~g~~~~~~~ii~~Ll~~gadin~~~   94 (169)
T PHA02741         15 AEKNSEGENFFHEAARCGCFDIIARFTPFIRGDCHAAALNATDDAGQMCIHIAAEKHEAQLAAEIIDHLIELGADINAQE   94 (169)
T ss_pred             hccccCCCCHHHHHHHcCCHHHHHHHHHHhccchhhhhhhccCCCCCcHHHHHHHcCChHHHHHHHHHHHHcCCCCCCCC
Confidence            456778888999999999988888875421     26788888888899998888888    477788888887777643


Q ss_pred             CCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHh-cCCCCCccCCCCCCCCcch
Q psy1308         151 LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLK-SGADPTVKDNSGHIPSDYA  229 (607)
Q Consensus       151 ~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~-~gad~~~~d~~g~Tpl~~A  229 (607)
                      .                                   ..|+||||+|+..++.+++++|++ .|++++..|..|+||||+|
T Consensus        95 ~-----------------------------------~~g~TpLh~A~~~~~~~iv~~Ll~~~g~~~~~~n~~g~tpL~~A  139 (169)
T PHA02741         95 M-----------------------------------LEGDTALHLAAHRRDHDLAEWLCCQPGIDLHFCNADNKSPFELA  139 (169)
T ss_pred             c-----------------------------------CCCCCHHHHHHHcCCHHHHHHHHhCCCCCCCcCCCCCCCHHHHH
Confidence            1                                   026666666666666666666665 3666666666666666666


Q ss_pred             hhhhHHHHHHHHHHhhh
Q psy1308         230 EDANIKQILQKYAEKYA  246 (607)
Q Consensus       230 ~~~~~~~~~~~ll~~~~  246 (607)
                      +..++.++++.|++.++
T Consensus       140 ~~~~~~~iv~~L~~~~~  156 (169)
T PHA02741        140 IDNEDVAMMQILREIVA  156 (169)
T ss_pred             HHCCCHHHHHHHHHHHH
Confidence            66666666666655543

>TIGR00870 trp transient-receptor-potential calcium channel protein

Probab=99.86  E-value=5.2e-21  Score=217.02  Aligned_cols=212  Identities=17%  Similarity=0.108  Sum_probs=162.8

Q ss_pred             cCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHH-HHHHcCCHHHHHHHH
Q psy1308          28 GFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLF-RAARYGSAKELKTFI  106 (607)
Q Consensus        28 ~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh-~A~~~g~~~~v~~Ll  106 (607)
                      ..+..+++.||+.|+.+.++.++..+..                     ...+..|..|.|||| .|+.+++.+++++|+
T Consensus        15 ~~~~~~~l~A~~~g~~~~v~~lL~~~~~---------------------~~in~~d~~G~t~Lh~~A~~~~~~eiv~lLl   73 (743)
T TIGR00870        15 SDEEKAFLPAAERGDLASVYRDLEEPKK---------------------LNINCPDRLGRSALFVAAIENENLELTELLL   73 (743)
T ss_pred             CHHHHHHHHHHHcCCHHHHHHHhccccc---------------------cCCCCcCccchhHHHHHHHhcChHHHHHHHH
Confidence            4467899999999999999999876431                     122457789999999 889999999999999


Q ss_pred             hcCCCCCccCCCCCCcHHHHHHHcC---CHHHHHHHHHcCCC------CC------CCCCCchHHHHHHcCCccHHHHHH
Q psy1308         107 ENSKLDVNMRHPLGWTPLHVAAING---KVDNVRVLLEAGAN------PN------LGDLFNTVHRTAAEKKMNPFEVLL  171 (607)
Q Consensus       107 ~~~~~~~~~~d~~g~tpLh~A~~~g---~~~~v~~Ll~~ga~------~~------~~d~~~~l~~A~~~~~~~~~~~Ll  171 (607)
                      +.+ +    ++..|.||||.|+..+   ...++.++...+.+      ++      ...+.||||+|+..|+.+++++|+
T Consensus        74 ~~g-~----~~~~G~T~Lh~A~~~~~~~v~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~G~TpLhlAa~~~~~eiVklLL  148 (743)
T TIGR00870        74 NLS-C----RGAVGDTLLHAISLEYVDAVEAILLHLLAAFRKSGPLELANDQYTSEFTPGITALHLAAHRQNYEIVKLLL  148 (743)
T ss_pred             hCC-C----CCCcChHHHHHHHhccHHHHHHHHHHHhhcccccCchhhhccccccccCCCCcHHHHHHHhCCHHHHHHHH
Confidence            988 4    6788999999999732   23344455544432      11      124678999999999999999999


Q ss_pred             hcCCCccccCCC---------CcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhh---------
Q psy1308         172 KREDEFNDVLNP---------NMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN---------  233 (607)
Q Consensus       172 ~~g~~~~~~~~~---------~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~---------  233 (607)
                      ++|++++.....         .....|.||||+|+..|+.+++++|+++|+|++.+|..|+||||+|+..+         
T Consensus       149 ~~GAdv~~~~~~~~~~~~~~~~~~~~g~tpL~~Aa~~~~~~iv~lLl~~gadin~~d~~g~T~Lh~A~~~~~~~~~~~~l  228 (743)
T TIGR00870       149 ERGASVPARACGDFFVKSQGVDSFYHGESPLNAAACLGSPSIVALLSEDPADILTADSLGNTLLHLLVMENEFKAEYEEL  228 (743)
T ss_pred             hCCCCCCcCcCCchhhcCCCCCcccccccHHHHHHHhCCHHHHHHHhcCCcchhhHhhhhhHHHHHHHhhhhhhHHHHHH
Confidence            999999865321         11246999999999999999999999999999999999999999999875         


Q ss_pred             HHHHHHHHHHhhhhHHhh----HHHhhcccccHHHH
Q psy1308         234 IKQILQKYAEKYADLQRE----KEAEERRKYPLEQR  265 (607)
Q Consensus       234 ~~~~~~~ll~~~~~~~~~----~~~~~~~~~~L~~~  265 (607)
                      ...+.+.++..++.....    ...+..+.+||..+
T Consensus       229 ~~~~~~~l~~ll~~~~~~~el~~i~N~~g~TPL~~A  264 (743)
T TIGR00870       229 SCQMYNFALSLLDKLRDSKELEVILNHQGLTPLKLA  264 (743)
T ss_pred             HHHHHHHHHHHHhccCChHhhhhhcCCCCCCchhhh
Confidence            334555555554443221    33467788998544

after chronic exposure to capsaicin. (McCleskey and Gold, 1999).

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.86  E-value=8.5e-21  Score=190.78  Aligned_cols=246  Identities=21%  Similarity=0.372  Sum_probs=171.3

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHHHhhCC------CCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIKRKENG------WTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~------~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      .+...|.++++||+.+++.+..++..++..      ......|-.++++||+|+|||.+++.++..+.    .+|+.+|+
T Consensus         5 ~I~~~Ld~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~----~~fi~vda   80 (441)
T TIGR00390         5 EIVAELDKYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLAN----APFIKVEA   80 (441)
T ss_pred             HHHHHHhhhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhC----CeEEEeec
Confidence            456778889999999999999888754221      12233456899999999999999999999984    45899987


Q ss_pred             ccccc-----cc--h-hHhh--------------------------------hcCCCCCccC------------------
Q psy1308         335 SEYQE-----KH--E-VAKL--------------------------------IGAPPGYLGH------------------  356 (607)
Q Consensus       335 a~~~~-----~~--~-~~~l--------------------------------lg~~~g~~g~------------------  356 (607)
                      +.+.+     ..  . +..+                                +.....+.|.                  
T Consensus        81 t~~~e~g~vG~dvE~i~r~l~e~A~~~i~~d~i~~~r~~a~~~ae~riv~~Ll~~~~~~~~~~~~~~~~~~~r~~~~~~l  160 (441)
T TIGR00390        81 TKFTEVGYVGRDVESMVRDLTDAAVKLVKEEAIEKVRDRAEELAEERIVDVLLPPAKNQWGQTEQQQEPESAREAFRKKL  160 (441)
T ss_pred             ceeecCCcccCCHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcCCccccccccccccchHHHHHHHHHHH
Confidence            75532     10  1 1111                                1100001000                  


Q ss_pred             --------------------------CCC----c-h-----------------------------------------hhH
Q psy1308         357 --------------------------DDG----G-Q-----------------------------------------LTK  364 (607)
Q Consensus       357 --------------------------~~~----~-~-----------------------------------------l~~  364 (607)
                                                ..+    + .                                         ..+
T Consensus       161 ~~g~ldd~~iei~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ea~~~l~~~e~~~lid~~~v~~~  240 (441)
T TIGR00390       161 REGELDDKEIEIDVSAKMPSGIEIMAPPGMEEMTMQLQSLFQNLGGQKKKKRKLKIKDAKKALIAEEAAKLVDPEEIKQE  240 (441)
T ss_pred             hcCCccCcEEEEeecCCCCCccccCCCcchhHHHhhHHHHHHhhcCCCCceEEeEHHHHHHHHHHHHHHhccChHHHHHH
Confidence                                      000    0 0                                         001


Q ss_pred             HHhh-CCCeEEEEecCCccCH------------HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhh
Q psy1308         365 RLKK-CPNAVVLFDEVDKAHP------------DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQ  431 (607)
Q Consensus       365 ~~~~-~~~~vl~lDEiek~~~------------~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~  431 (607)
                      +++. ...||||+|||||+..            .||..||+++|...+.- +...++..+++||++......        
T Consensus       241 a~~~~e~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~-k~~~v~T~~ILFI~~GAF~~~--------  311 (441)
T TIGR00390       241 AIDAVEQSGIIFIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNT-KYGMVKTDHILFIAAGAFQLA--------  311 (441)
T ss_pred             HHHHHHcCCEEEEEchhhhcccCCCCCCCCCccchhccccccccCceeee-cceeEECCceeEEecCCcCCC--------
Confidence            1222 5689999999999743            29999999998555444 445789999999999773210        


Q ss_pred             hhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHH--
Q psy1308         432 LRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFW--  509 (607)
Q Consensus       432 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~--  509 (607)
                                         .+           .+         +- |||.+||+.++.+.||+.+++..|+...-+.+  
T Consensus       312 -------------------kp-----------~D---------lI-PEl~GR~Pi~v~L~~L~~edL~rILteP~nsLik  351 (441)
T TIGR00390       312 -------------------KP-----------SD---------LI-PELQGRFPIRVELQALTTDDFERILTEPKNSLIK  351 (441)
T ss_pred             -------------------Ch-----------hh---------cc-HHHhCccceEEECCCCCHHHHHHHhcCChhHHHH
Confidence                               00           01         23 99999999999999999999999995433333  


Q ss_pred             -HHHHhhcCCcEEEeCHhHHHHHHc-cCC-----CCCCccchhHHHHHHHHHHHHHH
Q psy1308         510 -AKKALDKHNINIVWDIDVETILAD-GYD-----VHYGARSIKHEVERQVVSQLAAA  559 (607)
Q Consensus       510 -~~~~~~~~~i~l~~~~~a~~~L~~-~~~-----~~~GaR~L~~~i~~~i~~~l~~~  559 (607)
                       .+.+....|++|.++++|++.|++ ++.     ...|||.|+.++|+.+.+...+.
T Consensus       352 Qy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtilE~~l~d~~fe~  408 (441)
T TIGR00390       352 QYKALMKTEGVNIEFSDEAIKRIAELAYNVNEKTENIGARRLHTVLERLLEDISFEA  408 (441)
T ss_pred             HHHHHHhhcCcEEEEeHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHHhcC
Confidence             333446679999999999999986 554     68999999999999888776543

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=99.86  E-value=2e-21  Score=201.65  Aligned_cols=218  Identities=20%  Similarity=0.291  Sum_probs=175.4

Q ss_pred             hhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCC
Q psy1308         272 GQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPP  351 (607)
Q Consensus       272 Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~  351 (607)
                      +.+..+..+...+.+....      ..++++.|.+|+||..++|.+++... . ..+|+.++|+.+.+....++|||+.+
T Consensus       317 ~~d~s~a~l~rk~~rv~~~------~~pvll~GEtGtGKe~laraiH~~s~-~-~gpfvAvNCaAip~~liesELFGy~~  388 (606)
T COG3284         317 LLDPSRATLLRKAERVAAT------DLPVLLQGETGTGKEVLARAIHQNSE-A-AGPFVAVNCAAIPEALIESELFGYVA  388 (606)
T ss_pred             ccCHHHHHHHHHHHHHhhc------CCCeEecCCcchhHHHHHHHHHhccc-c-cCCeEEEEeccchHHhhhHHHhccCc
Confidence            4555555555555554432      34789999999999999999999887 3 88999999999999999999999988


Q ss_pred             C-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHh
Q psy1308         352 G-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHAL  430 (607)
Q Consensus       352 g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~  430 (607)
                      | ++|....|. .+.++.+++|++|+|||+.+|-+.|..||+++++|.++..+|.. ..-++.+|.+|+.+-..+++   
T Consensus       389 GafTga~~kG~-~g~~~~A~gGtlFldeIgd~p~~~Qs~LLrVl~e~~v~p~g~~~-~~vdirvi~ath~dl~~lv~---  463 (606)
T COG3284         389 GAFTGARRKGY-KGKLEQADGGTLFLDEIGDMPLALQSRLLRVLQEGVVTPLGGTR-IKVDIRVIAATHRDLAQLVE---  463 (606)
T ss_pred             cccccchhccc-cccceecCCCccHHHHhhhchHHHHHHHHHHHhhCceeccCCcc-eeEEEEEEeccCcCHHHHHH---
Confidence            8 888766665 56789999999999999999999999999999999999999888 67789999999977776654   


Q ss_pred             hhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC--CHHHHHHHHHHHHHH
Q psy1308         431 QLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF--SKSELHTLVCRELNF  508 (607)
Q Consensus       431 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl--~~~~~~~i~~~~l~~  508 (607)
                                                               ++.|+ .+||||++..++..|.  .+.|-...+.+.+.+
T Consensus       464 -----------------------------------------~g~fr-edLyyrL~~~~i~lP~lr~R~d~~~~l~~~~~~  501 (606)
T COG3284         464 -----------------------------------------QGRFR-EDLYYRLNAFVITLPPLRERSDRIPLLDRILKR  501 (606)
T ss_pred             -----------------------------------------cCCch-HHHHHHhcCeeeccCchhcccccHHHHHHHHHH
Confidence                                                     34587 9999999987776664  223333333333322


Q ss_pred             HHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         509 WAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       509 ~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                             .....+.++++++..|.. |.||+|.|+|.++|++..
T Consensus       502 -------~~~~~~~l~~~~~~~l~~-~~WPGNirel~~v~~~~~  537 (606)
T COG3284         502 -------ENDWRLQLDDDALARLLA-YRWPGNIRELDNVIERLA  537 (606)
T ss_pred             -------ccCCCccCCHHHHHHHHh-CCCCCcHHHHHHHHHHHH
Confidence                   123468899999999985 999999999999998743

>PHA02884 ankyrin repeat protein; Provisional

Probab=99.85  E-value=1.2e-20  Score=185.89  Aligned_cols=155  Identities=14%  Similarity=0.114  Sum_probs=131.7

Q ss_pred             hhccCCCCCHH-HHHHHHcCCHHHHHHHHhcCCCCCccCC----CCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC---
Q psy1308          79 LLECQSIKDLT-LFRAARYGSAKELKTFIENSKLDVNMRH----PLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD---  150 (607)
Q Consensus        79 ~~~~~~~g~t~-Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d----~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d---  150 (607)
                      +..+|..|.|+ ||.|+..|+.+++++|+++| +++|.++    ..|.||||+|+..++.+++++|+++|||+|..+   
T Consensus        25 ~~~~d~~~~~~lL~~A~~~~~~eivk~LL~~G-AdiN~~~~~sd~~g~TpLh~Aa~~~~~eivklLL~~GADVN~~~~~~  103 (300)
T PHA02884         25 IKKKNKICIANILYSSIKFHYTDIIDAILKLG-ADPEAPFPLSENSKTNPLIYAIDCDNDDAAKLLIRYGADVNRYAEEA  103 (300)
T ss_pred             hhccCcCCCCHHHHHHHHcCCHHHHHHHHHCC-CCccccCcccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCcCcccCCC
Confidence            34667777665 66677779999999999999 9999974    589999999999999999999999999999853   


Q ss_pred             CCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchh
Q psy1308         151 LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAE  230 (607)
Q Consensus       151 ~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~  230 (607)
                      +.||||+|+..++.+++++|+.+|++++..+..     |+||||+|+..++.+++..+.  |+.   .+..+.+|++++ 
T Consensus       104 g~TpLh~Aa~~~~~eivklLL~~GAdin~kd~~-----G~TpL~~A~~~~~~~~~~~~~--~~~---~~~~~~~~~~~~-  172 (300)
T PHA02884        104 KITPLYISVLHGCLKCLEILLSYGADINIQTND-----MVTPIELALMICNNFLAFMIC--DNE---ISNFYKHPKKIL-  172 (300)
T ss_pred             CCCHHHHHHHcCCHHHHHHHHHCCCCCCCCCCC-----CCCHHHHHHHhCChhHHHHhc--CCc---ccccccChhhhh-
Confidence            578999999999999999999999999987544     999999999999999886664  332   466777888875 


Q ss_pred             hhhHHHHHHHHHHhhhh
Q psy1308         231 DANIKQILQKYAEKYAD  247 (607)
Q Consensus       231 ~~~~~~~~~~ll~~~~~  247 (607)
                        ++.++++.|+++..-
T Consensus       173 --~n~ei~~~Lish~vl  187 (300)
T PHA02884        173 --INFDILKILVSHFIL  187 (300)
T ss_pred             --ccHHHHHHHHHHHHH
Confidence              368899999998873

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.85  E-value=2.4e-20  Score=199.56  Aligned_cols=227  Identities=20%  Similarity=0.300  Sum_probs=179.7

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|.+..++.+...+......      ..++++.|++|+||+.+|+.++...... ..+|+.++|+.+.+......+||
T Consensus       140 ~lig~s~~~~~l~~~i~~~a~~------~~~vli~Ge~GtGK~~lA~~ih~~s~~~-~~~~v~v~c~~~~~~~~~~~lfg  212 (445)
T TIGR02915       140 GLITSSPGMQKICRTIEKIAPS------DITVLLLGESGTGKEVLARALHQLSDRK-DKRFVAINCAAIPENLLESELFG  212 (445)
T ss_pred             ceeecCHHHHHHHHHHHHHhCC------CCCEEEECCCCcCHHHHHHHHHHhCCcC-CCCeEEEECCCCChHHHHHHhcC
Confidence            3677788888777766654321      2357899999999999999999887654 67899999999988777788999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ...| |.|...  ...+.++.+.+|+||||||+.+++.+|..|+++++++.+...++......++++|+||+.+......
T Consensus       213 ~~~~~~~~~~~--~~~g~~~~a~~gtl~l~~i~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~  290 (445)
T TIGR02915       213 YEKGAFTGAVK--QTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQDLKRMIA  290 (445)
T ss_pred             CCCCCcCCCcc--CCCCceeECCCCEEEEechhhCCHHHHHHHHHHHhhCeEEeCCCCceeeeceEEEEecCCCHHHHHH
Confidence            8766 554322  2345677888999999999999999999999999999988776666666789999999966554322


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~~~~~i~~~  504 (607)
                                                                  .+.|+ ++|++|++.+.+..| |  .++|+..++..
T Consensus       291 --------------------------------------------~~~~~-~~L~~~l~~~~i~lPpLr~R~~Di~~l~~~  325 (445)
T TIGR02915       291 --------------------------------------------EGTFR-EDLFYRIAEISITIPPLRSRDGDAVLLANA  325 (445)
T ss_pred             --------------------------------------------cCCcc-HHHHHHhccceecCCCchhchhhHHHHHHH
Confidence                                                        24476 999999987655555 4  55899999999


Q ss_pred             HHHHHHHHHhhcCCc-EEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNI-NIVWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i-~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      ++.++..+.    +. ...+++++++.|.. |+||+|+|+|+++|++.+..
T Consensus       326 ~l~~~~~~~----~~~~~~~~~~a~~~L~~-~~wpgNvreL~~~i~~a~~~  371 (445)
T TIGR02915       326 FLERFAREL----KRKTKGFTDDALRALEA-HAWPGNVRELENKVKRAVIM  371 (445)
T ss_pred             HHHHHHHHh----CCCCCCCCHHHHHHHHh-CCCCChHHHHHHHHHHHHHh
Confidence            998876644    32 35789999999996 99999999999999998764

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>KOG0512|consensus

Probab=99.85  E-value=6.6e-21  Score=163.42  Aligned_cols=144  Identities=26%  Similarity=0.338  Sum_probs=128.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCC--CCCchHHHHHHcCCcc
Q psy1308          88 LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG--DLFNTVHRTAAEKKMN  165 (607)
Q Consensus        88 t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~--d~~~~l~~A~~~~~~~  165 (607)
                      -.+.+|+..+.+..|+.||+...-.+|.+|.+|+||||-|+++||.+||+.|+..||+++++  ++|||||.||..++.+
T Consensus        65 rl~lwaae~nrl~eV~~lL~e~an~vNtrD~D~YTpLHRAaYn~h~div~~ll~~gAn~~a~T~~GWTPLhSAckWnN~~  144 (228)
T KOG0512|consen   65 RLLLWAAEKNRLTEVQRLLSEKANHVNTRDEDEYTPLHRAAYNGHLDIVHELLLSGANKEAKTNEGWTPLHSACKWNNFE  144 (228)
T ss_pred             HHHHHHHhhccHHHHHHHHHhccccccccccccccHHHHHHhcCchHHHHHHHHccCCcccccccCccchhhhhcccchh
Confidence            45889999999999999999885679999999999999999999999999999999999985  4699999999999999


Q ss_pred             HHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCH-HHHHHHH-hcCCCCCccCCCCCCCCcchhhhhHHH
Q psy1308         166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNT-EVVELLL-KSGADPTVKDNSGHIPSDYAEDANIKQ  236 (607)
Q Consensus       166 ~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~-~~v~~Ll-~~gad~~~~d~~g~Tpl~~A~~~~~~~  236 (607)
                      ++-.||++|+|+|+..+.     -+||||+||...+. ..+.+|+ +.+.++-.+++.+.||+.+|..-+...
T Consensus       145 va~~LLqhgaDVnA~t~g-----~ltpLhlaa~~rn~r~t~~~Ll~dryi~pg~~nn~eeta~~iARRT~~s~  212 (228)
T KOG0512|consen  145 VAGRLLQHGADVNAQTKG-----LLTPLHLAAGNRNSRDTLELLLHDRYIHPGLKNNLEETAFDIARRTSMSH  212 (228)
T ss_pred             HHHHHHhccCcccccccc-----cchhhHHhhcccchHHHHHHHhhccccChhhhcCccchHHHHHHHhhhhH
Confidence            999999999999998665     79999999987654 4556655 468999999999999999998765543

>KOG0514|consensus

Probab=99.84  E-value=9.2e-21  Score=180.83  Aligned_cols=159  Identities=21%  Similarity=0.209  Sum_probs=135.1

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHc-----CC
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARY-----GS   98 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~-----g~   98 (607)
                      |..|+.|||+||||+.++|.++|+.|+..+...-                      +.++.-|.||+++|+..     .+
T Consensus       262 NlaDsNGNTALHYsVSHaNF~VV~~LLDSgvC~V----------------------D~qNrAGYtpiMLaALA~lk~~~d  319 (452)
T KOG0514|consen  262 NLADSNGNTALHYAVSHANFDVVSILLDSGVCDV----------------------DQQNRAGYTPVMLAALAKLKQPAD  319 (452)
T ss_pred             hhhcCCCCeeeeeeecccchHHHHHHhccCcccc----------------------cccccccccHHHHHHHHhhcchhh
Confidence            5578899999999999999999999987764322                      46677889999988865     46


Q ss_pred             HHHHHHHHhcCCCCCccCCC-CCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhc-C
Q psy1308          99 AKELKTFIENSKLDVNMRHP-LGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKR-E  174 (607)
Q Consensus        99 ~~~v~~Ll~~~~~~~~~~d~-~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~-g  174 (607)
                      ..+|..|+.-|  |+|++-. .|.|+|++|+..|+.++|+.||.+|||+|.+|.  .|+|+.||..||.+++++||.. +
T Consensus       320 ~~vV~~LF~mg--nVNaKAsQ~gQTALMLAVSHGr~d~vk~LLacgAdVNiQDdDGSTALMCA~EHGhkEivklLLA~p~  397 (452)
T KOG0514|consen  320 RTVVERLFKMG--DVNAKASQHGQTALMLAVSHGRVDMVKALLACGADVNIQDDDGSTALMCAAEHGHKEIVKLLLAVPS  397 (452)
T ss_pred             HHHHHHHHhcc--CcchhhhhhcchhhhhhhhcCcHHHHHHHHHccCCCccccCCccHHHhhhhhhChHHHHHHHhccCc
Confidence            88999999987  7888754 599999999999999999999999999999775  5699999999999999999964 4


Q ss_pred             CCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhc
Q psy1308         175 DEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKS  211 (607)
Q Consensus       175 ~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~  211 (607)
                      +++...     |.+|.|+|++|...||.+|.-+|-.+
T Consensus       398 cd~sLt-----D~DgSTAl~IAleagh~eIa~mlYa~  429 (452)
T KOG0514|consen  398 CDISLT-----DVDGSTALSIALEAGHREIAVMLYAH  429 (452)
T ss_pred             ccceee-----cCCCchhhhhHHhcCchHHHHHHHHH
Confidence            444443     56699999999999999998888654

>KOG0505|consensus

Probab=99.83  E-value=2.5e-20  Score=187.39  Aligned_cols=201  Identities=19%  Similarity=0.236  Sum_probs=164.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCcc
Q psy1308          88 LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMN  165 (607)
Q Consensus        88 t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~  165 (607)
                      -.+..||..|..+-|..|+..+ +++|..+.+|.|+||-||...+.+||++|+++|+++|..|.  |||||.|+..|+..
T Consensus        42 a~~l~A~~~~d~~ev~~ll~~g-a~~~~~n~DglTalhq~~id~~~e~v~~l~e~ga~Vn~~d~e~wtPlhaaascg~~~  120 (527)
T KOG0505|consen   42 AVFLEACSRGDLEEVRKLLNRG-ASPNLCNVDGLTALHQACIDDNLEMVKFLVENGANVNAQDNEGWTPLHAAASCGYLN  120 (527)
T ss_pred             HHHHhccccccHHHHHHHhccC-CCccccCCccchhHHHHHhcccHHHHHHHHHhcCCccccccccCCcchhhcccccHH
Confidence            3477889999999999999999 89999999999999999999999999999999999999876  88999999999999


Q ss_pred             HHHHHHhcCCCccccCCCCcCcCCcchhhHHHhc-------------C-------------CHHHHHHHHhcCCCCCccC
Q psy1308         166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA-------------G-------------NTEVVELLLKSGADPTVKD  219 (607)
Q Consensus       166 ~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~-------------g-------------~~~~v~~Ll~~gad~~~~d  219 (607)
                      ++++|+.+|+++...+..     |..|+-.|...             |             -.+=+...+..|.+.++.+
T Consensus       121 i~~~li~~gA~~~avNsd-----g~~P~dl~e~ea~~~~l~~~~~r~gi~iea~R~~~e~~ml~D~~q~l~~G~~~d~~~  195 (527)
T KOG0505|consen  121 IVEYLIQHGANLLAVNSD-----GNMPYDLAEDEATLDVLETEMARQGIDIEAARKAEEQTMLDDARQWLNAGAELDARH  195 (527)
T ss_pred             HHHHHHHhhhhhhhccCC-----CCCccccccCcchhHHHHHHHHHhcccHHHHhhhhHHHHHHHHHHHHhccccccccc
Confidence            999999999988776443     55555443211             1             0222445566899999999


Q ss_pred             CCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCce
Q psy1308         220 NSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLV  299 (607)
Q Consensus       220 ~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~  299 (607)
                      ..|.|.||+|+.+|..+++.+|+..+.+..   ..|..+++||+.+   ...|+..+.+.+................|+-
T Consensus       196 ~rG~T~lHvAaa~Gy~e~~~lLl~ag~~~~---~~D~dgWtPlHAA---A~Wg~~~~~elL~~~ga~~d~~t~~g~~p~d  269 (527)
T KOG0505|consen  196 ARGATALHVAAANGYTEVAALLLQAGYSVN---IKDYDGWTPLHAA---AHWGQEDACELLVEHGADMDAKTKMGETPLD  269 (527)
T ss_pred             cccchHHHHHHhhhHHHHHHHHHHhccCcc---cccccCCCcccHH---HHhhhHhHHHHHHHhhcccchhhhcCCCCcc
Confidence            889999999999999999999999998876   5678899999665   4678999999887776655443334444654


Q ss_pred             e
Q psy1308         300 F  300 (607)
Q Consensus       300 ~  300 (607)
                      +
T Consensus       270 v  270 (527)
T KOG0505|consen  270 V  270 (527)
T ss_pred             c
Confidence            4

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.83  E-value=6.2e-20  Score=197.48  Aligned_cols=228  Identities=21%  Similarity=0.331  Sum_probs=182.0

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|.+..+..+...+......      +..+++.|++|+||+.+++.++...... ..+|+.+||+..........+||
T Consensus       135 ~lig~s~~~~~v~~~i~~~a~~------~~~vli~Ge~GtGK~~~A~~ih~~~~~~-~~~~~~~~c~~~~~~~~~~~lfg  207 (463)
T TIGR01818       135 ELIGEAPAMQEVFRAIGRLSRS------DITVLINGESGTGKELVARALHRHSPRA-NGPFIALNMAAIPKDLIESELFG  207 (463)
T ss_pred             ceeecCHHHHHHHHHHHHHhCc------CCeEEEECCCCCCHHHHHHHHHHhCCCC-CCCeEEEeCCCCCHHHHHHHhcC
Confidence            3677777777777776654322      4578999999999999999999987765 78999999999988777788999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +..| |.|...  ...+.++.+.+|+||||||+.+++++|..|+++++++.+...+|......++++|++|+...+...+
T Consensus       208 ~~~~~~~~~~~--~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~  285 (463)
T TIGR01818       208 HEKGAFTGANT--RRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEALVR  285 (463)
T ss_pred             CCCCCCCCccc--CCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHHHHH
Confidence            8766 555432  2345677888999999999999999999999999999998877776666789999999966554322


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccce-eeeccCC--HHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEI-VYFLPFS--KSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~i-v~f~pl~--~~~~~~i~~~  504 (607)
                                                                  .+.|+ ++|++|++.+ +...||+  ++|+..++..
T Consensus       286 --------------------------------------------~~~f~-~~L~~rl~~~~i~lPpLr~R~~Di~~l~~~  320 (463)
T TIGR01818       286 --------------------------------------------QGKFR-EDLFHRLNVIRIHLPPLRERREDIPRLARH  320 (463)
T ss_pred             --------------------------------------------cCCcH-HHHHHHhCcceecCCCcccchhhHHHHHHH
Confidence                                                        24476 8999999875 4445564  7899999999


Q ss_pred             HHHHHHHHHhhcCCc-EEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNI-NIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQ  555 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i-~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~  555 (607)
                      ++..+..+.    +. ...+++++++.|.. |+||+|+|+|++++++.+...
T Consensus       321 ~l~~~~~~~----~~~~~~~~~~a~~~L~~-~~wpgNvreL~~~~~~~~~~~  367 (463)
T TIGR01818       321 FLALAAREL----DVEPKLLDPEALERLKQ-LRWPGNVRQLENLCRWLTVMA  367 (463)
T ss_pred             HHHHHHHHh----CCCCCCcCHHHHHHHHh-CCCCChHHHHHHHHHHHHHhC
Confidence            998876644    22 24689999999996 999999999999999977643

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>PHA02743 Viral ankyrin protein; Provisional

Probab=99.83  E-value=1.2e-20  Score=172.62  Aligned_cols=137  Identities=15%  Similarity=0.064  Sum_probs=122.5

Q ss_pred             CCCccCCCCCCcHHHHHHHcCCH----HHHHHHHHcCCCCCCCC--CCchHHHHHHcCCccH---HHHHHhcCCCccccC
Q psy1308         111 LDVNMRHPLGWTPLHVAAINGKV----DNVRVLLEAGANPNLGD--LFNTVHRTAAEKKMNP---FEVLLKREDEFNDVL  181 (607)
Q Consensus       111 ~~~~~~d~~g~tpLh~A~~~g~~----~~v~~Ll~~ga~~~~~d--~~~~l~~A~~~~~~~~---~~~Ll~~g~~~~~~~  181 (607)
                      ++++..+.++.++||.||+.|+.    +++++|++.|++++.+|  ++||||+|+..|+.+.   +++|+++|++++..+
T Consensus        11 ~~~~~~~~~~~~~l~~a~~~g~~~~l~~~~~~l~~~g~~~~~~d~~g~t~Lh~Aa~~g~~~~~~~i~~Ll~~Gadin~~d   90 (166)
T PHA02743         11 LGAVEIDEDEQNTFLRICRTGNIYELMEVAPFISGDGHLLHRYDHHGRQCTHMVAWYDRANAVMKIELLVNMGADINARE   90 (166)
T ss_pred             hHHhhhccCCCcHHHHHHHcCCHHHHHHHHHHHhhcchhhhccCCCCCcHHHHHHHhCccCHHHHHHHHHHcCCCCCCCC
Confidence            77888888999999999999998    67778889999988765  4789999999998765   799999999998764


Q ss_pred             CCCcCcCCcchhhHHHhcCCHHHHHHHHh-cCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhh
Q psy1308         182 NPNMTFLGFSALHYGVVAGNTEVVELLLK-SGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQRE  251 (607)
Q Consensus       182 ~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~-~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~  251 (607)
                      .    ..|+||||+|+..|+.+++++|+. .|++++.+|..|+||||+|+..++.+++++|+.++++...+
T Consensus        91 ~----~~g~TpLh~A~~~g~~~iv~~Ll~~~gad~~~~d~~g~tpL~~A~~~~~~~iv~~Ll~~ga~~~~~  157 (166)
T PHA02743         91 L----GTGNTLLHIAASTKNYELAEWLCRQLGVNLGAINYQHETAYHIAYKMRDRRMMEILRANGAVCDDP  157 (166)
T ss_pred             C----CCCCcHHHHHHHhCCHHHHHHHHhccCCCccCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCc
Confidence            2    239999999999999999999995 89999999999999999999999999999999999887643

>PRK15115 response regulator GlrR; Provisional

Probab=99.83  E-value=1.2e-19  Score=194.16  Aligned_cols=228  Identities=16%  Similarity=0.205  Sum_probs=175.5

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|.+..+..+...+......      ...+++.|++|+||+.+|+.++...... ..+|+.++|+.+.+......+||
T Consensus       135 ~lig~s~~~~~~~~~~~~~a~~------~~~vli~Ge~GtGk~~lA~~ih~~s~r~-~~~f~~i~c~~~~~~~~~~~lfg  207 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVAQS------DVSVLINGQSGTGKEILAQAIHNASPRA-SKPFIAINCGALPEQLLESELFG  207 (444)
T ss_pred             cccccCHHHHHHHHHHHhhccC------CCeEEEEcCCcchHHHHHHHHHHhcCCC-CCCeEEEeCCCCCHHHHHHHhcC
Confidence            4566666666555544443321      3468899999999999999999987665 67999999999988777788998


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ...| +.|...  ...+.++.+.+|+||||||+.++++.|..|+++++++.+...++.+....++++|+||+.+..... 
T Consensus       208 ~~~~~~~~~~~--~~~g~~~~a~~gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~l~~~~-  284 (444)
T PRK15115        208 HARGAFTGAVS--NREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLPKAM-  284 (444)
T ss_pred             CCcCCCCCCcc--CCCCcEEECCCCEEEEEccccCCHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCCHHHHH-
Confidence            8766 444322  223557788899999999999999999999999999998776666555678999999995433322 


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC---CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF---SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl---~~~~~~~i~~~  504 (607)
                                                                 ..+.|+ ++|++|++.+.+..|.   ..+|+..++..
T Consensus       285 -------------------------------------------~~~~f~-~~l~~~l~~~~i~lPpLr~R~eDi~~l~~~  320 (444)
T PRK15115        285 -------------------------------------------ARGEFR-EDLYYRLNVVSLKIPALAERTEDIPLLANH  320 (444)
T ss_pred             -------------------------------------------HcCCcc-HHHHHhhceeeecCCChHhccccHHHHHHH
Confidence                                                       234576 9999999887666664   45899999999


Q ss_pred             HHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      ++.++..+...   ....++++|++.|.. |+||+|+|+|+++|++.+..
T Consensus       321 ~l~~~~~~~~~---~~~~~~~~a~~~L~~-~~WpgNvreL~~~i~~~~~~  366 (444)
T PRK15115        321 LLRQAAERHKP---FVRAFSTDAMKRLMT-ASWPGNVRQLVNVIEQCVAL  366 (444)
T ss_pred             HHHHHHHHhCC---CCCCcCHHHHHHHHh-CCCCChHHHHHHHHHHHHHh
Confidence            99887654321   234689999999996 99999999999999997653

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.83  E-value=2.1e-19  Score=193.14  Aligned_cols=227  Identities=20%  Similarity=0.310  Sum_probs=178.6

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .+++.+..+..+...+......      ..++++.|++|+||+.+|+.++...... ..+|+.++|+.+........+||
T Consensus       144 ~ii~~S~~~~~~~~~~~~~a~~------~~~vli~Ge~GtGK~~lA~~ih~~s~~~-~~~~~~i~c~~~~~~~~~~~lfg  216 (457)
T PRK11361        144 HILTNSPAMMDICKDTAKIALS------QASVLISGESGTGKELIARAIHYNSRRA-KGPFIKVNCAALPESLLESELFG  216 (457)
T ss_pred             ceecccHHHhHHHHHHHHHcCC------CcEEEEEcCCCccHHHHHHHHHHhCCCC-CCCeEEEECCCCCHHHHHHHhcC
Confidence            3677777777776666655432      3478899999999999999999877654 67999999999988777788999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +..| +.|...  ...+.+..+.+|+||||||+.+++.+|..|+++++++.+...++......++++|+||+.+.....+
T Consensus       217 ~~~~~~~~~~~--~~~g~~~~a~~gtl~ld~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~l~~~~~  294 (457)
T PRK11361        217 HEKGAFTGAQT--LRQGLFERANEGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVK  294 (457)
T ss_pred             CCCCCCCCCCC--CCCCceEECCCCEEEEechhhCCHHHHHHHHHHHhcCcEEeCCCCceeeeceEEEEeCCCCHHHHHH
Confidence            8665 444322  2245677888999999999999999999999999999888766665556789999999966554322


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~~~~~i~~~  504 (607)
                                                                  .+.|+ +++++|++.+.+..| |  .++|+..++..
T Consensus       295 --------------------------------------------~g~~~-~~l~~~l~~~~i~~ppLreR~~di~~l~~~  329 (457)
T PRK11361        295 --------------------------------------------EGTFR-EDLFYRLNVIHLILPPLRDRREDISLLANH  329 (457)
T ss_pred             --------------------------------------------cCCch-HHHHHHhccceecCCChhhchhhHHHHHHH
Confidence                                                        24476 899999987655555 5  45889999999


Q ss_pred             HHHHHHHHHhhcCCcE-EEeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNIN-IVWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~-l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      ++.++..+.    +.. ..+++++++.|.. |+||+|+|+|++.|++.+..
T Consensus       330 ~l~~~~~~~----~~~~~~~~~~a~~~L~~-~~wpgNv~eL~~~~~~~~~~  375 (457)
T PRK11361        330 FLQKFSSEN----QRDIIDIDPMAMSLLTA-WSWPGNIRELSNVIERAVVM  375 (457)
T ss_pred             HHHHHHHHc----CCCCCCcCHHHHHHHHc-CCCCCcHHHHHHHHHHHHHh
Confidence            988876543    333 5789999999996 99999999999999997753

>PHA02736 Viral ankyrin protein; Provisional

Probab=99.82  E-value=2.1e-20  Score=169.47  Aligned_cols=131  Identities=14%  Similarity=0.066  Sum_probs=99.2

Q ss_pred             hhccCCCCCHHHHHHHHcCCHHHHHHHHhcC------CCCCccCCCCCCcHHHHHHHcCCH---HHHHHHHHcCCCCCCC
Q psy1308          79 LLECQSIKDLTLFRAARYGSAKELKTFIENS------KLDVNMRHPLGWTPLHVAAINGKV---DNVRVLLEAGANPNLG  149 (607)
Q Consensus        79 ~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~------~~~~~~~d~~g~tpLh~A~~~g~~---~~v~~Ll~~ga~~~~~  149 (607)
                      .+..|.+|.||||+||..|+.  +.+++..+      +..++.+|..|+||||+|+..|+.   +++++|+++|++++.+
T Consensus        10 ~~~~d~~g~tpLh~A~~~g~~--~~l~~~~~~~~~~~~~~~~~~d~~g~t~Lh~a~~~~~~~~~e~v~~Ll~~gadin~~   87 (154)
T PHA02736         10 ASEPDIEGENILHYLCRNGGV--TDLLAFKNAISDENRYLVLEYNRHGKQCVHIVSNPDKADPQEKLKLLMEWGADINGK   87 (154)
T ss_pred             HHhcCCCCCCHHHHHHHhCCH--HHHHHHHHHhcchhHHHHHHhcCCCCEEEEeecccCchhHHHHHHHHHHcCCCcccc
Confidence            356788899999999999984  33333222      012345688999999999999987   4688999999999886


Q ss_pred             C---CCchHHHHHHcCCccHHHHHHh-cCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCC
Q psy1308         150 D---LFNTVHRTAAEKKMNPFEVLLK-REDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPT  216 (607)
Q Consensus       150 d---~~~~l~~A~~~~~~~~~~~Ll~-~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~  216 (607)
                      +   ++||||+|+..++.+++++|+. .|++++..+.     .|+||||+|+..|+.+++++|+++|++++
T Consensus        88 ~~~~g~T~Lh~A~~~~~~~i~~~Ll~~~g~d~n~~~~-----~g~tpL~~A~~~~~~~i~~~Ll~~ga~~~  153 (154)
T PHA02736         88 ERVFGNTPLHIAVYTQNYELATWLCNQPGVNMEILNY-----AFKTPYYVACERHDAKMMNILRAKGAQCK  153 (154)
T ss_pred             CCCCCCcHHHHHHHhCCHHHHHHHHhCCCCCCccccC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCCC
Confidence            4   4678888888888888888886 4777766543     38888888888888888888888887764

>PHA02741 hypothetical protein; Provisional

Probab=99.82  E-value=1.1e-19  Score=167.27  Aligned_cols=137  Identities=18%  Similarity=0.120  Sum_probs=108.9

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCC----H
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGS----A   99 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~----~   99 (607)
                      +.++..|.||||+|++.|+.++++.|+.....                 ...+..++..|..|+||||+|+..|+    .
T Consensus        15 ~~~~~~g~t~Lh~Aa~~g~~~~v~~l~~~~~~-----------------~~~ga~in~~d~~g~T~Lh~A~~~g~~~~~~   77 (169)
T PHA02741         15 AEKNSEGENFFHEAARCGCFDIIARFTPFIRG-----------------DCHAAALNATDDAGQMCIHIAAEKHEAQLAA   77 (169)
T ss_pred             hccccCCCCHHHHHHHcCCHHHHHHHHHHhcc-----------------chhhhhhhccCCCCCcHHHHHHHcCChHHHH
Confidence            34677899999999999999999988643210                 01123346788999999999999999    5


Q ss_pred             HHHHHHHhcCCCCCccCCC-CCCcHHHHHHHcCCHHHHHHHHH-cCCCCCCCCCCchHHHHHHcCCccHHHHHHhcCCCc
Q psy1308         100 KELKTFIENSKLDVNMRHP-LGWTPLHVAAINGKVDNVRVLLE-AGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEF  177 (607)
Q Consensus       100 ~~v~~Ll~~~~~~~~~~d~-~g~tpLh~A~~~g~~~~v~~Ll~-~ga~~~~~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~  177 (607)
                      +++++|++.+ +++|.++. .|+||||+|+..++.+++++|++ .|++++..|.                          
T Consensus        78 ~ii~~Ll~~g-adin~~~~~~g~TpLh~A~~~~~~~iv~~Ll~~~g~~~~~~n~--------------------------  130 (169)
T PHA02741         78 EIIDHLIELG-ADINAQEMLEGDTALHLAAHRRDHDLAEWLCCQPGIDLHFCNA--------------------------  130 (169)
T ss_pred             HHHHHHHHcC-CCCCCCCcCCCCCHHHHHHHcCCHHHHHHHHhCCCCCCCcCCC--------------------------
Confidence            8999999998 99999985 89999999999999999999997 5898887543                          


Q ss_pred             cccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         178 NDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       178 ~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                                +|+||||+|+..|+.+++++|++.++.
T Consensus       131 ----------~g~tpL~~A~~~~~~~iv~~L~~~~~~  157 (169)
T PHA02741        131 ----------DNKSPFELAIDNEDVAMMQILREIVAT  157 (169)
T ss_pred             ----------CCCCHHHHHHHCCCHHHHHHHHHHHHH
Confidence                      266677777777777777776666543

>KOG0195|consensus

Probab=99.82  E-value=9.8e-21  Score=174.98  Aligned_cols=134  Identities=30%  Similarity=0.465  Sum_probs=120.9

Q ss_pred             HHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHH
Q psy1308          94 ARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLL  171 (607)
Q Consensus        94 ~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll  171 (607)
                      |+.|+.-.|+..|+...-|.|.-|..|.+||||||+.|+..+|+.|+..|+.+|..+-  .||||+|+..||.++++.|+
T Consensus         8 cregna~qvrlwld~tehdln~gddhgfsplhwaakegh~aivemll~rgarvn~tnmgddtplhlaaahghrdivqkll   87 (448)
T KOG0195|consen    8 CREGNAFQVRLWLDDTEHDLNVGDDHGFSPLHWAAKEGHVAIVEMLLSRGARVNSTNMGDDTPLHLAAAHGHRDIVQKLL   87 (448)
T ss_pred             hhcCCeEEEEEEecCcccccccccccCcchhhhhhhcccHHHHHHHHhcccccccccCCCCcchhhhhhcccHHHHHHHH
Confidence            5566666667777766688999999999999999999999999999999999998764  57999999999999999999


Q ss_pred             hcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhh
Q psy1308         172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDA  232 (607)
Q Consensus       172 ~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~  232 (607)
                      +..+|+|..+..     |+|||||||..|...+++-|+..||-+++.|++|.|||..|.-.
T Consensus        88 ~~kadvnavneh-----gntplhyacfwgydqiaedli~~ga~v~icnk~g~tpldkakp~  143 (448)
T KOG0195|consen   88 SRKADVNAVNEH-----GNTPLHYACFWGYDQIAEDLISCGAAVNICNKKGMTPLDKAKPM  143 (448)
T ss_pred             HHhcccchhhcc-----CCCchhhhhhhcHHHHHHHHHhccceeeecccCCCCchhhhchH
Confidence            999999998665     99999999999999999999999999999999999999987543

>KOG2004|consensus

Probab=99.81  E-value=1.6e-19  Score=187.34  Aligned_cols=281  Identities=21%  Similarity=0.252  Sum_probs=209.8

Q ss_pred             HHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch
Q psy1308         263 EQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       263 ~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~  342 (607)
                      ...|.+...|.+...+.+.+.+.-....  ...+-..++|+||||+|||.++|.||+.+++.    |+++......+   
T Consensus       406 k~iLdeDHYgm~dVKeRILEfiAV~kLr--gs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRk----FfRfSvGG~tD---  476 (906)
T KOG2004|consen  406 KEILDEDHYGMEDVKERILEFIAVGKLR--GSVQGKILCFVGPPGVGKTSIAKSIARALNRK----FFRFSVGGMTD---  476 (906)
T ss_pred             HHhhcccccchHHHHHHHHHHHHHHhhc--ccCCCcEEEEeCCCCCCcccHHHHHHHHhCCc----eEEEecccccc---
Confidence            3445667788888888888877655422  12223479999999999999999999999887    99999888755   


Q ss_pred             hHhhhcCCCCCccCCCCchhhHHHhhC--CCeEEEEecCCccCHHH----HHHHHHhhc---cceeecC-CCcEEecCce
Q psy1308         343 VAKLIGAPPGYLGHDDGGQLTKRLKKC--PNAVVLFDEVDKAHPDV----LTVLLQLFD---EGRLTDG-KGKTIECKDA  412 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l~~~~~~~--~~~vl~lDEiek~~~~~----~~~Ll~~~~---~~~~~~~-~g~~~~~~~~  412 (607)
                      ++++-|+...|+|...|.. .+.+...  .+.+++||||||+....    -.+||+++|   +..|.|. -...+|.+++
T Consensus       477 vAeIkGHRRTYVGAMPGki-Iq~LK~v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkV  555 (906)
T KOG2004|consen  477 VAEIKGHRRTYVGAMPGKI-IQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKV  555 (906)
T ss_pred             HHhhcccceeeeccCChHH-HHHHHhhCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhhe
Confidence            7888899999999876654 4555554  47899999999986433    378888887   5556663 3567899999


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP  492 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p  492 (607)
                      +||||.|.-                                                   +.. +|.|+.|+ ++|...-
T Consensus       556 LFicTAN~i---------------------------------------------------dtI-P~pLlDRM-EvIelsG  582 (906)
T KOG2004|consen  556 LFICTANVI---------------------------------------------------DTI-PPPLLDRM-EVIELSG  582 (906)
T ss_pred             EEEEecccc---------------------------------------------------ccC-Chhhhhhh-heeeccC
Confidence            999999921                                                   012 38899999 7888888


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHHHhcc--------
Q psy1308         493 FSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSV--------  564 (607)
Q Consensus       493 l~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~--------  564 (607)
                      +..+|..+|+..+|-.-+.+-.....-.+.++++|+..|.+.|..+.|+|.|++.|+++....-.+.....+        
T Consensus       583 Yv~eEKv~IA~~yLip~a~~~~gl~~e~v~is~~al~~lI~~YcrEaGVRnLqk~iekI~Rk~Al~vv~~~~~~~~~~~~  662 (906)
T KOG2004|consen  583 YVAEEKVKIAERYLIPQALKDCGLKPEQVKISDDALLALIERYCREAGVRNLQKQIEKICRKVALKVVEGENSKEESAEK  662 (906)
T ss_pred             ccHHHHHHHHHHhhhhHHHHHcCCCHHhcCccHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhccccccccc
Confidence            999999999999987544332211123678899999888777999999999999999765544322222211        


Q ss_pred             -----------------------CCCCCEEEEEEecCCcccccCCCCceEEEEEeccCccccccc
Q psy1308         565 -----------------------IGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKKGMKDFIDV  606 (607)
Q Consensus       565 -----------------------~~~~~~v~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  606 (607)
                                             ......+.|+.++-..+++.+.......|++.+.|..+|+++
T Consensus       663 ~~~~~~~~~~e~~~~~t~~~~~~~~~~~~i~I~~~nL~d~lG~P~f~~e~~y~~tp~GVvmGLaW  727 (906)
T KOG2004|consen  663 NGRESTEKSIEEAESSTSGADLLPEMPENIEIDESNLQDILGPPVFTSERMYEVTPPGVVMGLAW  727 (906)
T ss_pred             ccccccccccccccccCcccccccCCcceeeecHHHHHHHhCCCcccHHHHhccCCCeeEEEEEE
Confidence                                   112345777777778888777777777999999999999875

>PHA02884 ankyrin repeat protein; Provisional

Probab=99.81  E-value=1.2e-19  Score=178.72  Aligned_cols=124  Identities=17%  Similarity=0.164  Sum_probs=109.9

Q ss_pred             cCCCCCCcH-HHHHHHcCCHHHHHHHHHcCCCCCCC------CCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCc
Q psy1308         115 MRHPLGWTP-LHVAAINGKVDNVRVLLEAGANPNLG------DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTF  187 (607)
Q Consensus       115 ~~d~~g~tp-Lh~A~~~g~~~~v~~Ll~~ga~~~~~------d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~  187 (607)
                      .+|..|+|+ ||.|+..|+.+++++|+++|++++.+      ++.||||+|+..++.+++++|+++|++++..++    .
T Consensus        27 ~~d~~~~~~lL~~A~~~~~~eivk~LL~~GAdiN~~~~~sd~~g~TpLh~Aa~~~~~eivklLL~~GADVN~~~~----~  102 (300)
T PHA02884         27 KKNKICIANILYSSIKFHYTDIIDAILKLGADPEAPFPLSENSKTNPLIYAIDCDNDDAAKLLIRYGADVNRYAE----E  102 (300)
T ss_pred             ccCcCCCCHHHHHHHHcCCHHHHHHHHHCCCCccccCcccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCcCcccC----C
Confidence            467777765 66677789999999999999999986      467899999999999999999999999997532    2


Q ss_pred             CCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHH
Q psy1308         188 LGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYA  242 (607)
Q Consensus       188 ~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll  242 (607)
                      .|.||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++..+.
T Consensus       103 ~g~TpLh~Aa~~~~~eivklLL~~GAdin~kd~~G~TpL~~A~~~~~~~~~~~~~  157 (300)
T PHA02884        103 AKITPLYISVLHGCLKCLEILLSYGADINIQTNDMVTPIELALMICNNFLAFMIC  157 (300)
T ss_pred             CCCCHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHhCChhHHHHhc
Confidence            3999999999999999999999999999999999999999999988888775554

>PHA02736 Viral ankyrin protein; Provisional

Probab=99.81  E-value=3.8e-20  Score=167.76  Aligned_cols=130  Identities=19%  Similarity=0.178  Sum_probs=109.0

Q ss_pred             CccCCCCCCcHHHHHHHcCCHHHHHHHHHcCC--CCC-------CCCCCchHHHHHHcCCcc---HHHHHHhcCCCcccc
Q psy1308         113 VNMRHPLGWTPLHVAAINGKVDNVRVLLEAGA--NPN-------LGDLFNTVHRTAAEKKMN---PFEVLLKREDEFNDV  180 (607)
Q Consensus       113 ~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga--~~~-------~~d~~~~l~~A~~~~~~~---~~~~Ll~~g~~~~~~  180 (607)
                      .+.+|..|.||||+||..|+  +++++...+.  +.+       -.+++||||+|+..|+.+   ++++|++.|++++..
T Consensus        10 ~~~~d~~g~tpLh~A~~~g~--~~~l~~~~~~~~~~~~~~~~~~d~~g~t~Lh~a~~~~~~~~~e~v~~Ll~~gadin~~   87 (154)
T PHA02736         10 ASEPDIEGENILHYLCRNGG--VTDLLAFKNAISDENRYLVLEYNRHGKQCVHIVSNPDKADPQEKLKLLMEWGADINGK   87 (154)
T ss_pred             HHhcCCCCCCHHHHHHHhCC--HHHHHHHHHHhcchhHHHHHHhcCCCCEEEEeecccCchhHHHHHHHHHHcCCCcccc
Confidence            45678899999999999998  3455444333  221       235678999999999874   688999999999876


Q ss_pred             CCCCcCcCCcchhhHHHhcCCHHHHHHHHh-cCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhH
Q psy1308         181 LNPNMTFLGFSALHYGVVAGNTEVVELLLK-SGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADL  248 (607)
Q Consensus       181 ~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~-~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~  248 (607)
                      ++    ..|+||||+|+..|+.+++++|+. .|++++.+|..|+||||+|+..++.+++++|+..+++.
T Consensus        88 ~~----~~g~T~Lh~A~~~~~~~i~~~Ll~~~g~d~n~~~~~g~tpL~~A~~~~~~~i~~~Ll~~ga~~  152 (154)
T PHA02736         88 ER----VFGNTPLHIAVYTQNYELATWLCNQPGVNMEILNYAFKTPYYVACERHDAKMMNILRAKGAQC  152 (154)
T ss_pred             CC----CCCCcHHHHHHHhCCHHHHHHHHhCCCCCCccccCCCCCHHHHHHHcCCHHHHHHHHHcCCCC
Confidence            43    239999999999999999999998 59999999999999999999999999999999988753

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.80  E-value=3.3e-18  Score=169.83  Aligned_cols=225  Identities=21%  Similarity=0.306  Sum_probs=157.0

Q ss_pred             cccccHHHHHHhHhhhhHHHHHHHHHHHH-------HhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---C
Q psy1308         257 RRKYPLEQRLKDRIVGQESAINIISAAIK-------RKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---K  326 (607)
Q Consensus       257 ~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~-------~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~  326 (607)
                      .+...+...+.+.++|.+...+.+...+.       +...+........+++|+||+|||||.+|+.+++.++..+   .
T Consensus        11 ~~~~~~~~~l~~~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~   90 (284)
T TIGR02880        11 SGITEVLDQLDRELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRK   90 (284)
T ss_pred             ccHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCccc
Confidence            34444555666678888888887755432       2234444333234899999999999999999998875422   2


Q ss_pred             CceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc---------CHHHHHHHHHhhccc
Q psy1308         327 EAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA---------HPDVLTVLLQLFDEG  397 (607)
Q Consensus       327 ~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~---------~~~~~~~Ll~~~~~~  397 (607)
                      .+|+.++++..     +..++|       .. .....+.++.+.++||||||++.+         +.++++.|++.++++
T Consensus        91 ~~~v~v~~~~l-----~~~~~g-------~~-~~~~~~~~~~a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~  157 (284)
T TIGR02880        91 GHLVSVTRDDL-----VGQYIG-------HT-APKTKEILKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQ  157 (284)
T ss_pred             ceEEEecHHHH-----hHhhcc-------cc-hHHHHHHHHHccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcC
Confidence            35777775322     223333       21 234556788888899999999976         467899999999854


Q ss_pred             eeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCC
Q psy1308         398 RLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRR  477 (607)
Q Consensus       398 ~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~  477 (607)
                      .           .++++|++++...  +.. .                                           -.. +
T Consensus       158 ~-----------~~~~vI~a~~~~~--~~~-~-------------------------------------------~~~-n  179 (284)
T TIGR02880       158 R-----------DDLVVILAGYKDR--MDS-F-------------------------------------------FES-N  179 (284)
T ss_pred             C-----------CCEEEEEeCCcHH--HHH-H-------------------------------------------Hhh-C
Confidence            2           5678888877321  100 0                                           012 3


Q ss_pred             hhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc------cCCCCCCccchhHHHHHH
Q psy1308         478 DEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD------GYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       478 ~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~------~~~~~~GaR~L~~~i~~~  551 (607)
                      |+|.+|++..+.|.||+.+|+..|+..++.+..          ..+++++.+.+..      ..+|++|+|+|++.+++.
T Consensus       180 p~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~~----------~~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~ve~~  249 (284)
T TIGR02880       180 PGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQQ----------YRFSAEAEEAFADYIALRRTQPHFANARSIRNAIDRA  249 (284)
T ss_pred             HHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHhc----------cccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHH
Confidence            999999999999999999999999999887632          2356777766653      238999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy1308         552 VVSQLAAAHEK  562 (607)
Q Consensus       552 i~~~l~~~~l~  562 (607)
                      +...-.+....
T Consensus       250 ~~~~~~r~~~~  260 (284)
T TIGR02880       250 RLRQANRLFCD  260 (284)
T ss_pred             HHHHHHHHhcC
Confidence            88877666543

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>KOG2170|consensus

Probab=99.79  E-value=1.9e-18  Score=162.94  Aligned_cols=240  Identities=23%  Similarity=0.335  Sum_probs=169.8

Q ss_pred             ccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeeccc
Q psy1308         258 RKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSE  336 (607)
Q Consensus       258 ~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~  336 (607)
                      ....|+..+.+.+.||.-+.+.+..+++..... ..|.+|+++.|+|++||||..+++.||+.++..+ ..+++..-.+.
T Consensus        72 ~~~~Le~dL~~~lfGQHla~~~Vv~alk~~~~n-~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat  150 (344)
T KOG2170|consen   72 DLDGLEKDLARALFGQHLAKQLVVNALKSHWAN-PNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVAT  150 (344)
T ss_pred             cchHHHHHHHHHhhchHHHHHHHHHHHHHHhcC-CCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhh
Confidence            356799999999999999999999999988765 4589999999999999999999999999998754 33444433333


Q ss_pred             ccccc--hhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         337 YQEKH--EVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       337 ~~~~~--~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                      ....+  .+..+=       - +-..++.+-+..++.++++|||+||+|+.+++.|-.+++-....+.    ++|.++||
T Consensus       151 ~hFP~~~~ie~Yk-------~-eL~~~v~~~v~~C~rslFIFDE~DKmp~gLld~lkpfLdyyp~v~g----v~frkaIF  218 (344)
T KOG2170|consen  151 LHFPHASKIEDYK-------E-ELKNRVRGTVQACQRSLFIFDEVDKLPPGLLDVLKPFLDYYPQVSG----VDFRKAIF  218 (344)
T ss_pred             ccCCChHHHHHHH-------H-HHHHHHHHHHHhcCCceEEechhhhcCHhHHHHHhhhhcccccccc----ccccceEE
Confidence            32221  111110       0 1224566778889999999999999999999999999986444444    78999999


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhh--hccccceeeecc
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEF--LGRINEIVYFLP  492 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el--~~ri~~iv~f~p  492 (607)
                      ||-||.|..+|.+..+++.+.+.+++.-+....           +.........+. ...+...++  .++||.+|+|.|
T Consensus       219 IfLSN~gg~eI~~~aL~~~~~g~~re~~~l~~~-----------E~~L~~~~~n~~-~~Gl~~S~li~~~lid~fIPFLP  286 (344)
T KOG2170|consen  219 IFLSNAGGSEIARIALENARNGKPREQLRLKSF-----------EPALMQSAFNEK-AGGLVHSRLISNNLIDHFIPFLP  286 (344)
T ss_pred             EEEcCCcchHHHHHHHHHHHcCCCcccchhhhh-----------hHHHHHhhhccc-cccccccccchhhHHhhccCcCc
Confidence            999999999999999988877765543332211           111111110000 011111222  246899999999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         493 FSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       493 l~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                      +++.++..+++.++...        |  +..+.+.++-++
T Consensus       287 Lek~hV~~C~r~el~~r--------g--~~~d~~~~erva  316 (344)
T KOG2170|consen  287 LEKRHVRSCIRAELRKR--------G--LAPDQDFVERVA  316 (344)
T ss_pred             ccHHHHHHHHHHHHHhc--------c--cccchHHHHHHH
Confidence            99999999999888531        2  445666666654

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.79  E-value=2.3e-18  Score=184.32  Aligned_cols=227  Identities=19%  Similarity=0.295  Sum_probs=173.5

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcC
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGA  349 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~  349 (607)
                      ++|.+..+..+...+.....      ....++++|.+|+||+.+++.++...... ..+|+.+||+..........+||.
T Consensus       141 lig~s~~~~~~~~~i~~~~~------~~~~vli~ge~g~gk~~~a~~ih~~s~~~-~~~~i~~~c~~~~~~~~~~~lfg~  213 (441)
T PRK10365        141 MVGKSPAMQHLLSEIALVAP------SEATVLIHGDSGTGKELVARAIHASSARS-EKPLVTLNCAALNESLLESELFGH  213 (441)
T ss_pred             eEecCHHHHHHHHHHhhccC------CCCeEEEEecCCCCHHHHHHHHHHcCCCC-CCCeeeeeCCCCCHHHHHHHhcCC
Confidence            55666666655554433321      13467889999999999999999887665 789999999999887777888998


Q ss_pred             CCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHH
Q psy1308         350 PPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       350 ~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                      ..| +.|...  ...+.+..+.+|++|||||+.+++.+|..|+++++++.+...++......++++|++|+.......  
T Consensus       214 ~~~~~~~~~~--~~~g~~~~a~~gtl~ldei~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~~~~~~--  289 (441)
T PRK10365        214 EKGAFTGADK--RREGRFVEADGGTLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEV--  289 (441)
T ss_pred             CCCCcCCCCc--CCCCceeECCCCEEEEeccccCCHHHHHHHHHHHccCcEEeCCCCceeeeceEEEEeCCCCHHHHH--
Confidence            766 444322  123456788899999999999999999999999999998876666555678899999985543321  


Q ss_pred             HhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHHHHHHHHHHH
Q psy1308         429 ALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKSELHTLVCRE  505 (607)
Q Consensus       429 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~~~~~i~~~~  505 (607)
                                                                ..+.|+ ++|++|++.+.+..| |  +.+|+..++..+
T Consensus       290 ------------------------------------------~~~~~~-~~l~~~l~~~~i~~ppLreR~~Di~~l~~~~  326 (441)
T PRK10365        290 ------------------------------------------NAGRFR-QDLYYRLNVVAIEVPSLRQRREDIPLLAGHF  326 (441)
T ss_pred             ------------------------------------------HcCCch-HHHHHHhccceecCCChhhcchhHHHHHHHH
Confidence                                                      234576 999999987655555 4  457999999999


Q ss_pred             HHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         506 LNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       506 l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      +.++..+...   -...+++++++.|.. |+||+|+|+|++++++.+..
T Consensus       327 l~~~~~~~~~---~~~~~~~~a~~~L~~-~~wpgN~reL~~~~~~~~~~  371 (441)
T PRK10365        327 LQRFAERNRK---AVKGFTPQAMDLLIH-YDWPGNIRELENAVERAVVL  371 (441)
T ss_pred             HHHHHHHhCC---CCCCcCHHHHHHHHh-CCCCCHHHHHHHHHHHHHHh
Confidence            9887664421   134689999999996 99999999999999987653

>KOG0507|consensus

Probab=99.79  E-value=2.2e-19  Score=186.44  Aligned_cols=197  Identities=20%  Similarity=0.198  Sum_probs=167.1

Q ss_pred             hhhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccC
Q psy1308           4 ILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQ   83 (607)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~   83 (607)
                      .|+.+.+++..+++ |-..-...+..|.+|||+|+..|+.++++.++....                       .++...
T Consensus        57 ~Lng~~~is~llle-~ea~ldl~d~kg~~plhlaaw~g~~e~vkmll~q~d-----------------------~~na~~  112 (854)
T KOG0507|consen   57 VLNGQNQISKLLLD-YEALLDLCDTKGILPLHLAAWNGNLEIVKMLLLQTD-----------------------ILNAVN  112 (854)
T ss_pred             HhcCchHHHHHHhc-chhhhhhhhccCcceEEehhhcCcchHHHHHHhccc-----------------------CCCccc
Confidence            46777777776664 333333455788999999999999999999986652                       235677


Q ss_pred             CCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCC----------CCCCc
Q psy1308          84 SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL----------GDLFN  153 (607)
Q Consensus        84 ~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~----------~d~~~  153 (607)
                      ..|.||||.||+.||.++|.+||.++ +|+-.+|..+.|+|-+||+.|..++|+.|+....++..          ...-+
T Consensus       113 ~e~~tplhlaaqhgh~dvv~~Ll~~~-adp~i~nns~~t~ldlA~qfgr~~Vvq~ll~~~~~~~~~~~~~~~~~~~~~~~  191 (854)
T KOG0507|consen  113 IENETPLHLAAQHGHLEVVFYLLKKN-ADPFIRNNSKETVLDLASRFGRAEVVQMLLQKKFPVQSSLRVGDIKRPFPAIY  191 (854)
T ss_pred             ccCcCccchhhhhcchHHHHHHHhcC-CCccccCcccccHHHHHHHhhhhHHHHHHhhhccchhhcccCCCCCCCCCCcC
Confidence            89999999999999999999999999 99999999999999999999999999999987322211          11123


Q ss_pred             hHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhh
Q psy1308         154 TVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAED  231 (607)
Q Consensus       154 ~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~  231 (607)
                      |||.|+++||.++++.|++.|.++|....      ..|+||.|+..|..++|.+|++.|.+..++|.+|+|+|.+-..
T Consensus       192 plHlaakngh~~~~~~ll~ag~din~~t~------~gtalheaalcgk~evvr~ll~~gin~h~~n~~~qtaldil~d  263 (854)
T KOG0507|consen  192 PLHLAAKNGHVECMQALLEAGFDINYTTE------DGTALHEAALCGKAEVVRFLLEIGINTHIKNQHGQTALDIIID  263 (854)
T ss_pred             CcchhhhcchHHHHHHHHhcCCCcccccc------cchhhhhHhhcCcchhhhHHHhhccccccccccchHHHHHHHh
Confidence            99999999999999999999999998755      4599999999999999999999999999999999999987654

>CHL00181 cbbX CbbX; Provisional

Probab=99.78  E-value=1e-17  Score=166.06  Aligned_cols=225  Identities=21%  Similarity=0.269  Sum_probs=155.5

Q ss_pred             cccccHHHHHHhHhhhhHHHHHHHHHHHH-------HhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---C
Q psy1308         257 RRKYPLEQRLKDRIVGQESAINIISAAIK-------RKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---K  326 (607)
Q Consensus       257 ~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~-------~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~  326 (607)
                      .....+...+...++|.....+.+.+.+.       +...+...+..+.+++|.||||||||.+|+.+++.++..+   .
T Consensus        12 ~~~~~~~~~l~~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~   91 (287)
T CHL00181         12 TQIQEVLDILDEELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKK   91 (287)
T ss_pred             cCHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCC
Confidence            34455667777788998888877755432       2234555555556899999999999999999999875421   2


Q ss_pred             CceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc---------CHHHHHHHHHhhccc
Q psy1308         327 EAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA---------HPDVLTVLLQLFDEG  397 (607)
Q Consensus       327 ~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~---------~~~~~~~Ll~~~~~~  397 (607)
                      .+++.++.+.+     +..++|       .. .....+.++.+.++||||||++.+         .+++++.|+++++++
T Consensus        92 ~~~~~v~~~~l-----~~~~~g-------~~-~~~~~~~l~~a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~  158 (287)
T CHL00181         92 GHLLTVTRDDL-----VGQYIG-------HT-APKTKEVLKKAMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQ  158 (287)
T ss_pred             CceEEecHHHH-----HHHHhc-------cc-hHHHHHHHHHccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcC
Confidence            34666654332     223333       21 123456777888999999999985         577999999999854


Q ss_pred             eeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCC
Q psy1308         398 RLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRR  477 (607)
Q Consensus       398 ~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~  477 (607)
                      .           .+++||++++..  .+.. .                                          . .. +
T Consensus       159 ~-----------~~~~vI~ag~~~--~~~~-~------------------------------------------~-~~-n  180 (287)
T CHL00181        159 R-----------DDLVVIFAGYKD--RMDK-F------------------------------------------Y-ES-N  180 (287)
T ss_pred             C-----------CCEEEEEeCCcH--HHHH-H------------------------------------------H-hc-C
Confidence            2           467888887632  1111 0                                          0 12 3


Q ss_pred             hhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH----HHHHHc-cC-CCCCCccchhHHHHHH
Q psy1308         478 DEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV----ETILAD-GY-DVHYGARSIKHEVERQ  551 (607)
Q Consensus       478 ~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a----~~~L~~-~~-~~~~GaR~L~~~i~~~  551 (607)
                      |+|.+|++.++.|.|++.+++.+|+..++.+...          .+++++    ++++.+ ++ ++.+|+|++++++++.
T Consensus       181 p~L~sR~~~~i~F~~~t~~el~~I~~~~l~~~~~----------~l~~~~~~~L~~~i~~~~~~~~~GNaR~vrn~ve~~  250 (287)
T CHL00181        181 PGLSSRIANHVDFPDYTPEELLQIAKIMLEEQQY----------QLTPEAEKALLDYIKKRMEQPLFANARSVRNALDRA  250 (287)
T ss_pred             HHHHHhCCceEEcCCcCHHHHHHHHHHHHHHhcC----------CCChhHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            9999999999999999999999999999875422          234443    444443 33 5667799999999999


Q ss_pred             HHHHHHHHHHh
Q psy1308         552 VVSQLAAAHEK  562 (607)
Q Consensus       552 i~~~l~~~~l~  562 (607)
                      +..+..+....
T Consensus       251 ~~~~~~r~~~~  261 (287)
T CHL00181        251 RMRQANRIFES  261 (287)
T ss_pred             HHHHHHHHHcC
Confidence            88887766544

>KOG4369|consensus

Probab=99.77  E-value=2.3e-19  Score=191.13  Aligned_cols=217  Identities=17%  Similarity=0.157  Sum_probs=194.5

Q ss_pred             CCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccc----------h-hccCCCCCHHHHHHHHcC
Q psy1308          29 FQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALT----------L-LECQSIKDLTLFRAARYG   97 (607)
Q Consensus        29 ~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~----------~-~~~~~~g~t~Lh~A~~~g   97 (607)
                      .-.|+|-.||..||.+++++|+..+..+...+..++.+++++...++...          + ...|..++|+|-+||..|
T Consensus       756 n~~t~LT~acaggh~e~vellv~rganiehrdkkgf~plImaatagh~tvV~~llk~ha~veaQsdrtkdt~lSlacsgg  835 (2131)
T KOG4369|consen  756 NIKTNLTSACAGGHREEVELLVVRGANIEHRDKKGFVPLIMAATAGHITVVQDLLKAHADVEAQSDRTKDTMLSLACSGG  835 (2131)
T ss_pred             cccccccccccCccHHHHHHHHHhcccccccccccchhhhhhcccCchHHHHHHHhhhhhhhhhcccccCceEEEecCCC
Confidence            35699999999999999999999999999999999999998854444332          2 357889999999999999


Q ss_pred             CHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCC----chHHHHHHcCCccHHHHHHhc
Q psy1308          98 SAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF----NTVHRTAAEKKMNPFEVLLKR  173 (607)
Q Consensus        98 ~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~----~~l~~A~~~~~~~~~~~Ll~~  173 (607)
                      ..++|++||..+ ++-..++-..+|||.+|...|+.++|+.|+.+|+.+|.+.+.    .||++|+.+||...++.|++.
T Consensus       836 r~~vvelLl~~g-ankehrnvsDytPlsla~Sggy~~iI~~llS~GseInSrtgSklgisPLmlatmngh~~at~~ll~~  914 (2131)
T KOG4369|consen  836 RTRVVELLLNAG-ANKEHRNVSDYTPLSLARSGGYTKIIHALLSSGSEINSRTGSKLGISPLMLATMNGHQAATLSLLQP  914 (2131)
T ss_pred             cchHHHHHHHhh-ccccccchhhcCchhhhcCcchHHHHHHHhhcccccccccccccCcchhhhhhhccccHHHHHHhcc
Confidence            999999999999 888889999999999999999999999999999999987762    399999999999999999999


Q ss_pred             CCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHh
Q psy1308         174 EDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQR  250 (607)
Q Consensus       174 g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~  250 (607)
                      |.|+|.....    +.+|+|-+|+..|..++|.+||.+.+++..+-+.|.|||+-++..|..++-..|+..|+|.+.
T Consensus       915 gsdiNaqIeT----NrnTaltla~fqgr~evv~lLLa~~anvehRaktgltplme~AsgGyvdvg~~li~~gad~na  987 (2131)
T KOG4369|consen  915 GSDINAQIET----NRNTALTLALFQGRPEVVFLLLAAQANVEHRAKTGLTPLMEMASGGYVDVGNLLIAAGADTNA  987 (2131)
T ss_pred             cchhcccccc----ccccceeeccccCcchHHHHHHHHhhhhhhhcccCCcccchhhcCCccccchhhhhccccccc
Confidence            9999987654    278999999999999999999999999999999999999999999999999999999998764

>KOG0512|consensus

Probab=99.76  E-value=5e-18  Score=145.83  Aligned_cols=139  Identities=20%  Similarity=0.204  Sum_probs=116.2

Q ss_pred             HHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCC
Q psy1308          34 LFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDV  113 (607)
Q Consensus        34 L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~  113 (607)
                      +.+|+..+.+..|+.|++...                      ..++.+|.+|.||||.|+.+|+.++|+.|+..| +++
T Consensus        67 ~lwaae~nrl~eV~~lL~e~a----------------------n~vNtrD~D~YTpLHRAaYn~h~div~~ll~~g-An~  123 (228)
T KOG0512|consen   67 LLWAAEKNRLTEVQRLLSEKA----------------------NHVNTRDEDEYTPLHRAAYNGHLDIVHELLLSG-ANK  123 (228)
T ss_pred             HHHHHhhccHHHHHHHHHhcc----------------------ccccccccccccHHHHHHhcCchHHHHHHHHcc-CCc
Confidence            788999999999998876532                      233688999999999999999999999999999 999


Q ss_pred             ccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC--CCchHHHHHHcCCcc-HHHHHHh-cCCCccccCCCCcCcCC
Q psy1308         114 NMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD--LFNTVHRTAAEKKMN-PFEVLLK-REDEFNDVLNPNMTFLG  189 (607)
Q Consensus       114 ~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d--~~~~l~~A~~~~~~~-~~~~Ll~-~g~~~~~~~~~~~d~~g  189 (607)
                      +.+...||||||-||.-++.+++.+||++|+|+|+..  .+||||.||...+.. .+.+|+. .+.+.-...+.     +
T Consensus       124 ~a~T~~GWTPLhSAckWnN~~va~~LLqhgaDVnA~t~g~ltpLhlaa~~rn~r~t~~~Ll~dryi~pg~~nn~-----e  198 (228)
T KOG0512|consen  124 EAKTNEGWTPLHSACKWNNFEVAGRLLQHGADVNAQTKGLLTPLHLAAGNRNSRDTLELLLHDRYIHPGLKNNL-----E  198 (228)
T ss_pred             ccccccCccchhhhhcccchhHHHHHHhccCcccccccccchhhHHhhcccchHHHHHHHhhccccChhhhcCc-----c
Confidence            9999999999999999999999999999999999954  378999999887654 4555553 44444444333     8


Q ss_pred             cchhhHHHhcC
Q psy1308         190 FSALHYGVVAG  200 (607)
Q Consensus       190 ~TpLh~A~~~g  200 (607)
                      .||+.+|-+.+
T Consensus       199 eta~~iARRT~  209 (228)
T KOG0512|consen  199 ETAFDIARRTS  209 (228)
T ss_pred             chHHHHHHHhh
Confidence            99999997764

>KOG3676|consensus

Probab=99.74  E-value=6.8e-18  Score=177.97  Aligned_cols=200  Identities=24%  Similarity=0.266  Sum_probs=162.8

Q ss_pred             CCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHc---CCHHHH
Q psy1308          26 KRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARY---GSAKEL  102 (607)
Q Consensus        26 ~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~---g~~~~v  102 (607)
                      .+.+.+.++..|...+.....+.|+........         +     ...-.++.+...|.|+||.|..+   ++.+++
T Consensus        97 l~~~d~~~~~~~~~~~~l~~l~~l~~~~~~~k~---------r-----~~~w~~~~RGa~GET~Lh~~lL~~~~~~n~la  162 (782)
T KOG3676|consen   97 LKRFDRDALFIADSEGALSDLDGLLKFLRKSKY---------R-----LTDWKLNERGATGETLLHKALLNLSDGHNELA  162 (782)
T ss_pred             hhhcchhhhhhccccccHHHHhccchhhhhhhh---------h-----hhhhccccccchhhhHHHHHHhcCchhHHHHH
Confidence            444455777888888887777777654321110         0     11123356678999999999884   567999


Q ss_pred             HHHHhcCCCCCccC----CCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCC---------CC--------------Cc--
Q psy1308         103 KTFIENSKLDVNMR----HPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG---------DL--------------FN--  153 (607)
Q Consensus       103 ~~Ll~~~~~~~~~~----d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~---------d~--------------~~--  153 (607)
                      +.|++..+--+|..    ...|.||||+|+.+.+.++|++|++.|||++.+         |.              +|  
T Consensus       163 ~~LL~~~p~lind~~~~eeY~GqSaLHiAIv~~~~~~V~lLl~~gADV~aRa~G~FF~~~dqk~~rk~T~Y~G~~YfGEy  242 (782)
T KOG3676|consen  163 RVLLEIFPKLINDIYTSEEYYGQSALHIAIVNRDAELVRLLLAAGADVHARACGAFFCPDDQKASRKSTNYTGYFYFGEY  242 (782)
T ss_pred             HHHHHHhHHHhhhhhhhHhhcCcchHHHHHHhccHHHHHHHHHcCCchhhHhhccccCcccccccccccCCcceeeeccC
Confidence            99999765444432    346999999999999999999999999999873         11              23  


Q ss_pred             hHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC--CCccCCCCCCCCcchhh
Q psy1308         154 TVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD--PTVKDNSGHIPSDYAED  231 (607)
Q Consensus       154 ~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad--~~~~d~~g~Tpl~~A~~  231 (607)
                      ||-+||..++.+++++|+++|||++.+|.+     |+|.||..+.+-..++-.+++++|++  ...+|+.|-|||.+|++
T Consensus       243 PLSfAAC~nq~eivrlLl~~gAd~~aqDS~-----GNTVLH~lVi~~~~~My~~~L~~ga~~l~~v~N~qgLTPLtLAak  317 (782)
T KOG3676|consen  243 PLSFAACTNQPEIVRLLLAHGADPNAQDSN-----GNTVLHMLVIHFVTEMYDLALELGANALEHVRNNQGLTPLTLAAK  317 (782)
T ss_pred             chHHHHHcCCHHHHHHHHhcCCCCCccccC-----CChHHHHHHHHHHHHHHHHHHhcCCCccccccccCCCChHHHHHH
Confidence            999999999999999999999999988555     99999999999999999999999999  99999999999999999


Q ss_pred             hhHHHHHHHHHHh
Q psy1308         232 ANIKQILQKYAEK  244 (607)
Q Consensus       232 ~~~~~~~~~ll~~  244 (607)
                      .|..++.+.+++.
T Consensus       318 lGk~emf~~ile~  330 (782)
T KOG3676|consen  318 LGKKEMFQHILER  330 (782)
T ss_pred             hhhHHHHHHHHHh
Confidence            9999999999987

>PF12796 Ank_2: Ankyrin repeats (3 copies); InterPro: IPR020683 This entry represents the ankyrin repeat-containing domain

Probab=99.72  E-value=3.1e-17  Score=133.76  Aligned_cols=89  Identities=45%  Similarity=0.648  Sum_probs=57.5

Q ss_pred             HHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHHH
Q psy1308          90 LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEV  169 (607)
Q Consensus        90 Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~  169 (607)
                      ||+||+.|+.+++++|++.+ .+++.    |.||||+||..|+.+++++|+++|++++.+|                   
T Consensus         1 L~~A~~~~~~~~~~~ll~~~-~~~~~----~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~-------------------   56 (89)
T PF12796_consen    1 LHIAAQNGNLEILKFLLEKG-ADINL----GNTALHYAAENGNLEIVKLLLENGADINSQD-------------------   56 (89)
T ss_dssp             HHHHHHTTTHHHHHHHHHTT-STTTS----SSBHHHHHHHTTTHHHHHHHHHTTTCTT-BS-------------------
T ss_pred             CHHHHHcCCHHHHHHHHHCc-CCCCC----CCCHHHHHHHcCCHHHHHHHHHhcccccccC-------------------
Confidence            45555555555555555544 44444    5555555555555555555555555555432                   


Q ss_pred             HHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccC
Q psy1308         170 LLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKD  219 (607)
Q Consensus       170 Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d  219 (607)
                                       ..|+||||+|+.+|+.+++++|+++|++++.+|
T Consensus        57 -----------------~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~n   89 (89)
T PF12796_consen   57 -----------------KNGNTALHYAAENGNLEIVKLLLEHGADVNIRN   89 (89)
T ss_dssp             -----------------TTSSBHHHHHHHTTHHHHHHHHHHTTT-TTSS-
T ss_pred             -----------------CCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcC
Confidence                             238999999999999999999999999988875

These domains contain multiple repeats of a beta(2)-alpha(2) motif. The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; PDB: 3AAA_C 3F6Q_A 2KBX_A 3IXE_A 3TWR_D 3TWV_A 3TWT_B 3TWQ_A 3TWS_A 3TWX_B ....

>KOG4369|consensus

Probab=99.72  E-value=6.9e-18  Score=180.07  Aligned_cols=237  Identities=17%  Similarity=0.119  Sum_probs=153.6

Q ss_pred             CCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHH----------HccCccchhc--cCCCCCHHHHH
Q psy1308          25 YKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFAS----------ACSLALTLLE--CQSIKDLTLFR   92 (607)
Q Consensus        25 ~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~----------~~~~~~~~~~--~~~~g~t~Lh~   92 (607)
                      ..+..+.|+|.+||..|..++|++|+..+.....++-..++++.++.          ++..+..++.  ..+.|-+||++
T Consensus       819 Qsdrtkdt~lSlacsggr~~vvelLl~~gankehrnvsDytPlsla~Sggy~~iI~~llS~GseInSrtgSklgisPLml  898 (2131)
T KOG4369|consen  819 QSDRTKDTMLSLACSGGRTRVVELLLNAGANKEHRNVSDYTPLSLARSGGYTKIIHALLSSGSEINSRTGSKLGISPLML  898 (2131)
T ss_pred             hcccccCceEEEecCCCcchHHHHHHHhhccccccchhhcCchhhhcCcchHHHHHHHhhcccccccccccccCcchhhh
Confidence            34555556666666666666666666555555555555555554442          2222222222  22345566666


Q ss_pred             HHHcCCHHHHHHHHhcCCCCCccCC-CCCCcHHHHHHHcCCHHHHHHHHHcCCCCCC--CCCCchHHHHHHcCCccHHHH
Q psy1308          93 AARYGSAKELKTFIENSKLDVNMRH-PLGWTPLHVAAINGKVDNVRVLLEAGANPNL--GDLFNTVHRTAAEKKMNPFEV  169 (607)
Q Consensus        93 A~~~g~~~~v~~Ll~~~~~~~~~~d-~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~--~d~~~~l~~A~~~~~~~~~~~  169 (607)
                      |+.+||...++.||+.| .|+|..= .+-+|+|-+||..|..++|.+||.+.+++..  +.+.|||+-+|..|.+++-++
T Consensus       899 atmngh~~at~~ll~~g-sdiNaqIeTNrnTaltla~fqgr~evv~lLLa~~anvehRaktgltplme~AsgGyvdvg~~  977 (2131)
T KOG4369|consen  899 ATMNGHQAATLSLLQPG-SDINAQIETNRNTALTLALFQGRPEVVFLLLAAQANVEHRAKTGLTPLMEMASGGYVDVGNL  977 (2131)
T ss_pred             hhhccccHHHHHHhccc-chhccccccccccceeeccccCcchHHHHHHHHhhhhhhhcccCCcccchhhcCCccccchh
Confidence            66666666666666655 5555442 2234566666666666666666665555544  334567888888888888888


Q ss_pred             HHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHH
Q psy1308         170 LLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       170 Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      ||..|+|+|......   .-.|+|-+++..||...|..|+...|-+.++|.+|+|+|.+|+..|+...+..|++++++..
T Consensus       978 li~~gad~nasPvp~---T~dtalti~a~kGh~kfv~~lln~~atv~v~NkkG~T~Lwla~~Gg~lss~~il~~~~ad~d 1054 (2131)
T KOG4369|consen  978 LIAAGADTNASPVPN---TWDTALTIPANKGHTKFVPKLLNGDATVRVPNKKGCTVLWLASAGGALSSCPILVSSVADAD 1054 (2131)
T ss_pred             hhhcccccccCCCCC---cCCccceeecCCCchhhhHHhhCCccceecccCCCCcccchhccCCccccchHHhhcccChh
Confidence            888888877654321   14477888888888888888888778888889999999999999999999999999998876


Q ss_pred             hhHHHhhcccccHHHHHHh
Q psy1308         250 REKEAEERRKYPLEQRLKD  268 (607)
Q Consensus       250 ~~~~~~~~~~~~L~~~l~~  268 (607)
                         ..++++.+++..++++
T Consensus      1055 ---~qdnr~~S~~maafRK 1070 (2131)
T KOG4369|consen 1055 ---QQDNRTNSRTMAAFRK 1070 (2131)
T ss_pred             ---hhhcccccccHHHHHh
Confidence               4567777777666554

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.70  E-value=1.5e-16  Score=152.05  Aligned_cols=160  Identities=19%  Similarity=0.292  Sum_probs=113.1

Q ss_pred             CCeEEEEecCCccC------------HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhccc
Q psy1308         370 PNAVVLFDEVDKAH------------PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGE  437 (607)
Q Consensus       370 ~~~vl~lDEiek~~------------~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~  437 (607)
                      ..|++|||||||.-            ..||.-||.+++...+....|- +...+.+||.+....-..             
T Consensus       250 ~~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~-VkTdHILFIasGAFh~sK-------------  315 (444)
T COG1220         250 QNGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGP-VKTDHILFIASGAFHVAK-------------  315 (444)
T ss_pred             hcCeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccc-cccceEEEEecCceecCC-------------
Confidence            37999999999952            2489999999986666555443 566778888876521100             


Q ss_pred             ccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHH---Hh
Q psy1308         438 EFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKK---AL  514 (607)
Q Consensus       438 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~---~~  514 (607)
                                 +              ++         +- |||.+||..-|...+|+.+++..|+...=..+..+   +.
T Consensus       316 -----------P--------------SD---------Li-PELQGRfPIRVEL~~Lt~~Df~rILtep~~sLikQY~aLl  360 (444)
T COG1220         316 -----------P--------------SD---------LI-PELQGRFPIRVELDALTKEDFERILTEPKASLIKQYKALL  360 (444)
T ss_pred             -----------h--------------hh---------cC-hhhcCCCceEEEcccCCHHHHHHHHcCcchHHHHHHHHHH
Confidence                       0              11         22 99999999999999999999999986644444433   22


Q ss_pred             hcCCcEEEeCHhHHHHHHc-cCC-----CCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEEEEEecCCccc
Q psy1308         515 DKHNINIVWDIDVETILAD-GYD-----VHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVS  582 (607)
Q Consensus       515 ~~~~i~l~~~~~a~~~L~~-~~~-----~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~~~~~~~~~  582 (607)
                      ...++.+.+++++++.|++ +|.     ..-|||.|+.++|+.+.+-..++    .-..|.+++|+..--..++
T Consensus       361 kTE~v~l~FtddaI~~iAeiA~~vN~~~ENIGARRLhTvlErlLediSFeA----~d~~g~~v~Id~~yV~~~l  430 (444)
T COG1220         361 KTEGVELEFTDDAIKRIAEIAYQVNEKTENIGARRLHTVLERLLEDISFEA----PDMSGQKVTIDAEYVEEKL  430 (444)
T ss_pred             hhcCeeEEecHHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHHHhCccC----CcCCCCeEEEcHHHHHHHH
Confidence            4459999999999999986 454     45799999999998666533222    2234788888766544443

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.69  E-value=8.4e-16  Score=151.65  Aligned_cols=216  Identities=21%  Similarity=0.338  Sum_probs=148.7

Q ss_pred             HhhhhHHHHHHHHHHH-------HHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEEeeccccc
Q psy1308         269 RIVGQESAINIISAAI-------KRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIRLDMSEYQ  338 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i-------~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~l~~a~~~  338 (607)
                      .++|.+.+.+.+...+       .+...|...+..+.+++|+||+|||||.+|+.+++.+...+   ...++.++++.  
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~--   84 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERAD--   84 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHH--
Confidence            4778887777665443       22345555555566899999999999999999999874321   23455555543  


Q ss_pred             ccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccC--------HHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         339 EKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAH--------PDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       339 ~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~--------~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                             +++   .|+|. ....+.+.++.+.++||||||++.+.        .+.++.|++.++++.           .
T Consensus        85 -------l~~---~~~g~-~~~~~~~~~~~a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~-----------~  142 (261)
T TIGR02881        85 -------LVG---EYIGH-TAQKTREVIKKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNR-----------N  142 (261)
T ss_pred             -------hhh---hhccc-hHHHHHHHHHhccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccC-----------C
Confidence                   222   23332 23345677888889999999999865        467889999988542           4


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      ++++|+++...  .+..                                            ...+ +|.|.+|++..+.|
T Consensus       143 ~~~vila~~~~--~~~~--------------------------------------------~~~~-~p~L~sRf~~~i~f  175 (261)
T TIGR02881       143 EFVLILAGYSD--EMDY--------------------------------------------FLSL-NPGLRSRFPISIDF  175 (261)
T ss_pred             CEEEEecCCcc--hhHH--------------------------------------------HHhc-ChHHHhccceEEEE
Confidence            45677776521  1100                                            0012 28899999888999


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc---c-----CCCCCCccchhHHHHHHHHHHHHHHHHh
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD---G-----YDVHYGARSIKHEVERQVVSQLAAAHEK  562 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~---~-----~~~~~GaR~L~~~i~~~i~~~l~~~~l~  562 (607)
                      .|++.+++.+|+...+..        .  ...++++++++|.+   +     -...+++|.+++.+++.+.....+.+-.
T Consensus       176 ~~~~~~el~~Il~~~~~~--------~--~~~l~~~a~~~l~~~~~~~~~~~~~~~gn~R~~~n~~e~a~~~~~~r~~~~  245 (261)
T TIGR02881       176 PDYTVEELMEIAERMVKE--------R--EYKLTEEAKWKLREHLYKVDQLSSREFSNARYVRNIIEKAIRRQAVRLLDK  245 (261)
T ss_pred             CCCCHHHHHHHHHHHHHH--------c--CCccCHHHHHHHHHHHHHHHhccCCCCchHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999999999877743        1  24588999888853   1     2236899999999999998887776655


Q ss_pred             ccC
Q psy1308         563 SVI  565 (607)
Q Consensus       563 ~~~  565 (607)
                      +..
T Consensus       246 ~~~  248 (261)
T TIGR02881       246 SDY  248 (261)
T ss_pred             CCC
Confidence            443

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>PTZ00322 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional

Probab=99.69  E-value=4.5e-16  Score=172.56  Aligned_cols=150  Identities=33%  Similarity=0.428  Sum_probs=117.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHH
Q psy1308          88 LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPF  167 (607)
Q Consensus        88 t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~  167 (607)
                      +.|+.|+..|+.++++.|++.| +++|.+|..|+||||+||..|+.+++++|+++|++++.+|.                
T Consensus        84 ~~L~~aa~~G~~~~vk~LL~~G-adin~~d~~G~TpLh~Aa~~g~~eiv~~LL~~Gadvn~~d~----------------  146 (664)
T PTZ00322         84 VELCQLAASGDAVGARILLTGG-ADPNCRDYDGRTPLHIACANGHVQVVRVLLEFGADPTLLDK----------------  146 (664)
T ss_pred             HHHHHHHHcCCHHHHHHHHHCC-CCCCCcCCCCCcHHHHHHHCCCHHHHHHHHHCCCCCCCCCC----------------
Confidence            4588899999999999999988 89999999999999999999999999999999998887643                


Q ss_pred             HHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhc-------CCCCCccCCCCCCCCcchhhhhHHHHHHH
Q psy1308         168 EVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKS-------GADPTVKDNSGHIPSDYAEDANIKQILQK  240 (607)
Q Consensus       168 ~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~-------gad~~~~d~~g~Tpl~~A~~~~~~~~~~~  240 (607)
                                          .|+||||+|+..|+.+++++|+++       |++++..+..|.+|+..+.....      
T Consensus       147 --------------------~G~TpLh~A~~~g~~~iv~~Ll~~~~~~~~~ga~~~~~~~~g~~~~~~~~~~~~------  200 (664)
T PTZ00322        147 --------------------DGKTPLELAEENGFREVVQLLSRHSQCHFELGANAKPDSFTGKPPSLEDSPISS------  200 (664)
T ss_pred             --------------------CCCCHHHHHHHCCcHHHHHHHHhCCCcccccCCCCCccccCCCCccchhhhhhh------
Confidence                                389999999999999999999998       88999888888888664331100      


Q ss_pred             HHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCC-CCCceeeeeccCCCChhHHHHHHHH
Q psy1308         241 YAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDD-DHPLVFLFLGSSGIGKTELAKQLAF  319 (607)
Q Consensus       241 ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~-~~p~~~ll~G~~G~GKt~la~~la~  319 (607)
                         ...        +              +.                  ..+.+ .....+.+.|.+|+|||.+++.|++
T Consensus       201 ---~~~--------d--------------~~------------------~~p~p~~~~~~~~~vglp~~GKStia~~L~~  237 (664)
T PTZ00322        201 ---HHP--------D--------------FS------------------AVPQPMMGSLIVIMVGLPGRGKTYVARQIQR  237 (664)
T ss_pred             ---ccc--------c--------------cc------------------ccCcccccceeEEecccCCCChhHHHHHHHH
Confidence               000        0              00                  00111 1123688999999999999999999


Q ss_pred             Hhcc
Q psy1308         320 YIHR  323 (607)
Q Consensus       320 ~l~~  323 (607)
                      ++..
T Consensus       238 ~l~~  241 (664)
T PTZ00322        238 YFQW  241 (664)
T ss_pred             HHHh
Confidence            9743

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.68  E-value=1.4e-15  Score=163.81  Aligned_cols=212  Identities=19%  Similarity=0.303  Sum_probs=147.3

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhcc------CcCCceEEeecccc--ccc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR------DKKEAFIRLDMSEY--QEK  340 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~------~~~~~~~~l~~a~~--~~~  340 (607)
                      .++||+.+++.+..++..        ..+.+++|+||+|||||.+|+.+++....      ....+|+.+||+..  .+.
T Consensus        66 ~iiGqs~~i~~l~~al~~--------~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~~~~~~~  137 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCG--------PNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATTARFDER  137 (531)
T ss_pred             HeeCcHHHHHHHHHHHhC--------CCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEccccccCCcc
Confidence            589999999888755321        12558899999999999999999986422      11468999999752  222


Q ss_pred             chhHhhhcCC--CCCccCCCC------chhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCC------c-
Q psy1308         341 HEVAKLIGAP--PGYLGHDDG------GQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKG------K-  405 (607)
Q Consensus       341 ~~~~~llg~~--~g~~g~~~~------~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g------~-  405 (607)
                      .....++|+.  +.|.|....      ....+.+..+++++||||||+++++..|+.|+++++++.+....+      . 
T Consensus       138 ~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~~~~~~~~~~~  217 (531)
T TIGR02902       138 GIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYYNSENPN  217 (531)
T ss_pred             ccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCeeeeccccccccCcc
Confidence            2223455542  223332111      123456788899999999999999999999999999887543211      0 


Q ss_pred             ----------EEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhcc
Q psy1308         406 ----------TIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHF  475 (607)
Q Consensus       406 ----------~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f  475 (607)
                                .--..++++|++|+...+.                                                  .
T Consensus       218 ~~~~~~~~~~~~~~~d~rlI~ATt~~p~~--------------------------------------------------L  247 (531)
T TIGR02902       218 IPSHIHDIFQNGLPADFRLIGATTRNPEE--------------------------------------------------I  247 (531)
T ss_pred             cccchhhhcccCcccceEEEEEecCCccc--------------------------------------------------C
Confidence                      0012456777777633221                                                  1


Q ss_pred             CChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         476 RRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       476 ~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                       +|.+.+|+. .+.|.|++.+|+..|++..+..        .+  +.+++++++.|.. |.|  +.|++.+.++....
T Consensus       248 -~paLrsR~~-~I~f~pL~~eei~~Il~~~a~k--------~~--i~is~~al~~I~~-y~~--n~Rel~nll~~Aa~  310 (531)
T TIGR02902       248 -PPALRSRCV-EIFFRPLLDEEIKEIAKNAAEK--------IG--INLEKHALELIVK-YAS--NGREAVNIVQLAAG  310 (531)
T ss_pred             -ChHHhhhhh-eeeCCCCCHHHHHHHHHHHHHH--------cC--CCcCHHHHHHHHH-hhh--hHHHHHHHHHHHHH
Confidence             277888884 5789999999999998876643        12  5689999998886 877  67999999987643

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>KOG0195|consensus

Probab=99.67  E-value=1.8e-16  Score=146.97  Aligned_cols=135  Identities=22%  Similarity=0.152  Sum_probs=114.5

Q ss_pred             chhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchH
Q psy1308          78 TLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTV  155 (607)
Q Consensus        78 ~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l  155 (607)
                      .++..|..|.+|||+||+.|+..+|+.||..| +.+|..+....||||+|+..||.++|..|++..+|+|..+.  +|||
T Consensus        26 dln~gddhgfsplhwaakegh~aivemll~rg-arvn~tnmgddtplhlaaahghrdivqkll~~kadvnavnehgntpl  104 (448)
T KOG0195|consen   26 DLNVGDDHGFSPLHWAAKEGHVAIVEMLLSRG-ARVNSTNMGDDTPLHLAAAHGHRDIVQKLLSRKADVNAVNEHGNTPL  104 (448)
T ss_pred             ccccccccCcchhhhhhhcccHHHHHHHHhcc-cccccccCCCCcchhhhhhcccHHHHHHHHHHhcccchhhccCCCch
Confidence            45678899999999999999999999999999 99999999999999999999999999999999999999765  6799


Q ss_pred             HHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCcc
Q psy1308         156 HRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVK  218 (607)
Q Consensus       156 ~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~  218 (607)
                      ||||..|...+++-|+..|+.++..+..     |.|||-.|--.-...+.+.--++|-++|..
T Consensus       105 hyacfwgydqiaedli~~ga~v~icnk~-----g~tpldkakp~l~~~l~e~aek~gq~~nri  162 (448)
T KOG0195|consen  105 HYACFWGYDQIAEDLISCGAAVNICNKK-----GMTPLDKAKPMLKNTLLEIAEKHGQSPNRI  162 (448)
T ss_pred             hhhhhhcHHHHHHHHHhccceeeecccC-----CCCchhhhchHHHHHHHHHHHHhCCCCCcc
Confidence            9999999999999999999999988554     999998874322222222222467776643

>PF12796 Ank_2: Ankyrin repeats (3 copies); InterPro: IPR020683 This entry represents the ankyrin repeat-containing domain

Probab=99.67  E-value=3.4e-16  Score=127.58  Aligned_cols=64  Identities=38%  Similarity=0.523  Sum_probs=59.6

Q ss_pred             CCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC
Q psy1308          86 KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD  150 (607)
Q Consensus        86 g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d  150 (607)
                      |.||||+||..|+.+++++|++.+ ++++.+|..|+||||+|+..|+.+++++|+++|++++.+|
T Consensus        26 ~~~~l~~A~~~~~~~~~~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~n   89 (89)
T PF12796_consen   26 GNTALHYAAENGNLEIVKLLLENG-ADINSQDKNGNTALHYAAENGNLEIVKLLLEHGADVNIRN   89 (89)
T ss_dssp             SSBHHHHHHHTTTHHHHHHHHHTT-TCTT-BSTTSSBHHHHHHHTTHHHHHHHHHHTTT-TTSS-
T ss_pred             CCCHHHHHHHcCCHHHHHHHHHhc-ccccccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcC
Confidence            889999999999999999999999 9999999999999999999999999999999999999865

These domains contain multiple repeats of a beta(2)-alpha(2) motif. The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; PDB: 3AAA_C 3F6Q_A 2KBX_A 3IXE_A 3TWR_D 3TWV_A 3TWT_B 3TWQ_A 3TWS_A 3TWX_B ....

>cd00204 ANK ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

Probab=99.64  E-value=1.3e-15  Score=132.30  Aligned_cols=123  Identities=37%  Similarity=0.500  Sum_probs=78.1

Q ss_pred             cCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHc
Q psy1308          82 CQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAE  161 (607)
Q Consensus        82 ~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~  161 (607)
                      .+..|.||||+|+..|+.+++++|++.+ .+.+.++..|.||||+|+..++.+++++|++.|++++..+.          
T Consensus         3 ~~~~g~t~l~~a~~~~~~~~i~~li~~~-~~~~~~~~~g~~~l~~a~~~~~~~~~~~ll~~~~~~~~~~~----------   71 (126)
T cd00204           3 RDEDGRTPLHLAASNGHLEVVKLLLENG-ADVNAKDNDGRTPLHLAAKNGHLEIVKLLLEKGADVNARDK----------   71 (126)
T ss_pred             cCcCCCCHHHHHHHcCcHHHHHHHHHcC-CCCCccCCCCCcHHHHHHHcCCHHHHHHHHHcCCCccccCC----------
Confidence            3466777777777777777777777777 66677777777777777777777777777777765554432          


Q ss_pred             CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHH
Q psy1308         162 KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKY  241 (607)
Q Consensus       162 ~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~l  241 (607)
                                                .|.||+|+|+..++.+++++|+++|.+++..+..|.||+++|...++.+++++|
T Consensus        72 --------------------------~~~~~l~~a~~~~~~~~~~~L~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~L  125 (126)
T cd00204          72 --------------------------DGNTPLHLAARNGNLDVVKLLLKHGADVNARDKDGRTPLHLAAKNGHLEVVKLL  125 (126)
T ss_pred             --------------------------CCCCHHHHHHHcCcHHHHHHHHHcCCCCcccCCCCCCHHHHHHhcCCHHHHHHh
Confidence                                      144555555555555555555555555555555555555555555555544443

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats.

>cd00204 ANK ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins

Probab=99.64  E-value=2.6e-15  Score=130.34  Aligned_cols=89  Identities=33%  Similarity=0.353  Sum_probs=75.2

Q ss_pred             cccCChHHHHHHccCcc----------chhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHc
Q psy1308          61 TCMYNNLLFASACSLAL----------TLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAIN  130 (607)
Q Consensus        61 ~~~~~~l~~a~~~~~~~----------~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~  130 (607)
                      ..+.++++.+...+...          .....+..|.||||.|+..++.+++++|++.+ .+++..+..|.||+|+|+..
T Consensus         5 ~~g~t~l~~a~~~~~~~~i~~li~~~~~~~~~~~~g~~~l~~a~~~~~~~~~~~ll~~~-~~~~~~~~~~~~~l~~a~~~   83 (126)
T cd00204           5 EDGRTPLHLAASNGHLEVVKLLLENGADVNAKDNDGRTPLHLAAKNGHLEIVKLLLEKG-ADVNARDKDGNTPLHLAARN   83 (126)
T ss_pred             cCCCCHHHHHHHcCcHHHHHHHHHcCCCCCccCCCCCcHHHHHHHcCCHHHHHHHHHcC-CCccccCCCCCCHHHHHHHc
Confidence            45678888876554432          23577889999999999999999999999998 78999999999999999999


Q ss_pred             CCHHHHHHHHHcCCCCCCCC
Q psy1308         131 GKVDNVRVLLEAGANPNLGD  150 (607)
Q Consensus       131 g~~~~v~~Ll~~ga~~~~~d  150 (607)
                      ++.+++++|+++|.+++..+
T Consensus        84 ~~~~~~~~L~~~~~~~~~~~  103 (126)
T cd00204          84 GNLDVVKLLLKHGADVNARD  103 (126)
T ss_pred             CcHHHHHHHHHcCCCCcccC
Confidence            99999999999986666544

The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other types of domains. The structural repeat unit contains two antiparallel helices and a beta-hairpin, repeats are stacked in a superhelical arrangement; this alignment contains 4 consecutive repeats.

>KOG4214|consensus

Probab=99.61  E-value=2e-15  Score=115.99  Aligned_cols=109  Identities=30%  Similarity=0.426  Sum_probs=75.5

Q ss_pred             HHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHH
Q psy1308          89 TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFE  168 (607)
Q Consensus        89 ~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~  168 (607)
                      -+.+++++|.++-|+..+..+ .++|..- .|+||||+|+-.|..+++++|+..||+++.+                   
T Consensus         5 ~~~W~vkNG~~DeVk~~v~~g-~nVn~~~-ggR~plhyAAD~GQl~ilefli~iGA~i~~k-------------------   63 (117)
T KOG4214|consen    5 SVAWNVKNGEIDEVKQSVNEG-LNVNEIY-GGRTPLHYAADYGQLSILEFLISIGANIQDK-------------------   63 (117)
T ss_pred             hHhhhhccCcHHHHHHHHHcc-ccHHHHh-CCcccchHhhhcchHHHHHHHHHhccccCCc-------------------
Confidence            355666666666666666655 5555443 5566666666666666666666666665554                   


Q ss_pred             HHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHH
Q psy1308         169 VLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIK  235 (607)
Q Consensus       169 ~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~  235 (607)
                                       |.+|-|||..|+..||.+||++||+.|||-..+..+|.+.+..+-.....
T Consensus        64 -----------------DKygITPLLsAvwEGH~~cVklLL~~GAdrt~~~PdG~~~~eate~edIr  113 (117)
T KOG4214|consen   64 -----------------DKYGITPLLSAVWEGHRDCVKLLLQNGADRTIHAPDGTALIEATEEEDIR  113 (117)
T ss_pred             -----------------cccCCcHHHHHHHHhhHHHHHHHHHcCcccceeCCCchhHHhhccHHHHH
Confidence                             34499999999999999999999999999999998987776655444333

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=99.60  E-value=4.3e-14  Score=130.59  Aligned_cols=177  Identities=23%  Similarity=0.336  Sum_probs=112.1

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~l  346 (607)
                      ..++||+..+..+...+......    +.++ +++|+||||+|||.+|+.||+.+...    |..+.........     
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r----~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~----~~~~sg~~i~k~~-----   90 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKR----GEALDHMLFYGPPGLGKTTLARIIANELGVN----FKITSGPAIEKAG-----   90 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCT----TS---EEEEESSTTSSHHHHHHHHHHHCT------EEEEECCC--SCH-----
T ss_pred             HHccCcHHHHhhhHHHHHHHHhc----CCCcceEEEECCCccchhHHHHHHHhccCCC----eEeccchhhhhHH-----
Confidence            46999999999987777655422    1245 89999999999999999999988543    6555543333222     


Q ss_pred             hcCCCCCccCCCCchhhHHHhh-CCCeEEEEecCCccCHHHHHHHHHhhccceeec--CCC-----cEEecCceEEEEec
Q psy1308         347 IGAPPGYLGHDDGGQLTKRLKK-CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTD--GKG-----KTIECKDAIFVMTS  418 (607)
Q Consensus       347 lg~~~g~~g~~~~~~l~~~~~~-~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~--~~g-----~~~~~~~~~iI~ts  418 (607)
                                    ++...+.. .++.|+|+|||+++++.+|+.|+..||++.+.-  ..|     ..++..+.-+|-+|
T Consensus        91 --------------dl~~il~~l~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligAT  156 (233)
T PF05496_consen   91 --------------DLAAILTNLKEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGAT  156 (233)
T ss_dssp             --------------HHHHHHHT--TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEE
T ss_pred             --------------HHHHHHHhcCCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeee
Confidence                          33333322 356799999999999999999999999999743  333     23455566677766


Q ss_pred             CcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHH
Q psy1308         419 NLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSEL  498 (607)
Q Consensus       419 n~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~  498 (607)
                      +..                                                   +.+ .+.|..||..+..+..++.+|+
T Consensus       157 Tr~---------------------------------------------------g~l-s~pLrdRFgi~~~l~~Y~~~el  184 (233)
T PF05496_consen  157 TRA---------------------------------------------------GLL-SSPLRDRFGIVLRLEFYSEEEL  184 (233)
T ss_dssp             SSG---------------------------------------------------CCT-SHCCCTTSSEEEE----THHHH
T ss_pred             ccc---------------------------------------------------ccc-chhHHhhcceecchhcCCHHHH
Confidence            610                                                   112 2778899977778899999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         499 HTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       499 ~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .+|+.+.-.          -..+.+++++...|+.
T Consensus       185 ~~Iv~r~a~----------~l~i~i~~~~~~~Ia~  209 (233)
T PF05496_consen  185 AKIVKRSAR----------ILNIEIDEDAAEEIAR  209 (233)
T ss_dssp             HHHHHHCCH----------CTT-EE-HHHHHHHHH
T ss_pred             HHHHHHHHH----------HhCCCcCHHHHHHHHH
Confidence            999764332          2356788999999985

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>KOG3676|consensus

Probab=99.56  E-value=1.4e-14  Score=153.25  Aligned_cols=161  Identities=18%  Similarity=0.193  Sum_probs=133.6

Q ss_pred             CCcCCchHHHHHHh---cCChhHHHHHhcCCC-cccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHH
Q psy1308          26 KRGFQSSKLFYTTQ---STQADFKSCLSVFPK-IRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKE  101 (607)
Q Consensus        26 ~~~~g~t~L~~A~~---~g~~~~v~~L~~~~~-~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~  101 (607)
                      -...|.|.||.|.-   .++.+++..|+.... .++..                   .......|.||||+|+.+.+.++
T Consensus       139 RGa~GET~Lh~~lL~~~~~~n~la~~LL~~~p~lind~-------------------~~~eeY~GqSaLHiAIv~~~~~~  199 (782)
T KOG3676|consen  139 RGATGETLLHKALLNLSDGHNELARVLLEIFPKLINDI-------------------YTSEEYYGQSALHIAIVNRDAEL  199 (782)
T ss_pred             ccchhhhHHHHHHhcCchhHHHHHHHHHHHhHHHhhhh-------------------hhhHhhcCcchHHHHHHhccHHH
Confidence            37889999999997   455577888876422 11110                   01334679999999999999999


Q ss_pred             HHHHHhcCCCCCccCC-----------------------CCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHH
Q psy1308         102 LKTFIENSKLDVNMRH-----------------------PLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVH  156 (607)
Q Consensus       102 v~~Ll~~~~~~~~~~d-----------------------~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~  156 (607)
                      |++|++.| +|++++-                       ..|..||.+||..++.+|+++|+++|||++.+|.  +|.||
T Consensus       200 V~lLl~~g-ADV~aRa~G~FF~~~dqk~~rk~T~Y~G~~YfGEyPLSfAAC~nq~eivrlLl~~gAd~~aqDS~GNTVLH  278 (782)
T KOG3676|consen  200 VRLLLAAG-ADVHARACGAFFCPDDQKASRKSTNYTGYFYFGEYPLSFAACTNQPEIVRLLLAHGADPNAQDSNGNTVLH  278 (782)
T ss_pred             HHHHHHcC-CchhhHhhccccCcccccccccccCCcceeeeccCchHHHHHcCCHHHHHHHHhcCCCCCccccCCChHHH
Confidence            99999999 9998641                       2478999999999999999999999999999987  55999


Q ss_pred             HHHHcCCccHHHHHHhcCCC--ccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhc
Q psy1308         157 RTAAEKKMNPFEVLLKREDE--FNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKS  211 (607)
Q Consensus       157 ~A~~~~~~~~~~~Ll~~g~~--~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~  211 (607)
                      ..+..-..+|-.+++++|++  ....     +.+|.|||.+||..|..++.+.+++.
T Consensus       279 ~lVi~~~~~My~~~L~~ga~~l~~v~-----N~qgLTPLtLAaklGk~emf~~ile~  330 (782)
T KOG3676|consen  279 MLVIHFVTEMYDLALELGANALEHVR-----NNQGLTPLTLAAKLGKKEMFQHILER  330 (782)
T ss_pred             HHHHHHHHHHHHHHHhcCCCcccccc-----ccCCCChHHHHHHhhhHHHHHHHHHh
Confidence            99999999999999999999  3333     44599999999999999999999987

>COG0666 Arp FOG: Ankyrin repeat [General function prediction only]

Probab=99.55  E-value=4.2e-14  Score=136.69  Aligned_cols=130  Identities=33%  Similarity=0.484  Sum_probs=93.3

Q ss_pred             cCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCC-----HHHHHHHHHcCCCCCCCCCCchHH
Q psy1308          82 CQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGK-----VDNVRVLLEAGANPNLGDLFNTVH  156 (607)
Q Consensus        82 ~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~-----~~~v~~Ll~~ga~~~~~d~~~~l~  156 (607)
                      .+..+.+++|.|+..+...++++++..+ ++++.+|..|.||||+|+..++     .+++++|++.|++           
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~g~t~l~~a~~~~~~~~~~~~~~~~ll~~g~~-----------  136 (235)
T COG0666          69 RDLDGRLPLHSAASKGDDKIVKLLLASG-ADVNAKDADGDTPLHLAALNGNPPEGNIEVAKLLLEAGAD-----------  136 (235)
T ss_pred             CCccccCHHHHHHHcCcHHHHHHHHHcC-CCcccccCCCCcHHHHHHhcCCcccchHHHHHHHHHcCCC-----------
Confidence            3444566666666666666666666666 6666666666666666666666     5555555555552           


Q ss_pred             HHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHH
Q psy1308         157 RTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQ  236 (607)
Q Consensus       157 ~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~  236 (607)
                                       . +.+.    ..|..|+||||+|+..|+.+++++|++.|++++..+..|.||+++|+..++.+
T Consensus       137 -----------------~-~~~~----~~~~~g~tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~g~t~l~~a~~~~~~~  194 (235)
T COG0666         137 -----------------L-DVNN----LRDEDGNTPLHWAALNGDADIVELLLEAGADPNSRNSYGVTALDPAAKNGRIE  194 (235)
T ss_pred             -----------------C-CCcc----ccCCCCCchhHHHHHcCchHHHHHHHhcCCCCcccccCCCcchhhhcccchHH
Confidence                             0 1111    12444999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q psy1308         237 ILQKYAEKY  245 (607)
Q Consensus       237 ~~~~ll~~~  245 (607)
                      +++.++..+
T Consensus       195 ~~~~l~~~~  203 (235)
T COG0666         195 LVKLLLDKG  203 (235)
T ss_pred             HHHHHHhcC
Confidence            998888765

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=99.54  E-value=7.8e-14  Score=137.47  Aligned_cols=190  Identities=21%  Similarity=0.275  Sum_probs=128.9

Q ss_pred             hHhhhhHHHHHH---HHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         268 DRIVGQESAINI---ISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       268 ~~i~Gq~~ai~~---l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      ..++||+..+..   +.+++....        ..+.+|+||||+|||.+|+.|+.....    .|..++... .+-.++.
T Consensus        24 de~vGQ~HLlg~~~~lrr~v~~~~--------l~SmIl~GPPG~GKTTlA~liA~~~~~----~f~~~sAv~-~gvkdlr   90 (436)
T COG2256          24 DEVVGQEHLLGEGKPLRRAVEAGH--------LHSMILWGPPGTGKTTLARLIAGTTNA----AFEALSAVT-SGVKDLR   90 (436)
T ss_pred             HHhcChHhhhCCCchHHHHHhcCC--------CceeEEECCCCCCHHHHHHHHHHhhCC----ceEEecccc-ccHHHHH
Confidence            457888877743   333333222        237899999999999999999987744    377776533 2223333


Q ss_pred             hhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHH
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNE  424 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~  424 (607)
                      +.+...            ..........|||+|||++++...|+.||..+|+|.             +++|-+|+-... 
T Consensus        91 ~i~e~a------------~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE~G~-------------iilIGATTENPs-  144 (436)
T COG2256          91 EIIEEA------------RKNRLLGRRTILFLDEIHRFNKAQQDALLPHVENGT-------------IILIGATTENPS-  144 (436)
T ss_pred             HHHHHH------------HHHHhcCCceEEEEehhhhcChhhhhhhhhhhcCCe-------------EEEEeccCCCCC-
Confidence            333100            001111236899999999999999999999999886             346666651110 


Q ss_pred             HHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHH
Q psy1308         425 IAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCR  504 (607)
Q Consensus       425 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~  504 (607)
                                                           |           .. +|.+++|. .+..|.||+.+++.+++.+
T Consensus       145 -------------------------------------F-----------~l-n~ALlSR~-~vf~lk~L~~~di~~~l~r  174 (436)
T COG2256         145 -------------------------------------F-----------EL-NPALLSRA-RVFELKPLSSEDIKKLLKR  174 (436)
T ss_pred             -------------------------------------e-----------ee-cHHHhhhh-heeeeecCCHHHHHHHHHH
Confidence                                                 0           01 38899998 7899999999999999998


Q ss_pred             HHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      .+....+.+.   +..+.++++++++|+.  ...+.+|..=+.+|-.
T Consensus       175 a~~~~~rgl~---~~~~~i~~~a~~~l~~--~s~GD~R~aLN~LE~~  216 (436)
T COG2256         175 ALLDEERGLG---GQIIVLDEEALDYLVR--LSNGDARRALNLLELA  216 (436)
T ss_pred             HHhhhhcCCC---cccccCCHHHHHHHHH--hcCchHHHHHHHHHHH
Confidence            6655444332   3457799999999984  2356788777777743

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.47  E-value=1.8e-13  Score=128.64  Aligned_cols=201  Identities=19%  Similarity=0.297  Sum_probs=147.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccC--cCCceEEeecccccccchhHhhhcCCCC-CccCCCCchhhHHHhhCCCeEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRD--KKEAFIRLDMSEYQEKHEVAKLIGAPPG-YLGHDDGGQLTKRLKKCPNAVVL  375 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~--~~~~~~~l~~a~~~~~~~~~~llg~~~g-~~g~~~~~~l~~~~~~~~~~vl~  375 (607)
                      ++++.||+|.||+.+++.+-+.-..+  -..+|+.++|+...+....+.+||+..| ++|...  ...++++.+.+|.+|
T Consensus       210 p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~--~r~gllrsadggmlf  287 (531)
T COG4650         210 PILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARE--SREGLLRSADGGMLF  287 (531)
T ss_pred             CeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchh--hhhhhhccCCCceEe
Confidence            58899999999999999988764221  2678999999999999999999999888 887643  345789999999999


Q ss_pred             EecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcc
Q psy1308         376 FDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLD  455 (607)
Q Consensus       376 lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (607)
                      +|||..+..+-|.+||+.+++.++..-+...-..++.-+|.-|.                                    
T Consensus       288 ldeigelgadeqamllkaieekrf~pfgsdr~v~sdfqliagtv------------------------------------  331 (531)
T COG4650         288 LDEIGELGADEQAMLLKAIEEKRFYPFGSDRQVSSDFQLIAGTV------------------------------------  331 (531)
T ss_pred             hHhhhhcCccHHHHHHHHHHhhccCCCCCccccccchHHhhhhH------------------------------------
Confidence            99999999999999999999988766432211122222333322                                    


Q ss_pred             hhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHH-HHH
Q psy1308         456 VTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVE-TIL  531 (607)
Q Consensus       456 ~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~-~~L  531 (607)
                              .++-+....+.|+ .+++.||+--..-.| |  .+++++.-++.+|.+..+.    .|-.+.+..++. .||
T Consensus       332 --------rdlrq~vaeg~fr-edl~arinlwtf~lpgl~qr~ediepnldyelerha~~----~g~~vrfntearra~l  398 (531)
T COG4650         332 --------RDLRQLVAEGKFR-EDLYARINLWTFTLPGLRQRQEDIEPNLDYELERHASL----TGDSVRFNTEARRAWL  398 (531)
T ss_pred             --------HHHHHHHhccchH-HHHHHhhheeeeeccccccCccccCCCccHHHHHHHHh----hCceeeeehHHHHHHH
Confidence                    1222233456787 999999976433334 3  6678887788888765543    466788877775 456


Q ss_pred             H---c-cCCCCCCccchhHHHHH
Q psy1308         532 A---D-GYDVHYGARSIKHEVER  550 (607)
Q Consensus       532 ~---~-~~~~~~GaR~L~~~i~~  550 (607)
                      .   . ...|.+|.|+|...|.+
T Consensus       399 ~fa~spqa~w~gnfrelsasvtr  421 (531)
T COG4650         399 AFATSPQATWRGNFRELSASVTR  421 (531)
T ss_pred             HhccCcchhhcccHHHHhHHHHH
Confidence            4   2 45799999999877765

>KOG1710|consensus

Probab=99.45  E-value=2.4e-13  Score=126.45  Aligned_cols=122  Identities=24%  Similarity=0.313  Sum_probs=105.5

Q ss_pred             CCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCc
Q psy1308          85 IKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKM  164 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~  164 (607)
                      .-..||.-+...|+.+....||+.- -++|.+|..|.|||..|+..|+.++|++|++.|+|+|...              
T Consensus        11 ~~~~~Lle~i~Kndt~~a~~LLs~v-r~vn~~D~sGMs~LahAaykGnl~~v~lll~~gaDvN~~q--------------   75 (396)
T KOG1710|consen   11 APKSPLLEAIDKNDTEAALALLSTV-RQVNQRDPSGMSVLAHAAYKGNLTLVELLLELGADVNDKQ--------------   75 (396)
T ss_pred             chhhHHHHHHccCcHHHHHHHHHHh-hhhhccCCCcccHHHHHHhcCcHHHHHHHHHhCCCcCccc--------------
Confidence            4468999999999999999999875 6799999999999999999999999999999999999742              


Q ss_pred             cHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHH
Q psy1308         165 NPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYA  242 (607)
Q Consensus       165 ~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll  242 (607)
                                           +..+.||||.|+..|+.++..+|++.|+.+...|.-|+|+-.+|+.-|+.++|..+-
T Consensus        76 ---------------------hg~~YTpLmFAALSGn~dvcrllldaGa~~~~vNsvgrTAaqmAAFVG~H~CV~iIN  132 (396)
T KOG1710|consen   76 ---------------------HGTLYTPLMFAALSGNQDVCRLLLDAGARMYLVNSVGRTAAQMAAFVGHHECVAIIN  132 (396)
T ss_pred             ---------------------ccccccHHHHHHHcCCchHHHHHHhccCccccccchhhhHHHHHHHhcchHHHHHHh
Confidence                                 122788888888888888888888888888888888888888888888888886543

>COG0666 Arp FOG: Ankyrin repeat [General function prediction only]

Probab=99.45  E-value=1.3e-12  Score=126.11  Aligned_cols=129  Identities=31%  Similarity=0.313  Sum_probs=107.3

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCC-----
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGS-----   98 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~-----   98 (607)
                      ...+..+.+++|+|+..+..+++.+++..+...                       +..+..|.||||+|+..|+     
T Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------------------~~~~~~g~t~l~~a~~~~~~~~~~  123 (235)
T COG0666          67 AARDLDGRLPLHSAASKGDDKIVKLLLASGADV-----------------------NAKDADGDTPLHLAALNGNPPEGN  123 (235)
T ss_pred             ccCCccccCHHHHHHHcCcHHHHHHHHHcCCCc-----------------------ccccCCCCcHHHHHHhcCCcccch
Confidence            345566889999999999999998887765444                       3678899999999999999     


Q ss_pred             HHHHHHHHhcCCC---CCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHHHHHhcCC
Q psy1308          99 AKELKTFIENSKL---DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKRED  175 (607)
Q Consensus        99 ~~~v~~Ll~~~~~---~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~Ll~~g~  175 (607)
                      .++++.|++.+ +   +.+.+|..|.||||+|+..|+.+++++|++.|++++..+.                        
T Consensus       124 ~~~~~~ll~~g-~~~~~~~~~~~~g~tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~------------------------  178 (235)
T COG0666         124 IEVAKLLLEAG-ADLDVNNLRDEDGNTPLHWAALNGDADIVELLLEAGADPNSRNS------------------------  178 (235)
T ss_pred             HHHHHHHHHcC-CCCCCccccCCCCCchhHHHHHcCchHHHHHHHhcCCCCccccc------------------------
Confidence            99999999999 6   6777799999999999999999999999999999887632                        


Q ss_pred             CccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcC
Q psy1308         176 EFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG  212 (607)
Q Consensus       176 ~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~g  212 (607)
                                  .|.|++++|+..++.++++.+++.+
T Consensus       179 ------------~g~t~l~~a~~~~~~~~~~~l~~~~  203 (235)
T COG0666         179 ------------YGVTALDPAAKNGRIELVKLLLDKG  203 (235)
T ss_pred             ------------CCCcchhhhcccchHHHHHHHHhcC
Confidence                        2666666666666666666666654

>KOG4214|consensus

Probab=99.43  E-value=6.3e-13  Score=102.32  Aligned_cols=94  Identities=21%  Similarity=0.194  Sum_probs=82.0

Q ss_pred             hHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCC
Q psy1308          32 SKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKL  111 (607)
Q Consensus        32 t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~  111 (607)
                      --++|++++|.+|-|+.....+..++                        ....|++|||+||-.|.++++++|+..| +
T Consensus         4 ~~~~W~vkNG~~DeVk~~v~~g~nVn------------------------~~~ggR~plhyAAD~GQl~ilefli~iG-A   58 (117)
T KOG4214|consen    4 MSVAWNVKNGEIDEVKQSVNEGLNVN------------------------EIYGGRTPLHYAADYGQLSILEFLISIG-A   58 (117)
T ss_pred             hhHhhhhccCcHHHHHHHHHccccHH------------------------HHhCCcccchHhhhcchHHHHHHHHHhc-c
Confidence            45789999999999998866553222                        2247899999999999999999999999 9


Q ss_pred             CCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC
Q psy1308         112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD  150 (607)
Q Consensus       112 ~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d  150 (607)
                      +++.+|++|-|||.-|+..||.+||++|++.|||-..+.
T Consensus        59 ~i~~kDKygITPLLsAvwEGH~~cVklLL~~GAdrt~~~   97 (117)
T KOG4214|consen   59 NIQDKDKYGITPLLSAVWEGHRDCVKLLLQNGADRTIHA   97 (117)
T ss_pred             ccCCccccCCcHHHHHHHHhhHHHHHHHHHcCcccceeC
Confidence            999999999999999999999999999999999976643

>PF13637 Ank_4: Ankyrin repeats (many copies); PDB: 3B95_A 3B7B_A 3F6Q_A 2KBX_A 3IXE_A 2DWZ_C 2DVW_A 3AJI_A 1S70_B 2HE0_A

Probab=99.41  E-value=4.4e-13  Score=97.55  Aligned_cols=54  Identities=41%  Similarity=0.556  Sum_probs=45.9

Q ss_pred             CCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHH
Q psy1308          86 KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLL  140 (607)
Q Consensus        86 g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll  140 (607)
                      |.||||+||..|+.+++++|++++ .++|.+|.+|+||||+|+..|+.+++++|+
T Consensus         1 g~t~lh~A~~~g~~~~~~~Ll~~~-~din~~d~~g~t~lh~A~~~g~~~~~~~Ll   54 (54)
T PF13637_consen    1 GRTPLHWAARSGNLEIVKLLLEHG-ADINAQDEDGRTPLHYAAKNGNIDIVKFLL   54 (54)
T ss_dssp             SSBHHHHHHHTT-HHHHHHHHHTT-SGTT-B-TTS--HHHHHHHTT-HHHHHHHH
T ss_pred             CChHHHHHHHhCCHHHHHHHHHCC-CCCCCCCCCCCCHHHHHHHccCHHHHHHHC
Confidence            689999999999999999999998 999999999999999999999999999986

...

>KOG0515|consensus

Probab=99.40  E-value=8.8e-13  Score=131.93  Aligned_cols=118  Identities=26%  Similarity=0.293  Sum_probs=93.0

Q ss_pred             HHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHHH
Q psy1308          90 LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEV  169 (607)
Q Consensus        90 Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~  169 (607)
                      |.-|+..|-+++|+..+..- -|+...+..|-||||-|+..||.+||++|++.|+++|..|                   
T Consensus       554 LLDaaLeGEldlVq~~i~ev-~DpSqpNdEGITaLHNAiCaghyeIVkFLi~~ganVNa~D-------------------  613 (752)
T KOG0515|consen  554 LLDAALEGELDLVQRIIYEV-TDPSQPNDEGITALHNAICAGHYEIVKFLIEFGANVNAAD-------------------  613 (752)
T ss_pred             HHhhhhcchHHHHHHHHHhh-cCCCCCCccchhHHhhhhhcchhHHHHHHHhcCCcccCcc-------------------
Confidence            56677888888888888776 6777788888888888888888888888888888887654                   


Q ss_pred             HHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccC-CCCCCCCcchh--hhhHHHHHHHHHHh
Q psy1308         170 LLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKD-NSGHIPSDYAE--DANIKQILQKYAEK  244 (607)
Q Consensus       170 Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d-~~g~Tpl~~A~--~~~~~~~~~~ll~~  244 (607)
                                       .+||||||+|+.++++.+++.|++.|+-+-+.. .++.||..-+-  +.|...|.++|-.-
T Consensus       614 -----------------SdGWTPLHCAASCNnv~~ckqLVe~GaavfAsTlSDmeTa~eKCee~eeGY~~CsqyL~~v  674 (752)
T KOG0515|consen  614 -----------------SDGWTPLHCAASCNNVPMCKQLVESGAAVFASTLSDMETAAEKCEEMEEGYDQCSQYLYGV  674 (752)
T ss_pred             -----------------CCCCchhhhhhhcCchHHHHHHHhccceEEeeecccccchhhhcchhhhhHHHHHHHHHHH
Confidence                             349999999999999999999999998776543 56778777654  34777777777543

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.39  E-value=9.5e-12  Score=120.91  Aligned_cols=163  Identities=26%  Similarity=0.346  Sum_probs=114.8

Q ss_pred             HhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc
Q psy1308         269 RIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK  340 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~  340 (607)
                      .+-|-+..++.+.+.+.-.        ..|..   .|--++++||||||||.|||++|.....    .|+++--|++   
T Consensus       152 dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~---PPKGVLLYGPPGTGKTLLAkAVA~~T~A----tFIrvvgSEl---  221 (406)
T COG1222         152 DIGGLDEQIQEIREVVELPLKNPELFEELGID---PPKGVLLYGPPGTGKTLLAKAVANQTDA----TFIRVVGSEL---  221 (406)
T ss_pred             hccCHHHHHHHHHHHhcccccCHHHHHHcCCC---CCCceEeeCCCCCcHHHHHHHHHhccCc----eEEEeccHHH---
Confidence            4566777777777766432        23332   3457899999999999999999987644    4888887665   


Q ss_pred             chhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEec
Q psy1308         341 HEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIEC  409 (607)
Q Consensus       341 ~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~  409 (607)
                        +.+++|..+..     -..+....+....+||||||||..           +.+||..+++++.+-.=.|.      .
T Consensus       222 --VqKYiGEGaRl-----VRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~------~  288 (406)
T COG1222         222 --VQKYIGEGARL-----VRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDP------R  288 (406)
T ss_pred             --HHHHhccchHH-----HHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCC------C
Confidence              78888843322     235667777778999999999873           67899999999975433333      3


Q ss_pred             CceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceee
Q psy1308         410 KDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVY  489 (607)
Q Consensus       410 ~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~  489 (607)
                      .|+-+||+||..                                           +.+.++|   +| |   +|||..|.
T Consensus       289 ~nvKVI~ATNR~-------------------------------------------D~LDPAL---LR-P---GR~DRkIE  318 (406)
T COG1222         289 GNVKVIMATNRP-------------------------------------------DILDPAL---LR-P---GRFDRKIE  318 (406)
T ss_pred             CCeEEEEecCCc-------------------------------------------cccChhh---cC-C---Ccccceee
Confidence            577899999921                                           1222222   22 4   58999999


Q ss_pred             eccCCHHHHHHHHHH
Q psy1308         490 FLPFSKSELHTLVCR  504 (607)
Q Consensus       490 f~pl~~~~~~~i~~~  504 (607)
                      |...+.+.-.+|++.
T Consensus       319 fplPd~~gR~~Il~I  333 (406)
T COG1222         319 FPLPDEEGRAEILKI  333 (406)
T ss_pred             cCCCCHHHHHHHHHH
Confidence            988888777777553

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.38  E-value=9.3e-12  Score=136.30  Aligned_cols=211  Identities=21%  Similarity=0.314  Sum_probs=136.3

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccC------cCCceEEeecccccccc-
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRD------KKEAFIRLDMSEYQEKH-  341 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~------~~~~~~~l~~a~~~~~~-  341 (607)
                      .++||+.++..+...+..        ..|.+++|+||+|+|||.+++.++......      ...+|+.++++.+.... 
T Consensus       155 ~iiGqs~~~~~l~~~ia~--------~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~  226 (615)
T TIGR02903       155 EIVGQERAIKALLAKVAS--------PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPR  226 (615)
T ss_pred             hceeCcHHHHHHHHHHhc--------CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHH
Confidence            588999999876554421        124479999999999999999999876321      14579999988764211 


Q ss_pred             hh-HhhhcCCCC--CccC-------CCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCc------
Q psy1308         342 EV-AKLIGAPPG--YLGH-------DDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGK------  405 (607)
Q Consensus       342 ~~-~~llg~~~g--~~g~-------~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~------  405 (607)
                      .+ ..++|....  +.+.       .......+.+..+.+|+|||||++.+++..|..|+++++++.+....+.      
T Consensus       227 ~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~  306 (615)
T TIGR02903       227 EVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDP  306 (615)
T ss_pred             HHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCc
Confidence            11 234443210  1110       0011223445667789999999999999999999999998875432210      


Q ss_pred             E-----------EecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhc
Q psy1308         406 T-----------IECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRH  474 (607)
Q Consensus       406 ~-----------~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  474 (607)
                      .           ....++++|.+|+.....                                                  
T Consensus       307 ~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~--------------------------------------------------  336 (615)
T TIGR02903       307 NVPKYIKKLFEEGAPADFVLIGATTRDPEE--------------------------------------------------  336 (615)
T ss_pred             ccchhhhhhcccCccceEEEEEeccccccc--------------------------------------------------
Confidence            0           012345566555521111                                                  


Q ss_pred             cCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         475 FRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       475 f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      +. |.|.+|+. .+.|.|++.+++..|+...+..        .+  +.+++++++.|.. |+|++  |..-+.++...
T Consensus       337 l~-~aLrSR~~-~i~~~pls~edi~~Il~~~a~~--------~~--v~ls~eal~~L~~-ys~~g--Rraln~L~~~~  399 (615)
T TIGR02903       337 IN-PALRSRCA-EVFFEPLTPEDIALIVLNAAEK--------IN--VHLAAGVEELIAR-YTIEG--RKAVNILADVY  399 (615)
T ss_pred             cC-HHHHhcee-EEEeCCCCHHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-CCCcH--HHHHHHHHHHH
Confidence            11 66778885 5689999999999999886652        12  3578999999986 88843  44445665543

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>PF13857 Ank_5: Ankyrin repeats (many copies); PDB: 1SW6_A 3EHR_B 3EHQ_A

Probab=99.38  E-value=1.7e-13  Score=100.29  Aligned_cols=55  Identities=42%  Similarity=0.697  Sum_probs=31.7

Q ss_pred             HHhcC-CCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcch
Q psy1308         170 LLKRE-DEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYA  229 (607)
Q Consensus       170 Ll~~g-~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A  229 (607)
                      ||++| ++++..     |..|.||||+||..|+.+++++|++.|+|++.+|..|+||+|+|
T Consensus         1 LL~~~~~~~n~~-----d~~G~T~LH~A~~~g~~~~v~~Ll~~g~d~~~~d~~G~Tpl~~A   56 (56)
T PF13857_consen    1 LLEHGPADVNAQ-----DKYGNTPLHWAARYGHSEVVRLLLQNGADPNAKDKDGQTPLHYA   56 (56)
T ss_dssp             -----T--TT--------TTS--HHHHHHHHT-HHHHHHHHHCT--TT---TTS--HHHH-
T ss_pred             CCccCcCCCcCc-----CCCCCcHHHHHHHcCcHHHHHHHHHCcCCCCCCcCCCCCHHHhC
Confidence            45666 566655     44599999999999999999999999999999999999999987

>PF10431 ClpB_D2-small: C-terminal, D2-small domain, of ClpB protein ; InterPro: IPR019489 Most Clp ATPases form complexes with peptidase subunits and are involved in protein degradation, though some, such as ClpB, do not associate with peptidases and are involved in protein disaggregation []

Probab=99.38  E-value=2.4e-12  Score=102.26  Aligned_cols=80  Identities=30%  Similarity=0.482  Sum_probs=74.3

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEE
Q psy1308         493 FSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFV  571 (607)
Q Consensus       493 l~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v  571 (607)
                      |+.+++..|+..++.++.+++.+ +|+++.++++++++|++ +|++.+|||+|++.|++.+.+++++.++.+.+.+|++|
T Consensus         1 L~~~~l~~I~~~~l~~l~~~l~~-~~i~l~~~~~~~~~l~~~~~~~~~GAR~l~r~i~~~i~~~la~~il~~~~~~g~~v   79 (81)
T PF10431_consen    1 LSEEDLEKIADLQLKKLNERLKE-KGIELEFDDAVVDYLAEKGYDPEYGARPLRRIIEREIEPPLADAILSGKIKEGDTV   79 (81)
T ss_dssp             --HHHHHHHHHSHHHHHHHHHHH-TTEEEEE-HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHHHHHHHSCSCTTCEE
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHH-CCCeEEecHHHHHHHHHhCcccCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcCEe
Confidence            57899999999999999999988 79999999999999987 89999999999999999999999999999999999999


Q ss_pred             EE
Q psy1308         572 RL  573 (607)
Q Consensus       572 ~i  573 (607)
                      +|
T Consensus        80 ~v   81 (81)
T PF10431_consen   80 RV   81 (81)
T ss_dssp             EE
T ss_pred             eC
Confidence            86

This entry represents the C-terminal domain of Clp ATPases, often referred to as the D2-small domain, which forms a mixed alpha-beta structure. Compared with the adjacent AAA D1-small domain (IPR003959 from INTERPRO) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit, thereby providing enough binding energy to stabilise the functional assembly [].; PDB: 3HWS_A 3HTE_F 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 3PXI_A 1R6B_X ....

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.37  E-value=1.6e-11  Score=129.33  Aligned_cols=185  Identities=19%  Similarity=0.275  Sum_probs=127.4

Q ss_pred             HhhhhHHHHHH---HHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHh
Q psy1308         269 RIVGQESAINI---ISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAK  345 (607)
Q Consensus       269 ~i~Gq~~ai~~---l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~  345 (607)
                      .++||+..+..   +...+...        ++.+++|+||+|+|||.+++.+++....    .|..++.+... ...+..
T Consensus        13 d~vGq~~~v~~~~~L~~~i~~~--------~~~~ilL~GppGtGKTtLA~~ia~~~~~----~~~~l~a~~~~-~~~ir~   79 (413)
T PRK13342         13 EVVGQEHLLGPGKPLRRMIEAG--------RLSSMILWGPPGTGKTTLARIIAGATDA----PFEALSAVTSG-VKDLRE   79 (413)
T ss_pred             HhcCcHHHhCcchHHHHHHHcC--------CCceEEEECCCCCCHHHHHHHHHHHhCC----CEEEEeccccc-HHHHHH
Confidence            58899988766   55555322        1337889999999999999999987743    47777765321 112222


Q ss_pred             hhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHH
Q psy1308         346 LIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEI  425 (607)
Q Consensus       346 llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i  425 (607)
                      ++..            .........+.+||||||++++...|+.|+..++++.             +++|.+|+....  
T Consensus        80 ii~~------------~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~~~-------------iilI~att~n~~--  132 (413)
T PRK13342         80 VIEE------------ARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVEDGT-------------ITLIGATTENPS--  132 (413)
T ss_pred             HHHH------------HHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhcCc-------------EEEEEeCCCChh--
Confidence            2210            0000112256899999999999999999999998643             345555441110  


Q ss_pred             HHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHH
Q psy1308         426 AQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRE  505 (607)
Q Consensus       426 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~  505 (607)
                                                                     ..+. +.+.+|+ .++.|.|++.+++..++...
T Consensus       133 -----------------------------------------------~~l~-~aL~SR~-~~~~~~~ls~e~i~~lL~~~  163 (413)
T PRK13342        133 -----------------------------------------------FEVN-PALLSRA-QVFELKPLSEEDIEQLLKRA  163 (413)
T ss_pred             -----------------------------------------------hhcc-HHHhccc-eeeEeCCCCHHHHHHHHHHH
Confidence                                                           0022 7888998 67899999999999998887


Q ss_pred             HHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         506 LNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       506 l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      +....     . ++ +.+++++++.|+. +. .++.|.+.+.++..
T Consensus       164 l~~~~-----~-~~-i~i~~~al~~l~~-~s-~Gd~R~aln~Le~~  200 (413)
T PRK13342        164 LEDKE-----R-GL-VELDDEALDALAR-LA-NGDARRALNLLELA  200 (413)
T ss_pred             HHHhh-----c-CC-CCCCHHHHHHHHH-hC-CCCHHHHHHHHHHH
Confidence            65431     1 33 5789999999986 54 68899999988875

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=99.36  E-value=1.9e-11  Score=134.94  Aligned_cols=191  Identities=21%  Similarity=0.306  Sum_probs=127.6

Q ss_pred             hHhhhhHHHHH---HHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         268 DRIVGQESAIN---IISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       268 ~~i~Gq~~ai~---~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      ..++||+..+.   .+...+...        +..+++|+||+|+|||.+++.+++...    ..|..++++... -..+.
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~--------~~~slLL~GPpGtGKTTLA~aIA~~~~----~~f~~lna~~~~-i~dir   94 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKAD--------RVGSLILYGPPGVGKTTLARIIANHTR----AHFSSLNAVLAG-VKDLR   94 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcC--------CCceEEEECCCCCCHHHHHHHHHHHhc----Ccceeehhhhhh-hHHHH
Confidence            35789998885   333443321        123789999999999999999998763    346666654321 11111


Q ss_pred             hhhcCCCCCccCCCCchhhHHHh-hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchH
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLK-KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASN  423 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~-~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~  423 (607)
                      ..+.            .....+. .....++|||||+.++...|+.|+..+++|.             +++|.+|+....
T Consensus        95 ~~i~------------~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE~g~-------------IiLI~aTTenp~  149 (725)
T PRK13341         95 AEVD------------RAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVENGT-------------ITLIGATTENPY  149 (725)
T ss_pred             HHHH------------HHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhcCce-------------EEEEEecCCChH
Confidence            1111            0001111 1235799999999999999999999998653             346665542110


Q ss_pred             HHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHH
Q psy1308         424 EIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVC  503 (607)
Q Consensus       424 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~  503 (607)
                      .                                                 .+ .+.+.+|. .++.|.|++.+++..++.
T Consensus       150 ~-------------------------------------------------~l-~~aL~SR~-~v~~l~pLs~edi~~IL~  178 (725)
T PRK13341        150 F-------------------------------------------------EV-NKALVSRS-RLFRLKSLSDEDLHQLLK  178 (725)
T ss_pred             h-------------------------------------------------hh-hhHhhccc-cceecCCCCHHHHHHHHH
Confidence            0                                                 01 15677775 568899999999999999


Q ss_pred             HHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         504 RELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       504 ~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      ..+......+..   -.+.++++++++|+. +. ++++|.+.+.++..+
T Consensus       179 ~~l~~~~~~~g~---~~v~I~deaL~~La~-~s-~GD~R~lln~Le~a~  222 (725)
T PRK13341        179 RALQDKERGYGD---RKVDLEPEAEKHLVD-VA-NGDARSLLNALELAV  222 (725)
T ss_pred             HHHHHHHhhcCC---cccCCCHHHHHHHHH-hC-CCCHHHHHHHHHHHH
Confidence            888764433321   257889999999996 55 789999999998755

>PF13637 Ank_4: Ankyrin repeats (many copies); PDB: 3B95_A 3B7B_A 3F6Q_A 2KBX_A 3IXE_A 2DWZ_C 2DVW_A 3AJI_A 1S70_B 2HE0_A

Probab=99.35  E-value=7.1e-13  Score=96.45  Aligned_cols=54  Identities=35%  Similarity=0.580  Sum_probs=40.3

Q ss_pred             CcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHH
Q psy1308         189 GFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYA  242 (607)
Q Consensus       189 g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll  242 (607)
                      |+||||+||..|+.+++++|+++|+|++.+|.+|+||||+|+..|+.+++++|+
T Consensus         1 g~t~lh~A~~~g~~~~~~~Ll~~~~din~~d~~g~t~lh~A~~~g~~~~~~~Ll   54 (54)
T PF13637_consen    1 GRTPLHWAARSGNLEIVKLLLEHGADINAQDEDGRTPLHYAAKNGNIDIVKFLL   54 (54)
T ss_dssp             SSBHHHHHHHTT-HHHHHHHHHTTSGTT-B-TTS--HHHHHHHTT-HHHHHHHH
T ss_pred             CChHHHHHHHhCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHccCHHHHHHHC
Confidence            678888888888888888888888888888888888888888888888888775

...

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.34  E-value=1.9e-11  Score=126.97  Aligned_cols=197  Identities=19%  Similarity=0.262  Sum_probs=125.0

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++||+.++..+..++.....       +-.++|+||+|+|||.+|+.+++.++........+  |....   ....+.
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~ri-------~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~p--Cg~C~---sC~~i~   85 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGKI-------GHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEP--CNECT---SCLEIT   85 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCCC-------CeEEEEECCCCCCHHHHHHHHHHhcCcccccCccc--cCCCc---HHHHHH
Confidence            4689999999998888765432       22589999999999999999999986531111111  11000   011111


Q ss_pred             -cCC-------C-CCccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         348 -GAP-------P-GYLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       348 -g~~-------~-g~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                       |..       + ...|.+.-..+.+.+..    ..+.|++|||++.++.+.++.||+.+|+.           ..+++|
T Consensus        86 ~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEP-----------p~~viF  154 (484)
T PRK14956         86 KGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEP-----------PAHIVF  154 (484)
T ss_pred             ccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcC-----------CCceEE
Confidence             000       0 01111111112222222    23569999999999999999999999852           257889


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |++|+.. .                                                  .+. +-+.+|+ ..+.|.|++
T Consensus       155 ILaTte~-~--------------------------------------------------kI~-~TI~SRC-q~~~f~~ls  181 (484)
T PRK14956        155 ILATTEF-H--------------------------------------------------KIP-ETILSRC-QDFIFKKVP  181 (484)
T ss_pred             EeecCCh-h--------------------------------------------------hcc-HHHHhhh-heeeecCCC
Confidence            9988821 0                                                  122 7788888 568999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       495 ~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      .+++.+.+...+..        .|  +.++++++..|++ + ..++.|..-+.+++.+
T Consensus       182 ~~~i~~~L~~i~~~--------Eg--i~~e~eAL~~Ia~-~-S~Gd~RdAL~lLeq~i  227 (484)
T PRK14956        182 LSVLQDYSEKLCKI--------EN--VQYDQEGLFWIAK-K-GDGSVRDMLSFMEQAI  227 (484)
T ss_pred             HHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCChHHHHHHHHHHHH
Confidence            99888776554431        23  5689999999985 2 2466676666666543

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.32  E-value=1.9e-11  Score=120.47  Aligned_cols=113  Identities=24%  Similarity=0.346  Sum_probs=79.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCC--------------------C
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHD--------------------D  358 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~--------------------~  358 (607)
                      ++++.||+|+|||.+|+.+|..+    ..++..++|...   .....++|...+|....                    .
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~~l----g~~~~~i~~~~~---~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVARKR----DRPVMLINGDAE---LTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWV   95 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh----CCCEEEEeCCcc---CCHHHHhhhhcccchhhHHHHHHHHhhhhhcccceeec
Confidence            57899999999999999999866    346999988763   23456666433322110                    0


Q ss_pred             CchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCC----cEE-ecCceEEEEecCc
Q psy1308         359 GGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKG----KTI-ECKDAIFVMTSNL  420 (607)
Q Consensus       359 ~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g----~~~-~~~~~~iI~tsn~  420 (607)
                      .+.+..++  ..+++++||||+++++++|+.|+++++++.++..++    ..+ .-.+.++|+|+|.
T Consensus        96 ~g~l~~A~--~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~  160 (262)
T TIGR02640        96 DNRLTLAV--REGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNP  160 (262)
T ss_pred             CchHHHHH--HcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCC
Confidence            12333322  346799999999999999999999999998776542    122 2247789999994

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.31  E-value=4.3e-11  Score=123.80  Aligned_cols=139  Identities=25%  Similarity=0.338  Sum_probs=95.7

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK  340 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~  340 (607)
                      .+...+.+.++|++..++.+..++....          ++++.||||+|||.+|+.++......  .+|..+.+....  
T Consensus        13 ~l~~~l~~~i~gre~vI~lll~aalag~----------hVLL~GpPGTGKT~LAraLa~~~~~~--~~F~~~~~~ftt--   78 (498)
T PRK13531         13 RLSSALEKGLYERSHAIRLCLLAALSGE----------SVFLLGPPGIAKSLIARRLKFAFQNA--RAFEYLMTRFST--   78 (498)
T ss_pred             HHHHHHhhhccCcHHHHHHHHHHHccCC----------CEEEECCCChhHHHHHHHHHHHhccc--CcceeeeeeecC--
Confidence            4667788899999999998877764332          68999999999999999999987553  256655554221  


Q ss_pred             chhHhhhcCCCCCccCCCCchh----hHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEE
Q psy1308         341 HEVAKLIGAPPGYLGHDDGGQL----TKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVM  416 (607)
Q Consensus       341 ~~~~~llg~~~g~~g~~~~~~l----~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~  416 (607)
                        ...++|...-+... ..+.+    .+.+..+  .++|+|||.++++.+|+.||++++++.++. +|.+....--+|+.
T Consensus        79 --p~DLfG~l~i~~~~-~~g~f~r~~~G~L~~A--~lLfLDEI~rasp~~QsaLLeam~Er~~t~-g~~~~~lp~rfiv~  152 (498)
T PRK13531         79 --PEEVFGPLSIQALK-DEGRYQRLTSGYLPEA--EIVFLDEIWKAGPAILNTLLTAINERRFRN-GAHEEKIPMRLLVT  152 (498)
T ss_pred             --cHHhcCcHHHhhhh-hcCchhhhcCCccccc--cEEeecccccCCHHHHHHHHHHHHhCeEec-CCeEEeCCCcEEEE
Confidence              24666642000000 00111    1112222  299999999999999999999999999987 56666655556666


Q ss_pred             ecC
Q psy1308         417 TSN  419 (607)
Q Consensus       417 tsn  419 (607)
                      +||
T Consensus       153 ATN  155 (498)
T PRK13531        153 ASN  155 (498)
T ss_pred             ECC
Confidence            776

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.30  E-value=3.7e-11  Score=129.32  Aligned_cols=193  Identities=17%  Similarity=0.248  Sum_probs=120.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc------cccccc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS------EYQEKH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a------~~~~~~  341 (607)
                      ..++||+..++.+...+.....       +-.++|+|++|+|||.+++.+++.++....  .....|.      .+....
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL-------~HAyLFtGPpGvGKTTlAriLAKaLnCe~~--~~~~PCG~C~sCr~I~~G~   86 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRL-------HHAYLFTGTRGVGKTTLSRIFAKALNCETG--VTSQPCGVCRACREIDEGR   86 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCC-------CeEEEEECCCCCCHHHHHHHHHHHhcCccC--CCCCCCcccHHHHHHhcCC
Confidence            4699999999999888764321       225789999999999999999999865311  1111111      110000


Q ss_pred             hhHhhhcCCCC-CccCCCCchhhHHHhh-------CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceE
Q psy1308         342 EVAKLIGAPPG-YLGHDDGGQLTKRLKK-------CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAI  413 (607)
Q Consensus       342 ~~~~llg~~~g-~~g~~~~~~l~~~~~~-------~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~  413 (607)
                       ...++.-... ..|.   ..+..+++.       ..+.|+||||+|+++...++.||+.||+.           ..+++
T Consensus        87 -h~DviEIDAas~rgV---DdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEP-----------P~~v~  151 (830)
T PRK07003         87 -FVDYVEMDAASNRGV---DEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEP-----------PPHVK  151 (830)
T ss_pred             -CceEEEecccccccH---HHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhc-----------CCCeE
Confidence             0001100000 0111   122222222       34679999999999999999999999953           25788


Q ss_pred             EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC
Q psy1308         414 FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF  493 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl  493 (607)
                      ||++||-..                                                   .+. +-+++|+ ..+.|.++
T Consensus       152 FILaTtd~~---------------------------------------------------KIp-~TIrSRC-q~f~Fk~L  178 (830)
T PRK07003        152 FILATTDPQ---------------------------------------------------KIP-VTVLSRC-LQFNLKQM  178 (830)
T ss_pred             EEEEECChh---------------------------------------------------hcc-chhhhhe-EEEecCCc
Confidence            999988211                                                   122 6788888 67899999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHH
Q psy1308         494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVE  549 (607)
Q Consensus       494 ~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~  549 (607)
                      +.+++.+.+...+..        .  .+.++++++..|++ . ..+..|..-+.++
T Consensus       179 s~eeIv~~L~~Il~~--------E--gI~id~eAL~lIA~-~-A~GsmRdALsLLd  222 (830)
T PRK07003        179 PAGHIVSHLERILGE--------E--RIAFEPQALRLLAR-A-AQGSMRDALSLTD  222 (830)
T ss_pred             CHHHHHHHHHHHHHH--------c--CCCCCHHHHHHHHH-H-cCCCHHHHHHHHH
Confidence            999998887665531        1  24678888888874 1 1344454444443

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.30  E-value=8.2e-11  Score=119.39  Aligned_cols=193  Identities=20%  Similarity=0.257  Sum_probs=125.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++||+..++.+...+......   +..+.+++|+||+|+|||.+++.+++.+...    +...+.+......      
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~---~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~----~~~~~~~~~~~~~------   70 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMR---QEALDHLLLYGPPGLGKTTLAHIIANEMGVN----LKITSGPALEKPG------   70 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhc---CCCCCeEEEECCCCCCHHHHHHHHHHHhCCC----EEEeccchhcCch------
Confidence            46899999999988877644322   1234478999999999999999999887432    3333322221111      


Q ss_pred             cCCCCCccCCCCchhhHHHhh-CCCeEEEEecCCccCHHHHHHHHHhhccceeec--CCC-----cEEecCceEEEEecC
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKK-CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTD--GKG-----KTIECKDAIFVMTSN  419 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~-~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~--~~g-----~~~~~~~~~iI~tsn  419 (607)
                                   .+...+.. ....++|||||+.+++..+..|+.++++....-  ..+     .........+|.+||
T Consensus        71 -------------~l~~~l~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~  137 (305)
T TIGR00635        71 -------------DLAAILTNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATT  137 (305)
T ss_pred             -------------hHHHHHHhcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecC
Confidence                         12222222 235799999999999999999999998665321  111     112223355666655


Q ss_pred             cchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHH
Q psy1308         420 LASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELH  499 (607)
Q Consensus       420 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~  499 (607)
                      ..                                                   ..+. +.+.+|+..++.|.|++.+++.
T Consensus       138 ~~---------------------------------------------------~~l~-~~l~sR~~~~~~l~~l~~~e~~  165 (305)
T TIGR00635       138 RA---------------------------------------------------GMLT-SPLRDRFGIILRLEFYTVEELA  165 (305)
T ss_pred             Cc---------------------------------------------------cccC-HHHHhhcceEEEeCCCCHHHHH
Confidence            21                                                   0122 6788899888899999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         500 TLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       500 ~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      +++......          ..+.++++++++|++ . ..+..|.+.+.+++
T Consensus       166 ~il~~~~~~----------~~~~~~~~al~~ia~-~-~~G~pR~~~~ll~~  204 (305)
T TIGR00635       166 EIVSRSAGL----------LNVEIEPEAALEIAR-R-SRGTPRIANRLLRR  204 (305)
T ss_pred             HHHHHHHHH----------hCCCcCHHHHHHHHH-H-hCCCcchHHHHHHH
Confidence            998755541          134689999999985 2 22344666555554

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PF13857 Ank_5: Ankyrin repeats (many copies); PDB: 1SW6_A 3EHR_B 3EHQ_A

Probab=99.29  E-value=3.4e-12  Score=93.33  Aligned_cols=47  Identities=45%  Similarity=0.647  Sum_probs=20.1

Q ss_pred             HHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC
Q psy1308         105 FIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL  151 (607)
Q Consensus       105 Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~  151 (607)
                      ||++++.++|.+|..|.||||+||..|+.++|++|++.|+|++.+|.
T Consensus         1 LL~~~~~~~n~~d~~G~T~LH~A~~~g~~~~v~~Ll~~g~d~~~~d~   47 (56)
T PF13857_consen    1 LLEHGPADVNAQDKYGNTPLHWAARYGHSEVVRLLLQNGADPNAKDK   47 (56)
T ss_dssp             -----T--TT---TTS--HHHHHHHHT-HHHHHHHHHCT--TT---T
T ss_pred             CCccCcCCCcCcCCCCCcHHHHHHHcCcHHHHHHHHHCcCCCCCCcC
Confidence            45555566677777777777777777777777777766777666543

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.27  E-value=1e-10  Score=119.57  Aligned_cols=193  Identities=19%  Similarity=0.244  Sum_probs=126.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++||+..++.+...+......   ...+.+++|+||+|+|||.+++.+++.+...    +............      
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~---~~~~~~~ll~GppG~GKT~la~~ia~~l~~~----~~~~~~~~~~~~~------   91 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKR---GEALDHVLLYGPPGLGKTTLANIIANEMGVN----IRITSGPALEKPG------   91 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhc---CCCCCcEEEECCCCccHHHHHHHHHHHhCCC----eEEEecccccChH------
Confidence            46899999999988777654321   1123378999999999999999999987432    3333322221111      


Q ss_pred             cCCCCCccCCCCchhhHHHhh-CCCeEEEEecCCccCHHHHHHHHHhhccceeec--CCCc-----EEecCceEEEEecC
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKK-CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTD--GKGK-----TIECKDAIFVMTSN  419 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~-~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~--~~g~-----~~~~~~~~iI~tsn  419 (607)
                                   .+...+.. ..++++|||||+.+++..+..|...+++..+..  ..+.     ........+|++|+
T Consensus        92 -------------~l~~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~  158 (328)
T PRK00080         92 -------------DLAAILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATT  158 (328)
T ss_pred             -------------HHHHHHHhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecC
Confidence                         22222222 346899999999999999999999998665321  1111     11123356677766


Q ss_pred             cchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHH
Q psy1308         420 LASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELH  499 (607)
Q Consensus       420 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~  499 (607)
                      ...                                                   .+. +.+.+|+..++.|.|++.+++.
T Consensus       159 ~~~---------------------------------------------------~l~-~~L~sRf~~~~~l~~~~~~e~~  186 (328)
T PRK00080        159 RAG---------------------------------------------------LLT-SPLRDRFGIVQRLEFYTVEELE  186 (328)
T ss_pred             Ccc---------------------------------------------------cCC-HHHHHhcCeeeecCCCCHHHHH
Confidence            210                                                   122 6688899888999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         500 TLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       500 ~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      +|+......          ..+.++++++++|++ . ..+..|.+.+.+++
T Consensus       187 ~il~~~~~~----------~~~~~~~~~~~~ia~-~-~~G~pR~a~~~l~~  225 (328)
T PRK00080        187 KIVKRSARI----------LGVEIDEEGALEIAR-R-SRGTPRIANRLLRR  225 (328)
T ss_pred             HHHHHHHHH----------cCCCcCHHHHHHHHH-H-cCCCchHHHHHHHH
Confidence            998765542          135689999999985 1 12334666666654

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.26  E-value=9.1e-11  Score=125.13  Aligned_cols=195  Identities=19%  Similarity=0.217  Sum_probs=121.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEEe-ecccccc--cc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIRL-DMSEYQE--KH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~l-~~a~~~~--~~  341 (607)
                      ..++||+.+++.+..++.....       +-.++|+||+|+|||.+|+.+|+.++...   ..++-.. .|.....  +.
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl-------~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hp   87 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRL-------HHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFI   87 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCC
Confidence            4699999999999888864431       23679999999999999999999986421   1110000 0000000  00


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHh---h----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLK---K----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~---~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                      .+..+-++  ...+   ...+.+++.   .    ..+.|++|||++.+++..++.|++.+++.           ..++.|
T Consensus        88 DviEIDAA--s~~~---VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEP-----------P~~v~F  151 (702)
T PRK14960         88 DLIEIDAA--SRTK---VEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEP-----------PEHVKF  151 (702)
T ss_pred             ceEEeccc--ccCC---HHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcC-----------CCCcEE
Confidence            00000000  0011   112222222   1    23579999999999999999999999953           245678


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |++|+-...                                                   +. +.+++|+ .++.|.|++
T Consensus       152 ILaTtd~~k---------------------------------------------------Ip-~TIlSRC-q~feFkpLs  178 (702)
T PRK14960        152 LFATTDPQK---------------------------------------------------LP-ITVISRC-LQFTLRPLA  178 (702)
T ss_pred             EEEECChHh---------------------------------------------------hh-HHHHHhh-heeeccCCC
Confidence            888762110                                                   11 5566788 678999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       495 ~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      .+++.+.+...+..       .   .+.++++++..|+. . ..++.|..-+.+++
T Consensus       179 ~eEI~k~L~~Il~k-------E---gI~id~eAL~~IA~-~-S~GdLRdALnLLDQ  222 (702)
T PRK14960        179 VDEITKHLGAILEK-------E---QIAADQDAIWQIAE-S-AQGSLRDALSLTDQ  222 (702)
T ss_pred             HHHHHHHHHHHHHH-------c---CCCCCHHHHHHHHH-H-cCCCHHHHHHHHHH
Confidence            99998887766542       1   25688999988875 2 23556666555544

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.26  E-value=2e-10  Score=106.57  Aligned_cols=199  Identities=24%  Similarity=0.316  Sum_probs=126.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHh-----hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch
Q psy1308         268 DRIVGQESAINIISAAIKRK-----ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~-----~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~  342 (607)
                      ..++||+.+.....-.+...     ...|.    |-.++|+||+|+|||.+||+++...    +.||..+..+.      
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WA----PknVLFyGppGTGKTm~Akalane~----kvp~l~vkat~------  186 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWA----PKNVLFYGPPGTGKTMMAKALANEA----KVPLLLVKATE------  186 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccC----cceeEEECCCCccHHHHHHHHhccc----CCceEEechHH------
Confidence            46999999987765444322     12233    7789999999999999999999654    55677776544      


Q ss_pred             hHhhhcCCCCCccCC--CCchhhHHHhhCCCeEEEEecCCccCH------------HHHHHHHHhhccceeecCCCcEEe
Q psy1308         343 VAKLIGAPPGYLGHD--DGGQLTKRLKKCPNAVVLFDEVDKAHP------------DVLTVLLQLFDEGRLTDGKGKTIE  408 (607)
Q Consensus       343 ~~~llg~~~g~~g~~--~~~~l~~~~~~~~~~vl~lDEiek~~~------------~~~~~Ll~~~~~~~~~~~~g~~~~  408 (607)
                         |+|.   |+|..  .-..+.+..+++..||+||||+|.+..            +++++||.-|+.-+  ..      
T Consensus       187 ---liGe---hVGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~--en------  252 (368)
T COG1223         187 ---LIGE---HVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIK--EN------  252 (368)
T ss_pred             ---HHHH---HhhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcc--cC------
Confidence               4432   33321  122355566667799999999998643            47889998887322  11      


Q ss_pred             cCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccccee
Q psy1308         409 CKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIV  488 (607)
Q Consensus       409 ~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv  488 (607)
                       ..+..|++||..                                           ++        + .|...+||..-|
T Consensus       253 -eGVvtIaaTN~p-------------------------------------------~~--------L-D~aiRsRFEeEI  279 (368)
T COG1223         253 -EGVVTIAATNRP-------------------------------------------EL--------L-DPAIRSRFEEEI  279 (368)
T ss_pred             -CceEEEeecCCh-------------------------------------------hh--------c-CHHHHhhhhhee
Confidence             345689999921                                           11        1 166677887778


Q ss_pred             eeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHHHh
Q psy1308         489 YFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEK  562 (607)
Q Consensus       489 ~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l~  562 (607)
                      .|.-.+.+|...|++..+..        .-..+...   ++++++ -...+..|.+   .++.+..+|-++|..
T Consensus       280 EF~LP~~eEr~~ile~y~k~--------~Plpv~~~---~~~~~~-~t~g~SgRdi---kekvlK~aLh~Ai~e  338 (368)
T COG1223         280 EFKLPNDEERLEILEYYAKK--------FPLPVDAD---LRYLAA-KTKGMSGRDI---KEKVLKTALHRAIAE  338 (368)
T ss_pred             eeeCCChHHHHHHHHHHHHh--------CCCccccC---HHHHHH-HhCCCCchhH---HHHHHHHHHHHHHHh
Confidence            88888999999997776653        23333334   445543 2223334444   444455666666654

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.26  E-value=8.4e-11  Score=125.09  Aligned_cols=185  Identities=18%  Similarity=0.268  Sum_probs=114.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEEeecccccccchh-
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIRLDMSEYQEKHEV-  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~l~~a~~~~~~~~-  343 (607)
                      ..++||+..++.+...+...+.       +-.++|+|+.|+|||.+++.+++.++...   ..+...--|.....-..+ 
T Consensus        16 ddVIGQe~vv~~L~~al~~gRL-------pHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~   88 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRL-------HHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEID   88 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCC-------ceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHH
Confidence            4699999999999988875542       22579999999999999999999987521   111110011110000000 


Q ss_pred             ----HhhhcCCCC-CccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         344 ----AKLIGAPPG-YLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       344 ----~~llg~~~g-~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                          ..++.-... ..|.++-..+.+.+..    ..+.|+||||+|+++...++.||+.||+-           ..+++|
T Consensus        89 aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEP-----------P~~v~F  157 (700)
T PRK12323         89 AGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEP-----------PEHVKF  157 (700)
T ss_pred             cCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccC-----------CCCceE
Confidence                011100000 1111111122222222    23679999999999999999999999963           257789


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |++||...                                                   .+. +-+++|+ ..+.|.+++
T Consensus       158 ILaTtep~---------------------------------------------------kLl-pTIrSRC-q~f~f~~ls  184 (700)
T PRK12323        158 ILATTDPQ---------------------------------------------------KIP-VTVLSRC-LQFNLKQMP  184 (700)
T ss_pred             EEEeCChH---------------------------------------------------hhh-hHHHHHH-HhcccCCCC
Confidence            99888211                                                   122 6677888 678899999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       495 ~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .+++.+.+...+..        .+  +.+++++++.|++
T Consensus       185 ~eei~~~L~~Il~~--------Eg--i~~d~eAL~~IA~  213 (700)
T PRK12323        185 PGHIVSHLDAILGE--------EG--IAHEVNALRLLAQ  213 (700)
T ss_pred             hHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH
Confidence            99888876665532        12  3467777777653

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=99.25  E-value=1.2e-11  Score=109.49  Aligned_cols=113  Identities=22%  Similarity=0.390  Sum_probs=85.1

Q ss_pred             hhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCC
Q psy1308         271 VGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAP  350 (607)
Q Consensus       271 ~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~  350 (607)
                      +|++.+++.+...+.+....      ..++++.|++|+||+.+|+.|+...... ..+|+.++|+...            
T Consensus         1 vG~S~~~~~l~~~l~~~a~~------~~pvli~GE~GtGK~~~A~~lh~~~~~~-~~~~~~~~~~~~~------------   61 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKS------SSPVLITGEPGTGKSLLARALHRYSGRA-NGPFIVIDCASLP------------   61 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCS------SS-EEEECCTTSSHHHHHHCCHHTTTTC-CS-CCCCCHHCTC------------
T ss_pred             CCCCHHHHHHHHHHHHHhCC------CCcEEEEcCCCCCHHHHHHHHHhhcCcc-CCCeEEechhhCc------------
Confidence            47778888888888777643      3478999999999999999999987654 6678888887643            


Q ss_pred             CCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHH
Q psy1308         351 PGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNE  424 (607)
Q Consensus       351 ~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~  424 (607)
                                  .+.++.+.+++++|+|||.++++.|..|+++++...          ..++++|++|..+...
T Consensus        62 ------------~~~l~~a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~----------~~~~RlI~ss~~~l~~  113 (138)
T PF14532_consen   62 ------------AELLEQAKGGTLYLKNIDRLSPEAQRRLLDLLKRQE----------RSNVRLIASSSQDLEE  113 (138)
T ss_dssp             ------------HHHHHHCTTSEEEEECGCCS-HHHHHHHHHHHHHCT----------TTTSEEEEEECC-CCC
T ss_pred             ------------HHHHHHcCCCEEEECChHHCCHHHHHHHHHHHHhcC----------CCCeEEEEEeCCCHHH
Confidence                        234556788999999999999999999999998532          2467899999855443

>PLN03025 replication factor C subunit; Provisional

Probab=99.25  E-value=4.6e-11  Score=121.50  Aligned_cols=188  Identities=19%  Similarity=0.219  Sum_probs=120.7

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      .++||..++..+...+....        ..+++|+||+|+|||.+++.+++.++... ...+..++.+...+...+...+
T Consensus        14 ~~~g~~~~~~~L~~~~~~~~--------~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~~vr~~i   85 (319)
T PLN03025         14 DIVGNEDAVSRLQVIARDGN--------MPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGIDVVRNKI   85 (319)
T ss_pred             HhcCcHHHHHHHHHHHhcCC--------CceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHHHHHHHH
Confidence            57899998888766554221        12689999999999999999999986532 2335555554332222222221


Q ss_pred             cCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      .....     ..    .........+++|||+|.++.+.|+.|++.++..           ..+++||+++|....    
T Consensus        86 ~~~~~-----~~----~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~-----------~~~t~~il~~n~~~~----  141 (319)
T PLN03025         86 KMFAQ-----KK----VTLPPGRHKIVILDEADSMTSGAQQALRRTMEIY-----------SNTTRFALACNTSSK----  141 (319)
T ss_pred             HHHHh-----cc----ccCCCCCeEEEEEechhhcCHHHHHHHHHHHhcc-----------cCCceEEEEeCCccc----
Confidence            10000     00    0000123579999999999999999999999842           134668888882110    


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELN  507 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~  507 (607)
                                                                     +. +.+.+|. .++.|.|++.+++..++.....
T Consensus       142 -----------------------------------------------i~-~~L~SRc-~~i~f~~l~~~~l~~~L~~i~~  172 (319)
T PLN03025        142 -----------------------------------------------II-EPIQSRC-AIVRFSRLSDQEILGRLMKVVE  172 (319)
T ss_pred             -----------------------------------------------cc-hhHHHhh-hcccCCCCCHHHHHHHHHHHHH
Confidence                                                           11 6678887 5789999999998887655442


Q ss_pred             HHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHH
Q psy1308         508 FWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVE  549 (607)
Q Consensus       508 ~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~  549 (607)
                             .+ |  +.++++++++|+..  ..+..|.+-+.++
T Consensus       173 -------~e-g--i~i~~~~l~~i~~~--~~gDlR~aln~Lq  202 (319)
T PLN03025        173 -------AE-K--VPYVPEGLEAIIFT--ADGDMRQALNNLQ  202 (319)
T ss_pred             -------Hc-C--CCCCHHHHHHHHHH--cCCCHHHHHHHHH
Confidence                   11 3  45789999999752  2456666666665

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.25  E-value=1.2e-10  Score=127.91  Aligned_cols=198  Identities=20%  Similarity=0.278  Sum_probs=122.9

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHh--
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAK--  345 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~--  345 (607)
                      ..++||+..+..+..++...+.       |-.++|+||+|+|||.+++.+++.++....  ....-|........+..  
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl-------~HAyLFtGPpGtGKTTLARiLAk~Lnce~~--~~~~pCg~C~sC~~i~~g~   86 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRL-------HHAYLFTGTRGVGKTSLARLFAKGLNCEQG--VTATPCGVCSSCVEIAQGR   86 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCC-------CeEEEEECCCCCCHHHHHHHHHHhccCccC--CCCCCCCCchHHHHHhcCC
Confidence            4689999999998888765431       224689999999999999999999865311  00001110000000000  


Q ss_pred             ---hhcCCCC-CccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEe
Q psy1308         346 ---LIGAPPG-YLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMT  417 (607)
Q Consensus       346 ---llg~~~g-~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~t  417 (607)
                         ++-..+. ..+-+.-..+...+..    ..+.|+||||+++++.+.++.||+.||+.           ..+++||++
T Consensus        87 ~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEP-----------P~~vrFILa  155 (944)
T PRK14949         87 FVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEP-----------PEHVKFLLA  155 (944)
T ss_pred             CceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcc-----------CCCeEEEEE
Confidence               0000000 1111111122222222    34679999999999999999999999963           256788888


Q ss_pred             cCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHH
Q psy1308         418 SNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSE  497 (607)
Q Consensus       418 sn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~  497 (607)
                      |+-...                                                   +. +-+++|+ .++.|.|++.++
T Consensus       156 TTe~~k---------------------------------------------------Ll-~TIlSRC-q~f~fkpLs~eE  182 (944)
T PRK14949        156 TTDPQK---------------------------------------------------LP-VTVLSRC-LQFNLKSLTQDE  182 (944)
T ss_pred             CCCchh---------------------------------------------------ch-HHHHHhh-eEEeCCCCCHHH
Confidence            772111                                                   11 5677788 678999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       498 ~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      +...+.+.+..       .   .+.+++++++.|++ + ..+..|-.-+.+++
T Consensus       183 I~~~L~~il~~-------E---gI~~edeAL~lIA~-~-S~Gd~R~ALnLLdQ  223 (944)
T PRK14949        183 IGTQLNHILTQ-------E---QLPFEAEALTLLAK-A-ANGSMRDALSLTDQ  223 (944)
T ss_pred             HHHHHHHHHHH-------c---CCCCCHHHHHHHHH-H-cCCCHHHHHHHHHH
Confidence            98887665542       1   25678999999875 2 24556655555543

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.25  E-value=1.6e-10  Score=123.29  Aligned_cols=201  Identities=18%  Similarity=0.246  Sum_probs=125.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEEe-ecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIRL-DMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~l-~~a~~~~~~~~  343 (607)
                      ..++||+.++..+...+.....       +-.++|+||+|+|||.+|+.+++.++...   ..++-.. .|...... ..
T Consensus        16 ~diiGq~~~v~~L~~~i~~~rl-------~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~-~~   87 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQKV-------HHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNN-SF   87 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcC-CC
Confidence            3689999999998888764421       23588999999999999999999886421   1111000 00000000 00


Q ss_pred             HhhhcCC-CCCccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEec
Q psy1308         344 AKLIGAP-PGYLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTS  418 (607)
Q Consensus       344 ~~llg~~-~g~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~ts  418 (607)
                      ..++.-. ....|.++...+.+.+..    ..+.|++|||+++++.+.++.|++.+|+..           .+++||++|
T Consensus        88 ~dlieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp-----------~~v~fIL~T  156 (546)
T PRK14957         88 IDLIEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPP-----------EYVKFILAT  156 (546)
T ss_pred             CceEEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCC-----------CCceEEEEE
Confidence            0000000 011222222223333332    346799999999999999999999999632           456788777


Q ss_pred             CcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHH
Q psy1308         419 NLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSEL  498 (607)
Q Consensus       419 n~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~  498 (607)
                      +- ...                                                  .. +.+.+|. .++.|.|++.+++
T Consensus       157 td-~~k--------------------------------------------------il-~tI~SRc-~~~~f~~Ls~~eI  183 (546)
T PRK14957        157 TD-YHK--------------------------------------------------IP-VTILSRC-IQLHLKHISQADI  183 (546)
T ss_pred             CC-hhh--------------------------------------------------hh-hhHHHhe-eeEEeCCCCHHHH
Confidence            51 111                                                  11 4577888 7899999999998


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         499 HTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       499 ~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      ...+...+..        .|  +.++++++++|+. +. .+..|.+-+.+++.+
T Consensus       184 ~~~L~~il~~--------eg--i~~e~~Al~~Ia~-~s-~GdlR~alnlLek~i  225 (546)
T PRK14957        184 KDQLKIILAK--------EN--INSDEQSLEYIAY-HA-KGSLRDALSLLDQAI  225 (546)
T ss_pred             HHHHHHHHHH--------cC--CCCCHHHHHHHHH-Hc-CCCHHHHHHHHHHHH
Confidence            8886665542        23  5679999999885 22 355777777776544

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.25  E-value=8.9e-11  Score=125.41  Aligned_cols=199  Identities=17%  Similarity=0.229  Sum_probs=121.7

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC---CceEEe-eccccc--ccc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK---EAFIRL-DMSEYQ--EKH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~---~~~~~l-~~a~~~--~~~  341 (607)
                      ..++||+..++.+...+.....       |-.++|+||+|+|||.+|+.+++.++....   .++-.. .|....  .+.
T Consensus        16 ~divGq~~v~~~L~~~~~~~~l-------~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~   88 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQYL-------HHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFP   88 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCC-------CeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCc
Confidence            4689999999999988865432       225899999999999999999999865311   111000 000000  000


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEe
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMT  417 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~t  417 (607)
                      ++.++-+  ....+-++-..+.+.+..    ..+.|++|||+++++++.++.|++.+++.           ..+++||++
T Consensus        89 d~~eida--as~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEep-----------p~~~~fIla  155 (509)
T PRK14958         89 DLFEVDA--ASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEP-----------PSHVKFILA  155 (509)
T ss_pred             eEEEEcc--cccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhcc-----------CCCeEEEEE
Confidence            0111100  011111111112222222    23679999999999999999999999953           256788888


Q ss_pred             cCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHH
Q psy1308         418 SNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSE  497 (607)
Q Consensus       418 sn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~  497 (607)
                      |+- ...                                                  .. +-+.+|. .++.|.|++.++
T Consensus       156 ttd-~~k--------------------------------------------------l~-~tI~SRc-~~~~f~~l~~~~  182 (509)
T PRK14958        156 TTD-HHK--------------------------------------------------LP-VTVLSRC-LQFHLAQLPPLQ  182 (509)
T ss_pred             ECC-hHh--------------------------------------------------ch-HHHHHHh-hhhhcCCCCHHH
Confidence            761 110                                                  11 4577777 567899999998


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       498 ~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      +...+...+..        .|  +.+++++++.|++ . ..++.|..-+.+++.
T Consensus       183 i~~~l~~il~~--------eg--i~~~~~al~~ia~-~-s~GslR~al~lLdq~  224 (509)
T PRK14958        183 IAAHCQHLLKE--------EN--VEFENAALDLLAR-A-ANGSVRDALSLLDQS  224 (509)
T ss_pred             HHHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCCcHHHHHHHHHHH
Confidence            88776655542        13  4568888888875 2 135566666666543

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.24  E-value=1.4e-10  Score=122.64  Aligned_cols=185  Identities=20%  Similarity=0.318  Sum_probs=122.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCC--------------------
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKE--------------------  327 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~--------------------  327 (607)
                      ..++||+.++..+...+....       -|-.++|+||+|+|||.+|+.+++.++.....                    
T Consensus        14 ~divGq~~i~~~L~~~i~~~~-------l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~   86 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNS-------ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFM   86 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-------CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCC
Confidence            469999999888877766443       13358999999999999999999988643110                    


Q ss_pred             ceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCC
Q psy1308         328 AFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGK  403 (607)
Q Consensus       328 ~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~  403 (607)
                      .+..++.+...+-..+.                .+.+.+..    ..+.++++||++.+..+.++.|+..+++.      
T Consensus        87 dv~el~aa~~~gid~iR----------------~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p------  144 (472)
T PRK14962         87 DVIELDAASNRGIDEIR----------------KIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEP------  144 (472)
T ss_pred             ccEEEeCcccCCHHHHH----------------HHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhC------
Confidence            12222222111111111                11222222    23579999999999999999999999852      


Q ss_pred             CcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcc
Q psy1308         404 GKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGR  483 (607)
Q Consensus       404 g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~r  483 (607)
                           ..+++||++++. ...                                                  +. +.+.+|
T Consensus       145 -----~~~vv~Ilattn-~~k--------------------------------------------------l~-~~L~SR  167 (472)
T PRK14962        145 -----PSHVVFVLATTN-LEK--------------------------------------------------VP-PTIISR  167 (472)
T ss_pred             -----CCcEEEEEEeCC-hHh--------------------------------------------------hh-HHHhcC
Confidence                 135677777661 111                                                  11 667778


Q ss_pred             ccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         484 INEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       484 i~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      + .++.|.|++.+++..++...+..        .+  +.++++++++|+. + ..+++|.+-+.+++.
T Consensus       168 ~-~vv~f~~l~~~el~~~L~~i~~~--------eg--i~i~~eal~~Ia~-~-s~GdlR~aln~Le~l  222 (472)
T PRK14962        168 C-QVIEFRNISDELIIKRLQEVAEA--------EG--IEIDREALSFIAK-R-ASGGLRDALTMLEQV  222 (472)
T ss_pred             c-EEEEECCccHHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-hCCCHHHHHHHHHHH
Confidence            7 57999999999988886655531        13  4689999999985 2 247788777777653

>KOG0515|consensus

Probab=99.23  E-value=1.6e-11  Score=123.11  Aligned_cols=91  Identities=22%  Similarity=0.335  Sum_probs=81.3

Q ss_pred             HHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhH
Q psy1308         155 VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANI  234 (607)
Q Consensus       155 l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~  234 (607)
                      |.-|+..|-+++|+-.+..-.|+...++.     |-|+||-|+..||++||+||++.|+|+|+.|.+||||||+|+..++
T Consensus       554 LLDaaLeGEldlVq~~i~ev~DpSqpNdE-----GITaLHNAiCaghyeIVkFLi~~ganVNa~DSdGWTPLHCAASCNn  628 (752)
T KOG0515|consen  554 LLDAALEGELDLVQRIIYEVTDPSQPNDE-----GITALHNAICAGHYEIVKFLIEFGANVNAADSDGWTPLHCAASCNN  628 (752)
T ss_pred             HHhhhhcchHHHHHHHHHhhcCCCCCCcc-----chhHHhhhhhcchhHHHHHHHhcCCcccCccCCCCchhhhhhhcCc
Confidence            45578889999999888876666655444     9999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhHHh
Q psy1308         235 KQILQKYAEKYADLQR  250 (607)
Q Consensus       235 ~~~~~~ll~~~~~~~~  250 (607)
                      ..+++.|++.|+.+..
T Consensus       629 v~~ckqLVe~GaavfA  644 (752)
T KOG0515|consen  629 VPMCKQLVESGAAVFA  644 (752)
T ss_pred             hHHHHHHHhccceEEe
Confidence            9999999999987654

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.23  E-value=1.2e-10  Score=117.21  Aligned_cols=178  Identities=17%  Similarity=0.183  Sum_probs=108.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceE--------------
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFI--------------  330 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~--------------  330 (607)
                      ..++||+.+...+.........        -.+++.|++|+|||.++|.+++++....   ..+|.              
T Consensus        17 ~~ivGq~~~k~al~~~~~~p~~--------~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~~~p~~p~~~~~~~~   88 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDPKI--------GGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFNSHPSDPELMSDEVR   88 (350)
T ss_pred             HHHhChHHHHHHHHHhccCCCC--------CeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCCCCCCChhhhchhhh
Confidence            4689999998887666554322        2688999999999999999999885421   22332              


Q ss_pred             --------------EeecccccccchhHhhhcCC---CCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHh
Q psy1308         331 --------------RLDMSEYQEKHEVAKLIGAP---PGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQL  393 (607)
Q Consensus       331 --------------~l~~a~~~~~~~~~~llg~~---~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~  393 (607)
                                    ...+.....+....+++|.-   ....+. ......+.+.++.+|+|++|||+.+++.+|..|+++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g-~~~~~~GlL~~A~~GiL~lDEInrL~~~~Q~~LLea  167 (350)
T CHL00081         89 EAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEG-VKAFEPGLLAKANRGILYVDEVNLLDDHLVDILLDS  167 (350)
T ss_pred             hhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcC-cccccCCeeeecCCCEEEecChHhCCHHHHHHHHHH
Confidence                          00000111111222333320   000000 000123456678899999999999999999999999


Q ss_pred             hccceeec-CCCcEE-ecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHH
Q psy1308         394 FDEGRLTD-GKGKTI-ECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPIL  471 (607)
Q Consensus       394 ~~~~~~~~-~~g~~~-~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  471 (607)
                      +++|..+- ..|.+. .....++|.|.|..                                                  
T Consensus       168 m~e~~~~ier~G~s~~~p~rfiviaT~np~--------------------------------------------------  197 (350)
T CHL00081        168 AASGWNTVEREGISIRHPARFVLVGSGNPE--------------------------------------------------  197 (350)
T ss_pred             HHhCCeEEeeCCeeeecCCCEEEEeccCcc--------------------------------------------------
Confidence            99875442 223332 22455666666621                                                  


Q ss_pred             HhccCChhhhccccceeeeccCC-HHHHHHHHHHH
Q psy1308         472 KRHFRRDEFLGRINEIVYFLPFS-KSELHTLVCRE  505 (607)
Q Consensus       472 ~~~f~~~el~~ri~~iv~f~pl~-~~~~~~i~~~~  505 (607)
                      .+.|+ ++|++||+-.+.....+ .++-.+|+.+.
T Consensus       198 eg~l~-~~LldRf~l~i~l~~~~~~~~e~~il~~~  231 (350)
T CHL00081        198 EGELR-PQLLDRFGMHAEIRTVKDPELRVKIVEQR  231 (350)
T ss_pred             cCCCC-HHHHHHhCceeecCCCCChHHHHHHHHhh
Confidence            12254 89999998777766665 45556666553

>KOG0730|consensus

Probab=99.23  E-value=1.1e-10  Score=122.15  Aligned_cols=204  Identities=22%  Similarity=0.299  Sum_probs=133.9

Q ss_pred             HhHhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc
Q psy1308         267 KDRIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ  338 (607)
Q Consensus       267 ~~~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~  338 (607)
                      |..+-|++.....+.+.+...        +.|++   .|--++|+||||+|||.+||++|.....    +|..+-..+  
T Consensus       433 W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~---ppkGVLlyGPPGC~KT~lAkalAne~~~----nFlsvkgpE--  503 (693)
T KOG0730|consen  433 WDDIGGLEELKRELQQAVEWPLKHPEKFARFGIS---PPKGVLLYGPPGCGKTLLAKALANEAGM----NFLSVKGPE--  503 (693)
T ss_pred             hhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCC---CCceEEEECCCCcchHHHHHHHhhhhcC----CeeeccCHH--
Confidence            456777888888888777533        33333   3448999999999999999999987533    366664433  


Q ss_pred             ccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccC-----------HHHHHHHHHhhccceeecCCCcEE
Q psy1308         339 EKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAH-----------PDVLTVLLQLFDEGRLTDGKGKTI  407 (607)
Q Consensus       339 ~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~-----------~~~~~~Ll~~~~~~~~~~~~g~~~  407 (607)
                         ..+++.|..+..+     ..+....+++..+|+||||||.+-           ..+++.||.-|+...         
T Consensus       504 ---L~sk~vGeSEr~i-----r~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e---------  566 (693)
T KOG0730|consen  504 ---LFSKYVGESERAI-----REVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLE---------  566 (693)
T ss_pred             ---HHHHhcCchHHHH-----HHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHccccc---------
Confidence               3455555332211     234555566667999999998753           336677777776321         


Q ss_pred             ecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--ccc
Q psy1308         408 ECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RIN  485 (607)
Q Consensus       408 ~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~  485 (607)
                      ..++++||.+||...                                           .+.         +.++.  |+|
T Consensus       567 ~~k~V~ViAATNRpd-------------------------------------------~ID---------~ALlRPGRlD  594 (693)
T KOG0730|consen  567 ALKNVLVIAATNRPD-------------------------------------------MID---------PALLRPGRLD  594 (693)
T ss_pred             ccCcEEEEeccCChh-------------------------------------------hcC---------HHHcCCcccc
Confidence            226899999999321                                           111         45555  999


Q ss_pred             ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCCccchhHHHHHHHHHHHHHHHH
Q psy1308         486 EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGARSIKHEVERQVVSQLAAAHE  561 (607)
Q Consensus       486 ~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l  561 (607)
                      .++.+.+.+.+.-.+|++....            .+.+++++ ++.|++ ....+-.++|....+++-..++.+-+.
T Consensus       595 ~iiyVplPD~~aR~~Ilk~~~k------------kmp~~~~vdl~~La~-~T~g~SGAel~~lCq~A~~~a~~e~i~  658 (693)
T KOG0730|consen  595 RIIYVPLPDLEARLEILKQCAK------------KMPFSEDVDLEELAQ-ATEGYSGAEIVAVCQEAALLALRESIE  658 (693)
T ss_pred             eeEeecCccHHHHHHHHHHHHh------------cCCCCccccHHHHHH-HhccCChHHHHHHHHHHHHHHHHHhcc
Confidence            9888888888888888665553            23345553 566664 334444567888888877777755543

>KOG2028|consensus

Probab=99.22  E-value=8e-11  Score=114.16  Aligned_cols=173  Identities=16%  Similarity=0.274  Sum_probs=115.2

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      +++||||+|+|||.||+.|+...... ...|+.+....- ...++..+|...           -.+........|+|+||
T Consensus       164 SmIlWGppG~GKTtlArlia~tsk~~-SyrfvelSAt~a-~t~dvR~ife~a-----------q~~~~l~krkTilFiDE  230 (554)
T KOG2028|consen  164 SMILWGPPGTGKTTLARLIASTSKKH-SYRFVELSATNA-KTNDVRDIFEQA-----------QNEKSLTKRKTILFIDE  230 (554)
T ss_pred             ceEEecCCCCchHHHHHHHHhhcCCC-ceEEEEEecccc-chHHHHHHHHHH-----------HHHHhhhcceeEEEeHH
Confidence            68899999999999999999765433 233555443322 223344444211           11122234468999999


Q ss_pred             CCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhc
Q psy1308         379 VDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTI  458 (607)
Q Consensus       379 iek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  458 (607)
                      |++.+...|+.||..+|+|.+             ++|-+|.-...                                   
T Consensus       231 iHRFNksQQD~fLP~VE~G~I-------------~lIGATTENPS-----------------------------------  262 (554)
T KOG2028|consen  231 IHRFNKSQQDTFLPHVENGDI-------------TLIGATTENPS-----------------------------------  262 (554)
T ss_pred             hhhhhhhhhhcccceeccCce-------------EEEecccCCCc-----------------------------------
Confidence            999999999999999998864             35555441100                                   


Q ss_pred             chhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHh---hcCCcEEEeCHhHHHHHHccC
Q psy1308         459 SRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKAL---DKHNINIVWDIDVETILADGY  535 (607)
Q Consensus       459 ~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~---~~~~i~l~~~~~a~~~L~~~~  535 (607)
                         |           ++ +..|++|. .+++..+|..+++..|+.+.+..+..--+   ..-+-.+.+++.++++|+  |
T Consensus       263 ---F-----------ql-n~aLlSRC-~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla--~  324 (554)
T KOG2028|consen  263 ---F-----------QL-NAALLSRC-RVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLA--Y  324 (554)
T ss_pred             ---c-----------ch-hHHHHhcc-ceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHH--H
Confidence               0           01 26788999 57788999999999999987775543111   111224578999999997  5


Q ss_pred             CCCCCccchhHHHHH
Q psy1308         536 DVHYGARSIKHEVER  550 (607)
Q Consensus       536 ~~~~GaR~L~~~i~~  550 (607)
                      -..+.+|.--+.+|-
T Consensus       325 lsdGDaR~aLN~Lem  339 (554)
T KOG2028|consen  325 LSDGDARAALNALEM  339 (554)
T ss_pred             hcCchHHHHHHHHHH
Confidence            566778866666664

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.22  E-value=2e-10  Score=126.84  Aligned_cols=136  Identities=19%  Similarity=0.189  Sum_probs=91.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhcc-------------------------
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR-------------------------  323 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~-------------------------  323 (607)
                      .++||+.++..+..+......        -.++|.|++|+|||.+++.++..+..                         
T Consensus         5 ~ivGq~~~~~al~~~av~~~~--------g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~~~~~~~   76 (633)
T TIGR02442         5 AIVGQEDLKLALLLNAVDPRI--------GGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEWCEECRR   76 (633)
T ss_pred             hhcChHHHHHHHHHHhhCCCC--------CeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCccccChhhhh
Confidence            589999988777554433221        25999999999999999999999831                         


Q ss_pred             ------CcCCceEEeecccccccchhHhhhcCCC--C--CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHh
Q psy1308         324 ------DKKEAFIRLDMSEYQEKHEVAKLIGAPP--G--YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQL  393 (607)
Q Consensus       324 ------~~~~~~~~l~~a~~~~~~~~~~llg~~~--g--~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~  393 (607)
                            ....+|+.+.++..     ...++|...  .  ..|.  .....+.+..+.+||+|||||+++++.+|+.|+++
T Consensus        77 ~~~~~~~~~~pfv~~p~~~t-----~~~l~G~~d~~~~l~~g~--~~~~~G~L~~A~~GiL~lDEi~~l~~~~q~~Ll~~  149 (633)
T TIGR02442        77 KYRPSEQRPVPFVNLPLGAT-----EDRVVGSLDIERALREGE--KAFQPGLLAEAHRGILYIDEVNLLDDHLVDVLLDA  149 (633)
T ss_pred             cccccccCCCCeeeCCCCCc-----HHHcCCcccHHHHhhcCC--eeecCcceeecCCCeEEeChhhhCCHHHHHHHHHH
Confidence                  00245666554432     345555310  0  0010  01123456678899999999999999999999999


Q ss_pred             hcccee--ecCCCcEEecCceEEEEecC
Q psy1308         394 FDEGRL--TDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       394 ~~~~~~--~~~~g~~~~~~~~~iI~tsn  419 (607)
                      +++|.+  ...+.......++++|+|+|
T Consensus       150 le~g~~~v~r~g~~~~~~~~~~lIat~n  177 (633)
T TIGR02442       150 AAMGVNRVEREGLSVSHPARFVLIGTMN  177 (633)
T ss_pred             HhcCCEEEEECCceeeecCCeEEEEecC
Confidence            999964  33333333346788999988

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.22  E-value=2.1e-10  Score=128.38  Aligned_cols=200  Identities=17%  Similarity=0.201  Sum_probs=122.0

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC---CceEEe-eccccc----c
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK---EAFIRL-DMSEYQ----E  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~---~~~~~l-~~a~~~----~  339 (607)
                      ..++||+..++.|...+...+.       +-.+||+|+.|+|||.+++.+++.++-...   .++-.. .|-.+.    +
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~ri-------~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~   87 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGRI-------NHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPG   87 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCC-------CceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCC
Confidence            4689999999999888875431       225899999999999999999999864211   111000 000000    0


Q ss_pred             cchhHhhhcCCCCCccCCCCchhhHHHh----hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEE
Q psy1308         340 KHEVAKLIGAPPGYLGHDDGGQLTKRLK----KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFV  415 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~~~~~l~~~~~----~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI  415 (607)
                      +..+..+-+.  ...|-++-..+.+.+.    ...+.|+||||+|+++.+.++.||++||+-           ..+++||
T Consensus        88 ~~dv~eidaa--s~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEp-----------P~~~~fI  154 (824)
T PRK07764         88 SLDVTEIDAA--SHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEP-----------PEHLKFI  154 (824)
T ss_pred             CCcEEEeccc--ccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCC-----------CCCeEEE
Confidence            0111111000  0001111111111111    234679999999999999999999999962           2577888


Q ss_pred             EecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCH
Q psy1308         416 MTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSK  495 (607)
Q Consensus       416 ~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~  495 (607)
                      |+++.. +.                                                  +. +.+.+|. .++.|.+++.
T Consensus       155 l~tt~~-~k--------------------------------------------------Ll-~TIrSRc-~~v~F~~l~~  181 (824)
T PRK07764        155 FATTEP-DK--------------------------------------------------VI-GTIRSRT-HHYPFRLVPP  181 (824)
T ss_pred             EEeCCh-hh--------------------------------------------------hh-HHHHhhe-eEEEeeCCCH
Confidence            887621 11                                                  11 4566777 6789999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         496 SELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       496 ~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      +++.+++...+..       . +  +.++++++.+|+...  .+..|...+.+++.+
T Consensus       182 ~~l~~~L~~il~~-------E-G--v~id~eal~lLa~~s--gGdlR~Al~eLEKLi  226 (824)
T PRK07764        182 EVMRGYLERICAQ-------E-G--VPVEPGVLPLVIRAG--GGSVRDSLSVLDQLL  226 (824)
T ss_pred             HHHHHHHHHHHHH-------c-C--CCCCHHHHHHHHHHc--CCCHHHHHHHHHHHH
Confidence            9998887665532       1 3  457888888887411  244666666666543

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.22  E-value=2.8e-10  Score=117.34  Aligned_cols=197  Identities=18%  Similarity=0.292  Sum_probs=125.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~l  346 (607)
                      ..++|++..++.+...+....        +.+++|+||+|+|||.+++.+++.+.... ..+++.++++.+....  ...
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~--------~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~--~~~   84 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPN--------LPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQG--KKY   84 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCC--------CceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcc--hhh
Confidence            357899999888877765321        22688999999999999999999886542 2356777776543211  011


Q ss_pred             hcCCCCCc---c------CCCCchhhHHHh--------hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEec
Q psy1308         347 IGAPPGYL---G------HDDGGQLTKRLK--------KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIEC  409 (607)
Q Consensus       347 lg~~~g~~---g------~~~~~~l~~~~~--------~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~  409 (607)
                      ++..+.+.   +      ......+...++        ..+..+|++||++.+++..++.|..++++..           
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~-----------  153 (337)
T PRK12402         85 LVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYS-----------  153 (337)
T ss_pred             hhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhcc-----------
Confidence            11111100   0      000111222111        1345799999999999999999999987431           


Q ss_pred             CceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceee
Q psy1308         410 KDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVY  489 (607)
Q Consensus       410 ~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~  489 (607)
                      .+++||++++....                                                   +. +.+.+|. ..+.
T Consensus       154 ~~~~~Il~~~~~~~---------------------------------------------------~~-~~L~sr~-~~v~  180 (337)
T PRK12402        154 RTCRFIIATRQPSK---------------------------------------------------LI-PPIRSRC-LPLF  180 (337)
T ss_pred             CCCeEEEEeCChhh---------------------------------------------------Cc-hhhcCCc-eEEE
Confidence            23567777662110                                                   11 4456665 4688


Q ss_pred             eccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         490 FLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       490 f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      |.|++.+++..++...+..        .++  .+++++++.|+. +. +++.|.+.+.++.
T Consensus       181 ~~~~~~~~~~~~l~~~~~~--------~~~--~~~~~al~~l~~-~~-~gdlr~l~~~l~~  229 (337)
T PRK12402        181 FRAPTDDELVDVLESIAEA--------EGV--DYDDDGLELIAY-YA-GGDLRKAILTLQT  229 (337)
T ss_pred             ecCCCHHHHHHHHHHHHHH--------cCC--CCCHHHHHHHHH-Hc-CCCHHHHHHHHHH
Confidence            9999999988876665431        233  489999999986 44 6778877777664

>PHA02244 ATPase-like protein

Probab=99.22  E-value=7.5e-10  Score=110.71  Aligned_cols=134  Identities=15%  Similarity=0.211  Sum_probs=90.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      ..+++...+......+.+....      ..++++.||+|+|||.+++.++..+.    .+|+.++.  ..   ....+.|
T Consensus        97 ~~ig~sp~~~~~~~ri~r~l~~------~~PVLL~GppGtGKTtLA~aLA~~lg----~pfv~In~--l~---d~~~L~G  161 (383)
T PHA02244         97 TKIASNPTFHYETADIAKIVNA------NIPVFLKGGAGSGKNHIAEQIAEALD----LDFYFMNA--IM---DEFELKG  161 (383)
T ss_pred             cccCCCHHHHHHHHHHHHHHhc------CCCEEEECCCCCCHHHHHHHHHHHhC----CCEEEEec--Ch---HHHhhcc
Confidence            3566666666555555444322      34688999999999999999999864    35887762  11   1223444


Q ss_pred             CCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         349 APPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                      ...+.... ..+.+...+  ..+++++||||+.++++++..|..+++++.+...++......++++|+|+|.
T Consensus       162 ~i~~~g~~-~dgpLl~A~--~~GgvLiLDEId~a~p~vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~  230 (383)
T PHA02244        162 FIDANGKF-HETPFYEAF--KKGGLFFIDEIDASIPEALIIINSAIANKFFDFADERVTAHEDFRVISAGNT  230 (383)
T ss_pred             cccccccc-cchHHHHHh--hcCCEEEEeCcCcCCHHHHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCC
Confidence            21111011 112333333  4678999999999999999999999998877776666545578899999995

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.22  E-value=2.5e-10  Score=114.93  Aligned_cols=142  Identities=19%  Similarity=0.185  Sum_probs=84.1

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CC----ceEEe----eccc--
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KE----AFIRL----DMSE--  336 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~----~~~~l----~~a~--  336 (607)
                      ..++||+.+++.+..+......        -+++|.|++|+|||.++|.++..++.-. .+    .+.+.    ++..  
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~~~--------~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~~~~~~~~~   79 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDPGI--------GGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAHVS   79 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhccCC--------CcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccCCccccccc
Confidence            3588999999877654322111        1699999999999999999999985310 00    01111    1100  


Q ss_pred             -------------ccccchhHhhhcCC---CC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhcccee
Q psy1308         337 -------------YQEKHEVAKLIGAP---PG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRL  399 (607)
Q Consensus       337 -------------~~~~~~~~~llg~~---~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~  399 (607)
                                   .........++|.-   .. ..|  ......+.+..+.+|++++|||+.+++.+|+.|++.+++|.+
T Consensus        80 ~~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g--~~~~~~G~l~~A~~GiL~lDEInrl~~~~q~~Lle~mee~~v  157 (334)
T PRK13407         80 STTMIERPTPVVDLPLGVTEDRVVGALDIERALTRG--EKAFEPGLLARANRGYLYIDEVNLLEDHIVDLLLDVAQSGEN  157 (334)
T ss_pred             CCcccccCCccccCCCCCCcceeecchhhhhhhhcC--CeeecCCceEEcCCCeEEecChHhCCHHHHHHHHHHHHcCCe
Confidence                         00011112244320   00 000  001123445567789999999999999999999999999874


Q ss_pred             e--cCCCcEEecCceEEEEecC
Q psy1308         400 T--DGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       400 ~--~~~g~~~~~~~~~iI~tsn  419 (607)
                      +  ..+.........++|+|+|
T Consensus       158 ~v~r~G~~~~~p~rfiviAt~N  179 (334)
T PRK13407        158 VVEREGLSIRHPARFVLVGSGN  179 (334)
T ss_pred             EEEECCeEEecCCCEEEEecCC
Confidence            3  3322222234567777777

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.21  E-value=1.3e-10  Score=112.57  Aligned_cols=163  Identities=15%  Similarity=0.212  Sum_probs=113.0

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      +.+++++|++|+|||.+++.++...... ...+..++++.+....  ..++                ..++  ..++|+|
T Consensus        38 ~~~lll~G~~G~GKT~la~~~~~~~~~~-~~~~~~i~~~~~~~~~--~~~~----------------~~~~--~~~lLvI   96 (226)
T TIGR03420        38 DRFLYLWGESGSGKSHLLQAACAAAEER-GKSAIYLPLAELAQAD--PEVL----------------EGLE--QADLVCL   96 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhc-CCcEEEEeHHHHHHhH--HHHH----------------hhcc--cCCEEEE
Confidence            4578999999999999999999987654 4567788887764321  1121                1111  2359999


Q ss_pred             ecCCccCHHH--HHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCc
Q psy1308         377 DEVDKAHPDV--LTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNL  454 (607)
Q Consensus       377 DEiek~~~~~--~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  454 (607)
                      ||++.++...  +..|..+++...  +        .+..+|+||+......                             
T Consensus        97 Ddi~~l~~~~~~~~~L~~~l~~~~--~--------~~~~iIits~~~~~~~-----------------------------  137 (226)
T TIGR03420        97 DDVEAIAGQPEWQEALFHLYNRVR--E--------AGGRLLIAGRAAPAQL-----------------------------  137 (226)
T ss_pred             eChhhhcCChHHHHHHHHHHHHHH--H--------cCCeEEEECCCChHHC-----------------------------
Confidence            9999998744  888888876321  1        1235778887432211                             


Q ss_pred             chhcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         455 DVTISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       455 ~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                                        .... ++|.+|+.  ..+.+.|++.++...++...+.       . .  .+.++++++++|+
T Consensus       138 ------------------~~~~-~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~-------~-~--~~~~~~~~l~~L~  188 (226)
T TIGR03420       138 ------------------PLRL-PDLRTRLAWGLVFQLPPLSDEEKIAALQSRAA-------R-R--GLQLPDEVADYLL  188 (226)
T ss_pred             ------------------Cccc-HHHHHHHhcCeeEecCCCCHHHHHHHHHHHHH-------H-c--CCCCCHHHHHHHH
Confidence                              0011 56677764  5688899999998888754432       1 1  2568999999999


Q ss_pred             ccCCCCCCccchhHHHHH
Q psy1308         533 DGYDVHYGARSIKHEVER  550 (607)
Q Consensus       533 ~~~~~~~GaR~L~~~i~~  550 (607)
                      . + |+++.|+|++++++
T Consensus       189 ~-~-~~gn~r~L~~~l~~  204 (226)
T TIGR03420       189 R-H-GSRDMGSLMALLDA  204 (226)
T ss_pred             H-h-ccCCHHHHHHHHHH
Confidence            6 5 99999999999987

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.19  E-value=4.5e-10  Score=111.28  Aligned_cols=127  Identities=15%  Similarity=0.208  Sum_probs=78.0

Q ss_pred             HHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCcc
Q psy1308         276 AINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLG  355 (607)
Q Consensus       276 ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g  355 (607)
                      .++.+...+.+.......-..|+.++++||+|+|||.++++++..+..    +|+.++.++..     .+       |+|
T Consensus       127 f~dk~~~hi~kn~l~~~~ik~PlgllL~GPPGcGKTllAraiA~elg~----~~i~vsa~eL~-----sk-------~vG  190 (413)
T PLN00020        127 FMDKVAVHIAKNFLALPNIKVPLILGIWGGKGQGKSFQCELVFKKMGI----EPIVMSAGELE-----SE-------NAG  190 (413)
T ss_pred             HHHHHHHHHHhhhhhccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCC----CeEEEEHHHhh-----cC-------cCC
Confidence            344444444444333344456789999999999999999999998854    37888776552     22       333


Q ss_pred             CCCCchhhHHHhh--------CCCeEEEEecCCccCHH-----------H-HHHHHHhhccceeecCCC-c--EEecCce
Q psy1308         356 HDDGGQLTKRLKK--------CPNAVVLFDEVDKAHPD-----------V-LTVLLQLFDEGRLTDGKG-K--TIECKDA  412 (607)
Q Consensus       356 ~~~~~~l~~~~~~--------~~~~vl~lDEiek~~~~-----------~-~~~Ll~~~~~~~~~~~~g-~--~~~~~~~  412 (607)
                       +.+..+.+.++.        ...++|||||||.+-+.           + ...||.++|+-......| |  .-....+
T Consensus       191 -EsEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V  269 (413)
T PLN00020        191 -EPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRV  269 (413)
T ss_pred             -cHHHHHHHHHHHHHHHhhccCCCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCc
Confidence             222334444432        24799999999986432           2 356888887432111111 1  0123568


Q ss_pred             EEEEecC
Q psy1308         413 IFVMTSN  419 (607)
Q Consensus       413 ~iI~tsn  419 (607)
                      .||+|||
T Consensus       270 ~VIaTTN  276 (413)
T PLN00020        270 PIIVTGN  276 (413)
T ss_pred             eEEEeCC
Confidence            8999999

>KOG0989|consensus

Probab=99.19  E-value=2.5e-10  Score=108.96  Aligned_cols=173  Identities=20%  Similarity=0.276  Sum_probs=115.9

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCce--EEeecccccccchhH--
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAF--IRLDMSEYQEKHEVA--  344 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~--~~l~~a~~~~~~~~~--  344 (607)
                      .++||+..+..+..++.+ ..       -.+++|+||+|||||..++++++.++..+-.+.  ..++.+...+..-+.  
T Consensus        37 e~~gQe~vV~~L~~a~~~-~~-------lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~K  108 (346)
T KOG0989|consen   37 ELAGQEHVVQVLKNALLR-RI-------LPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREK  108 (346)
T ss_pred             hhcchHHHHHHHHHHHhh-cC-------CceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhh
Confidence            589999999999999987 22       127999999999999999999999987432222  223444333322111  


Q ss_pred             -----hhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         345 -----KLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       345 -----~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                           ++.....+..|          -...++-|++|||.|.++.+.|..|.+.||+-           ..+++||+.+|
T Consensus       109 ik~fakl~~~~~~~~~----------~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~-----------s~~trFiLIcn  167 (346)
T KOG0989|consen  109 IKNFAKLTVLLKRSDG----------YPCPPFKIIILDECDSMTSDAQAALRRTMEDF-----------SRTTRFILICN  167 (346)
T ss_pred             hcCHHHHhhccccccC----------CCCCcceEEEEechhhhhHHHHHHHHHHHhcc-----------ccceEEEEEcC
Confidence                 11110000000          01234679999999999999999999999952           36789999999


Q ss_pred             cchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHH
Q psy1308         420 LASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELH  499 (607)
Q Consensus       420 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~  499 (607)
                      .-..                                                   . ++.+.+|... +.|.||..+++.
T Consensus       168 ylsr---------------------------------------------------i-i~pi~SRC~K-frFk~L~d~~iv  194 (346)
T KOG0989|consen  168 YLSR---------------------------------------------------I-IRPLVSRCQK-FRFKKLKDEDIV  194 (346)
T ss_pred             Chhh---------------------------------------------------C-ChHHHhhHHH-hcCCCcchHHHH
Confidence            3211                                                   1 1567788854 688999887766


Q ss_pred             HHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         500 TLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       500 ~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      +.++    .++.   .+   .+.+++++++.|++
T Consensus       195 ~rL~----~Ia~---~E---~v~~d~~al~~I~~  218 (346)
T KOG0989|consen  195 DRLE----KIAS---KE---GVDIDDDALKLIAK  218 (346)
T ss_pred             HHHH----HHHH---Hh---CCCCCHHHHHHHHH
Confidence            5533    2222   12   46788999999885

>KOG1710|consensus

Probab=99.19  E-value=1.2e-10  Score=108.75  Aligned_cols=118  Identities=23%  Similarity=0.211  Sum_probs=98.3

Q ss_pred             chHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCC
Q psy1308          31 SSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSK  110 (607)
Q Consensus        31 ~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~  110 (607)
                      ..||.-|+-.|..+-..-|++.                       ....+..|.+|.|+|..|+..|+.+.|++||+.| 
T Consensus        13 ~~~Lle~i~Kndt~~a~~LLs~-----------------------vr~vn~~D~sGMs~LahAaykGnl~~v~lll~~g-   68 (396)
T KOG1710|consen   13 KSPLLEAIDKNDTEAALALLST-----------------------VRQVNQRDPSGMSVLAHAAYKGNLTLVELLLELG-   68 (396)
T ss_pred             hhHHHHHHccCcHHHHHHHHHH-----------------------hhhhhccCCCcccHHHHHHhcCcHHHHHHHHHhC-
Confidence            4677777777777766666433                       1224678999999999999999999999999999 


Q ss_pred             CCCccC-CCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHh
Q psy1308         111 LDVNMR-HPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLK  172 (607)
Q Consensus       111 ~~~~~~-d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~  172 (607)
                      +|+|.. +..++||||+|+-+|+.++.++|++.|+.+...++  .|+-..||.-|+.++|..+-.
T Consensus        69 aDvN~~qhg~~YTpLmFAALSGn~dvcrllldaGa~~~~vNsvgrTAaqmAAFVG~H~CV~iINN  133 (396)
T KOG1710|consen   69 ADVNDKQHGTLYTPLMFAALSGNQDVCRLLLDAGARMYLVNSVGRTAAQMAAFVGHHECVAIINN  133 (396)
T ss_pred             CCcCcccccccccHHHHHHHcCCchHHHHHHhccCccccccchhhhHHHHHHHhcchHHHHHHhc
Confidence            999865 56789999999999999999999999999988776  568888888888888876543

>PTZ00322 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional

Probab=99.18  E-value=8.9e-11  Score=130.56  Aligned_cols=95  Identities=22%  Similarity=0.115  Sum_probs=85.3

Q ss_pred             hHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCC
Q psy1308          32 SKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKL  111 (607)
Q Consensus        32 t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~  111 (607)
                      +.||.|+..|+.+.++.|+..+...                       +..|..|+||||+||..|+.+++++|++.| +
T Consensus        84 ~~L~~aa~~G~~~~vk~LL~~Gadi-----------------------n~~d~~G~TpLh~Aa~~g~~eiv~~LL~~G-a  139 (664)
T PTZ00322         84 VELCQLAASGDAVGARILLTGGADP-----------------------NCRDYDGRTPLHIACANGHVQVVRVLLEFG-A  139 (664)
T ss_pred             HHHHHHHHcCCHHHHHHHHHCCCCC-----------------------CCcCCCCCcHHHHHHHCCCHHHHHHHHHCC-C
Confidence            4589999999999999998776433                       356889999999999999999999999998 9


Q ss_pred             CCccCCCCCCcHHHHHHHcCCHHHHHHHHHc-------CCCCCCCC
Q psy1308         112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEA-------GANPNLGD  150 (607)
Q Consensus       112 ~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~-------ga~~~~~d  150 (607)
                      ++|.+|..|.||||+|+..|+.+++++|+++       |++++..+
T Consensus       140 dvn~~d~~G~TpLh~A~~~g~~~iv~~Ll~~~~~~~~~ga~~~~~~  185 (664)
T PTZ00322        140 DPTLLDKDGKTPLELAEENGFREVVQLLSRHSQCHFELGANAKPDS  185 (664)
T ss_pred             CCCCCCCCCCCHHHHHHHCCcHHHHHHHHhCCCcccccCCCCCccc
Confidence            9999999999999999999999999999998       77666544

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.18  E-value=5e-10  Score=115.79  Aligned_cols=200  Identities=18%  Similarity=0.196  Sum_probs=120.6

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEEe-ecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIRL-DMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~l-~~a~~~~~~~~  343 (607)
                      ..++||+.+++.+...+.....       |-.++|+||+|+|||.+|+.+++.++...   ..++-.. .|....... .
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~~-------~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~-~   87 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGRI-------HHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGL-C   87 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCCC-------CeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCC-C
Confidence            4689999999998887764321       22579999999999999999999886321   1111000 000000000 0


Q ss_pred             HhhhcCCCC-CccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEec
Q psy1308         344 AKLIGAPPG-YLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTS  418 (607)
Q Consensus       344 ~~llg~~~g-~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~ts  418 (607)
                      ..++...++ ..+.++-..+...+...    .+.+++|||+++++...++.|++.+++.           ..+++||++|
T Consensus        88 ~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~-----------~~~~~fIl~t  156 (363)
T PRK14961         88 LDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEP-----------PQHIKFILAT  156 (363)
T ss_pred             CceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcC-----------CCCeEEEEEc
Confidence            000000011 01111111122222222    3569999999999999999999999853           2456788877


Q ss_pred             CcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHH
Q psy1308         419 NLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSEL  498 (607)
Q Consensus       419 n~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~  498 (607)
                      +-. ..                                                  +. +.+.+|. ..+.|.|++.+++
T Consensus       157 ~~~-~~--------------------------------------------------l~-~tI~SRc-~~~~~~~l~~~el  183 (363)
T PRK14961        157 TDV-EK--------------------------------------------------IP-KTILSRC-LQFKLKIISEEKI  183 (363)
T ss_pred             CCh-Hh--------------------------------------------------hh-HHHHhhc-eEEeCCCCCHHHH
Confidence            621 11                                                  11 5567777 5789999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         499 HTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       499 ~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      .+++...+..        .+  +.+++++++.|+. +. .++.|..-+.+++.
T Consensus       184 ~~~L~~~~~~--------~g--~~i~~~al~~ia~-~s-~G~~R~al~~l~~~  224 (363)
T PRK14961        184 FNFLKYILIK--------ES--IDTDEYALKLIAY-HA-HGSMRDALNLLEHA  224 (363)
T ss_pred             HHHHHHHHHH--------cC--CCCCHHHHHHHHH-Hc-CCCHHHHHHHHHHH
Confidence            9887665532        12  4578999998875 22 34567666666554

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.18  E-value=5.7e-10  Score=117.40  Aligned_cols=186  Identities=17%  Similarity=0.276  Sum_probs=122.6

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CC-----------------
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KE-----------------  327 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~-----------------  327 (607)
                      ..++||+..++.+..++.....       |-.++|+||+|+|||.+|+.+|+.++-..   ..                 
T Consensus        13 ~dliGQe~vv~~L~~a~~~~ri-------~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~   85 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNKI-------PQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHP   85 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCC
Confidence            4689999999988877764431       33799999999999999999999875321   11                 


Q ss_pred             ceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCC
Q psy1308         328 AFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGK  403 (607)
Q Consensus       328 ~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~  403 (607)
                      .++.+|.+...+-..+.                .+.+.+...    .+-+++|||++.++.+.++.|++.+|+-      
T Consensus        86 Dv~eidaas~~~vddIR----------------~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEeP------  143 (491)
T PRK14964         86 DVIEIDAASNTSVDDIK----------------VILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEP------  143 (491)
T ss_pred             CEEEEecccCCCHHHHH----------------HHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCC------
Confidence            12223322222211222                222223323    3679999999999999999999999963      


Q ss_pred             CcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcc
Q psy1308         404 GKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGR  483 (607)
Q Consensus       404 g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~r  483 (607)
                           ..+++||++++-- ..                                                  +. +.+.+|
T Consensus       144 -----p~~v~fIlatte~-~K--------------------------------------------------l~-~tI~SR  166 (491)
T PRK14964        144 -----APHVKFILATTEV-KK--------------------------------------------------IP-VTIISR  166 (491)
T ss_pred             -----CCCeEEEEEeCCh-HH--------------------------------------------------HH-HHHHHh
Confidence                 2467888887611 00                                                  11 445666


Q ss_pred             ccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         484 INEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       484 i~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      . ..+.|.|++.+++...+...+..       .   .+.+++++++.|++..  .++.|.+-+.+++.+
T Consensus       167 c-~~~~f~~l~~~el~~~L~~ia~~-------E---gi~i~~eAL~lIa~~s--~GslR~alslLdqli  222 (491)
T PRK14964        167 C-QRFDLQKIPTDKLVEHLVDIAKK-------E---NIEHDEESLKLIAENS--SGSMRNALFLLEQAA  222 (491)
T ss_pred             h-eeeecccccHHHHHHHHHHHHHH-------c---CCCCCHHHHHHHHHHc--CCCHHHHHHHHHHHH
Confidence            6 56899999999988886655542       1   3467899999887511  356676666666543

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.18  E-value=2.4e-10  Score=120.92  Aligned_cols=195  Identities=22%  Similarity=0.311  Sum_probs=119.9

Q ss_pred             HhhhhHHHHHHHHHHHHH-----hhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         269 RIVGQESAINIISAAIKR-----KENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~-----~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      .+.|.+...+.+......     ...|.   ..|..++|+||+|||||.+|++++..+.    -+|+.++++.+.     
T Consensus       229 dvgGl~~lK~~l~~~~~~~~~~~~~~gl---~~pkGILL~GPpGTGKTllAkaiA~e~~----~~~~~l~~~~l~-----  296 (489)
T CHL00195        229 DIGGLDNLKDWLKKRSTSFSKQASNYGL---PTPRGLLLVGIQGTGKSLTAKAIANDWQ----LPLLRLDVGKLF-----  296 (489)
T ss_pred             HhcCHHHHHHHHHHHHHHhhHHHHhcCC---CCCceEEEECCCCCcHHHHHHHHHHHhC----CCEEEEEhHHhc-----
Confidence            466666555555432211     11222   2345799999999999999999999874    459999986432     


Q ss_pred             HhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccCH------------HHHHHHHHhhccceeecCCCcEEec
Q psy1308         344 AKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAHP------------DVLTVLLQLFDEGRLTDGKGKTIEC  409 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~~------------~~~~~Ll~~~~~~~~~~~~g~~~~~  409 (607)
                          +   +|+|..+.  ..+....+....+||||||||++-.            .+...|+..+++.           .
T Consensus       297 ----~---~~vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~-----------~  358 (489)
T CHL00195        297 ----G---GIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEK-----------K  358 (489)
T ss_pred             ----c---cccChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcC-----------C
Confidence                1   23332111  1233444566789999999998633            2445566666532           1


Q ss_pred             CceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--ccccce
Q psy1308         410 KDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRINEI  487 (607)
Q Consensus       410 ~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~~i  487 (607)
                      .++++|+|||... .                                                  + +|+++  +|||.+
T Consensus       359 ~~V~vIaTTN~~~-~--------------------------------------------------L-d~allR~GRFD~~  386 (489)
T CHL00195        359 SPVFVVATANNID-L--------------------------------------------------L-PLEILRKGRFDEI  386 (489)
T ss_pred             CceEEEEecCChh-h--------------------------------------------------C-CHHHhCCCcCCeE
Confidence            4678999999211 0                                                  1 15555  499998


Q ss_pred             eeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHH
Q psy1308         488 VYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQ  555 (607)
Q Consensus       488 v~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~  555 (607)
                      +.+.+++.++..+|++..+.....        . ..++.-++.|++ ....+..+.|++.+......+
T Consensus       387 i~v~lP~~~eR~~Il~~~l~~~~~--------~-~~~~~dl~~La~-~T~GfSGAdI~~lv~eA~~~A  444 (489)
T CHL00195        387 FFLDLPSLEEREKIFKIHLQKFRP--------K-SWKKYDIKKLSK-LSNKFSGAEIEQSIIEAMYIA  444 (489)
T ss_pred             EEeCCcCHHHHHHHHHHHHhhcCC--------C-cccccCHHHHHh-hcCCCCHHHHHHHHHHHHHHH
Confidence            888888999999999888864211        0 112223455654 444555566777666554433

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.17  E-value=4.4e-10  Score=121.50  Aligned_cols=199  Identities=18%  Similarity=0.231  Sum_probs=120.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCC---ceEEeecccccccchh-
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKE---AFIRLDMSEYQEKHEV-  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~---~~~~l~~a~~~~~~~~-  343 (607)
                      ..++||+..++.+...+.....       |-.++|+||+|+|||.+++.+++.++..+..   +.+.--|.....-..+ 
T Consensus        16 ~dviGQe~vv~~L~~~l~~~rl-------~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~   88 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQRL-------HHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDID   88 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHH
Confidence            3588999999999888875532       2357999999999999999999998743111   1000011100000000 


Q ss_pred             ----HhhhcCCCC-CccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         344 ----AKLIGAPPG-YLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       344 ----~~llg~~~g-~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                          ..++.-.+. ..|-++-..+.+.+...    .+-|++|||+|.++.+.++.|++.+|+.           ..+++|
T Consensus        89 ~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEP-----------P~~~~f  157 (618)
T PRK14951         89 SGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEP-----------PEYLKF  157 (618)
T ss_pred             cCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccC-----------CCCeEE
Confidence                001100000 11111111122222222    3679999999999999999999999863           256778


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |++|+-. ..+                                                  . +-+.+|. .++.|.|++
T Consensus       158 IL~Ttd~-~ki--------------------------------------------------l-~TIlSRc-~~~~f~~Ls  184 (618)
T PRK14951        158 VLATTDP-QKV--------------------------------------------------P-VTVLSRC-LQFNLRPMA  184 (618)
T ss_pred             EEEECCc-hhh--------------------------------------------------h-HHHHHhc-eeeecCCCC
Confidence            8887621 111                                                  1 4577787 678999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHH
Q psy1308         495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVE  549 (607)
Q Consensus       495 ~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~  549 (607)
                      .+++.+.+...+..        .|  +.++++++++|++ + ..++.|.+-+.++
T Consensus       185 ~eei~~~L~~i~~~--------eg--i~ie~~AL~~La~-~-s~GslR~al~lLd  227 (618)
T PRK14951        185 PETVLEHLTQVLAA--------EN--VPAEPQALRLLAR-A-ARGSMRDALSLTD  227 (618)
T ss_pred             HHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCCCHHHHHHHHH
Confidence            99998887765531        13  4578888888875 1 2245555555444

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.17  E-value=8.2e-10  Score=119.04  Aligned_cols=199  Identities=20%  Similarity=0.215  Sum_probs=123.0

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC---CceEEe-eccccc----c
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK---EAFIRL-DMSEYQ----E  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~---~~~~~l-~~a~~~----~  339 (607)
                      ..++||+.+++.+...+.....       |-.++|+||+|+|||.+|+.+++.++....   .++-.. .|-.+.    +
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r~-------~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~   85 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGRI-------NHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPG   85 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCC
Confidence            4689999999999888864321       224799999999999999999998874211   111100 011110    0


Q ss_pred             cchhHhhhcCCCCCccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEE
Q psy1308         340 KHEVAKLIGAPPGYLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFV  415 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI  415 (607)
                      +..+.++-+.  ...|-++-..+.+.+..    +++-|++|||++.++.+.++.||+.+++-           ..+++||
T Consensus        86 ~~dvieidaa--s~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEp-----------p~~~~fI  152 (584)
T PRK14952         86 SIDVVELDAA--SHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEP-----------PEHLIFI  152 (584)
T ss_pred             CceEEEeccc--cccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcC-----------CCCeEEE
Confidence            1111111110  01111111122222222    34679999999999999999999999952           3577888


Q ss_pred             EecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCH
Q psy1308         416 MTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSK  495 (607)
Q Consensus       416 ~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~  495 (607)
                      ++|+-. ..                                                  +. +.+.+|. ..+.|.|++.
T Consensus       153 L~tte~-~k--------------------------------------------------ll-~TI~SRc-~~~~F~~l~~  179 (584)
T PRK14952        153 FATTEP-EK--------------------------------------------------VL-PTIRSRT-HHYPFRLLPP  179 (584)
T ss_pred             EEeCCh-Hh--------------------------------------------------hH-HHHHHhc-eEEEeeCCCH
Confidence            887621 11                                                  11 5677786 6789999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         496 SELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       496 ~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      +++.+.+...+..        .|  +.++++++.+|+. + ..++.|..-+.+++.
T Consensus       180 ~~i~~~L~~i~~~--------eg--i~i~~~al~~Ia~-~-s~GdlR~aln~Ldql  223 (584)
T PRK14952        180 RTMRALIARICEQ--------EG--VVVDDAVYPLVIR-A-GGGSPRDTLSVLDQL  223 (584)
T ss_pred             HHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCCCHHHHHHHHHHH
Confidence            9988776554431        13  4578889888874 1 135566666666553

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.17  E-value=6.7e-10  Score=115.64  Aligned_cols=204  Identities=22%  Similarity=0.205  Sum_probs=122.7

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCC-----CCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch
Q psy1308         268 DRIVGQESAINIISAAIKRKENG-----WTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~-----~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~  342 (607)
                      ..+.|.+..++.+...+......     ......|..++++||+|||||.+|++++..+..    +|+.++++.+.    
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~----~~i~v~~~~l~----  202 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA----TFIRVVGSELV----  202 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCC----CEEEeehHHHh----
Confidence            35778888888887766432110     111223557999999999999999999988743    48888776542    


Q ss_pred             hHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEecCc
Q psy1308         343 VAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIECKD  411 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~  411 (607)
                       ..+.|....     .-..+....+....+||||||||.+           +++++..|++++..-.-..      ...+
T Consensus       203 -~~~~g~~~~-----~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~------~~~~  270 (389)
T PRK03992        203 -QKFIGEGAR-----LVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFD------PRGN  270 (389)
T ss_pred             -HhhccchHH-----HHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccC------CCCC
Confidence             222221111     0012333344556789999999987           4677888888775321111      1247


Q ss_pred             eEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--ccccceee
Q psy1308         412 AIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRINEIVY  489 (607)
Q Consensus       412 ~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~~iv~  489 (607)
                      ++||+|||... .                                                  + .+.++  +||+..+.
T Consensus       271 v~VI~aTn~~~-~--------------------------------------------------l-d~allRpgRfd~~I~  298 (389)
T PRK03992        271 VKIIAATNRID-I--------------------------------------------------L-DPAILRPGRFDRIIE  298 (389)
T ss_pred             EEEEEecCChh-h--------------------------------------------------C-CHHHcCCccCceEEE
Confidence            88999999321 1                                                  1 13343  48888999


Q ss_pred             eccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHH
Q psy1308         490 FLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQ  555 (607)
Q Consensus       490 f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~  555 (607)
                      +.|++.++..+|++..+..        ..+.-.++   ...|+. ....+..+.|+..+.+....+
T Consensus       299 v~~P~~~~R~~Il~~~~~~--------~~~~~~~~---~~~la~-~t~g~sgadl~~l~~eA~~~a  352 (389)
T PRK03992        299 VPLPDEEGRLEILKIHTRK--------MNLADDVD---LEELAE-LTEGASGADLKAICTEAGMFA  352 (389)
T ss_pred             ECCCCHHHHHHHHHHHhcc--------CCCCCcCC---HHHHHH-HcCCCCHHHHHHHHHHHHHHH
Confidence            9999999999998754431        11111122   344443 333445556776666554433

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.16  E-value=5.1e-10  Score=121.28  Aligned_cols=193  Identities=18%  Similarity=0.237  Sum_probs=119.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++||+.++..+...+.....       +-.++|+|++|+|||.+++.+++.++...  +...--|...   ..+..+-
T Consensus        16 ~divGQe~vv~~L~~~l~~~rl-------~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~--~~~~~pCg~C---~~C~~i~   83 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGRL-------HHAYLFSGTRGVGKTTIARLLAKGLNCET--GITATPCGEC---DNCREIE   83 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CeEEEEECCCCCCHHHHHHHHHHhhhhcc--CCCCCCCCCC---HHHHHHH
Confidence            4699999999999888875431       22479999999999999999999986531  1100011100   0011110


Q ss_pred             -cC-------CCC-CccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         348 -GA-------PPG-YLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       348 -g~-------~~g-~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                       |.       .+. ..+-++-..+.+.+..    ..+-|++|||+++++...++.||+.+|+-           ..+++|
T Consensus        84 ~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEP-----------p~~v~F  152 (647)
T PRK07994         84 QGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEP-----------PEHVKF  152 (647)
T ss_pred             cCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcC-----------CCCeEE
Confidence             00       000 1111111122222222    24679999999999999999999999963           256788


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |++|+-.. .                                                  +. +-+++|. ..+.|.|++
T Consensus       153 IL~Tt~~~-k--------------------------------------------------Ll-~TI~SRC-~~~~f~~Ls  179 (647)
T PRK07994        153 LLATTDPQ-K--------------------------------------------------LP-VTILSRC-LQFHLKALD  179 (647)
T ss_pred             EEecCCcc-c--------------------------------------------------cc-hHHHhhh-eEeeCCCCC
Confidence            88877211 0                                                  11 5677887 678999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHH
Q psy1308         495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEV  548 (607)
Q Consensus       495 ~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i  548 (607)
                      .+++...+...+..       . +  +.++++++..|+. + ..+..|..-+.+
T Consensus       180 ~~ei~~~L~~il~~-------e-~--i~~e~~aL~~Ia~-~-s~Gs~R~Al~ll  221 (647)
T PRK07994        180 VEQIRQQLEHILQA-------E-Q--IPFEPRALQLLAR-A-ADGSMRDALSLT  221 (647)
T ss_pred             HHHHHHHHHHHHHH-------c-C--CCCCHHHHHHHHH-H-cCCCHHHHHHHH
Confidence            99988876665532       1 2  4567888888764 2 223344444443

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.16  E-value=5.2e-10  Score=120.58  Aligned_cols=198  Identities=16%  Similarity=0.243  Sum_probs=122.9

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC---CceEEee-cccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK---EAFIRLD-MSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~---~~~~~l~-~a~~~~~~~~  343 (607)
                      ..++||+.+++.+...+.....       +-.++|+||+|+|||.+++.+++.++....   .++.... |..... ...
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl-------~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~-g~~   87 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRL-------HHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDA-GRY   87 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCC-------CeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhc-cCc
Confidence            4699999999999888775321       236899999999999999999998865311   1111000 000000 000


Q ss_pred             HhhhcCC-CCCccCCCCchhhHHHhh-------CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEE
Q psy1308         344 AKLIGAP-PGYLGHDDGGQLTKRLKK-------CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFV  415 (607)
Q Consensus       344 ~~llg~~-~g~~g~~~~~~l~~~~~~-------~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI  415 (607)
                      ..++.-. ....|.   ..+.+++..       ..+.|+||||+++++...++.||+.+++.           ..+++||
T Consensus        88 ~DvlEidaAs~~gV---d~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEP-----------p~~v~fI  153 (709)
T PRK08691         88 VDLLEIDAASNTGI---DNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEP-----------PEHVKFI  153 (709)
T ss_pred             cceEEEeccccCCH---HHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhC-----------CCCcEEE
Confidence            0000000 000111   122333321       34579999999999999999999999852           2467788


Q ss_pred             EecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCH
Q psy1308         416 MTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSK  495 (607)
Q Consensus       416 ~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~  495 (607)
                      ++|+-...                                                   .. +-+++|+ ..+.|.|++.
T Consensus       154 LaTtd~~k---------------------------------------------------L~-~TIrSRC-~~f~f~~Ls~  180 (709)
T PRK08691        154 LATTDPHK---------------------------------------------------VP-VTVLSRC-LQFVLRNMTA  180 (709)
T ss_pred             EEeCCccc---------------------------------------------------cc-hHHHHHH-hhhhcCCCCH
Confidence            88862110                                                   11 4566777 4578889999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         496 SELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       496 ~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      +++..++...+..        .|  +.+++++++.|++ +. .++.|.+.+.+++.+
T Consensus       181 eeI~~~L~~Il~k--------Eg--i~id~eAL~~Ia~-~A-~GslRdAlnLLDqai  225 (709)
T PRK08691        181 QQVADHLAHVLDS--------EK--IAYEPPALQLLGR-AA-AGSMRDALSLLDQAI  225 (709)
T ss_pred             HHHHHHHHHHHHH--------cC--CCcCHHHHHHHHH-Hh-CCCHHHHHHHHHHHH
Confidence            9998887655431        13  5678999999985 22 467777777776544

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.15  E-value=7.5e-10  Score=118.85  Aligned_cols=198  Identities=21%  Similarity=0.301  Sum_probs=120.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEEe-eccc-cc-ccc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIRL-DMSE-YQ-EKH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~l-~~a~-~~-~~~  341 (607)
                      ..++||+..+..+..++.....       +-.++|+||+|+|||.+|+.+++.++...   ..++-.. .|.. .. .+.
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~ri-------~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hp   88 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENRV-------APAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHV   88 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCCC-------CceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCC
Confidence            3688999999998888865321       23789999999999999999999986421   1111110 0000 00 000


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHh----hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEe
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLK----KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMT  417 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~----~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~t  417 (607)
                      .+.++-+.  ...+-++-..+.+.+.    ...+.|++|||+++++.+.++.|++.+++.           ..+++||++
T Consensus        89 Dv~eId~a--~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP-----------~~~~ifILa  155 (624)
T PRK14959         89 DVVEIDGA--SNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEP-----------PARVTFVLA  155 (624)
T ss_pred             ceEEEecc--cccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhcc-----------CCCEEEEEe
Confidence            01111000  0111111112222222    234679999999999999999999999862           146788888


Q ss_pred             cCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHH
Q psy1308         418 SNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSE  497 (607)
Q Consensus       418 sn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~  497 (607)
                      |+....                                                   +. +-+.+|+ .++.|.|++.++
T Consensus       156 Tt~~~k---------------------------------------------------ll-~TI~SRc-q~i~F~pLs~~e  182 (624)
T PRK14959        156 TTEPHK---------------------------------------------------FP-VTIVSRC-QHFTFTRLSEAG  182 (624)
T ss_pred             cCChhh---------------------------------------------------hh-HHHHhhh-hccccCCCCHHH
Confidence            872111                                                   11 4466677 467899999999


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       498 ~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      +..++...+..        .  .+.+++++++.|++ +. .+++|..-+.+++
T Consensus       183 L~~~L~~il~~--------e--gi~id~eal~lIA~-~s-~GdlR~Al~lLeq  223 (624)
T PRK14959        183 LEAHLTKVLGR--------E--GVDYDPAAVRLIAR-RA-AGSVRDSMSLLGQ  223 (624)
T ss_pred             HHHHHHHHHHH--------c--CCCCCHHHHHHHHH-Hc-CCCHHHHHHHHHH
Confidence            99887664431        1  24578999999875 22 2446655555543

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.15  E-value=1.1e-09  Score=116.30  Aligned_cols=200  Identities=18%  Similarity=0.230  Sum_probs=124.0

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC--Cc--eEE----eecccccc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK--EA--FIR----LDMSEYQE  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~--~~--~~~----l~~a~~~~  339 (607)
                      ..++||+..+..+..++.....       |-.++|+||+|+|||.+|+.+++.++....  .+  +.+    -+|-.+..
T Consensus        21 ~dliGq~~vv~~L~~ai~~~ri-------~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~   93 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDRL-------AGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNN   93 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhc
Confidence            4689999999988877754431       337999999999999999999999865310  00  000    01111110


Q ss_pred             --cchhHhhhcCCCCCccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceE
Q psy1308         340 --KHEVAKLIGAPPGYLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAI  413 (607)
Q Consensus       340 --~~~~~~llg~~~g~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~  413 (607)
                        +..+.++-+.  ...|-++-..+.+.....    .+.|++|||++.++...++.|++.+++.           ..+++
T Consensus        94 ~~h~Dv~eidaa--s~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEep-----------p~~~v  160 (507)
T PRK06645         94 HNHPDIIEIDAA--SKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEP-----------PPHII  160 (507)
T ss_pred             CCCCcEEEeecc--CCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhc-----------CCCEE
Confidence              0011111000  011111111222222222    3679999999999999999999999852           24677


Q ss_pred             EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC
Q psy1308         414 FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF  493 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl  493 (607)
                      ||++++.- ..                                                  .. +.+.+|. ..+.|.|+
T Consensus       161 fI~aTte~-~k--------------------------------------------------I~-~tI~SRc-~~~ef~~l  187 (507)
T PRK06645        161 FIFATTEV-QK--------------------------------------------------IP-ATIISRC-QRYDLRRL  187 (507)
T ss_pred             EEEEeCCh-HH--------------------------------------------------hh-HHHHhcc-eEEEccCC
Confidence            88877611 00                                                  11 4566777 56889999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       494 ~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      +.+++..++...+..        .|  +.+++++++.|+..  ..++.|..-+.+++.+
T Consensus       188 s~~el~~~L~~i~~~--------eg--i~ie~eAL~~Ia~~--s~GslR~al~~Ldkai  234 (507)
T PRK06645        188 SFEEIFKLLEYITKQ--------EN--LKTDIEALRIIAYK--SEGSARDAVSILDQAA  234 (507)
T ss_pred             CHHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHHH--cCCCHHHHHHHHHHHH
Confidence            999999987776652        12  45789999988751  2456776666666543

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=99.14  E-value=1.2e-09  Score=118.85  Aligned_cols=130  Identities=17%  Similarity=0.163  Sum_probs=88.2

Q ss_pred             hhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCc----------EEecCceEEEEecCcchHHHHHHHhh
Q psy1308         362 LTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGK----------TIECKDAIFVMTSNLASNEIAQHALQ  431 (607)
Q Consensus       362 l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~----------~~~~~~~~iI~tsn~~~~~i~~~~~~  431 (607)
                      ..+.+.++++|+|||||++.+++..|..|+++++++++...++.          .....++++|+++|.....       
T Consensus       218 ~~G~L~kAnGGtL~LDei~~L~~~~q~~Llr~L~~~~i~i~g~~e~~~~~~~~~~~ip~dvrvI~a~~~~ll~-------  290 (637)
T PRK13765        218 EAGAIHKAHKGVLFIDEINTLDLESQQSLLTAMQEKKFPITGQSERSSGAMVRTEPVPCDFIMVAAGNLDALE-------  290 (637)
T ss_pred             CCCceeECCCcEEEEeChHhCCHHHHHHHHHHHHhCCEEecccccccccccCCCcceeeeeEEEEecCcCHHH-------
Confidence            45677889999999999999999999999999999998764321          1123467899999952111       


Q ss_pred             hhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccc---ceeeeccCCHHHHHHHHHHHHHH
Q psy1308         432 LRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRIN---EIVYFLPFSKSELHTLVCRELNF  508 (607)
Q Consensus       432 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~---~iv~f~pl~~~~~~~i~~~~l~~  508 (607)
                                                                .+. |+|++||.   .-+.|.+ ..++..+....++..
T Consensus       291 ------------------------------------------~~d-pdL~~rfk~~~v~v~f~~-~~~d~~e~~~~~~~~  326 (637)
T PRK13765        291 ------------------------------------------NMH-PALRSRIKGYGYEVYMRD-TMEDTPENRRKLVRF  326 (637)
T ss_pred             ------------------------------------------hhh-HHHHHHhccCeEEEEccc-ccCCCHHHHHHHHHH
Confidence                                                      122 88888886   3344443 444555666666665


Q ss_pred             HHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccc
Q psy1308         509 WAKKALDKHNINIVWDIDVETILADGYDVHYGARS  543 (607)
Q Consensus       509 ~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~  543 (607)
                      +.+++... |-...++++++..|.+.|....|.|.
T Consensus       327 iaqe~~~~-G~l~~f~~eAVa~LI~~~~R~ag~r~  360 (637)
T PRK13765        327 VAQEVKRD-GKIPHFDRDAVEEIIREAKRRAGRKG  360 (637)
T ss_pred             HHHHhhhc-cCCCCCCHHHHHHHHHHHHHHhCCcc
Confidence            55554332 23347889998888765666667766

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=99.14  E-value=1.2e-09  Score=103.26  Aligned_cols=177  Identities=23%  Similarity=0.307  Sum_probs=119.9

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~l  346 (607)
                      ..++||....+.+.-.++..+...    .++ +++|.||||.|||.||..+|..+...    +..-.-...         
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~----e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn----~k~tsGp~l---------   88 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRG----EALDHVLLFGPPGLGKTTLAHIIANELGVN----LKITSGPAL---------   88 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcC----CCcCeEEeeCCCCCcHHHHHHHHHHHhcCC----eEecccccc---------
Confidence            469999999999988887665432    245 99999999999999999999988543    211111111         


Q ss_pred             hcCCCCCccCCCCchhhHHHhh-CCCeEEEEecCCccCHHHHHHHHHhhccceeec--CCC-----cEEecCceEEEEec
Q psy1308         347 IGAPPGYLGHDDGGQLTKRLKK-CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTD--GKG-----KTIECKDAIFVMTS  418 (607)
Q Consensus       347 lg~~~g~~g~~~~~~l~~~~~~-~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~--~~g-----~~~~~~~~~iI~ts  418 (607)
                                +..+++..++.. .++.|+|+|||++++|.+-..|...||+-.+--  ..|     ..++....-+|-+|
T Consensus        89 ----------eK~gDlaaiLt~Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGAT  158 (332)
T COG2255          89 ----------EKPGDLAAILTNLEEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGAT  158 (332)
T ss_pred             ----------cChhhHHHHHhcCCcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeec
Confidence                      123344444433 357899999999999999999999999655321  222     23444555555554


Q ss_pred             CcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHH
Q psy1308         419 NLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSEL  498 (607)
Q Consensus       419 n~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~  498 (607)
                      ...                                                   +.+. ..|..||..+..+.-++.+|+
T Consensus       159 Tr~---------------------------------------------------G~lt-~PLrdRFGi~~rlefY~~~eL  186 (332)
T COG2255         159 TRA---------------------------------------------------GMLT-NPLRDRFGIIQRLEFYTVEEL  186 (332)
T ss_pred             ccc---------------------------------------------------cccc-chhHHhcCCeeeeecCCHHHH
Confidence            411                                                   1122 557778877777778899999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         499 HTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       499 ~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .+|+.+.-.          -..+++++++...|++
T Consensus       187 ~~Iv~r~a~----------~l~i~i~~~~a~eIA~  211 (332)
T COG2255         187 EEIVKRSAK----------ILGIEIDEEAALEIAR  211 (332)
T ss_pred             HHHHHHHHH----------HhCCCCChHHHHHHHH
Confidence            999765442          2246677888777774

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.13  E-value=2.7e-09  Score=108.91  Aligned_cols=186  Identities=18%  Similarity=0.204  Sum_probs=122.6

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++||+...+.+...+....       .|-.++++||+|+|||.+++.+++.+..    ++..++++. .....+...+
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~-------~~~~lll~G~~G~GKT~la~~l~~~~~~----~~~~i~~~~-~~~~~i~~~l   88 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGR-------IPNMLLHSPSPGTGKTTVAKALCNEVGA----EVLFVNGSD-CRIDFVRNRL   88 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCC-------CCeEEEeeCcCCCCHHHHHHHHHHHhCc----cceEeccCc-ccHHHHHHHH
Confidence            358899999888887776321       2446777999999999999999987632    366677665 1111111111


Q ss_pred             cCCCCCccCCCCchhhHHHh----hCCCeEEEEecCCcc-CHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcch
Q psy1308         348 GAPPGYLGHDDGGQLTKRLK----KCPNAVVLFDEVDKA-HPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLAS  422 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~----~~~~~vl~lDEiek~-~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~  422 (607)
                                     .....    ..+..+|+|||++.+ ..+.++.|..++++.           ..++.||+|||...
T Consensus        89 ---------------~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~-----------~~~~~~Ilt~n~~~  142 (316)
T PHA02544         89 ---------------TRFASTVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAY-----------SKNCSFIITANNKN  142 (316)
T ss_pred             ---------------HHHHHhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhc-----------CCCceEEEEcCChh
Confidence                           11111    134679999999999 777888888888742           14668999988211


Q ss_pred             HHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHH
Q psy1308         423 NEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLV  502 (607)
Q Consensus       423 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~  502 (607)
                                                                         .+. |.+.+|+. .+.|.+++.++...++
T Consensus       143 ---------------------------------------------------~l~-~~l~sR~~-~i~~~~p~~~~~~~il  169 (316)
T PHA02544        143 ---------------------------------------------------GII-EPLRSRCR-VIDFGVPTKEEQIEMM  169 (316)
T ss_pred             ---------------------------------------------------hch-HHHHhhce-EEEeCCCCHHHHHHHH
Confidence                                                               011 66778884 6788788899988888


Q ss_pred             HHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHH
Q psy1308         503 CRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVE  549 (607)
Q Consensus       503 ~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~  549 (607)
                      ...+..+...+...   .+.++++++..|+. +.++ +.|.+-+.++
T Consensus       170 ~~~~~~~~~~~~~~---~~~i~~~al~~l~~-~~~~-d~r~~l~~l~  211 (316)
T PHA02544        170 KQMIVRCKGILEAE---GVEVDMKVLAALVK-KNFP-DFRRTINELQ  211 (316)
T ss_pred             HHHHHHHHHHHHhc---CCCCCHHHHHHHHH-hcCC-CHHHHHHHHH
Confidence            88777665544332   34568999999885 4443 3454444444

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.13  E-value=1.1e-09  Score=105.90  Aligned_cols=159  Identities=14%  Similarity=0.167  Sum_probs=111.4

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      -+++++|++|+|||.+++.++...... ..++..++++.....      +.                  ......+|++|
T Consensus        43 ~~~~l~G~~G~GKT~La~ai~~~~~~~-~~~~~~i~~~~~~~~------~~------------------~~~~~~~liiD   97 (227)
T PRK08903         43 RFFYLWGEAGSGRSHLLQALVADASYG-GRNARYLDAASPLLA------FD------------------FDPEAELYAVD   97 (227)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhC-CCcEEEEehHHhHHH------Hh------------------hcccCCEEEEe
Confidence            368999999999999999999987554 456777777654211      10                  01234699999


Q ss_pred             cCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchh
Q psy1308         378 EVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVT  457 (607)
Q Consensus       378 Eiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  457 (607)
                      |++.+++..+..|+.+++...  .       ....++|++++....                                  
T Consensus        98 di~~l~~~~~~~L~~~~~~~~--~-------~~~~~vl~~~~~~~~----------------------------------  134 (227)
T PRK08903         98 DVERLDDAQQIALFNLFNRVR--A-------HGQGALLVAGPAAPL----------------------------------  134 (227)
T ss_pred             ChhhcCchHHHHHHHHHHHHH--H-------cCCcEEEEeCCCCHH----------------------------------
Confidence            999999999999999886421  0       122356777663211                                  


Q ss_pred             cchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccC
Q psy1308         458 ISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGY  535 (607)
Q Consensus       458 ~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~  535 (607)
                                    ...+. +++.+|+.  ..+.+.|++.++...++....    .    ..+  +.++++++++|++  
T Consensus       135 --------------~~~l~-~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~----~----~~~--v~l~~~al~~L~~--  187 (227)
T PRK08903        135 --------------ALPLR-EDLRTRLGWGLVYELKPLSDADKIAALKAAA----A----ERG--LQLADEVPDYLLT--  187 (227)
T ss_pred             --------------hCCCC-HHHHHHHhcCeEEEecCCCHHHHHHHHHHHH----H----HcC--CCCCHHHHHHHHH--
Confidence                          01133 77888884  578889999887666544222    1    123  6789999999985  


Q ss_pred             CCCCCccchhHHHHHH
Q psy1308         536 DVHYGARSIKHEVERQ  551 (607)
Q Consensus       536 ~~~~GaR~L~~~i~~~  551 (607)
                      .|+++.|.|++.++..
T Consensus       188 ~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        188 HFRRDMPSLMALLDAL  203 (227)
T ss_pred             hccCCHHHHHHHHHHH
Confidence            6999999999999874

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.12  E-value=1.6e-09  Score=118.34  Aligned_cols=133  Identities=17%  Similarity=0.156  Sum_probs=86.6

Q ss_pred             hHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCc----------EEecCceEEEEecCcchHHHHHHHhhh
Q psy1308         363 TKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGK----------TIECKDAIFVMTSNLASNEIAQHALQL  432 (607)
Q Consensus       363 ~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~----------~~~~~~~~iI~tsn~~~~~i~~~~~~~  432 (607)
                      .+.+.++++|+++|||++.+++..|..|+++++++++...++.          .....++++|+++|..  .        
T Consensus       210 ~G~L~~AngGtL~Ldei~~L~~~~q~~Ll~~L~~~~i~~~g~~e~~~~~~~~~~~ip~dvrvIa~~~~~--~--------  279 (608)
T TIGR00764       210 AGAIHRAHKGVLYIDEIKTMPLEVQQYLLTALQDKKFPITGQSENSSGAMVRTEPVPCDFILVASGNLD--D--------  279 (608)
T ss_pred             CCceEECCCCEEEEEChHhCCHHHHHHHHHHHHhCcEEecCccccccccccCCCCCccceEEEEECCHH--H--------
Confidence            5677889999999999999999999999999999998765431          1123477899999832  0        


Q ss_pred             hhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccc---ceeeec---cCCHHHHHHHHHHHH
Q psy1308         433 RKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRIN---EIVYFL---PFSKSELHTLVCREL  506 (607)
Q Consensus       433 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~---~iv~f~---pl~~~~~~~i~~~~l  506 (607)
                                                             ...+. |+|++||+   ..+.|.   |.+.+...++++ ++
T Consensus       280 ---------------------------------------l~~l~-~~l~~rf~~y~v~v~~~~~~~~~~e~~~~~~~-~i  318 (608)
T TIGR00764       280 ---------------------------------------LEGMH-PALRSRIRGYGYEVYMKDTMPDTPENRDKLVQ-FV  318 (608)
T ss_pred             ---------------------------------------HhhcC-HHHHHHhcCCeEEEEeeccCCCCHHHHHHHHH-HH
Confidence                                                   11244 89999998   334443   445566555533 23


Q ss_pred             HHHHHHHhhcCCcEEEeCHhHHHHHHccCC--------CCCCccchhHHHHH
Q psy1308         507 NFWAKKALDKHNINIVWDIDVETILADGYD--------VHYGARSIKHEVER  550 (607)
Q Consensus       507 ~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~--------~~~GaR~L~~~i~~  550 (607)
                      ..   ++. +.|....++++++..|.+.+.        ++...|.|.+.+..
T Consensus       319 ~~---~~~-r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~  366 (608)
T TIGR00764       319 AQ---EVK-KDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRA  366 (608)
T ss_pred             HH---HHH-HhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHH
Confidence            22   222 223344789999888764222        34445666655544

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.11  E-value=7e-10  Score=111.99  Aligned_cols=141  Identities=18%  Similarity=0.190  Sum_probs=82.3

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-----------CCc-eEEeeccc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-----------KEA-FIRLDMSE  336 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-----------~~~-~~~l~~a~  336 (607)
                      .++||+.++..+...+.....        -.+++.|++|+|||.+++.++..+....           ..+ +...+|..
T Consensus         5 ~ivgq~~~~~al~~~~~~~~~--------g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~   76 (337)
T TIGR02030         5 AIVGQDEMKLALLLNVIDPKI--------GGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPEMMCEEVRI   76 (337)
T ss_pred             ccccHHHHHHHHHHHhcCCCC--------CeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCccccChHHhh
Confidence            488999999887555443221        2688999999999999999998873210           001 11111111


Q ss_pred             c-------------------cccchhHhhhcCCCC----CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHh
Q psy1308         337 Y-------------------QEKHEVAKLIGAPPG----YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQL  393 (607)
Q Consensus       337 ~-------------------~~~~~~~~llg~~~g----~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~  393 (607)
                      .                   ..+.....++|...-    ..|  ....-.+.+.++.+|++|+|||+.+++.+|..|+++
T Consensus        77 ~~~~~~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g--~~~~~~GlL~~A~~GvL~lDEi~~L~~~~Q~~Ll~~  154 (337)
T TIGR02030        77 RVDSQEPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEG--VKAFEPGLLARANRGILYIDEVNLLEDHLVDVLLDV  154 (337)
T ss_pred             hhhcccccccccCCCCcCCCCCCCcccceecchhHhhHhhcC--CEEeecCcceeccCCEEEecChHhCCHHHHHHHHHH
Confidence            0                   000011123332100    000  000122456678889999999999999999999999


Q ss_pred             hccceeec-CCCcEEe-cCceEEEEecC
Q psy1308         394 FDEGRLTD-GKGKTIE-CKDAIFVMTSN  419 (607)
Q Consensus       394 ~~~~~~~~-~~g~~~~-~~~~~iI~tsn  419 (607)
                      +++|..+- ..|.... ....++|.|+|
T Consensus       155 l~~g~~~v~r~G~~~~~~~r~iviat~n  182 (337)
T TIGR02030       155 AASGWNVVEREGISIRHPARFVLVGSGN  182 (337)
T ss_pred             HHhCCeEEEECCEEEEcCCCEEEEeccc
Confidence            99886322 2233322 24556666665

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>KOG0736|consensus

Probab=99.10  E-value=1.7e-09  Score=114.62  Aligned_cols=213  Identities=23%  Similarity=0.321  Sum_probs=130.1

Q ss_pred             HHhHhhhhHHHHHHHHHHHHHh---hCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc
Q psy1308         266 LKDRIVGQESAINIISAAIKRK---ENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH  341 (607)
Q Consensus       266 l~~~i~Gq~~ai~~l~~~i~~~---~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~  341 (607)
                      -|..+-|-++....+...++..   ..-++..-++- -++|+||||||||.+||++|....-.    |.     ...+..
T Consensus       670 ~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~----Fl-----SVKGPE  740 (953)
T KOG0736|consen  670 SWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLN----FL-----SVKGPE  740 (953)
T ss_pred             chhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceee----EE-----eecCHH
Confidence            3456777888888887777542   11122222322 68999999999999999999765322    33     344555


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHH-------------HHHHHHHhhccceeecCCCcEEe
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPD-------------VLTVLLQLFDEGRLTDGKGKTIE  408 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~-------------~~~~Ll~~~~~~~~~~~~g~~~~  408 (607)
                      .+..++|..+..+     ....+..+.+..|||||||+|.+-|.             ++..||-=+|.  +.+.     +
T Consensus       741 LLNMYVGqSE~NV-----R~VFerAR~A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDg--ls~~-----~  808 (953)
T KOG0736|consen  741 LLNMYVGQSEENV-----REVFERARSAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDG--LSDS-----S  808 (953)
T ss_pred             HHHHHhcchHHHH-----HHHHHHhhccCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhc--ccCC-----C
Confidence            5666666443322     35667778888999999999998765             45555554441  1111     3


Q ss_pred             cCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccccee
Q psy1308         409 CKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIV  488 (607)
Q Consensus       409 ~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv  488 (607)
                      ...++||-+||.                                           .+++.++|   +| |   +|||..+
T Consensus       809 s~~VFViGATNR-------------------------------------------PDLLDpAL---LR-P---GRFDKLv  838 (953)
T KOG0736|consen  809 SQDVFVIGATNR-------------------------------------------PDLLDPAL---LR-P---GRFDKLV  838 (953)
T ss_pred             CCceEEEecCCC-------------------------------------------ccccChhh---cC-C---CccceeE
Confidence            467788889992                                           12233333   22 3   5999998


Q ss_pred             eeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCCccchhHHHHHHHHHHHHHHH
Q psy1308         489 YFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGARSIKHEVERQVVSQLAAAH  560 (607)
Q Consensus       489 ~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~  560 (607)
                      ..-|-+.++-..-+   |+.+.+++        .+++++ +..+++...+.+-.-.+-..+..+...++.+.+
T Consensus       839 yvG~~~d~esk~~v---L~AlTrkF--------kLdedVdL~eiAk~cp~~~TGADlYsLCSdA~l~AikR~i  900 (953)
T KOG0736|consen  839 YVGPNEDAESKLRV---LEALTRKF--------KLDEDVDLVEIAKKCPPNMTGADLYSLCSDAMLAAIKRTI  900 (953)
T ss_pred             EecCCccHHHHHHH---HHHHHHHc--------cCCCCcCHHHHHhhCCcCCchhHHHHHHHHHHHHHHHHHH
Confidence            88886554443222   44444443        345554 344555455555444577788888887776655

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.10  E-value=2e-09  Score=114.88  Aligned_cols=199  Identities=19%  Similarity=0.268  Sum_probs=122.0

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCc--eEEe-ecccc--cccch
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEA--FIRL-DMSEY--QEKHE  342 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~--~~~l-~~a~~--~~~~~  342 (607)
                      ..++||+.++..+...+.....       |-.++|+||+|+|||.+++.+++.++..+..+  +-.. .|...  ..+..
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l-------~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~d   86 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRL-------GHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPD   86 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCC-------CeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCc
Confidence            4689999999999888775431       22569999999999999999999986421111  0000 00000  00000


Q ss_pred             hHhhhcCCCCCccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEec
Q psy1308         343 VAKLIGAPPGYLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTS  418 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~ts  418 (607)
                      +..+-+  .+..+.+.-..+.+.+..    ....+++|||++.++...++.|++.+++.           ..+++||+++
T Consensus        87 v~el~~--~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep-----------~~~t~~Il~t  153 (504)
T PRK14963         87 VLEIDA--ASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEP-----------PEHVIFILAT  153 (504)
T ss_pred             eEEecc--cccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhC-----------CCCEEEEEEc
Confidence            111100  001111111122222222    24679999999999999999999999852           2466788887


Q ss_pred             CcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHH
Q psy1308         419 NLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSEL  498 (607)
Q Consensus       419 n~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~  498 (607)
                      +.. .                                                  .+. +.+.+|. ..+.|.|++.+++
T Consensus       154 ~~~-~--------------------------------------------------kl~-~~I~SRc-~~~~f~~ls~~el  180 (504)
T PRK14963        154 TEP-E--------------------------------------------------KMP-PTILSRT-QHFRFRRLTEEEI  180 (504)
T ss_pred             CCh-h--------------------------------------------------hCC-hHHhcce-EEEEecCCCHHHH
Confidence            621 0                                                  011 5566776 4789999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         499 HTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       499 ~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      ...+...+..        .|  +.++++++++|+. . ..+..|.+.+.+++.
T Consensus       181 ~~~L~~i~~~--------eg--i~i~~~Al~~ia~-~-s~GdlR~aln~Lekl  221 (504)
T PRK14963        181 AGKLRRLLEA--------EG--REAEPEALQLVAR-L-ADGAMRDAESLLERL  221 (504)
T ss_pred             HHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCCCHHHHHHHHHHH
Confidence            9887766642        13  3468999998874 1 235666666666654

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.10  E-value=4.3e-10  Score=116.16  Aligned_cols=167  Identities=17%  Similarity=0.276  Sum_probs=103.9

Q ss_pred             HhHhhhhHHHHHHHHHHHHHhhCCCCCCCC--CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         267 KDRIVGQESAINIISAAIKRKENGWTDDDH--PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       267 ~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~--p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      +..++||+.+++.+..++............  |-.++|+||+|+|||.+|+.+++.+...+...   -.|..-   ....
T Consensus         4 f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~---~~Cg~C---~~C~   77 (394)
T PRK07940          4 WDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDE---PGCGEC---RACR   77 (394)
T ss_pred             hhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCC---CCCCCC---HHHH
Confidence            346899999999999999876533222222  23699999999999999999999876532110   011100   1111


Q ss_pred             hhh-cCCCC---------CccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         345 KLI-GAPPG---------YLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       345 ~ll-g~~~g---------~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                      .+. |..|.         ..+.++-..+...+...    ++.|++|||+|++++..++.||+.+|+..           .
T Consensus        78 ~~~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~-----------~  146 (394)
T PRK07940         78 TVLAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPP-----------P  146 (394)
T ss_pred             HHhcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCC-----------C
Confidence            111 11111         11111112233333333    35699999999999999999999998632           3


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      +++||++|+.. ..                                                  +. |-+.+|. ..+.|
T Consensus       147 ~~~fIL~a~~~-~~--------------------------------------------------ll-pTIrSRc-~~i~f  173 (394)
T PRK07940        147 RTVWLLCAPSP-ED--------------------------------------------------VL-PTIRSRC-RHVAL  173 (394)
T ss_pred             CCeEEEEECCh-HH--------------------------------------------------Ch-HHHHhhC-eEEEC
Confidence            45666666621 11                                                  11 6677787 57888


Q ss_pred             ccCCHHHHHHHHH
Q psy1308         491 LPFSKSELHTLVC  503 (607)
Q Consensus       491 ~pl~~~~~~~i~~  503 (607)
                      .|++.+++.+++.
T Consensus       174 ~~~~~~~i~~~L~  186 (394)
T PRK07940        174 RTPSVEAVAEVLV  186 (394)
T ss_pred             CCCCHHHHHHHHH
Confidence            8998888877765

>TIGR00368 Mg chelatase-related protein

Probab=99.09  E-value=3.8e-09  Score=112.31  Aligned_cols=133  Identities=23%  Similarity=0.298  Sum_probs=87.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc--------
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE--------  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~--------  339 (607)
                      ..+.||..+++.+..++.    +      .-++++.||+|+|||.+++.++..+....  +-..++.+....        
T Consensus       192 ~dv~Gq~~~~~al~~aa~----~------g~~vlliG~pGsGKTtlar~l~~llp~~~--~~~~le~~~i~s~~g~~~~~  259 (499)
T TIGR00368       192 KDIKGQQHAKRALEIAAA----G------GHNLLLFGPPGSGKTMLASRLQGILPPLT--NEEAIETARIWSLVGKLIDR  259 (499)
T ss_pred             HHhcCcHHHHhhhhhhcc----C------CCEEEEEecCCCCHHHHHHHHhcccCCCC--CcEEEeccccccchhhhccc
Confidence            358889888766554432    1      12689999999999999999998664321  111222211100        


Q ss_pred             -----------cc--hhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceee--cCCC
Q psy1308         340 -----------KH--EVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLT--DGKG  404 (607)
Q Consensus       340 -----------~~--~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~--~~~g  404 (607)
                                 ++  ....++|.  |      .....+.+..+++||+||||++++++.+|+.|++.|+++.++  ..++
T Consensus       260 ~~~~~~Pf~~p~~s~s~~~~~gg--g------~~~~pG~i~lA~~GvLfLDEi~e~~~~~~~~L~~~LE~~~v~i~r~g~  331 (499)
T TIGR00368       260 KQIKQRPFRSPHHSASKPALVGG--G------PIPLPGEISLAHNGVLFLDELPEFKRSVLDALREPIEDGSISISRASA  331 (499)
T ss_pred             cccccCCccccccccchhhhhCC--c------cccchhhhhccCCCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCc
Confidence                       00  01122321  0      012345678889999999999999999999999999999864  3334


Q ss_pred             cEEecCceEEEEecCc
Q psy1308         405 KTIECKDAIFVMTSNL  420 (607)
Q Consensus       405 ~~~~~~~~~iI~tsn~  420 (607)
                      ......++++|+++|-
T Consensus       332 ~~~~pa~frlIaa~Np  347 (499)
T TIGR00368       332 KIFYPARFQLVAAMNP  347 (499)
T ss_pred             ceeccCCeEEEEecCC
Confidence            4444578899999994

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=99.09  E-value=2.3e-09  Score=111.04  Aligned_cols=205  Identities=22%  Similarity=0.265  Sum_probs=119.8

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCC-----CCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch
Q psy1308         268 DRIVGQESAINIISAAIKRKENG-----WTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~-----~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~  342 (607)
                      ..+.|.+..++.+...+......     ...-..|..++|+||+|+|||.+++.++..+..    +|+.+..+.+     
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~----~fi~i~~s~l-----  215 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTA----TFIRVVGSEF-----  215 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC----CEEEEehHHH-----
Confidence            35788888888887776432110     011123558999999999999999999987643    4777765433     


Q ss_pred             hHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEecCc
Q psy1308         343 VAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIECKD  411 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~  411 (607)
                      ...++|..+.     .-..+....+....+||||||||.+           +..++..+.+++..-.-.+      ...+
T Consensus       216 ~~k~~ge~~~-----~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~------~~~~  284 (398)
T PTZ00454        216 VQKYLGEGPR-----MVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFD------QTTN  284 (398)
T ss_pred             HHHhcchhHH-----HHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccC------CCCC
Confidence            2333332111     0112334445566799999999975           2456666666664211001      1246


Q ss_pred             eEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--ccccceee
Q psy1308         412 AIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRINEIVY  489 (607)
Q Consensus       412 ~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~~iv~  489 (607)
                      ++||+|||.. +.                                                  + .|.++  +|||..+.
T Consensus       285 v~VI~aTN~~-d~--------------------------------------------------L-DpAllR~GRfd~~I~  312 (398)
T PTZ00454        285 VKVIMATNRA-DT--------------------------------------------------L-DPALLRPGRLDRKIE  312 (398)
T ss_pred             EEEEEecCCc-hh--------------------------------------------------C-CHHHcCCCcccEEEE
Confidence            7899999931 10                                                  1 14444  48999999


Q ss_pred             eccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHH
Q psy1308         490 FLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       490 f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                      |.+++.++...|++..+..        .++.-.++   +..|+. ....+..+.|+..+..+...++
T Consensus       313 ~~~P~~~~R~~Il~~~~~~--------~~l~~dvd---~~~la~-~t~g~sgaDI~~l~~eA~~~A~  367 (398)
T PTZ00454        313 FPLPDRRQKRLIFQTITSK--------MNLSEEVD---LEDFVS-RPEKISAADIAAICQEAGMQAV  367 (398)
T ss_pred             eCCcCHHHHHHHHHHHHhc--------CCCCcccC---HHHHHH-HcCCCCHHHHHHHHHHHHHHHH
Confidence            9999999888887755431        12222222   233332 2233444567766666554443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.09  E-value=2.2e-09  Score=114.01  Aligned_cols=196  Identities=17%  Similarity=0.239  Sum_probs=122.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCC---ceEEe-ecccccc--cc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKE---AFIRL-DMSEYQE--KH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~---~~~~l-~~a~~~~--~~  341 (607)
                      ..++||+.+++.+...+.....       |-.++|+||+|+|||.+++.+++.+...+..   ++... .|.....  +.
T Consensus        14 deiiGqe~v~~~L~~~I~~grl-------~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~   86 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNRL-------AHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHI   86 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCCC-------CeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCC
Confidence            4699999999999888864431       3357999999999999999999998643111   11000 0000000  00


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhh-------CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKK-------CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~-------~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                      .+..+ + .....|   ...+...++.       +++-|++|||+++++++.++.||+.+++-           ..+++|
T Consensus        87 dv~el-d-aas~~g---Id~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEp-----------p~~t~F  150 (535)
T PRK08451         87 DIIEM-D-AASNRG---IDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEP-----------PSYVKF  150 (535)
T ss_pred             eEEEe-c-cccccC---HHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhc-----------CCceEE
Confidence            00000 0 000001   1123333332       34679999999999999999999999952           256788


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |++++-. ..                                                  +. +.+.+|. ..+.|.|++
T Consensus       151 IL~ttd~-~k--------------------------------------------------L~-~tI~SRc-~~~~F~~Ls  177 (535)
T PRK08451        151 ILATTDP-LK--------------------------------------------------LP-ATILSRT-QHFRFKQIP  177 (535)
T ss_pred             EEEECCh-hh--------------------------------------------------Cc-hHHHhhc-eeEEcCCCC
Confidence            8887621 11                                                  11 6677886 678999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       495 ~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      .+++...+...+..        .|  +.+++++++.|+. . ..+..|.+-+.+++.
T Consensus       178 ~~ei~~~L~~Il~~--------EG--i~i~~~Al~~Ia~-~-s~GdlR~alnlLdqa  222 (535)
T PRK08451        178 QNSIISHLKTILEK--------EG--VSYEPEALEILAR-S-GNGSLRDTLTLLDQA  222 (535)
T ss_pred             HHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCCcHHHHHHHHHHH
Confidence            99988876655532        23  4578999998875 1 225556666665543

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.07  E-value=2.7e-09  Score=115.73  Aligned_cols=199  Identities=20%  Similarity=0.269  Sum_probs=123.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEEee-cccccc--cc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIRLD-MSEYQE--KH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~l~-~a~~~~--~~  341 (607)
                      ..++||+..++.+...+.....       +-.++|+||+|+|||.+|+.+++.++...   ..|+-... |-.+..  +.
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~~-------~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~   88 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGKI-------SHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLM   88 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCCC-------CeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCC
Confidence            4689999999999888875431       22689999999999999999999986431   11111110 000000  00


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEe
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMT  417 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~t  417 (607)
                      .+.++-+  ....|.+.-..+.+.+...    .+-|++|||+++++...++.|++.+++.           ..+++||++
T Consensus        89 dv~eida--as~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEep-----------p~~~ifIla  155 (559)
T PRK05563         89 DVIEIDA--ASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEP-----------PAHVIFILA  155 (559)
T ss_pred             CeEEeec--cccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCC-----------CCCeEEEEE
Confidence            0111100  0011111112233333333    3679999999999999999999999853           246788888


Q ss_pred             cCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHH
Q psy1308         418 SNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSE  497 (607)
Q Consensus       418 sn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~  497 (607)
                      |+.. .                                                  .+. +.+.+|. ..+.|.|++.++
T Consensus       156 tt~~-~--------------------------------------------------ki~-~tI~SRc-~~~~f~~~~~~e  182 (559)
T PRK05563        156 TTEP-H--------------------------------------------------KIP-ATILSRC-QRFDFKRISVED  182 (559)
T ss_pred             eCCh-h--------------------------------------------------hCc-HHHHhHh-eEEecCCCCHHH
Confidence            7621 0                                                  011 5677787 457899999999


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       498 ~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      +..++...+..        .|  +.+++++++.|+. +. .++.|...+.+++.
T Consensus       183 i~~~L~~i~~~--------eg--i~i~~~al~~ia~-~s-~G~~R~al~~Ldq~  224 (559)
T PRK05563        183 IVERLKYILDK--------EG--IEYEDEALRLIAR-AA-EGGMRDALSILDQA  224 (559)
T ss_pred             HHHHHHHHHHH--------cC--CCCCHHHHHHHHH-Hc-CCCHHHHHHHHHHH
Confidence            88886655531        13  4568888888875 22 35666666666543

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.07  E-value=2e-09  Score=117.25  Aligned_cols=198  Identities=20%  Similarity=0.237  Sum_probs=121.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC---CceEEe-ecccccc--cc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK---EAFIRL-DMSEYQE--KH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~---~~~~~l-~~a~~~~--~~  341 (607)
                      ..++||+..++.+...+.....       |-.++|+||+|+|||.+++.+++.++....   .++-.. .|..+..  +.
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~~-------~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~   88 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGRV-------AHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSV   88 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCCC-------CeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCC
Confidence            4689999999999888765321       235799999999999999999999864311   111000 0000000  00


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEe
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMT  417 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~t  417 (607)
                      .+..+-|  .+..|.++-..+.+.+...    .+.|++|||+++++...++.|++.+|+.           ..+++||++
T Consensus        89 d~~eid~--~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEep-----------p~~~~fIl~  155 (576)
T PRK14965         89 DVFEIDG--ASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEP-----------PPHVKFIFA  155 (576)
T ss_pred             Ceeeeec--cCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcC-----------CCCeEEEEE
Confidence            0011101  0111111222233333333    3679999999999999999999999953           257788888


Q ss_pred             cCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHH
Q psy1308         418 SNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSE  497 (607)
Q Consensus       418 sn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~  497 (607)
                      |+-. ..                                                  +. +-+.+|. ..+.|.|++.++
T Consensus       156 t~~~-~k--------------------------------------------------l~-~tI~SRc-~~~~f~~l~~~~  182 (576)
T PRK14965        156 TTEP-HK--------------------------------------------------VP-ITILSRC-QRFDFRRIPLQK  182 (576)
T ss_pred             eCCh-hh--------------------------------------------------hh-HHHHHhh-hhhhcCCCCHHH
Confidence            8721 11                                                  11 4566777 568899999998


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       498 ~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      +...+...+..       .   .+.++++++..|+..  ..++.|...+.+++
T Consensus       183 i~~~L~~i~~~-------e---gi~i~~~al~~la~~--a~G~lr~al~~Ldq  223 (576)
T PRK14965        183 IVDRLRYIADQ-------E---GISISDAALALVARK--GDGSMRDSLSTLDQ  223 (576)
T ss_pred             HHHHHHHHHHH-------h---CCCCCHHHHHHHHHH--cCCCHHHHHHHHHH
Confidence            88776655532       1   245788888888741  12455655555554

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.07  E-value=2.9e-09  Score=113.75  Aligned_cols=198  Identities=20%  Similarity=0.228  Sum_probs=121.7

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceE-Eeeccc---c--cccc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFI-RLDMSE---Y--QEKH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~-~l~~a~---~--~~~~  341 (607)
                      ..++||+.+++.+..++.....       |-.++|+||+|+|||.+|+.+++.+...+..... .-.|..   .  ..+.
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl-------~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~   88 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKL-------THAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSV   88 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCC
Confidence            3688999999998887754321       2368999999999999999999998643211000 001100   0  0000


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEe
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMT  417 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~t  417 (607)
                      .+..+=+  .+..|.++-..+...+...    ++.|++|||++.++.+.++.|++.+++.           ..+++||++
T Consensus        89 DiieIda--as~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEP-----------p~~tvfIL~  155 (605)
T PRK05896         89 DIVELDA--ASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEP-----------PKHVVFIFA  155 (605)
T ss_pred             ceEEecc--ccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhC-----------CCcEEEEEE
Confidence            0111100  0111111112222333333    3679999999999999999999999963           246788888


Q ss_pred             cCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHH
Q psy1308         418 SNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSE  497 (607)
Q Consensus       418 sn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~  497 (607)
                      |+.. ..                                                  +. +.+.+|. .++.|.|++.++
T Consensus       156 Tt~~-~K--------------------------------------------------Ll-~TI~SRc-q~ieF~~Ls~~e  182 (605)
T PRK05896        156 TTEF-QK--------------------------------------------------IP-LTIISRC-QRYNFKKLNNSE  182 (605)
T ss_pred             CCCh-Hh--------------------------------------------------hh-HHHHhhh-hhcccCCCCHHH
Confidence            7621 10                                                  11 5677787 478999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       498 ~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      +..++...+..        .|  +.+++++++.|+. .. .+..|...+.+++
T Consensus       183 L~~~L~~il~k--------eg--i~Is~eal~~La~-lS-~GdlR~AlnlLek  223 (605)
T PRK05896        183 LQELLKSIAKK--------EK--IKIEDNAIDKIAD-LA-DGSLRDGLSILDQ  223 (605)
T ss_pred             HHHHHHHHHHH--------cC--CCCCHHHHHHHHH-Hc-CCcHHHHHHHHHH
Confidence            98887665542        12  4578888888875 21 2446666666654

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.06  E-value=3.3e-09  Score=112.18  Aligned_cols=198  Identities=17%  Similarity=0.243  Sum_probs=122.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC----CceEE-eecccccc--c
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK----EAFIR-LDMSEYQE--K  340 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~----~~~~~-l~~a~~~~--~  340 (607)
                      ..++||+.++..+...+.....       |-.++|+||+|+|||.+|+.+++.+.....    .++.. .+|..+..  +
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~i-------~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~   89 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNRA-------AHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTS   89 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------ceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCC
Confidence            4689999999998888865431       336899999999999999999999865311    11100 01111100  0


Q ss_pred             chhHhhhcCCCCCccCCCCchhhHHHh----hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEE
Q psy1308         341 HEVAKLIGAPPGYLGHDDGGQLTKRLK----KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVM  416 (607)
Q Consensus       341 ~~~~~llg~~~g~~g~~~~~~l~~~~~----~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~  416 (607)
                      ..+.++-|  ....|.++-..+.+.+.    .+++.+++|||+++++.+.++.|++.+++..           .+++||+
T Consensus        90 ~d~~~i~g--~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~-----------~~~~~Il  156 (451)
T PRK06305         90 LDVLEIDG--ASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPP-----------QHVKFFL  156 (451)
T ss_pred             CceEEeec--cccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCC-----------CCceEEE
Confidence            01111111  01122111112222222    2457899999999999999999999999621           3567888


Q ss_pred             ecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHH
Q psy1308         417 TSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKS  496 (607)
Q Consensus       417 tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~  496 (607)
                      +++-- ..                                                  +. +.+.+|. .++.|.|++.+
T Consensus       157 ~t~~~-~k--------------------------------------------------l~-~tI~sRc-~~v~f~~l~~~  183 (451)
T PRK06305        157 ATTEI-HK--------------------------------------------------IP-GTILSRC-QKMHLKRIPEE  183 (451)
T ss_pred             EeCCh-Hh--------------------------------------------------cc-hHHHHhc-eEEeCCCCCHH
Confidence            77611 00                                                  11 5567777 46899999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         497 ELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       497 ~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      ++..++...+..        .  .+.+++++++.|+. +. .++.|.+-+.+++
T Consensus       184 el~~~L~~~~~~--------e--g~~i~~~al~~L~~-~s-~gdlr~a~~~Lek  225 (451)
T PRK06305        184 TIIDKLALIAKQ--------E--GIETSREALLPIAR-AA-QGSLRDAESLYDY  225 (451)
T ss_pred             HHHHHHHHHHHH--------c--CCCCCHHHHHHHHH-Hc-CCCHHHHHHHHHH
Confidence            998887655532        1  24578889988875 22 3456666666654

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.06  E-value=4.2e-09  Score=114.82  Aligned_cols=198  Identities=22%  Similarity=0.304  Sum_probs=122.7

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCC-ceEEe-eccc-ccccchhH
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKE-AFIRL-DMSE-YQEKHEVA  344 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~-~~~~l-~~a~-~~~~~~~~  344 (607)
                      ..++||+.+++.+..++.....       +-.++|+||+|+|||.+|+.+|+.++..... .+.+. .|.. ...+..+.
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl-------~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvi   90 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKI-------SHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDII   90 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEE
Confidence            4689999999999888875431       2257999999999999999999998653110 00000 1110 00010110


Q ss_pred             hhhcCCCCCccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                      .  +...+..|.++-..+.+.+...    ++.|++|||++.++.+.++.|++.+++.           ...++||++|+.
T Consensus        91 e--idaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEP-----------P~~tifILaTte  157 (725)
T PRK07133         91 E--MDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEP-----------PKHVIFILATTE  157 (725)
T ss_pred             E--EeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcC-----------CCceEEEEEcCC
Confidence            0  1111112222222334444433    3679999999999999999999999953           246678888761


Q ss_pred             chHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHH
Q psy1308         421 ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT  500 (607)
Q Consensus       421 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~  500 (607)
                      . ..                                                  +. +.+.+|+ ..+.|.|++.+++..
T Consensus       158 ~-~K--------------------------------------------------Ll-~TI~SRc-q~ieF~~L~~eeI~~  184 (725)
T PRK07133        158 V-HK--------------------------------------------------IP-LTILSRV-QRFNFRRISEDEIVS  184 (725)
T ss_pred             h-hh--------------------------------------------------hh-HHHHhhc-eeEEccCCCHHHHHH
Confidence            1 10                                                  11 5678888 478999999999988


Q ss_pred             HHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         501 LVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       501 i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      ++...+..        .|  +.+++++++.|+. . ..++.|.+.+.+++
T Consensus       185 ~L~~il~k--------eg--I~id~eAl~~LA~-l-S~GslR~AlslLek  222 (725)
T PRK07133        185 RLEFILEK--------EN--ISYEKNALKLIAK-L-SSGSLRDALSIAEQ  222 (725)
T ss_pred             HHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCCCHHHHHHHHHH
Confidence            87765432        12  4567888888764 1 12445555555543

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.06  E-value=1.9e-09  Score=117.68  Aligned_cols=193  Identities=19%  Similarity=0.144  Sum_probs=122.2

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~l  376 (607)
                      .+++.|++|+|||.+++.++..+..  ..+|+++.....     ...++|...-+-....+  ....+.+..+++|+||+
T Consensus        18 ~vLl~G~~GtgKs~lar~l~~~~~~--~~pfv~i~~~~t-----~d~L~G~idl~~~~~~g~~~~~~G~L~~A~~GvL~l   90 (589)
T TIGR02031        18 GVAIRARAGTGKTALARALAEILPP--IMPFVELPLGVT-----EDRLIGGIDVEESLAGGQRVTQPGLLDEAPRGVLYV   90 (589)
T ss_pred             eEEEEcCCCcHHHHHHHHHHHhCCc--CCCeEecCcccc-----hhhcccchhhhhhhhcCcccCCCCCeeeCCCCcEec
Confidence            8999999999999999999998765  346888875321     23455532100000000  01123456788899999


Q ss_pred             ecCCccCHHHHHHHHHhhccceeecC--CCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCc
Q psy1308         377 DEVDKAHPDVLTVLLQLFDEGRLTDG--KGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNL  454 (607)
Q Consensus       377 DEiek~~~~~~~~Ll~~~~~~~~~~~--~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  454 (607)
                      |||+++++.+|+.|+++|++|.++..  +.......++++|+|+|....                               
T Consensus        91 DEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~-------------------------------  139 (589)
T TIGR02031        91 DMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEG-------------------------------  139 (589)
T ss_pred             cchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccc-------------------------------
Confidence            99999999999999999999985432  233333467889999883210                               


Q ss_pred             chhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC-CHHHHHHHHHHHHHHHH-----------HHHh--hcCCcE
Q psy1308         455 DVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF-SKSELHTLVCRELNFWA-----------KKAL--DKHNIN  520 (607)
Q Consensus       455 ~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl-~~~~~~~i~~~~l~~~~-----------~~~~--~~~~i~  520 (607)
                                       ...|+ +.|++||+..+...++ +.++-.+|+...+....           +++.  ...--.
T Consensus       140 -----------------~g~L~-~~LldRf~l~v~~~~~~~~~er~eil~~~~~~~~~~~~~~~~~~~~~i~~ar~~~~~  201 (589)
T TIGR02031       140 -----------------GGGLP-DHLLDRLALHVSLEDVASQDLRVEIVRRERCNEVFRMNDELELLRGQIEAARELLPQ  201 (589)
T ss_pred             -----------------cCCCC-HHHHHhccCeeecCCCCCHHHHHHHHHHHHHhhhhhcchhhHHHHHHHHHHHHhcCC
Confidence                             12354 8999999875544443 44555667666542211           0110  111235


Q ss_pred             EEeCHhHHHHHHccCCCCCCccchhHHH
Q psy1308         521 IVWDIDVETILADGYDVHYGARSIKHEV  548 (607)
Q Consensus       521 l~~~~~a~~~L~~~~~~~~GaR~L~~~i  548 (607)
                      +.++++++++|+. +.-..|+.++|..+
T Consensus       202 V~i~~~~~~~l~~-~~~~~gv~s~Ra~i  228 (589)
T TIGR02031       202 VTISAEQVKELVL-TAASLGISGHRADL  228 (589)
T ss_pred             ccCCHHHHHHHHH-HHHHcCCCCccHHH
Confidence            7789999999875 33456665566555

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.04  E-value=2.6e-09  Score=115.10  Aligned_cols=199  Identities=19%  Similarity=0.229  Sum_probs=119.6

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC---CceEEee-cccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK---EAFIRLD-MSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~---~~~~~l~-~a~~~~~~~~  343 (607)
                      ..++||+.+++.+..++.....       +-.++|+||+|+|||.+|+.+++.++....   .++-... |-.+.. ...
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~-------~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~-~~~   87 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRL-------HHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDS-GRF   87 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhc-CCC
Confidence            3689999999998888775431       225789999999999999999999865311   1111000 000000 000


Q ss_pred             HhhhcCCCC-CccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEec
Q psy1308         344 AKLIGAPPG-YLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTS  418 (607)
Q Consensus       344 ~~llg~~~g-~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~ts  418 (607)
                      ..++...++ ..+.++-..+.+.+..    ..+.|++|||+++++.+.++.||+.+++.           ..+++||++|
T Consensus        88 ~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEep-----------p~~~~fIL~t  156 (527)
T PRK14969         88 VDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEP-----------PEHVKFILAT  156 (527)
T ss_pred             CceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCC-----------CCCEEEEEEe
Confidence            000000000 1111111112222222    23579999999999999999999999963           2467788887


Q ss_pred             CcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHH
Q psy1308         419 NLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSEL  498 (607)
Q Consensus       419 n~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~  498 (607)
                      +-. .                                                  .+. +-+.+|. .++.|.|++.+++
T Consensus       157 ~d~-~--------------------------------------------------kil-~tI~SRc-~~~~f~~l~~~~i  183 (527)
T PRK14969        157 TDP-Q--------------------------------------------------KIP-VTVLSRC-LQFNLKQMPPPLI  183 (527)
T ss_pred             CCh-h--------------------------------------------------hCc-hhHHHHH-HHHhcCCCCHHHH
Confidence            611 0                                                  011 4467777 6789999999988


Q ss_pred             HHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         499 HTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       499 ~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      .+.+...+..        .|  +.+++++++.|+. + ..+..|..-+.+++
T Consensus       184 ~~~L~~il~~--------eg--i~~~~~al~~la~-~-s~Gslr~al~lldq  223 (527)
T PRK14969        184 VSHLQHILEQ--------EN--IPFDATALQLLAR-A-AAGSMRDALSLLDQ  223 (527)
T ss_pred             HHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCCCHHHHHHHHHH
Confidence            8876655531        13  4578889888875 2 13446655555554

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.04  E-value=5.8e-10  Score=99.01  Aligned_cols=114  Identities=31%  Similarity=0.535  Sum_probs=76.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCC---CCccCCCCchhhHHHhhCCCeEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPP---GYLGHDDGGQLTKRLKKCPNAVVL  375 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~---g~~g~~~~~~l~~~~~~~~~~vl~  375 (607)
                      ++++.||+|+|||.+++.+++.+    ..++..+.++.....   ..++|...   +...+.+ +.+...++  .+++++
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~----~~~~~~i~~~~~~~~---~dl~g~~~~~~~~~~~~~-~~l~~a~~--~~~il~   70 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALL----GRPVIRINCSSDTTE---EDLIGSYDPSNGQFEFKD-GPLVRAMR--KGGILV   70 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH----TCEEEEEE-TTTSTH---HHHHCEEET-TTTTCEEE--CCCTTHH--EEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh----hcceEEEEecccccc---ccceeeeeeccccccccc-cccccccc--ceeEEE
Confidence            47899999999999999999998    345888888776553   45555311   2111111 22333333  578999


Q ss_pred             EecCCccCHHHHHHHHHhhccceeecCC-CcEEecC-------ceEEEEecCcch
Q psy1308         376 FDEVDKAHPDVLTVLLQLFDEGRLTDGK-GKTIECK-------DAIFVMTSNLAS  422 (607)
Q Consensus       376 lDEiek~~~~~~~~Ll~~~~~~~~~~~~-g~~~~~~-------~~~iI~tsn~~~  422 (607)
                      ||||++++++++..|+++++++.+.... +......       +.+||+|+|-..
T Consensus        71 lDEin~a~~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~  125 (139)
T PF07728_consen   71 LDEINRAPPEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRD  125 (139)
T ss_dssp             ESSCGG--HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST
T ss_pred             ECCcccCCHHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCC
Confidence            9999999999999999999999887433 3333333       389999999543

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>CHL00176 ftsH cell division protein; Validated

Probab=99.04  E-value=6.3e-09  Score=113.78  Aligned_cols=199  Identities=20%  Similarity=0.223  Sum_probs=115.3

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCC----CCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         269 RIVGQESAINIISAAIKRKENGW----TDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~----~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      .++|.+.+.+.+...+.......    .....|..++|+||+|+|||.++++++...    ..+|+.++++.+..     
T Consensus       184 dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~----~~p~i~is~s~f~~-----  254 (638)
T CHL00176        184 DIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA----EVPFFSISGSEFVE-----  254 (638)
T ss_pred             hccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh----CCCeeeccHHHHHH-----
Confidence            47787777777766553322110    012235579999999999999999999876    34688888776532     


Q ss_pred             hhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccC-----------HHHHHHHHHhhccceeecCCCcEEecCceE
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAH-----------PDVLTVLLQLFDEGRLTDGKGKTIECKDAI  413 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~-----------~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~  413 (607)
                      .+.|.     +...-..+....+....+||||||||.+.           ...+..|.+++..-.     |. ....+++
T Consensus       255 ~~~g~-----~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~d-----g~-~~~~~Vi  323 (638)
T CHL00176        255 MFVGV-----GAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMD-----GF-KGNKGVI  323 (638)
T ss_pred             Hhhhh-----hHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhc-----cc-cCCCCee
Confidence            22221     00011122333444557899999998873           333344444442110     00 0124678


Q ss_pred             EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--ccccceeeec
Q psy1308         414 FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRINEIVYFL  491 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~~iv~f~  491 (607)
                      +|++||... .+                                          .         |.++  +|||..+.+.
T Consensus       324 VIaaTN~~~-~L------------------------------------------D---------~ALlRpGRFd~~I~v~  351 (638)
T CHL00176        324 VIAATNRVD-IL------------------------------------------D---------AALLRPGRFDRQITVS  351 (638)
T ss_pred             EEEecCchH-hh------------------------------------------h---------hhhhccccCceEEEEC
Confidence            999998311 11                                          1         2232  4888899999


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         492 PFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       492 pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      +++.++..+|++..+...        .   ..++..+..|+. -.+.+..+.|++.+.+.
T Consensus       352 lPd~~~R~~IL~~~l~~~--------~---~~~d~~l~~lA~-~t~G~sgaDL~~lvneA  399 (638)
T CHL00176        352 LPDREGRLDILKVHARNK--------K---LSPDVSLELIAR-RTPGFSGADLANLLNEA  399 (638)
T ss_pred             CCCHHHHHHHHHHHHhhc--------c---cchhHHHHHHHh-cCCCCCHHHHHHHHHHH
Confidence            999999999988776531        0   012333455553 33334556676666654

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.04  E-value=1.5e-09  Score=117.82  Aligned_cols=198  Identities=16%  Similarity=0.199  Sum_probs=124.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC--C-ceEEeecccccccchhH
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK--E-AFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~--~-~~~~l~~a~~~~~~~~~  344 (607)
                      ..++||+..++.+...+...+.       |-.++|+||+|+|||.+|+.+++.++....  . +.+.--|...   ..+.
T Consensus        24 ~dliGq~~~v~~L~~~~~~gri-------~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c---~~C~   93 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGRI-------AQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVG---EHCQ   93 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCccc---HHHH
Confidence            3689999999999888865431       337999999999999999999999864311  1 1000001100   0111


Q ss_pred             hhh-cCC--------CCCccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCc
Q psy1308         345 KLI-GAP--------PGYLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKD  411 (607)
Q Consensus       345 ~ll-g~~--------~g~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~  411 (607)
                      .+. |..        ...+|.++-..+.+.++..    ++.|+++||++.++...++.|++.+++-           ..+
T Consensus        94 ~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEeP-----------p~~  162 (598)
T PRK09111         94 AIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEP-----------PPH  162 (598)
T ss_pred             HHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhC-----------CCC
Confidence            111 111        1122222222333334333    3679999999999999999999999952           246


Q ss_pred             eEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeec
Q psy1308         412 AIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFL  491 (607)
Q Consensus       412 ~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~  491 (607)
                      ++|||+++--..                                                   .. +-+.+|. ..+.|.
T Consensus       163 ~~fIl~tte~~k---------------------------------------------------ll-~tI~SRc-q~~~f~  189 (598)
T PRK09111        163 VKFIFATTEIRK---------------------------------------------------VP-VTVLSRC-QRFDLR  189 (598)
T ss_pred             eEEEEEeCChhh---------------------------------------------------hh-HHHHhhe-eEEEec
Confidence            778887751100                                                   11 4466777 568999


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         492 PFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       492 pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      +++.+++..++...+..       .   .+.++++++++|+. . ..+..|.+.+.+++.
T Consensus       190 ~l~~~el~~~L~~i~~k-------e---gi~i~~eAl~lIa~-~-a~Gdlr~al~~Ldkl  237 (598)
T PRK09111        190 RIEADVLAAHLSRIAAK-------E---GVEVEDEALALIAR-A-AEGSVRDGLSLLDQA  237 (598)
T ss_pred             CCCHHHHHHHHHHHHHH-------c---CCCCCHHHHHHHHH-H-cCCCHHHHHHHHHHH
Confidence            99999998887666541       1   34578888888874 1 134566666666553

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.04  E-value=4.2e-09  Score=110.17  Aligned_cols=197  Identities=16%  Similarity=0.223  Sum_probs=117.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC--Cc-eE-E--eecccccccc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK--EA-FI-R--LDMSEYQEKH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~--~~-~~-~--l~~a~~~~~~  341 (607)
                      ..++||+.+++.+...+.....       |-.++|+||+|+|||.+|+.+++.+.....  ++ +. .  --|...   .
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~~-------~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c---~   85 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGRV-------GHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGEC---E   85 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCCc-------ceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCC---H
Confidence            4689999999988877764321       235899999999999999999999865310  00 00 0  001100   1


Q ss_pred             hhHhhh-cCCCCCccC---CC--CchhhH---HHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEe
Q psy1308         342 EVAKLI-GAPPGYLGH---DD--GGQLTK---RLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIE  408 (607)
Q Consensus       342 ~~~~ll-g~~~g~~g~---~~--~~~l~~---~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~  408 (607)
                      .+..+. |..+.+.-.   ..  ...+..   .+..    +++.++++||+++++...++.|++.+++.           
T Consensus        86 ~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep-----------  154 (397)
T PRK14955         86 SCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEP-----------  154 (397)
T ss_pred             HHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcC-----------
Confidence            111111 111111000   00  012222   2221    24679999999999999999999999853           


Q ss_pred             cCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccccee
Q psy1308         409 CKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIV  488 (607)
Q Consensus       409 ~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv  488 (607)
                      ...++||++++. ...+                                                  . +.+.+|. .++
T Consensus       155 ~~~t~~Il~t~~-~~kl--------------------------------------------------~-~tl~sR~-~~v  181 (397)
T PRK14955        155 PPHAIFIFATTE-LHKI--------------------------------------------------P-ATIASRC-QRF  181 (397)
T ss_pred             CCCeEEEEEeCC-hHHh--------------------------------------------------H-HHHHHHH-HHh
Confidence            135567776651 1111                                                  0 3455555 468


Q ss_pred             eeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         489 YFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       489 ~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      .|.|++.+++.+++...+..       .   .+.++++++++|+. +. .++.|.+.+.+++
T Consensus       182 ~f~~l~~~ei~~~l~~~~~~-------~---g~~i~~~al~~l~~-~s-~g~lr~a~~~L~k  231 (397)
T PRK14955        182 NFKRIPLEEIQQQLQGICEA-------E---GISVDADALQLIGR-KA-QGSMRDAQSILDQ  231 (397)
T ss_pred             hcCCCCHHHHHHHHHHHHHH-------c---CCCCCHHHHHHHHH-Hc-CCCHHHHHHHHHH
Confidence            89999999998887665541       1   35688999988874 21 2445655555554

>KOG0733|consensus

Probab=99.03  E-value=4.1e-09  Score=108.96  Aligned_cols=209  Identities=23%  Similarity=0.267  Sum_probs=127.9

Q ss_pred             HhHhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc
Q psy1308         267 KDRIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ  338 (607)
Q Consensus       267 ~~~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~  338 (607)
                      |..+-++.....++..++...        ..|+.   .|.-+|++||||+|||.|||++|.....    .|+.+-     
T Consensus       510 W~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~---~PsGvLL~GPPGCGKTLlAKAVANEag~----NFisVK-----  577 (802)
T KOG0733|consen  510 WDDIGALEEVRLELNMAILAPIKRPDLFKALGID---APSGVLLCGPPGCGKTLLAKAVANEAGA----NFISVK-----  577 (802)
T ss_pred             hhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCC---CCCceEEeCCCCccHHHHHHHHhhhccC----ceEeec-----
Confidence            345666777767776666432        23332   3667999999999999999999976532    355543     


Q ss_pred             ccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHH-----------HHHHHHHhhccceeecCCCcEE
Q psy1308         339 EKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPD-----------VLTVLLQLFDEGRLTDGKGKTI  407 (607)
Q Consensus       339 ~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~-----------~~~~Ll~~~~~~~~~~~~g~~~  407 (607)
                      +.....++.|.....     -..+....+.+..|||||||+|.+-|.           +++.||.=|+...         
T Consensus       578 GPELlNkYVGESErA-----VR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~---------  643 (802)
T KOG0733|consen  578 GPELLNKYVGESERA-----VRQVFQRARASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLE---------  643 (802)
T ss_pred             CHHHHHHHhhhHHHH-----HHHHHHHhhcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccc---------
Confidence            333344444422211     123445556667899999999987543           8888888887332         


Q ss_pred             ecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccce
Q psy1308         408 ECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEI  487 (607)
Q Consensus       408 ~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~i  487 (607)
                      +..++.+|.+||..                                           +++.+++   +| |   +|+|.+
T Consensus       644 ~R~gV~viaATNRP-------------------------------------------DiIDpAi---LR-P---GRlDk~  673 (802)
T KOG0733|consen  644 ERRGVYVIAATNRP-------------------------------------------DIIDPAI---LR-P---GRLDKL  673 (802)
T ss_pred             cccceEEEeecCCC-------------------------------------------cccchhh---cC-C---CccCce
Confidence            34678899999932                                           1222222   22 4   588887


Q ss_pred             eeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHc--cCCCCCCccchhHHHHHHHHHHHHHHHHh
Q psy1308         488 VYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILAD--GYDVHYGARSIKHEVERQVVSQLAAAHEK  562 (607)
Q Consensus       488 v~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~--~~~~~~GaR~L~~~i~~~i~~~l~~~~l~  562 (607)
                      ..-.+.+.+|-..|++.....          ...-+++++ ++.|+.  ..+.-.||- |-..+...-+.+|-+.+..
T Consensus       674 LyV~lPn~~eR~~ILK~~tkn----------~k~pl~~dVdl~eia~~~~c~gftGAD-LaaLvreAsi~AL~~~~~~  740 (802)
T KOG0733|consen  674 LYVGLPNAEERVAILKTITKN----------TKPPLSSDVDLDEIARNTKCEGFTGAD-LAALVREASILALRESLFE  740 (802)
T ss_pred             eeecCCCHHHHHHHHHHHhcc----------CCCCCCcccCHHHHhhcccccCCchhh-HHHHHHHHHHHHHHHHHhh
Confidence            665556888888886544431          122334444 445542  233445654 7777877777777666553

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.03  E-value=2.1e-09  Score=114.24  Aligned_cols=199  Identities=21%  Similarity=0.301  Sum_probs=122.8

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEE-eecccccc--cc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIR-LDMSEYQE--KH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~-l~~a~~~~--~~  341 (607)
                      ..++||+.++..+...+.....       +-.++|+||+|+|||.+|+.+++.++...   ..|+.. .+|..+..  +.
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i-------~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~   88 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRV-------SHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFP   88 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCC-------CeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCC
Confidence            3688999999999888865431       22578999999999999999999986321   111111 01111111  00


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhhCC----CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEe
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKKCP----NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMT  417 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~~~----~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~t  417 (607)
                      .+..+-+  ....|.++-..+...+...|    +.|+++||++.++.+.++.|++.+++.           ..+++||++
T Consensus        89 d~~eida--as~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEep-----------p~~~v~Il~  155 (486)
T PRK14953         89 DLIEIDA--ASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEP-----------PPRTIFILC  155 (486)
T ss_pred             cEEEEeC--ccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcC-----------CCCeEEEEE
Confidence            0100100  00111111123333444333    579999999999999999999999853           235667776


Q ss_pred             cCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHH
Q psy1308         418 SNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSE  497 (607)
Q Consensus       418 sn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~  497 (607)
                      ++- ...                                                  +. +.+.+|. ..+.|.|++.++
T Consensus       156 tt~-~~k--------------------------------------------------l~-~tI~SRc-~~i~f~~ls~~e  182 (486)
T PRK14953        156 TTE-YDK--------------------------------------------------IP-PTILSRC-QRFIFSKPTKEQ  182 (486)
T ss_pred             ECC-HHH--------------------------------------------------HH-HHHHHhc-eEEEcCCCCHHH
Confidence            651 111                                                  11 4456666 468999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       498 ~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      +..++...+..        .|  +.++++++++|+. + ..++.|.+-+.+++.
T Consensus       183 l~~~L~~i~k~--------eg--i~id~~al~~La~-~-s~G~lr~al~~Ldkl  224 (486)
T PRK14953        183 IKEYLKRICNE--------EK--IEYEEKALDLLAQ-A-SEGGMRDAASLLDQA  224 (486)
T ss_pred             HHHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCCCHHHHHHHHHHH
Confidence            98887665542        23  4678999999875 2 236677666666654

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.03  E-value=7e-09  Score=112.05  Aligned_cols=196  Identities=14%  Similarity=0.180  Sum_probs=122.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC---CceEEe-ecccccc--cc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK---EAFIRL-DMSEYQE--KH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~---~~~~~l-~~a~~~~--~~  341 (607)
                      ..++||+.++..+...+.....       |-.++|+||+|+|||.+|+.+++.+.....   .++... +|-....  +.
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~i-------~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~   88 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNKI-------ANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSL   88 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCCC-------CeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCC
Confidence            4699999999999888875431       236899999999999999999999864311   111110 0000000  00


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHH---h----hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRL---K----KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~---~----~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                      .+..+-|..  ..+   ...+..+.   .    .+++.++++||++.++...++.|++.+++.           ..+++|
T Consensus        89 dv~~idgas--~~~---vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEep-----------p~~~vf  152 (563)
T PRK06647         89 DVIEIDGAS--NTS---VQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEP-----------PPYIVF  152 (563)
T ss_pred             CeEEecCcc--cCC---HHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccC-----------CCCEEE
Confidence            011110100  000   01222222   2    234679999999999999999999999852           246788


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |++++-- ..                                                  +. +.+.+|.. .+.|.|++
T Consensus       153 I~~tte~-~k--------------------------------------------------L~-~tI~SRc~-~~~f~~l~  179 (563)
T PRK06647        153 IFATTEV-HK--------------------------------------------------LP-ATIKSRCQ-HFNFRLLS  179 (563)
T ss_pred             EEecCCh-HH--------------------------------------------------hH-HHHHHhce-EEEecCCC
Confidence            8887621 10                                                  11 55677774 68899999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       495 ~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      .+++.+++...+..        .+  +.++++++.+|+. . ..+..|.+.+.+++.
T Consensus       180 ~~el~~~L~~i~~~--------eg--i~id~eAl~lLa~-~-s~GdlR~alslLdkl  224 (563)
T PRK06647        180 LEKIYNMLKKVCLE--------DQ--IKYEDEALKWIAY-K-STGSVRDAYTLFDQV  224 (563)
T ss_pred             HHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCCCHHHHHHHHHHH
Confidence            99988776554431        13  4578999999975 1 235577777766653

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.02  E-value=3.5e-09  Score=119.76  Aligned_cols=204  Identities=20%  Similarity=0.288  Sum_probs=127.4

Q ss_pred             HhHhhhhHHHHHHHHHHHHHhhCC-----CCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc
Q psy1308         267 KDRIVGQESAINIISAAIKRKENG-----WTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH  341 (607)
Q Consensus       267 ~~~i~Gq~~ai~~l~~~i~~~~~~-----~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~  341 (607)
                      +..+.|++...+.+.+.+......     ......|..++|+||+|+|||.++++++..+.    .+|+.+..+.+.   
T Consensus       452 ~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~----~~fi~v~~~~l~---  524 (733)
T TIGR01243       452 WSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESG----ANFIAVRGPEIL---  524 (733)
T ss_pred             hhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcC----CCEEEEehHHHh---
Confidence            345788888888887776532110     00112344789999999999999999998864    458888775432   


Q ss_pred             hhHhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccCH------------HHHHHHHHhhccceeecCCCcEE
Q psy1308         342 EVAKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAHP------------DVLTVLLQLFDEGRLTDGKGKTI  407 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~~------------~~~~~Ll~~~~~~~~~~~~g~~~  407 (607)
                        .+       |+|..+.  ..+....+....+||||||||.+.+            .+.+.|+..++.-         .
T Consensus       525 --~~-------~vGese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~---------~  586 (733)
T TIGR01243       525 --SK-------WVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGI---------Q  586 (733)
T ss_pred             --hc-------ccCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcc---------c
Confidence              22       3332211  2334445666789999999998632            3556677776621         1


Q ss_pred             ecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--cccc
Q psy1308         408 ECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRIN  485 (607)
Q Consensus       408 ~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~  485 (607)
                      ...+++||+|||....                                                   . .|.++  +|||
T Consensus       587 ~~~~v~vI~aTn~~~~---------------------------------------------------l-d~allRpgRfd  614 (733)
T TIGR01243       587 ELSNVVVIAATNRPDI---------------------------------------------------L-DPALLRPGRFD  614 (733)
T ss_pred             CCCCEEEEEeCCChhh---------------------------------------------------C-CHhhcCCCccc
Confidence            2357899999993110                                                   1 14454  4999


Q ss_pred             ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHh-HHHHHHccCCCCCCccchhHHHHHHHHHHHHHHH
Q psy1308         486 EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDID-VETILADGYDVHYGARSIKHEVERQVVSQLAAAH  560 (607)
Q Consensus       486 ~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~-a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~  560 (607)
                      .++.+.+++.++..+|++....          +..  ++++ -++.|++ ....+....++..+.+....++-+.+
T Consensus       615 ~~i~v~~Pd~~~R~~i~~~~~~----------~~~--~~~~~~l~~la~-~t~g~sgadi~~~~~~A~~~a~~~~~  677 (733)
T TIGR01243       615 RLILVPPPDEEARKEIFKIHTR----------SMP--LAEDVDLEELAE-MTEGYTGADIEAVCREAAMAALRESI  677 (733)
T ss_pred             eEEEeCCcCHHHHHHHHHHHhc----------CCC--CCccCCHHHHHH-HcCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            9999888899999988764332          111  1222 2455654 33334456788888777777665544

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=99.01  E-value=3.5e-09  Score=110.38  Aligned_cols=167  Identities=23%  Similarity=0.281  Sum_probs=102.9

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCC-----CCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         269 RIVGQESAINIISAAIKRKENG-----WTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~-----~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      .+.|.+..++.+...+......     ......|..++|+||+|||||.++++++..+..    +|+.+..+.+.     
T Consensus       184 DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~----~fi~V~~seL~-----  254 (438)
T PTZ00361        184 DIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSA----TFLRVVGSELI-----  254 (438)
T ss_pred             HhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCC----CEEEEecchhh-----
Confidence            4678888888887776532110     011223457899999999999999999987643    47777655432     


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccC-----------HHHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAH-----------PDVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~-----------~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                      ..++|..+.     .-..+....+....+||||||||.+-           .+++..+++++..-.     |. ....++
T Consensus       255 ~k~~Ge~~~-----~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ld-----g~-~~~~~V  323 (438)
T PTZ00361        255 QKYLGDGPK-----LVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLD-----GF-DSRGDV  323 (438)
T ss_pred             hhhcchHHH-----HHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHh-----hh-cccCCe
Confidence            223321110     01122333344457899999998752           345666666654211     10 012467


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--ccccceeee
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRINEIVYF  490 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~~iv~f  490 (607)
                      .||+|||.. +.+                                                   .|.++  +||+..+.|
T Consensus       324 ~VI~ATNr~-d~L---------------------------------------------------DpaLlRpGRfd~~I~~  351 (438)
T PTZ00361        324 KVIMATNRI-ESL---------------------------------------------------DPALIRPGRIDRKIEF  351 (438)
T ss_pred             EEEEecCCh-HHh---------------------------------------------------hHHhccCCeeEEEEEe
Confidence            899999931 111                                                   14444  589999999


Q ss_pred             ccCCHHHHHHHHHHHHH
Q psy1308         491 LPFSKSELHTLVCRELN  507 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~  507 (607)
                      .+++.++..+|+...+.
T Consensus       352 ~~Pd~~~R~~Il~~~~~  368 (438)
T PTZ00361        352 PNPDEKTKRRIFEIHTS  368 (438)
T ss_pred             CCCCHHHHHHHHHHHHh
Confidence            99999999999876543

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.01  E-value=9.1e-09  Score=106.88  Aligned_cols=196  Identities=18%  Similarity=0.269  Sum_probs=119.6

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++||+..++.+...+....       .|-.++|+||+|+|||.+++.+++.+.......+.  .|....   ....+.
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~-------~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~--~c~~c~---~c~~~~   81 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGR-------IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGE--PCNECE---SCKEIN   81 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCC--CCCCCH---HHHHHh
Confidence            468999999999988876432       13368999999999999999999998643111010  111000   000000


Q ss_pred             -cCCCCC--------ccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         348 -GAPPGY--------LGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       348 -g~~~g~--------~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                       |..+.+        .+.+.-..+.+.+...    ++.+|++||++.++...++.|++.+++.           ..+++|
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~-----------~~~~~l  150 (355)
T TIGR02397        82 SGSSLDVIEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEP-----------PEHVVF  150 (355)
T ss_pred             cCCCCCEEEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCC-----------ccceeE
Confidence             111110        0000001122222222    3569999999999999999999999752           135678


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |++++-. ..                                                  +. +.+.+|. ..+.|.|++
T Consensus       151 Il~~~~~-~~--------------------------------------------------l~-~~l~sr~-~~~~~~~~~  177 (355)
T TIGR02397       151 ILATTEP-HK--------------------------------------------------IP-ATILSRC-QRFDFKRIP  177 (355)
T ss_pred             EEEeCCH-HH--------------------------------------------------HH-HHHHhhe-eEEEcCCCC
Confidence            8877621 11                                                  11 4455666 467889999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       495 ~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      .+++.+++...+..        .|  +.++++++++|+. . ..++.|.+.+.+++.
T Consensus       178 ~~~l~~~l~~~~~~--------~g--~~i~~~a~~~l~~-~-~~g~~~~a~~~lekl  222 (355)
T TIGR02397       178 LEDIVERLKKILDK--------EG--IKIEDEALELIAR-A-ADGSLRDALSLLDQL  222 (355)
T ss_pred             HHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCCChHHHHHHHHHH
Confidence            99998887776642        13  3578899998875 2 134566666666653

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.01  E-value=5.9e-09  Score=108.18  Aligned_cols=205  Identities=21%  Similarity=0.207  Sum_probs=120.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCC-----CCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch
Q psy1308         268 DRIVGQESAINIISAAIKRKENG-----WTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~-----~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~  342 (607)
                      ..+.|.+..++.+...+......     ......|..++++||+|+|||.+++.++..+..    +|..+..+.+     
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~----~~~~v~~~~l-----  192 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA----TFIRVVGSEL-----  192 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCC----CEEecchHHH-----
Confidence            35778888888887776433111     011223557999999999999999999987743    3666654332     


Q ss_pred             hHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEecCc
Q psy1308         343 VAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIECKD  411 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~  411 (607)
                      ...++|.....     -..+....+....++|||||+|.+           ++.++..|.+++..-.-.+      ...+
T Consensus       193 ~~~~~g~~~~~-----i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~------~~~~  261 (364)
T TIGR01242       193 VRKYIGEGARL-----VREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFD------PRGN  261 (364)
T ss_pred             HHHhhhHHHHH-----HHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCC------CCCC
Confidence            22233211110     012233334445689999999986           4567777777765321111      1246


Q ss_pred             eEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--ccccceee
Q psy1308         412 AIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRINEIVY  489 (607)
Q Consensus       412 ~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~~iv~  489 (607)
                      ++||+|||... .                                                  +. +.++  +|++..+.
T Consensus       262 v~vI~ttn~~~-~--------------------------------------------------ld-~al~r~grfd~~i~  289 (364)
T TIGR01242       262 VKVIAATNRPD-I--------------------------------------------------LD-PALLRPGRFDRIIE  289 (364)
T ss_pred             EEEEEecCChh-h--------------------------------------------------CC-hhhcCcccCceEEE
Confidence            78999999321 0                                                  00 3333  48888899


Q ss_pred             eccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHH
Q psy1308         490 FLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       490 f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                      +.+++.++..+|+...+..        ....-.++   ...|+. ....+.++.++..+......++
T Consensus       290 v~~P~~~~r~~Il~~~~~~--------~~l~~~~~---~~~la~-~t~g~sg~dl~~l~~~A~~~a~  344 (364)
T TIGR01242       290 VPLPDFEGRLEILKIHTRK--------MKLAEDVD---LEAIAK-MTEGASGADLKAICTEAGMFAI  344 (364)
T ss_pred             eCCcCHHHHHHHHHHHHhc--------CCCCccCC---HHHHHH-HcCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999997654421        11111122   344443 3344556778777665555443

Many proteins may score above the trusted cutoff because an internal

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.00  E-value=1e-08  Score=104.83  Aligned_cols=183  Identities=21%  Similarity=0.291  Sum_probs=117.0

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      .++|++.+++.+...+....        +.+++|+||+|+|||.+++.++..+.... ...++.++.+...+...+... 
T Consensus        18 ~~~g~~~~~~~l~~~i~~~~--------~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~-   88 (319)
T PRK00440         18 EIVGQEEIVERLKSYVKEKN--------MPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGIDVIRNK-   88 (319)
T ss_pred             HhcCcHHHHHHHHHHHhCCC--------CCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccchHHHHHH-
Confidence            47799999988887775321        12579999999999999999999876542 123344433322111111111 


Q ss_pred             cCCCCCccCCCCchhhHHHhh-----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcch
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKK-----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLAS  422 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~-----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~  422 (607)
                                    +....+.     .+..+|++||++.++.+.++.|++++++..           .++.+|+++|...
T Consensus        89 --------------i~~~~~~~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~-----------~~~~lIl~~~~~~  143 (319)
T PRK00440         89 --------------IKEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYS-----------QNTRFILSCNYSS  143 (319)
T ss_pred             --------------HHHHHhcCCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCC-----------CCCeEEEEeCCcc
Confidence                          1111111     235699999999999999999999987421           3456788776211


Q ss_pred             HHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHH
Q psy1308         423 NEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLV  502 (607)
Q Consensus       423 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~  502 (607)
                      .                                                   +. +.+.+|. .++.|.|++.+++..++
T Consensus       144 ~---------------------------------------------------l~-~~l~sr~-~~~~~~~l~~~ei~~~l  170 (319)
T PRK00440        144 K---------------------------------------------------II-DPIQSRC-AVFRFSPLKKEAVAERL  170 (319)
T ss_pred             c---------------------------------------------------cc-hhHHHHh-heeeeCCCCHHHHHHHH
Confidence            0                                                   11 3455566 36899999999998887


Q ss_pred             HHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         503 CRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       503 ~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      ...+..        .+  +.++++++++|+. . ..+..|.+-+.++.
T Consensus       171 ~~~~~~--------~~--~~i~~~al~~l~~-~-~~gd~r~~~~~l~~  206 (319)
T PRK00440        171 RYIAEN--------EG--IEITDDALEAIYY-V-SEGDMRKAINALQA  206 (319)
T ss_pred             HHHHHH--------cC--CCCCHHHHHHHHH-H-cCCCHHHHHHHHHH
Confidence            765542        13  3578999999985 2 23556665555553

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.99  E-value=7.3e-09  Score=107.84  Aligned_cols=186  Identities=22%  Similarity=0.311  Sum_probs=120.9

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc----C--CceEEeecccc--cc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK----K--EAFIRLDMSEY--QE  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~----~--~~~~~l~~a~~--~~  339 (607)
                      ..++||+.+++.+...+....       -|-.++|+||+|+|||.+++.+++.+....    .  ..+..+++...  ..
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-------~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-------LAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNS   89 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCC
Confidence            358899999998888876532       134789999999999999999999886521    0  11222221111  10


Q ss_pred             cchhHhhhcCCCCCccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEE
Q psy1308         340 KHEVAKLIGAPPGYLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFV  415 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI  415 (607)
                      ...+.+++                ..+..    +++.+|++||++.+++..++.|++.+++.           ..+++||
T Consensus        90 ~~~i~~l~----------------~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~-----------~~~~~~I  142 (367)
T PRK14970         90 VDDIRNLI----------------DQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEP-----------PAHAIFI  142 (367)
T ss_pred             HHHHHHHH----------------HHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCC-----------CCceEEE
Confidence            11111221                11111    23579999999999999999999998752           2356788


Q ss_pred             EecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCH
Q psy1308         416 MTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSK  495 (607)
Q Consensus       416 ~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~  495 (607)
                      ++++...                                                   .+. +.+.+|. .++.|.|++.
T Consensus       143 l~~~~~~---------------------------------------------------kl~-~~l~sr~-~~v~~~~~~~  169 (367)
T PRK14970        143 LATTEKH---------------------------------------------------KII-PTILSRC-QIFDFKRITI  169 (367)
T ss_pred             EEeCCcc---------------------------------------------------cCC-HHHHhcc-eeEecCCccH
Confidence            7776110                                                   011 5566666 4688999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         496 SELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       496 ~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      +++..++...+..        .|  ++++++++++|+. . ..++.|.+.+.+++..
T Consensus       170 ~~l~~~l~~~~~~--------~g--~~i~~~al~~l~~-~-~~gdlr~~~~~lekl~  214 (367)
T PRK14970        170 KDIKEHLAGIAVK--------EG--IKFEDDALHIIAQ-K-ADGALRDALSIFDRVV  214 (367)
T ss_pred             HHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-h-CCCCHHHHHHHHHHHH
Confidence            9998887766542        23  3578999999985 2 2356787777777644

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.99  E-value=1.1e-08  Score=111.20  Aligned_cols=197  Identities=16%  Similarity=0.237  Sum_probs=118.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC--Cc-eEE---eecccccccc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK--EA-FIR---LDMSEYQEKH  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~--~~-~~~---l~~a~~~~~~  341 (607)
                      ..++||+.++..+...+.....       |-.++|+||+|+|||.+|+.+++.++....  ++ +.+   --|...   .
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri-------~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C---~   85 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRV-------GHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGEC---E   85 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccC---H
Confidence            4689999999998887764431       225899999999999999999999865310  00 000   001100   1


Q ss_pred             hhHhhh-cCCCCCccCC---C--CchhhHHHhh-------CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEe
Q psy1308         342 EVAKLI-GAPPGYLGHD---D--GGQLTKRLKK-------CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIE  408 (607)
Q Consensus       342 ~~~~ll-g~~~g~~g~~---~--~~~l~~~~~~-------~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~  408 (607)
                      .+..+. |..+.+.-.+   .  ...+..+++.       +++-|+++||+++++...++.|++.+++-           
T Consensus        86 sC~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEeP-----------  154 (620)
T PRK14954         86 SCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEP-----------  154 (620)
T ss_pred             HHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCC-----------
Confidence            111111 1111111000   0  0122222222       34679999999999999999999999963           


Q ss_pred             cCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccccee
Q psy1308         409 CKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIV  488 (607)
Q Consensus       409 ~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv  488 (607)
                      ...++||++++-. ..                                                  +. +.+.+|. .++
T Consensus       155 p~~tv~IL~t~~~-~k--------------------------------------------------Ll-~TI~SRc-~~v  181 (620)
T PRK14954        155 PPHAIFIFATTEL-HK--------------------------------------------------IP-ATIASRC-QRF  181 (620)
T ss_pred             CCCeEEEEEeCCh-hh--------------------------------------------------hh-HHHHhhc-eEE
Confidence            2456777776511 10                                                  11 4566666 679


Q ss_pred             eeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         489 YFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       489 ~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      .|.|++.+++...+...+..       .   .+.++++++++|+. . ..++.|.+-+.+++
T Consensus       182 ef~~l~~~ei~~~L~~i~~~-------e---gi~I~~eal~~La~-~-s~Gdlr~al~eLeK  231 (620)
T PRK14954        182 NFKRIPLDEIQSQLQMICRA-------E---GIQIDADALQLIAR-K-AQGSMRDAQSILDQ  231 (620)
T ss_pred             ecCCCCHHHHHHHHHHHHHH-------c---CCCCCHHHHHHHHH-H-hCCCHHHHHHHHHH
Confidence            99999999988886655431       1   24578888888874 1 12445555554443

>KOG0727|consensus

Probab=98.98  E-value=2e-09  Score=99.44  Aligned_cols=103  Identities=31%  Similarity=0.478  Sum_probs=80.1

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      |--++++||+|+|||.|++++|..-    .-.|+++.-+++     +.+++|..|..+     .+...+.+.+..+++|+
T Consensus       189 prgvllygppg~gktml~kava~~t----~a~firvvgsef-----vqkylgegprmv-----rdvfrlakenapsiifi  254 (408)
T KOG0727|consen  189 PRGVLLYGPPGTGKTMLAKAVANHT----TAAFIRVVGSEF-----VQKYLGEGPRMV-----RDVFRLAKENAPSIIFI  254 (408)
T ss_pred             CcceEEeCCCCCcHHHHHHHHhhcc----chheeeeccHHH-----HHHHhccCcHHH-----HHHHHHHhccCCcEEEe
Confidence            4478899999999999999999765    345999887776     788998666533     35666777777899999


Q ss_pred             ecCCc-----------cCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         377 DEVDK-----------AHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       377 DEiek-----------~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      ||||.           ++.++|..|+.++..-.-.|.      ..|+-+||+||
T Consensus       255 deidaiatkrfdaqtgadrevqril~ellnqmdgfdq------~~nvkvimatn  302 (408)
T KOG0727|consen  255 DEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQ------TTNVKVIMATN  302 (408)
T ss_pred             ehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCc------ccceEEEEecC
Confidence            99987           467899999999874432332      36788999999

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.97  E-value=1.1e-08  Score=111.85  Aligned_cols=196  Identities=19%  Similarity=0.257  Sum_probs=121.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc----CCceEEe-ecccccc--c
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK----KEAFIRL-DMSEYQE--K  340 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~----~~~~~~l-~~a~~~~--~  340 (607)
                      ..++||+.+++.+...+.....       |-.++|+||.|+|||.+++.+++.+....    ..++-.. .|..+..  +
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~l-------~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~   89 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNKL-------AHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRS   89 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-------CeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCC
Confidence            4689999999999888865431       33589999999999999999999885321    0000000 0000000  0


Q ss_pred             chhHhhhcCCCCCccCCCCchhhHHH---hhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceE
Q psy1308         341 HEVAKLIGAPPGYLGHDDGGQLTKRL---KKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAI  413 (607)
Q Consensus       341 ~~~~~llg~~~g~~g~~~~~~l~~~~---~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~  413 (607)
                      ..+..+-+.  +..+   ...+..++   +..    ++-|++|||+++++.+.++.|++.+++-           ..+++
T Consensus        90 ~n~~~ld~~--~~~~---vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEep-----------p~~ti  153 (614)
T PRK14971         90 YNIHELDAA--SNNS---VDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEP-----------PSYAI  153 (614)
T ss_pred             CceEEeccc--ccCC---HHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCC-----------CCCeE
Confidence            000011000  0000   11222322   222    3679999999999999999999999953           24678


Q ss_pred             EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC
Q psy1308         414 FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF  493 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl  493 (607)
                      ||++|+.. .                                                  .+. +.+.+|. .++.|.|+
T Consensus       154 fIL~tt~~-~--------------------------------------------------kIl-~tI~SRc-~iv~f~~l  180 (614)
T PRK14971        154 FILATTEK-H--------------------------------------------------KIL-PTILSRC-QIFDFNRI  180 (614)
T ss_pred             EEEEeCCc-h--------------------------------------------------hch-HHHHhhh-heeecCCC
Confidence            88887611 0                                                  011 5677777 56899999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       494 ~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      +.+++..++...+..        .|  +.++++++++|+..  ..++.|.+.+.+++.
T Consensus       181 s~~ei~~~L~~ia~~--------eg--i~i~~~al~~La~~--s~gdlr~al~~Lekl  226 (614)
T PRK14971        181 QVADIVNHLQYVASK--------EG--ITAEPEALNVIAQK--ADGGMRDALSIFDQV  226 (614)
T ss_pred             CHHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHHH--cCCCHHHHHHHHHHH
Confidence            999998776655432        23  56788899988741  135566666666553

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=98.96  E-value=1.1e-09  Score=92.28  Aligned_cols=108  Identities=29%  Similarity=0.488  Sum_probs=66.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCC--CeEEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCP--NAVVLF  376 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~--~~vl~l  376 (607)
                      ++++.|++|+|||.+++.+|+.+..+    |.++.++.   ....+.++|.+- |.. + .+.+ . +...|  ..++++
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~----f~RIq~tp---dllPsDi~G~~v-~~~-~-~~~f-~-~~~GPif~~ill~   68 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLS----FKRIQFTP---DLLPSDILGFPV-YDQ-E-TGEF-E-FRPGPIFTNILLA   68 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT------EEEEE--T---T--HHHHHEEEE-EET-T-TTEE-E-EEE-TT-SSEEEE
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCc----eeEEEecC---CCCcccceeeee-ecc-C-CCee-E-eecChhhhceeee
Confidence            47899999999999999999998654    88887742   234567776421 110 0 0110 0 11122  469999


Q ss_pred             ecCCccCHHHHHHHHHhhccceeecCCCcEEec-CceEEEEecC
Q psy1308         377 DEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIEC-KDAIFVMTSN  419 (607)
Q Consensus       377 DEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~-~~~~iI~tsn  419 (607)
                      |||.+++|.+|+.||++|++++++.. |.+... ....+|+|-|
T Consensus        69 DEiNrappktQsAlLeam~Er~Vt~~-g~~~~lp~pf~ViATqN  111 (131)
T PF07726_consen   69 DEINRAPPKTQSALLEAMEERQVTID-GQTYPLPDPFFVIATQN  111 (131)
T ss_dssp             ETGGGS-HHHHHHHHHHHHHSEEEET-TEEEE--SS-EEEEEE-
T ss_pred             cccccCCHHHHHHHHHHHHcCeEEeC-CEEEECCCcEEEEEecC
Confidence            99999999999999999999998864 444444 4467777877

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=98.96  E-value=3.7e-09  Score=108.09  Aligned_cols=132  Identities=30%  Similarity=0.436  Sum_probs=89.1

Q ss_pred             HHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHh
Q psy1308         266 LKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAK  345 (607)
Q Consensus       266 l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~  345 (607)
                      +...++|++..+..+..++....          ++++.|++|+|||.+++.+++.+..    +|.++.|......   ..
T Consensus        22 ~~~~~~g~~~~~~~~l~a~~~~~----------~vll~G~PG~gKT~la~~lA~~l~~----~~~~i~~t~~l~p---~d   84 (329)
T COG0714          22 LEKVVVGDEEVIELALLALLAGG----------HVLLEGPPGVGKTLLARALARALGL----PFVRIQCTPDLLP---SD   84 (329)
T ss_pred             cCCeeeccHHHHHHHHHHHHcCC----------CEEEECCCCccHHHHHHHHHHHhCC----CeEEEecCCCCCH---HH
Confidence            33457777777776655554332          6899999999999999999999864    4999999865543   33


Q ss_pred             hhcCC--------CCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEec-CceEEEE
Q psy1308         346 LIGAP--------PGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIEC-KDAIFVM  416 (607)
Q Consensus       346 llg~~--------~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~-~~~~iI~  416 (607)
                      ++|..        .+..-+..+ .+...+    .+++++|||.+++|.+|+.|+++|+++.++...-..... ...++|+
T Consensus        85 ~~G~~~~~~~~~~~~~~~~~~g-pl~~~~----~~ill~DEInra~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~via  159 (329)
T COG0714          85 LLGTYAYAALLLEPGEFRFVPG-PLFAAV----RVILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIA  159 (329)
T ss_pred             hcCchhHhhhhccCCeEEEecC-Cccccc----ceEEEEeccccCCHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEE
Confidence            44421        111111111 222211    169999999999999999999999998888653221333 4456667


Q ss_pred             ecC
Q psy1308         417 TSN  419 (607)
Q Consensus       417 tsn  419 (607)
                      |+|
T Consensus       160 T~N  162 (329)
T COG0714         160 TQN  162 (329)
T ss_pred             ccC
Confidence            778

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=98.96  E-value=4.5e-09  Score=88.44  Aligned_cols=112  Identities=22%  Similarity=0.386  Sum_probs=83.4

Q ss_pred             ccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeeccc
Q psy1308         258 RKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSE  336 (607)
Q Consensus       258 ~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~  336 (607)
                      ..+.|+..|.+.+.||.-+.+.+..+++..... ..+++|+++.|+|++||||+.+++.||+.++..+ +.+++..-.+.
T Consensus        15 ~~~~L~~~L~~~l~GQhla~~~v~~ai~~~l~~-~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~   93 (127)
T PF06309_consen   15 NITGLEKDLQRNLFGQHLAVEVVVNAIKGHLAN-PNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIAT   93 (127)
T ss_pred             CHHHHHHHHHHHccCcHHHHHHHHHHHHHHHcC-CCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeeccc
Confidence            345788899999999999999999999988765 5789999999999999999999999999988754 55677766655


Q ss_pred             ccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         337 YQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       337 ~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      ....+.. .+-    .|.. +-..++.+.+..+++++++|
T Consensus        94 ~hFP~~~-~v~----~Yk~-~L~~~I~~~v~~C~rslFIF  127 (127)
T PF06309_consen   94 HHFPHNS-NVD----EYKE-QLKSWIRGNVSRCPRSLFIF  127 (127)
T ss_pred             ccCCCch-HHH----HHHH-HHHHHHHHHHHhCCcCeeeC
Confidence            4433221 000    0110 11235677788888887765

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>KOG0738|consensus

Probab=98.96  E-value=6.7e-09  Score=102.05  Aligned_cols=114  Identities=25%  Similarity=0.280  Sum_probs=76.1

Q ss_pred             hHhhhhHHHHHHHHHHHHHhh---CCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKE---NGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~---~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..++|..++++.+.+++....   .-+....+|- .++++||||+|||.|||++|....    ..|+-+..+..     .
T Consensus       212 ~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~----tTFFNVSsstl-----t  282 (491)
T KOG0738|consen  212 DDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECG----TTFFNVSSSTL-----T  282 (491)
T ss_pred             HhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhhc----CeEEEechhhh-----h
Confidence            468899999999988875431   1112234565 789999999999999999997653    23554444443     2


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc------------CHHHHHHHHHhhc
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA------------HPDVLTVLLQLFD  395 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~------------~~~~~~~Ll~~~~  395 (607)
                      +++-|....     -...+.+..+....++|||||||.+            +..+-+.||..||
T Consensus       283 SKwRGeSEK-----lvRlLFemARfyAPStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmD  341 (491)
T KOG0738|consen  283 SKWRGESEK-----LVRLLFEMARFYAPSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMD  341 (491)
T ss_pred             hhhccchHH-----HHHHHHHHHHHhCCceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhh
Confidence            333332111     0124566667777899999999875            3447888888886

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.94  E-value=2.1e-08  Score=104.51  Aligned_cols=218  Identities=19%  Similarity=0.209  Sum_probs=124.1

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC-----CceEEeecccccccchh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK-----EAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~-----~~~~~l~~a~~~~~~~~  343 (607)
                      .+.|.+..++.+...+.....+    ..|..++++||+|+|||.+++.+.+.+.....     -.++.++|........+
T Consensus        16 ~l~gRe~e~~~l~~~l~~~~~~----~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~   91 (365)
T TIGR02928        16 RIVHRDEQIEELAKALRPILRG----SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQV   91 (365)
T ss_pred             CCCCcHHHHHHHHHHHHHHHcC----CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHH
Confidence            5889999999998888765433    23457899999999999999999987643211     24667787765543222


Q ss_pred             -H----hhh--cCCCCCccCCCC---chhhHHHh-hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         344 -A----KLI--GAPPGYLGHDDG---GQLTKRLK-KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       344 -~----~ll--g~~~g~~g~~~~---~~l~~~~~-~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                       .    .+.  |......|....   ..+...+. ..+..+|+|||+|.+....+..|..++.-.....     ....++
T Consensus        92 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~-----~~~~~v  166 (365)
T TIGR02928        92 LVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGD-----LDNAKV  166 (365)
T ss_pred             HHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccC-----CCCCeE
Confidence             1    222  211111111101   11222333 2345789999999994333333444432111011     112467


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccc-ceeeec
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRIN-EIVYFL  491 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~-~iv~f~  491 (607)
                      .+|+++|....                                                ...+. +...+|+. ..+.|.
T Consensus       167 ~lI~i~n~~~~------------------------------------------------~~~l~-~~~~s~~~~~~i~f~  197 (365)
T TIGR02928       167 GVIGISNDLKF------------------------------------------------RENLD-PRVKSSLCEEEIIFP  197 (365)
T ss_pred             EEEEEECCcch------------------------------------------------HhhcC-HHHhccCCcceeeeC
Confidence            88888873110                                                00111 34445553 568999


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHH
Q psy1308         492 PFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       492 pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i  552 (607)
                      |++.+++.+|+...+...   +  .   .-.++++++++++. .-...+.+|..-+.+++.+
T Consensus       198 p~~~~e~~~il~~r~~~~---~--~---~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~  251 (365)
T TIGR02928       198 PYDAEELRDILENRAEKA---F--Y---DGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAG  251 (365)
T ss_pred             CCCHHHHHHHHHHHHHhh---c--c---CCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            999999999988766421   1  0   12377888887754 1222355665555555443

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=98.94  E-value=2.9e-09  Score=111.68  Aligned_cols=201  Identities=21%  Similarity=0.321  Sum_probs=134.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEEee-ccccccc--c
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIRLD-MSEYQEK--H  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~l~-~a~~~~~--~  341 (607)
                      ..++||+..+..+..++...+..       -.++|.||.|+|||.+||.+|+.++-..   .+|+.... |-.....  .
T Consensus        16 ~evvGQe~v~~~L~nal~~~ri~-------hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~   88 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGRIA-------HAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLI   88 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhCcch-------hhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhcCCcc
Confidence            35799999999999999766532       1589999999999999999999986642   23332221 1111111  1


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhhCC----CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEe
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKKCP----NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMT  417 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~~~----~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~t  417 (607)
                      ++.++=+  ....|-++-..+.+.+..+|    +-|.+|||++.++...++.||+-+|+.           +.+++|||+
T Consensus        89 DviEiDa--ASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEP-----------P~hV~FIlA  155 (515)
T COG2812          89 DVIEIDA--ASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEP-----------PSHVKFILA  155 (515)
T ss_pred             cchhhhh--hhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccC-----------ccCeEEEEe
Confidence            2222211  11233333344455555554    679999999999999999999999963           578999999


Q ss_pred             cCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHH
Q psy1308         418 SNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSE  497 (607)
Q Consensus       418 sn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~  497 (607)
                      |.-.                                                   ... ++-.++|. ....|..++.++
T Consensus       156 TTe~---------------------------------------------------~Ki-p~TIlSRc-q~f~fkri~~~~  182 (515)
T COG2812         156 TTEP---------------------------------------------------QKI-PNTILSRC-QRFDFKRLDLEE  182 (515)
T ss_pred             cCCc---------------------------------------------------CcC-chhhhhcc-ccccccCCCHHH
Confidence            8811                                                   011 26677888 457889999998


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       498 ~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      +..-+...+.          .-.+.++++++.+|++  ...++.|.--+.+++.+.
T Consensus       183 I~~~L~~i~~----------~E~I~~e~~aL~~ia~--~a~Gs~RDalslLDq~i~  226 (515)
T COG2812         183 IAKHLAAILD----------KEGINIEEDALSLIAR--AAEGSLRDALSLLDQAIA  226 (515)
T ss_pred             HHHHHHHHHH----------hcCCccCHHHHHHHHH--HcCCChhhHHHHHHHHHH
Confidence            7776655553          1256788999999874  235666666555555443

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.94  E-value=2.1e-08  Score=109.73  Aligned_cols=197  Identities=18%  Similarity=0.221  Sum_probs=119.6

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++||+.++..+...+.....       +-.++|+||+|+|||.+|+.+++.++.........-.|..   ...+..+.
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl-------~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~---C~~C~~i~   85 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRI-------APAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGK---CELCRAIA   85 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCC-------CceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcc---cHHHHHHh
Confidence            4689999999999888875431       2268999999999999999999998653111100001110   01111111


Q ss_pred             -cCCCCC--------ccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         348 -GAPPGY--------LGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       348 -g~~~g~--------~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                       |..+.+        .+.+.-..+.+.+..    +.+.|++|||+|+++.+.++.||+.+|+-           ..+++|
T Consensus        86 ~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEeP-----------p~~tvf  154 (620)
T PRK14948         86 AGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEP-----------PPRVVF  154 (620)
T ss_pred             cCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcC-----------CcCeEE
Confidence             111110        111111112222222    23579999999999999999999999952           246778


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |++|+- ...                                                  +. |.+.+|. ..+.|.+++
T Consensus       155 IL~t~~-~~~--------------------------------------------------ll-pTIrSRc-~~~~f~~l~  181 (620)
T PRK14948        155 VLATTD-PQR--------------------------------------------------VL-PTIISRC-QRFDFRRIP  181 (620)
T ss_pred             EEEeCC-hhh--------------------------------------------------hh-HHHHhhe-eEEEecCCC
Confidence            888762 111                                                  11 6677787 567888998


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       495 ~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      .+++...+.....+        .  .+.++++++..|++ + ..++.|...+.+++
T Consensus       182 ~~ei~~~L~~ia~k--------e--gi~is~~al~~La~-~-s~G~lr~A~~lLek  225 (620)
T PRK14948        182 LEAMVQHLSEIAEK--------E--SIEIEPEALTLVAQ-R-SQGGLRDAESLLDQ  225 (620)
T ss_pred             HHHHHHHHHHHHHH--------h--CCCCCHHHHHHHHH-H-cCCCHHHHHHHHHH
Confidence            88877665443321        1  24478888888874 2 23556666666664

>PRK04195 replication factor C large subunit; Provisional

Probab=98.93  E-value=1.5e-08  Score=108.93  Aligned_cols=185  Identities=22%  Similarity=0.272  Sum_probs=121.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++.+++.+...+..+..+..    +-.++|+||+|+|||.+++.+++.+..    .++.++.+.......+..+++
T Consensus        15 dlvg~~~~~~~l~~~l~~~~~g~~----~~~lLL~GppG~GKTtla~ala~el~~----~~ielnasd~r~~~~i~~~i~   86 (482)
T PRK04195         15 DVVGNEKAKEQLREWIESWLKGKP----KKALLLYGPPGVGKTSLAHALANDYGW----EVIELNASDQRTADVIERVAG   86 (482)
T ss_pred             HhcCCHHHHHHHHHHHHHHhcCCC----CCeEEEECCCCCCHHHHHHHHHHHcCC----CEEEEcccccccHHHHHHHHH
Confidence            588999999999988877664321    448999999999999999999998743    377777776654444555543


Q ss_pred             CCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCH----HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHH
Q psy1308         349 APPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHP----DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNE  424 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~----~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~  424 (607)
                      ....+      ..+.    ..+..+|+|||+|.++.    ..+..|+.+++..             +..||+++|.... 
T Consensus        87 ~~~~~------~sl~----~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~-------------~~~iIli~n~~~~-  142 (482)
T PRK04195         87 EAATS------GSLF----GARRKLILLDEVDGIHGNEDRGGARAILELIKKA-------------KQPIILTANDPYD-  142 (482)
T ss_pred             Hhhcc------Cccc----CCCCeEEEEecCcccccccchhHHHHHHHHHHcC-------------CCCEEEeccCccc-
Confidence            21111      0111    13467999999999876    5678888888732             2346777772110 


Q ss_pred             HHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCCh-hhhccccceeeeccCCHHHHHHHHH
Q psy1308         425 IAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRD-EFLGRINEIVYFLPFSKSELHTLVC  503 (607)
Q Consensus       425 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~-el~~ri~~iv~f~pl~~~~~~~i~~  503 (607)
                                                                        .. + .+.+|. ..+.|.|++.+++..++.
T Consensus       143 --------------------------------------------------~~-~k~Lrsr~-~~I~f~~~~~~~i~~~L~  170 (482)
T PRK04195        143 --------------------------------------------------PS-LRELRNAC-LMIEFKRLSTRSIVPVLK  170 (482)
T ss_pred             --------------------------------------------------cc-hhhHhccc-eEEEecCCCHHHHHHHHH
Confidence                                                              00 2 333444 578999999998888876


Q ss_pred             HHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHH
Q psy1308         504 RELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVE  549 (607)
Q Consensus       504 ~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~  549 (607)
                      ..+..        .+  +.+++++++.|++.  ..+..|.+-+.++
T Consensus       171 ~i~~~--------eg--i~i~~eaL~~Ia~~--s~GDlR~ain~Lq  204 (482)
T PRK04195        171 RICRK--------EG--IECDDEALKEIAER--SGGDLRSAINDLQ  204 (482)
T ss_pred             HHHHH--------cC--CCCCHHHHHHHHHH--cCCCHHHHHHHHH
Confidence            55531        13  35789999999862  1344444444443

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.93  E-value=1e-08  Score=99.32  Aligned_cols=163  Identities=11%  Similarity=0.153  Sum_probs=103.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      +++++||+|+|||.+++.++...... ......+.+.....  ...                .+.+.++.  ..+|+|||
T Consensus        47 ~l~l~Gp~G~GKThLl~a~~~~~~~~-~~~v~y~~~~~~~~--~~~----------------~~~~~~~~--~dlliiDd  105 (235)
T PRK08084         47 YIYLWSREGAGRSHLLHAACAELSQR-GRAVGYVPLDKRAW--FVP----------------EVLEGMEQ--LSLVCIDN  105 (235)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhC-CCeEEEEEHHHHhh--hhH----------------HHHHHhhh--CCEEEEeC
Confidence            68999999999999999999876543 11122222211100  000                11222222  25899999


Q ss_pred             CCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcch
Q psy1308         379 VDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDV  456 (607)
Q Consensus       379 iek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  456 (607)
                      |+.+.  +..+..|..++....  +       ..+..+|+||+.....+..                             
T Consensus       106 i~~~~~~~~~~~~lf~l~n~~~--e-------~g~~~li~ts~~~p~~l~~-----------------------------  147 (235)
T PRK08084        106 IECIAGDELWEMAIFDLYNRIL--E-------SGRTRLLITGDRPPRQLNL-----------------------------  147 (235)
T ss_pred             hhhhcCCHHHHHHHHHHHHHHH--H-------cCCCeEEEeCCCChHHcCc-----------------------------
Confidence            99875  445555655554211  0       1123478888855444311                             


Q ss_pred             hcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHcc
Q psy1308         457 TISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADG  534 (607)
Q Consensus       457 ~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~  534 (607)
                                        +. |+|.+|+.  .++.+.|++.+++.++++....       .+ +  +.++++++++|++ 
T Consensus       148 ------------------~~-~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~-------~~-~--~~l~~~v~~~L~~-  197 (235)
T PRK08084        148 ------------------GL-PDLASRLDWGQIYKLQPLSDEEKLQALQLRAR-------LR-G--FELPEDVGRFLLK-  197 (235)
T ss_pred             ------------------cc-HHHHHHHhCCceeeecCCCHHHHHHHHHHHHH-------Hc-C--CCCCHHHHHHHHH-
Confidence                              12 88999995  6788899999999998754332       11 3  6799999999985 


Q ss_pred             CCCCCCccchhHHHHHH
Q psy1308         535 YDVHYGARSIKHEVERQ  551 (607)
Q Consensus       535 ~~~~~GaR~L~~~i~~~  551 (607)
                       ..+..+|.+.+.+++.
T Consensus       198 -~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        198 -RLDREMRTLFMTLDQL  213 (235)
T ss_pred             -hhcCCHHHHHHHHHHH
Confidence             3467789999999874

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.93  E-value=1.5e-08  Score=110.13  Aligned_cols=213  Identities=14%  Similarity=0.169  Sum_probs=132.9

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeeccccccc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEK  340 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~  340 (607)
                      ..+.+.+.-++.+...+.....+..    |- .+++.|+||+|||.+++.+.+.+....      .-.++.++|..+...
T Consensus       755 D~LPhREeEIeeLasfL~paIkgsg----pnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp  830 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQSG----SNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHP  830 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhcCC----CCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCH
Confidence            4688999999999888877654422    33 467999999999999999988763211      123567788665544


Q ss_pred             chh-----HhhhcCCCCCccCCCCchhhHHHhhC-----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         341 HEV-----AKLIGAPPGYLGHDDGGQLTKRLKKC-----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       341 ~~~-----~~llg~~~g~~g~~~~~~l~~~~~~~-----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                      ..+     ..|++..|. .|......+..++...     ...||+|||||.+....++.|+.+++-...  .      -.
T Consensus       831 ~sIYqvI~qqL~g~~P~-~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~--s------~S  901 (1164)
T PTZ00112        831 NAAYQVLYKQLFNKKPP-NALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTK--I------NS  901 (1164)
T ss_pred             HHHHHHHHHHHcCCCCC-ccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhc--c------CC
Confidence            432     123343321 1211111222222221     245899999999988778889988873221  1      13


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccc-ceee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRIN-EIVY  489 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~-~iv~  489 (607)
                      .++||++||-- + +                                              ...+. |.+.+|+. ..+.
T Consensus       902 KLiLIGISNdl-D-L----------------------------------------------perLd-PRLRSRLg~eeIv  932 (1164)
T PTZ00112        902 KLVLIAISNTM-D-L----------------------------------------------PERLI-PRCRSRLAFGRLV  932 (1164)
T ss_pred             eEEEEEecCch-h-c----------------------------------------------chhhh-hhhhhcccccccc
Confidence            57789999811 0 0                                              00011 44555553 3478


Q ss_pred             eccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHH
Q psy1308         490 FLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       490 f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i  552 (607)
                      |.|++.+++.+|+...+...          .-.++++|++++++ .....+.||..-..+++.+
T Consensus       933 F~PYTaEQL~dILk~RAe~A----------~gVLdDdAIELIArkVAq~SGDARKALDILRrAg  986 (1164)
T PTZ00112        933 FSPYKGDEIEKIIKERLENC----------KEIIDHTAIQLCARKVANVSGDIRKALQICRKAF  986 (1164)
T ss_pred             CCCCCHHHHHHHHHHHHHhC----------CCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHH
Confidence            99999999999988777531          12489999999985 3444577775555554433

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.92  E-value=5.7e-08  Score=97.48  Aligned_cols=209  Identities=20%  Similarity=0.221  Sum_probs=128.7

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhcc---CcCCceEEeec----cccccc-
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR---DKKEAFIRLDM----SEYQEK-  340 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~---~~~~~~~~l~~----a~~~~~-  340 (607)
                      .++|++++++.+...++....+...  +...++|+||+|+|||++++.|++.+..   .++.++..+..    +...++ 
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~--~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~~~~~sp~~e~P  129 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEE--RKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKWNGEESPMHEDP  129 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCC--CCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEecCCCCCCccCC
Confidence            6999999999999998887765432  2346899999999999999999998754   22344544433    221111 


Q ss_pred             -----------------------------------------------------------------------chhHhhhcC
Q psy1308         341 -----------------------------------------------------------------------HEVAKLIGA  349 (607)
Q Consensus       341 -----------------------------------------------------------------------~~~~~llg~  349 (607)
                                                                                             ..++.|+|.
T Consensus       130 l~l~p~~~r~~~~~~~~~~~~~~~~~l~p~c~~~l~~e~~gd~~~~~V~~~~~s~~~~~gi~~~~P~D~~~qdi~~L~G~  209 (361)
T smart00763      130 LHLFPDELREDLEDEYGIPRRRLEGDLSPWCRKRLDEEYGGDIEKFEVVRVNFSELRRIGIGKFEPKDENNQDISELTGK  209 (361)
T ss_pred             cccCCHHHHHHHHHHhCCChhhcCCCCCHHHHHHHHHHhCCCcceEEEEEecCCeecceEEEEECCCCCCcccHHHHhcc
Confidence                                                                                   011111111


Q ss_pred             C-----CCCccCCCCc--hhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcch
Q psy1308         350 P-----PGYLGHDDGG--QLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLAS  422 (607)
Q Consensus       350 ~-----~g~~g~~~~~--~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~  422 (607)
                      .     ..| +..+..  ...+.+.++++|++-|+|+.|++.+++..||.++++|.+...++.....-+.+||++||-. 
T Consensus       210 vd~~k~~~~-~~~dp~a~~~~G~l~~aNrGi~~f~Ei~K~~~~~l~~LL~~~qE~~v~~~~~~~~~~~d~liia~sNe~-  287 (361)
T smart00763      210 VDIRKLEIY-SESDPRAFSYDGALNRANRGILEFVEMFKADIKFLHPLLTATQEGNIKGTGGFAMIPIDGLIIAHSNES-  287 (361)
T ss_pred             cCHHHhccc-CCCCCeEEeccCccccccCceEEEeehhcCCHHHHHHHhhhhhcceEecCCcccccccceEEEEeCCHH-
Confidence            0     000 000000  0123455677899999999999999999999999999998654332333556899999921 


Q ss_pred             HHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHH
Q psy1308         423 NEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLV  502 (607)
Q Consensus       423 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~  502 (607)
                       +....                                  +        .... ...|..|+..+-+--|++.++=.+|.
T Consensus       288 -e~~~~----------------------------------~--------~~k~-~eaf~dR~~~i~vpY~l~~~~E~~Iy  323 (361)
T smart00763      288 -EWQRF----------------------------------K--------SNKK-NEALLDRIIKVKVPYCLRVSEEAQIY  323 (361)
T ss_pred             -HHhhh----------------------------------h--------cccc-chhhhhceEEEeCCCcCCHHHHHHHH
Confidence             11000                                  0        0001 16788899744444456777777787


Q ss_pred             HHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         503 CRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       503 ~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                      +..+..-       ......+.|.+++.++
T Consensus       324 ~k~~~~s-------~~~~~~~aP~~le~aa  346 (361)
T smart00763      324 EKLLRNS-------DLTEAHIAPHTLEMAA  346 (361)
T ss_pred             HHHhccC-------cCcccccCchHHHHHH
Confidence            7776521       0124556677666654

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.92  E-value=1.2e-08  Score=107.80  Aligned_cols=165  Identities=22%  Similarity=0.307  Sum_probs=99.3

Q ss_pred             HhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc----CCceEEeeccc
Q psy1308         269 RIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK----KEAFIRLDMSE  336 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~----~~~~~~l~~a~  336 (607)
                      .+.|.+..++.+...+...        ..+..   .|..++|+||||+|||.++++++..+....    ......+++..
T Consensus       183 dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~---~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~  259 (512)
T TIGR03689       183 DIGGLDSQIEQIRDAVELPFLHPELYREYDLK---PPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKG  259 (512)
T ss_pred             HcCChHHHHHHHHHHHHHHhhCHHHHHhccCC---CCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccc
Confidence            4677888888887776432        11222   244799999999999999999999875421    01111122111


Q ss_pred             ccccchhHhhhcCCCCCccCCCC--chhhHHHhh----CCCeEEEEecCCccCH------------HHHHHHHHhhccce
Q psy1308         337 YQEKHEVAKLIGAPPGYLGHDDG--GQLTKRLKK----CPNAVVLFDEVDKAHP------------DVLTVLLQLFDEGR  398 (607)
Q Consensus       337 ~~~~~~~~~llg~~~g~~g~~~~--~~l~~~~~~----~~~~vl~lDEiek~~~------------~~~~~Ll~~~~~~~  398 (607)
                             ..++.   .|.|....  ..+....+.    ...++|||||+|.+-.            .+.+.||..++.- 
T Consensus       260 -------~eLl~---kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl-  328 (512)
T TIGR03689       260 -------PELLN---KYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGV-  328 (512)
T ss_pred             -------hhhcc---cccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhccc-
Confidence                   11111   12221111  112222222    2468999999997621            2345677766531 


Q ss_pred             eecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCCh
Q psy1308         399 LTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRD  478 (607)
Q Consensus       399 ~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~  478 (607)
                              ....++++|+|||...                                           .        + .|
T Consensus       329 --------~~~~~ViVI~ATN~~d-------------------------------------------~--------L-Dp  348 (512)
T TIGR03689       329 --------ESLDNVIVIGASNRED-------------------------------------------M--------I-DP  348 (512)
T ss_pred             --------ccCCceEEEeccCChh-------------------------------------------h--------C-CH
Confidence                    1225788999999310                                           0        1 15


Q ss_pred             hhhc--cccceeeeccCCHHHHHHHHHHHHH
Q psy1308         479 EFLG--RINEIVYFLPFSKSELHTLVCRELN  507 (607)
Q Consensus       479 el~~--ri~~iv~f~pl~~~~~~~i~~~~l~  507 (607)
                      .++.  |||..|.|.+++.++..+|+...+.
T Consensus       349 ALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~  379 (512)
T TIGR03689       349 AILRPGRLDVKIRIERPDAEAAADIFSKYLT  379 (512)
T ss_pred             hhcCccccceEEEeCCCCHHHHHHHHHHHhh
Confidence            5654  9999999999999999999988775

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=98.92  E-value=2.8e-09  Score=98.30  Aligned_cols=130  Identities=25%  Similarity=0.316  Sum_probs=83.3

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC----------------------
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK----------------------  326 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~----------------------  326 (607)
                      .++||+.++..+.-+..-.          -.+++.||+|+|||.+|+.+...+..-..                      
T Consensus         4 dI~GQe~aKrAL~iAAaG~----------h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~~~~~~~~~~   73 (206)
T PF01078_consen    4 DIVGQEEAKRALEIAAAGG----------HHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVAGLGPDEGLI   73 (206)
T ss_dssp             CSSSTHHHHHHHHHHHHCC------------EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT---S---EEE
T ss_pred             hhcCcHHHHHHHHHHHcCC----------CCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhccccccccCCCCCcee
Confidence            4789999988876555421          16999999999999999999988643110                      


Q ss_pred             --CceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeec--C
Q psy1308         327 --EAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTD--G  402 (607)
Q Consensus       327 --~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~--~  402 (607)
                        .||...+-     ......++|..        .....+.+..+++||||+||+-..++.+++.|++.+++|+++-  .
T Consensus        74 ~~~Pfr~phh-----s~s~~~liGgg--------~~~~PGeislAh~GVLflDE~~ef~~~vld~Lr~ple~g~v~i~R~  140 (206)
T PF01078_consen   74 RQRPFRAPHH-----SASEAALIGGG--------RPPRPGEISLAHRGVLFLDELNEFDRSVLDALRQPLEDGEVTISRA  140 (206)
T ss_dssp             E---EEEE-T-----T--HHHHHEEG--------GGEEE-CGGGGTTSEEEECETTTS-HHHHHHHHHHHHHSBEEEEET
T ss_pred             cCCCcccCCC-----CcCHHHHhCCC--------cCCCcCHHHHhcCCEEEechhhhcCHHHHHHHHHHHHCCeEEEEEC
Confidence              11111111     11233455421        0123456788999999999999999999999999999998764  3


Q ss_pred             CCcEEecCceEEEEecCcc
Q psy1308         403 KGKTIECKDAIFVMTSNLA  421 (607)
Q Consensus       403 ~g~~~~~~~~~iI~tsn~~  421 (607)
                      ++......+.++|+|.|--
T Consensus       141 ~~~~~~Pa~f~lv~a~NPc  159 (206)
T PF01078_consen  141 GGSVTYPARFLLVAAMNPC  159 (206)
T ss_dssp             TEEEEEB--EEEEEEE-S-
T ss_pred             CceEEEecccEEEEEeccc
Confidence            4444556888999998843

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.92  E-value=2.5e-08  Score=109.34  Aligned_cols=195  Identities=19%  Similarity=0.263  Sum_probs=118.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCc-eEEeecccccccchhHhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEA-FIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~-~~~l~~a~~~~~~~~~~l  346 (607)
                      ..++||+.+++.+...+.....       +-.++|+||+|+|||.+++.+++.+......+ ..+  |..   ...+..+
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~i-------~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~--c~~---c~~c~~i   83 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGRV-------AHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRP--CGT---CEMCRAI   83 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCC-------ceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCC--Ccc---CHHHHHH
Confidence            4689999999998888765431       22579999999999999999999986421100 000  100   0011111


Q ss_pred             h-cCCC--------CCccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceE
Q psy1308         347 I-GAPP--------GYLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAI  413 (607)
Q Consensus       347 l-g~~~--------g~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~  413 (607)
                      . |..+        ...+.++-..+.+.+..    +.+.|++|||+++++.+.++.|++.+++..           .+++
T Consensus        84 ~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp-----------~~tv  152 (585)
T PRK14950         84 AEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPP-----------PHAI  152 (585)
T ss_pred             hcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCC-----------CCeE
Confidence            1 0001        11111111122222222    346799999999999999999999998632           3567


Q ss_pred             EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccC
Q psy1308         414 FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF  493 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl  493 (607)
                      ||++++-- ..                                                  +. +.+.+|. ..+.|.++
T Consensus       153 ~Il~t~~~-~k--------------------------------------------------ll-~tI~SR~-~~i~f~~l  179 (585)
T PRK14950        153 FILATTEV-HK--------------------------------------------------VP-ATILSRC-QRFDFHRH  179 (585)
T ss_pred             EEEEeCCh-hh--------------------------------------------------hh-HHHHhcc-ceeeCCCC
Confidence            78776510 00                                                  11 3455565 45789999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       494 ~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      +.+++..++...+..        .|  +.++++++.+|+. + ..++.|.+.+.+++
T Consensus       180 ~~~el~~~L~~~a~~--------eg--l~i~~eal~~La~-~-s~Gdlr~al~~Lek  224 (585)
T PRK14950        180 SVADMAAHLRKIAAA--------EG--INLEPGALEAIAR-A-ATGSMRDAENLLQQ  224 (585)
T ss_pred             CHHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-H-cCCCHHHHHHHHHH
Confidence            999888876555431        12  4478888888874 1 12456766666665

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=98.90  E-value=6.4e-09  Score=112.65  Aligned_cols=178  Identities=22%  Similarity=0.283  Sum_probs=112.9

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      |..+||+||+|+|||.+|++++..+    ..+|+.++.+.+.     .+++|.....+     ..+....++...+||||
T Consensus       276 ~~giLl~GpPGtGKT~lAkava~~~----~~~fi~v~~~~l~-----sk~vGesek~i-----r~~F~~A~~~~p~iiFi  341 (494)
T COG0464         276 PKGVLLYGPPGTGKTLLAKAVALES----RSRFISVKGSELL-----SKWVGESEKNI-----RELFEKARKLAPSIIFI  341 (494)
T ss_pred             CCeeEEECCCCCCHHHHHHHHHhhC----CCeEEEeeCHHHh-----ccccchHHHHH-----HHHHHHHHcCCCcEEEE
Confidence            4489999999999999999999866    4459999987653     33444222111     13344455566899999


Q ss_pred             ecCCccC-----------HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCC
Q psy1308         377 DEVDKAH-----------PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPS  445 (607)
Q Consensus       377 DEiek~~-----------~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~  445 (607)
                      ||+|++-           ..+++.|+..++.-.         ..+++++|.+||....                      
T Consensus       342 DEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e---------~~~~v~vi~aTN~p~~----------------------  390 (494)
T COG0464         342 DEIDSLASGRGPSEDGSGRRVVGQLLTELDGIE---------KAEGVLVIAATNRPDD----------------------  390 (494)
T ss_pred             EchhhhhccCCCCCchHHHHHHHHHHHHhcCCC---------ccCceEEEecCCCccc----------------------
Confidence            9999862           247777777775221         2356788999993211                      


Q ss_pred             cccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--cccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEe
Q psy1308         446 ISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVW  523 (607)
Q Consensus       446 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~  523 (607)
                                                   . .|.++.  |||.++.+.|.+.++..+|+...+.....        . -.
T Consensus       391 -----------------------------l-d~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~--------~-~~  431 (494)
T COG0464         391 -----------------------------L-DPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKP--------P-LA  431 (494)
T ss_pred             -----------------------------c-CHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCC--------c-ch
Confidence                                         1 144444  99999999999999999998887763111        0 01


Q ss_pred             CHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHH
Q psy1308         524 DIDVETILADGYDVHYGARSIKHEVERQVVSQLAAA  559 (607)
Q Consensus       524 ~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~  559 (607)
                      ++-.++.|++ -...+-...+...++.....++.+.
T Consensus       432 ~~~~~~~l~~-~t~~~sgadi~~i~~ea~~~~~~~~  466 (494)
T COG0464         432 EDVDLEELAE-ITEGYSGADIAALVREAALEALREA  466 (494)
T ss_pred             hhhhHHHHHH-HhcCCCHHHHHHHHHHHHHHHHHHh
Confidence            1222333432 1111333447777777666666544

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=98.90  E-value=1.1e-08  Score=101.53  Aligned_cols=111  Identities=25%  Similarity=0.400  Sum_probs=80.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCC-----CC--ccCCCCchhhHHHhhCCC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPP-----GY--LGHDDGGQLTKRLKKCPN  371 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~-----g~--~g~~~~~~l~~~~~~~~~  371 (607)
                      ++++.|++|+|||.+++.+++.+..    +++++++.....   ...++|...     |.  ..+ ..|.+..+.  ..+
T Consensus        66 ~ilL~G~pGtGKTtla~~lA~~l~~----~~~rV~~~~~l~---~~DliG~~~~~l~~g~~~~~f-~~GpL~~A~--~~g  135 (327)
T TIGR01650        66 RVMVQGYHGTGKSTHIEQIAARLNW----PCVRVNLDSHVS---RIDLVGKDAIVLKDGKQITEF-RDGILPWAL--QHN  135 (327)
T ss_pred             cEEEEeCCCChHHHHHHHHHHHHCC----CeEEEEecCCCC---hhhcCCCceeeccCCcceeEE-ecCcchhHH--hCC
Confidence            5899999999999999999999854    588998876533   345666421     10  111 112333332  245


Q ss_pred             eEEEEecCCccCHHHHHHHHHhhc-cceeec-CCCcEEecC-ceEEEEecC
Q psy1308         372 AVVLFDEVDKAHPDVLTVLLQLFD-EGRLTD-GKGKTIECK-DAIFVMTSN  419 (607)
Q Consensus       372 ~vl~lDEiek~~~~~~~~Ll~~~~-~~~~~~-~~g~~~~~~-~~~iI~tsn  419 (607)
                      .+++||||+.++|+++..|..++| ++.++. ..+..+... +.++|+|+|
T Consensus       136 ~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~N  186 (327)
T TIGR01650       136 VALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATAN  186 (327)
T ss_pred             eEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeC
Confidence            789999999999999999999999 456665 356667565 788999999

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.90  E-value=2.5e-08  Score=107.75  Aligned_cols=164  Identities=20%  Similarity=0.250  Sum_probs=98.4

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCC--C--CCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         269 RIVGQESAINIISAAIKRKENG--W--TDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~--~--~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      .+.|++.+.+.+...+......  +  .....|..++|+||+|||||.+++.++....    -+|+.++.+.+.     .
T Consensus        56 di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~----~~~~~i~~~~~~-----~  126 (495)
T TIGR01241        56 DVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAG----VPFFSISGSDFV-----E  126 (495)
T ss_pred             HhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcC----CCeeeccHHHHH-----H
Confidence            4667777666665544321110  0  0122345799999999999999999998763    357777765542     1


Q ss_pred             hhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCH--------------HHHHHHHHhhccceeecCCCcEEecC
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHP--------------DVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~--------------~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                      .+.|...     ..-..+....+....+||||||||.+.+              .+++.|+..++.-  .       ...
T Consensus       127 ~~~g~~~-----~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~--~-------~~~  192 (495)
T TIGR01241       127 MFVGVGA-----SRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGF--G-------TNT  192 (495)
T ss_pred             HHhcccH-----HHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccc--c-------CCC
Confidence            2222100     0011233334445568999999988643              2344555555421  1       123


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--cccccee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRINEIV  488 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~~iv  488 (607)
                      +++||+|||... .                                          +.         |.++  +|||..+
T Consensus       193 ~v~vI~aTn~~~-~------------------------------------------ld---------~al~r~gRfd~~i  220 (495)
T TIGR01241       193 GVIVIAATNRPD-V------------------------------------------LD---------PALLRPGRFDRQV  220 (495)
T ss_pred             CeEEEEecCChh-h------------------------------------------cC---------HHHhcCCcceEEE
Confidence            578999998321 1                                          11         3333  4899989


Q ss_pred             eeccCCHHHHHHHHHHHHH
Q psy1308         489 YFLPFSKSELHTLVCRELN  507 (607)
Q Consensus       489 ~f~pl~~~~~~~i~~~~l~  507 (607)
                      .+.+++.++..+|++..+.
T Consensus       221 ~i~~Pd~~~R~~il~~~l~  239 (495)
T TIGR01241       221 VVDLPDIKGREEILKVHAK  239 (495)
T ss_pred             EcCCCCHHHHHHHHHHHHh
Confidence            9988899999999887664

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=98.88  E-value=3.2e-08  Score=111.67  Aligned_cols=179  Identities=20%  Similarity=0.266  Sum_probs=116.9

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~  342 (607)
                      .++|++..++.+...+.+..        +..++|+||||+|||.+++.++..+...+      ...+..++++.....  
T Consensus       183 ~~igr~~ei~~~~~~L~~~~--------~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~--  252 (731)
T TIGR02639       183 PLIGREDELERTIQVLCRRK--------KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAG--  252 (731)
T ss_pred             cccCcHHHHHHHHHHHhcCC--------CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhh--
Confidence            47899999998877765442        22578999999999999999998873321      223555555433210  


Q ss_pred             hHhhhcCCCCCccCCCCchhhHHHh---hCCCeEEEEecCCccC---------HHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         343 VAKLIGAPPGYLGHDDGGQLTKRLK---KCPNAVVLFDEVDKAH---------PDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l~~~~~---~~~~~vl~lDEiek~~---------~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                              ..|.|. -...+...+.   .....|||||||+.+.         .++++.|...++.|             
T Consensus       253 --------~~~~g~-~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g-------------  310 (731)
T TIGR02639       253 --------TKYRGD-FEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSG-------------  310 (731)
T ss_pred             --------ccccch-HHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCC-------------
Confidence                    112221 1123333343   3457899999999763         45788888888754             


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      ++.+|.+||.  .+...+.                                 .           . .+.|.+||. .+.+
T Consensus       311 ~i~~IgaTt~--~e~~~~~---------------------------------~-----------~-d~al~rRf~-~i~v  342 (731)
T TIGR02639       311 KLRCIGSTTY--EEYKNHF---------------------------------E-----------K-DRALSRRFQ-KIDV  342 (731)
T ss_pred             CeEEEEecCH--HHHHHHh---------------------------------h-----------h-hHHHHHhCc-eEEe
Confidence            3568888882  1111110                                 0           0 277888896 6788


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .+++.++..+|++.....+..    .+  .+.++++++..++.
T Consensus       343 ~~p~~~~~~~il~~~~~~~e~----~~--~v~i~~~al~~~~~  379 (731)
T TIGR02639       343 GEPSIEETVKILKGLKEKYEE----FH--HVKYSDEALEAAVE  379 (731)
T ss_pred             CCCCHHHHHHHHHHHHHHHHh----cc--CcccCHHHHHHHHH
Confidence            889999999998877665332    12  46789999998874

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=98.87  E-value=8.5e-09  Score=90.46  Aligned_cols=96  Identities=35%  Similarity=0.502  Sum_probs=67.2

Q ss_pred             eeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch--hHhhhcCCCCCccCCCCchhhHHHhhCC-CeEEEE
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE--VAKLIGAPPGYLGHDDGGQLTKRLKKCP-NAVVLF  376 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~--~~~llg~~~g~~g~~~~~~l~~~~~~~~-~~vl~l  376 (607)
                      ++++||+|+|||.+++.+++.+.    .++..+++........  ....+            ..+........ .++++|
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~----~~~~~i~~~~~~~~~~~~~~~~i------------~~~~~~~~~~~~~~vl~i   64 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG----FPFIEIDGSELISSYAGDSEQKI------------RDFFKKAKKSAKPCVLFI   64 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT----SEEEEEETTHHHTSSTTHHHHHH------------HHHHHHHHHTSTSEEEEE
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc----ccccccccccccccccccccccc------------ccccccccccccceeeee
Confidence            57999999999999999999984    4588888877652210  00000            11223333344 699999


Q ss_pred             ecCCccCHHH-----------HHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         377 DEVDKAHPDV-----------LTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       377 DEiek~~~~~-----------~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      ||+|.+.+..           ++.|+..+++..-.        .++++||+|||
T Consensus        65 De~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~--------~~~~~vI~ttn  110 (132)
T PF00004_consen   65 DEIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSK--------NSRVIVIATTN  110 (132)
T ss_dssp             ETGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTT--------SSSEEEEEEES
T ss_pred             ccchhcccccccccccccccccceeeecccccccc--------cccceeEEeeC
Confidence            9999998775           88888888854311        25689999999

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PRK08727 hypothetical protein; Validated

Probab=98.86  E-value=5.7e-08  Score=93.98  Aligned_cols=163  Identities=12%  Similarity=0.136  Sum_probs=104.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      +++++|++|+|||.++++++..+... ......+.+......  ..                .....+.  ...+|+|||
T Consensus        43 ~l~l~G~~G~GKThL~~a~~~~~~~~-~~~~~y~~~~~~~~~--~~----------------~~~~~l~--~~dlLiIDD  101 (233)
T PRK08727         43 WLYLSGPAGTGKTHLALALCAAAEQA-GRSSAYLPLQAAAGR--LR----------------DALEALE--GRSLVALDG  101 (233)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHc-CCcEEEEeHHHhhhh--HH----------------HHHHHHh--cCCEEEEeC
Confidence            58999999999999999998876554 222223333221110  00                1111222  235999999


Q ss_pred             CCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcch
Q psy1308         379 VDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDV  456 (607)
Q Consensus       379 iek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  456 (607)
                      ++.+.  +..+..|+.++....  .        ...-+|+||+.....+..                             
T Consensus       102 i~~l~~~~~~~~~lf~l~n~~~--~--------~~~~vI~ts~~~p~~l~~-----------------------------  142 (233)
T PRK08727        102 LESIAGQREDEVALFDFHNRAR--A--------AGITLLYTARQMPDGLAL-----------------------------  142 (233)
T ss_pred             cccccCChHHHHHHHHHHHHHH--H--------cCCeEEEECCCChhhhhh-----------------------------
Confidence            99885  556667777775321  1        123488999965554421                             


Q ss_pred             hcchhhhhhhhhHHHHhccCChhhhccc--cceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHcc
Q psy1308         457 TISRHFKDHVVQPILKRHFRRDEFLGRI--NEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADG  534 (607)
Q Consensus       457 ~~~~~~~~~~~~~~l~~~f~~~el~~ri--~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~  534 (607)
                                        +. |++.+|+  ..++.+.|++.+++.+|++.....       +   .+.++++++++|++.
T Consensus       143 ------------------~~-~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~-------~---~l~l~~e~~~~La~~  193 (233)
T PRK08727        143 ------------------VL-PDLRSRLAQCIRIGLPVLDDVARAAVLRERAQR-------R---GLALDEAAIDWLLTH  193 (233)
T ss_pred             ------------------hh-HHHHHHHhcCceEEecCCCHHHHHHHHHHHHHH-------c---CCCCCHHHHHHHHHh
Confidence                              11 7888886  457899999999999998764432       1   367999999999862


Q ss_pred             CCCCCCccchhHHHHHHH
Q psy1308         535 YDVHYGARSIKHEVERQV  552 (607)
Q Consensus       535 ~~~~~GaR~L~~~i~~~i  552 (607)
                      .  ++-+|.+-+.+++..
T Consensus       194 ~--~rd~r~~l~~L~~l~  209 (233)
T PRK08727        194 G--ERELAGLVALLDRLD  209 (233)
T ss_pred             C--CCCHHHHHHHHHHHH
Confidence            2  255666666676543

>smart00350 MCM minichromosome maintenance proteins

Probab=98.86  E-value=1.9e-08  Score=108.59  Aligned_cols=147  Identities=18%  Similarity=0.144  Sum_probs=92.1

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHHHhhCC----CCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEe---e
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIKRKENG----WTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRL---D  333 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~----~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l---~  333 (607)
                      .|...+...+.|++.....+.-.+......    ...-....++|+.|++|+|||.+++.+++...+.   .|+..   +
T Consensus       196 ~l~~si~p~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~---~~~~~~~~~  272 (509)
T smart00350      196 RLSRSLAPSIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRA---VYTTGKGSS  272 (509)
T ss_pred             HHHHhhCccccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcc---eEcCCCCCC
Confidence            355566677899998766555444322110    1111234589999999999999999999987542   24431   2


Q ss_pred             cccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecC-CCcEE-ecCc
Q psy1308         334 MSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDG-KGKTI-ECKD  411 (607)
Q Consensus       334 ~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~-~g~~~-~~~~  411 (607)
                      ++.+..     ..+..+  ..|  .-....+.+..+.+|++++||++++++..|..|+++|+++.++-. .|.+. -..+
T Consensus       273 ~~~l~~-----~~~~~~--~~g--~~~~~~G~l~~A~~Gil~iDEi~~l~~~~q~~L~e~me~~~i~i~k~G~~~~l~~~  343 (509)
T smart00350      273 AVGLTA-----AVTRDP--ETR--EFTLEGGALVLADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNAR  343 (509)
T ss_pred             cCCccc-----cceEcc--Ccc--eEEecCccEEecCCCEEEEechhhCCHHHHHHHHHHHhcCEEEEEeCCEEEEecCC
Confidence            211211     000000  001  000112345567889999999999999999999999999987643 34333 3367


Q ss_pred             eEEEEecC
Q psy1308         412 AIFVMTSN  419 (607)
Q Consensus       412 ~~iI~tsn  419 (607)
                      +.+|+|+|
T Consensus       344 ~~viAa~N  351 (509)
T smart00350      344 CSVLAAAN  351 (509)
T ss_pred             cEEEEEeC
Confidence            89999999

>PRK06893 DNA replication initiation factor; Validated

Probab=98.86  E-value=1.8e-08  Score=97.30  Aligned_cols=163  Identities=13%  Similarity=0.214  Sum_probs=105.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .++++||+|+|||.|+++++..+... ......+.++.....  ..                .+...+  ....+|+|||
T Consensus        41 ~l~l~G~~G~GKThL~~ai~~~~~~~-~~~~~y~~~~~~~~~--~~----------------~~~~~~--~~~dlLilDD   99 (229)
T PRK06893         41 FFYIWGGKSSGKSHLLKAVSNHYLLN-QRTAIYIPLSKSQYF--SP----------------AVLENL--EQQDLVCLDD   99 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHc-CCCeEEeeHHHhhhh--hH----------------HHHhhc--ccCCEEEEeC
Confidence            57899999999999999999886543 222233333211000  00                111111  1346999999


Q ss_pred             CCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcch
Q psy1308         379 VDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDV  456 (607)
Q Consensus       379 iek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  456 (607)
                      |+...  ++.+..|+.+++...  ..       .+.++|+|++.....+..                             
T Consensus       100 i~~~~~~~~~~~~l~~l~n~~~--~~-------~~~illits~~~p~~l~~-----------------------------  141 (229)
T PRK06893        100 LQAVIGNEEWELAIFDLFNRIK--EQ-------GKTLLLISADCSPHALSI-----------------------------  141 (229)
T ss_pred             hhhhcCChHHHHHHHHHHHHHH--Hc-------CCcEEEEeCCCChHHccc-----------------------------
Confidence            99864  455667888776321  11       234577888865554310                             


Q ss_pred             hcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHcc
Q psy1308         457 TISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADG  534 (607)
Q Consensus       457 ~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~  534 (607)
                                        .. |++.+|+.  .++.+.|++.++..+|++.....       +   .+.++++++++|+..
T Consensus       142 ------------------~~-~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~-------~---~l~l~~~v~~~L~~~  192 (229)
T PRK06893        142 ------------------KL-PDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQ-------R---GIELSDEVANFLLKR  192 (229)
T ss_pred             ------------------cc-hhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHH-------c---CCCCCHHHHHHHHHh
Confidence                              11 66777764  47788999999999997765531       1   378899999999852


Q ss_pred             CCCCCCccchhHHHHHH
Q psy1308         535 YDVHYGARSIKHEVERQ  551 (607)
Q Consensus       535 ~~~~~GaR~L~~~i~~~  551 (607)
                        .+..+|.|...+++.
T Consensus       193 --~~~d~r~l~~~l~~l  207 (229)
T PRK06893        193 --LDRDMHTLFDALDLL  207 (229)
T ss_pred             --ccCCHHHHHHHHHHH
Confidence              346789999999874

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.85  E-value=7.1e-08  Score=101.69  Aligned_cols=212  Identities=20%  Similarity=0.255  Sum_probs=123.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchh-Hh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEV-AK  345 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~-~~  345 (607)
                      ..++|.+..++.+...+.....+    .+|..++++||+|+|||.+++.+.+.+.... .-.++.++|........+ ..
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~~----~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~  105 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALRG----SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSE  105 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhCC----CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHH
Confidence            36888999999998888765432    2345688999999999999999998875432 345777888765543222 12


Q ss_pred             ----hhcCCCCCccCCCC---chhhHHHhh-CCCeEEEEecCCccC----HHHHHHHHHhhccceeecCCCcEEecCceE
Q psy1308         346 ----LIGAPPGYLGHDDG---GQLTKRLKK-CPNAVVLFDEVDKAH----PDVLTVLLQLFDEGRLTDGKGKTIECKDAI  413 (607)
Q Consensus       346 ----llg~~~g~~g~~~~---~~l~~~~~~-~~~~vl~lDEiek~~----~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~  413 (607)
                          +.+......|....   ..+...+.. ....+|+|||++.+.    .+.+..|+..++..     .     -.++.
T Consensus       106 i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~-----~-----~~~v~  175 (394)
T PRK00411        106 IARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEY-----P-----GARIG  175 (394)
T ss_pred             HHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhcc-----C-----CCeEE
Confidence                22211111221111   112222222 235789999999885    45555666555421     1     12567


Q ss_pred             EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccc-cceeeecc
Q psy1308         414 FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRI-NEIVYFLP  492 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri-~~iv~f~p  492 (607)
                      +|+++|.....                                                ..+. |...+|+ ...+.|.|
T Consensus       176 vI~i~~~~~~~------------------------------------------------~~l~-~~~~s~~~~~~i~f~p  206 (394)
T PRK00411        176 VIGISSDLTFL------------------------------------------------YILD-PRVKSVFRPEEIYFPP  206 (394)
T ss_pred             EEEEECCcchh------------------------------------------------hhcC-HHHHhcCCcceeecCC
Confidence            88888721100                                                0011 3333344 24679999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHH
Q psy1308         493 FSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVER  550 (607)
Q Consensus       493 l~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~  550 (607)
                      ++.+++.+|+...+..   -+.     .-.+++++++.+++ .....+.+|..-+.+.+
T Consensus       207 y~~~e~~~il~~r~~~---~~~-----~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~  257 (394)
T PRK00411        207 YTADEIFDILKDRVEE---GFY-----PGVVDDEVLDLIADLTAREHGDARVAIDLLRR  257 (394)
T ss_pred             CCHHHHHHHHHHHHHh---hcc-----cCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            9999999998776632   110     12478889888865 11124455544444443

>PF13606 Ank_3: Ankyrin repeat

Probab=98.85  E-value=3.7e-09  Score=65.82  Aligned_cols=30  Identities=53%  Similarity=0.743  Sum_probs=25.1

Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHHcCCCCCC
Q psy1308         119 LGWTPLHVAAINGKVDNVRVLLEAGANPNL  148 (607)
Q Consensus       119 ~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~  148 (607)
                      +|+||||+||+.|+.++|++|+++|+|+|.
T Consensus         1 ~G~T~Lh~A~~~g~~e~v~~Ll~~gadvn~   30 (30)
T PF13606_consen    1 NGNTPLHLAASNGNIEIVKYLLEHGADVNA   30 (30)
T ss_pred             CCCCHHHHHHHhCCHHHHHHHHHcCCCCCC
Confidence            478888888888888888888888888873

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=98.85  E-value=7.6e-08  Score=99.20  Aligned_cols=142  Identities=20%  Similarity=0.350  Sum_probs=97.6

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh-
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI-  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll-  347 (607)
                      .+++.+..++.+...+...          -.+++.||+|+|||.+|+.++..+..  ...+.++++-+++.......++ 
T Consensus       176 d~~i~e~~le~l~~~L~~~----------~~iil~GppGtGKT~lA~~la~~l~~--~~~~~~v~~VtFHpsySYeDFI~  243 (459)
T PRK11331        176 DLFIPETTIETILKRLTIK----------KNIILQGPPGVGKTFVARRLAYLLTG--EKAPQRVNMVQFHQSYSYEDFIQ  243 (459)
T ss_pred             cccCCHHHHHHHHHHHhcC----------CCEEEECCCCCCHHHHHHHHHHHhcC--CcccceeeEEeecccccHHHHhc
Confidence            3555666666665555422          25888999999999999999998864  2345677777777777788877 


Q ss_pred             cCCCCCccCCCC-chhhHHHhhC-----CCeEEEEecCCccCHH-HHHHHHHhhccce------ee----cCC-CcEEec
Q psy1308         348 GAPPGYLGHDDG-GQLTKRLKKC-----PNAVVLFDEVDKAHPD-VLTVLLQLFDEGR------LT----DGK-GKTIEC  409 (607)
Q Consensus       348 g~~~g~~g~~~~-~~l~~~~~~~-----~~~vl~lDEiek~~~~-~~~~Ll~~~~~~~------~~----~~~-g~~~~~  409 (607)
                      |..|+++|+... |.+..++..+     .+.+++||||++++++ +...|+++++...      +.    ... ..-...
T Consensus       244 G~rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~kiFGel~~lLE~~~rg~~~~v~l~y~e~d~e~f~iP  323 (459)
T PRK11331        244 GYRPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVP  323 (459)
T ss_pred             ccCCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHHHhhhhhhhhccccccccccceeeeccccccccccCC
Confidence            666777776544 3343333332     3689999999999976 5788999998542      11    111 122345


Q ss_pred             CceEEEEecCcch
Q psy1308         410 KDAIFVMTSNLAS  422 (607)
Q Consensus       410 ~~~~iI~tsn~~~  422 (607)
                      .|++||.|.|...
T Consensus       324 ~Nl~IIgTMNt~D  336 (459)
T PRK11331        324 ENVYIIGLMNTAD  336 (459)
T ss_pred             CCeEEEEecCccc
Confidence            8999999999543

>KOG0991|consensus

Probab=98.84  E-value=1e-08  Score=93.94  Aligned_cols=126  Identities=24%  Similarity=0.289  Sum_probs=89.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~l  346 (607)
                      ..++|.++.++.+....+....        .++++.||||+|||..+..+|+.+.++. +++...++.|.-.+-.-+..-
T Consensus        27 ~dIVGNe~tv~rl~via~~gnm--------P~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~   98 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNM--------PNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNK   98 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCC--------CceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHH
Confidence            4689999999988766654431        2688999999999999999999876642 667777777766554333222


Q ss_pred             hcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcc
Q psy1308         347 IGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLA  421 (607)
Q Consensus       347 lg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~  421 (607)
                      +-...         +-.-.+....+-+++|||+|.+....|.+|.+.||           +..+.++|.+++|..
T Consensus        99 IK~FA---------Q~kv~lp~grhKIiILDEADSMT~gAQQAlRRtME-----------iyS~ttRFalaCN~s  153 (333)
T KOG0991|consen   99 IKMFA---------QKKVTLPPGRHKIIILDEADSMTAGAQQALRRTME-----------IYSNTTRFALACNQS  153 (333)
T ss_pred             HHHHH---------HhhccCCCCceeEEEeeccchhhhHHHHHHHHHHH-----------HHcccchhhhhhcch
Confidence            11000         00000112345799999999999999999999998           555778999999943

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=98.84  E-value=4.6e-08  Score=108.38  Aligned_cols=148  Identities=13%  Similarity=0.125  Sum_probs=97.9

Q ss_pred             HHHHHHhHhhhhHHHHHHHHHHHHHhhC-----C-C-------CCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---
Q psy1308         262 LEQRLKDRIVGQESAINIISAAIKRKEN-----G-W-------TDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---  325 (607)
Q Consensus       262 L~~~l~~~i~Gq~~ai~~l~~~i~~~~~-----~-~-------~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---  325 (607)
                      |...+...+.|++.....+.-.+-....     + .       ..-....++|+.|.+|+||+.+++.+++...+..   
T Consensus       444 L~~SiaP~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~yts  523 (915)
T PTZ00111        444 LLDSFAPSIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTS  523 (915)
T ss_pred             HHHHhCCeEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCC
Confidence            4455556788888887776555432211     0 0       1112345899999999999999999999765431   


Q ss_pred             CCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecC-CC
Q psy1308         326 KEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDG-KG  404 (607)
Q Consensus       326 ~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~-~g  404 (607)
                      ..+++.+.++....      ......|-     -..-.+++..+.+|+++|||++++++..|..|+++|+++.++-. .|
T Consensus       524 G~~~s~vgLTa~~~------~~d~~tG~-----~~le~GaLvlAdgGtL~IDEidkms~~~Q~aLlEaMEqqtIsI~KaG  592 (915)
T PTZ00111        524 GKSSSSVGLTASIK------FNESDNGR-----AMIQPGAVVLANGGVCCIDELDKCHNESRLSLYEVMEQQTVTIAKAG  592 (915)
T ss_pred             CCCCccccccchhh------hcccccCc-----ccccCCcEEEcCCCeEEecchhhCCHHHHHHHHHHHhCCEEEEecCC
Confidence            24677776665311      11111110     00112346678899999999999999999999999999987633 23


Q ss_pred             -cEEecCceEEEEecCc
Q psy1308         405 -KTIECKDAIFVMTSNL  420 (607)
Q Consensus       405 -~~~~~~~~~iI~tsn~  420 (607)
                       ...-..++.||+++|-
T Consensus       593 i~~tL~ar~rVIAAaNP  609 (915)
T PTZ00111        593 IVATLKAETAILASCNP  609 (915)
T ss_pred             cceecCCCeEEEEEcCC
Confidence             3334478899999993

>PRK05642 DNA replication initiation factor; Validated

Probab=98.82  E-value=4.8e-08  Score=94.52  Aligned_cols=163  Identities=15%  Similarity=0.249  Sum_probs=107.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .++++|++|+|||.|+++++..+... ......+++..+...                  ...+.+.++..  .+|++|+
T Consensus        47 ~l~l~G~~G~GKTHLl~a~~~~~~~~-~~~v~y~~~~~~~~~------------------~~~~~~~~~~~--d~LiiDD  105 (234)
T PRK05642         47 LIYLWGKDGVGRSHLLQAACLRFEQR-GEPAVYLPLAELLDR------------------GPELLDNLEQY--ELVCLDD  105 (234)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhC-CCcEEEeeHHHHHhh------------------hHHHHHhhhhC--CEEEEec
Confidence            67899999999999999998876433 223344444332110                  01223334333  4899999


Q ss_pred             CCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcch
Q psy1308         379 VDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDV  456 (607)
Q Consensus       379 iek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  456 (607)
                      ++...  +..+..|+.++..-  .+        .+..+|+||+.....+.                              
T Consensus       106 i~~~~~~~~~~~~Lf~l~n~~--~~--------~g~~ilits~~~p~~l~------------------------------  145 (234)
T PRK05642        106 LDVIAGKADWEEALFHLFNRL--RD--------SGRRLLLAASKSPRELP------------------------------  145 (234)
T ss_pred             hhhhcCChHHHHHHHHHHHHH--Hh--------cCCEEEEeCCCCHHHcC------------------------------
Confidence            98764  56677888888631  11        23357888885544321                              


Q ss_pred             hcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHcc
Q psy1308         457 TISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADG  534 (607)
Q Consensus       457 ~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~  534 (607)
                                       .+. |++.+|+.  .++.+.|++.++...+++.....       . +  +.++++++++|++ 
T Consensus       146 -----------------~~~-~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~-------~-~--~~l~~ev~~~L~~-  196 (234)
T PRK05642        146 -----------------IKL-PDLKSRLTLALVFQMRGLSDEDKLRALQLRASR-------R-G--LHLTDEVGHFILT-  196 (234)
T ss_pred             -----------------ccC-ccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHH-------c-C--CCCCHHHHHHHHH-
Confidence                             012 88999984  45667899999999997753321       1 2  6789999999985 


Q ss_pred             CCCCCCccchhHHHHHHH
Q psy1308         535 YDVHYGARSIKHEVERQV  552 (607)
Q Consensus       535 ~~~~~GaR~L~~~i~~~i  552 (607)
                       ..+..+|.+.+.+++..
T Consensus       197 -~~~~d~r~l~~~l~~l~  213 (234)
T PRK05642        197 -RGTRSMSALFDLLERLD  213 (234)
T ss_pred             -hcCCCHHHHHHHHHHHH
Confidence             34567899999988754

>KOG0734|consensus

Probab=98.82  E-value=4.9e-08  Score=99.58  Aligned_cols=130  Identities=23%  Similarity=0.337  Sum_probs=81.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCC--CC--CCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKENG--WT--DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~--~~--~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..+.|-+++...+.+.+...+.-  ++  ...-|--++++||||+|||.|||++|-..    .-||....-+++.     
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA----~VPFF~~sGSEFd-----  374 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA----GVPFFYASGSEFD-----  374 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc----CCCeEeccccchh-----
Confidence            45788888888776666433211  11  12235579999999999999999999443    4456555555542     


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCH-----------HHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHP-----------DVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~-----------~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                      ..+.|     +|...-..+....++...|||||||||....           ..++.||-=||        |.+.+ ..+
T Consensus       375 Em~VG-----vGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmD--------GF~qN-eGi  440 (752)
T KOG0734|consen  375 EMFVG-----VGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMD--------GFKQN-EGI  440 (752)
T ss_pred             hhhhc-----ccHHHHHHHHHHHHhcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhc--------CcCcC-Cce
Confidence            23334     2333334566667777799999999997521           23455555444        22211 367


Q ss_pred             EEEEecCc
Q psy1308         413 IFVMTSNL  420 (607)
Q Consensus       413 ~iI~tsn~  420 (607)
                      |||.+||.
T Consensus       441 IvigATNf  448 (752)
T KOG0734|consen  441 IVIGATNF  448 (752)
T ss_pred             EEEeccCC
Confidence            88999994

>KOG0733|consensus

Probab=98.82  E-value=2.3e-07  Score=96.41  Aligned_cols=127  Identities=24%  Similarity=0.373  Sum_probs=84.6

Q ss_pred             HhhhhHHHHHHHHHHHHHh-------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc
Q psy1308         269 RIVGQESAINIISAAIKRK-------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH  341 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~-------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~  341 (607)
                      .+-|.+..+..+...+-..       ..|..   .|--++++||||+|||.||+++|..+.    -||..+...+.    
T Consensus       191 diGG~d~~~~el~~li~~i~~Pe~~~~lGv~---PprGvLlHGPPGCGKT~lA~AiAgel~----vPf~~isApei----  259 (802)
T KOG0733|consen  191 DIGGLDKTLAELCELIIHIKHPEVFSSLGVR---PPRGVLLHGPPGCGKTSLANAIAGELG----VPFLSISAPEI----  259 (802)
T ss_pred             hccChHHHHHHHHHHHHHhcCchhHhhcCCC---CCCceeeeCCCCccHHHHHHHHhhhcC----CceEeecchhh----
Confidence            4667777777766655321       12222   133799999999999999999998874    45877765443    


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhhC---CCeEEEEecCCccCHH-----------HHHHHHHhhccceeecCCCcEE
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKKC---PNAVVLFDEVDKAHPD-----------VLTVLLQLFDEGRLTDGKGKTI  407 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~~---~~~vl~lDEiek~~~~-----------~~~~Ll~~~~~~~~~~~~g~~~  407 (607)
                           +   .|+.|. ....+.+.++.+   -.|++||||||...|.           ++..|+..|++-..+--.|   
T Consensus       260 -----v---SGvSGE-SEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g---  327 (802)
T KOG0733|consen  260 -----V---SGVSGE-SEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKG---  327 (802)
T ss_pred             -----h---cccCcc-cHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCC---
Confidence                 1   244443 233445555444   4799999999987664           7788999998654443222   


Q ss_pred             ecCceEEEEecCc
Q psy1308         408 ECKDAIFVMTSNL  420 (607)
Q Consensus       408 ~~~~~~iI~tsn~  420 (607)
                        ..+++|.+||.
T Consensus       328 --~~VlVIgATnR  338 (802)
T KOG0733|consen  328 --DPVLVIGATNR  338 (802)
T ss_pred             --CCeEEEecCCC
Confidence              34789999993

>PF13606 Ank_3: Ankyrin repeat

Probab=98.82  E-value=4e-09  Score=65.65  Aligned_cols=30  Identities=40%  Similarity=0.603  Sum_probs=27.8

Q ss_pred             CCcchhhHHHhcCCHHHHHHHHhcCCCCCc
Q psy1308         188 LGFSALHYGVVAGNTEVVELLLKSGADPTV  217 (607)
Q Consensus       188 ~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~  217 (607)
                      +|+||||+||..|+.++|++|+++|+|+|.
T Consensus         1 ~G~T~Lh~A~~~g~~e~v~~Ll~~gadvn~   30 (30)
T PF13606_consen    1 NGNTPLHLAASNGNIEIVKYLLEHGADVNA   30 (30)
T ss_pred             CCCCHHHHHHHhCCHHHHHHHHHcCCCCCC
Confidence            399999999999999999999999999874

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.79  E-value=7.3e-08  Score=98.34  Aligned_cols=136  Identities=22%  Similarity=0.270  Sum_probs=91.0

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccC-----------------cCCceE
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRD-----------------KKEAFI  330 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~-----------------~~~~~~  330 (607)
                      ..++||+.+.+.+..+..-.+          .+++.||+|||||.+++.+...+..-                 ..++..
T Consensus       179 ~DV~GQ~~AKrAleiAAAGgH----------nLl~~GpPGtGKTmla~Rl~~lLPpls~~E~lE~s~I~s~~g~~~~~~~  248 (490)
T COG0606         179 KDVKGQEQAKRALEIAAAGGH----------NLLLVGPPGTGKTMLASRLPGLLPPLSIPEALEVSAIHSLAGDLHEGCP  248 (490)
T ss_pred             hhhcCcHHHHHHHHHHHhcCC----------cEEEecCCCCchHHhhhhhcccCCCCChHHHHHHHHHhhhcccccccCc
Confidence            359999999987755543222          58999999999999999887665220                 011110


Q ss_pred             Eeecccccc-cc--hhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecC--CCc
Q psy1308         331 RLDMSEYQE-KH--EVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDG--KGK  405 (607)
Q Consensus       331 ~l~~a~~~~-~~--~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~--~g~  405 (607)
                      ......|.. +|  +...++|.   +     +....+.+..+++||+||||.-.....+++.|.+-+|+|++.-.  .+.
T Consensus       249 ~~~~rPFr~PHHsaS~~aLvGG---G-----~~p~PGeIsLAH~GVLFLDElpef~~~iLe~LR~PLE~g~i~IsRa~~~  320 (490)
T COG0606         249 LKIHRPFRAPHHSASLAALVGG---G-----GVPRPGEISLAHNGVLFLDELPEFKRSILEALREPLENGKIIISRAGSK  320 (490)
T ss_pred             cceeCCccCCCccchHHHHhCC---C-----CCCCCCceeeecCCEEEeeccchhhHHHHHHHhCccccCcEEEEEcCCe
Confidence            111111111 12  23456552   2     22234556788999999999999999999999999999997753  444


Q ss_pred             EEecCceEEEEecCcc
Q psy1308         406 TIECKDAIFVMTSNLA  421 (607)
Q Consensus       406 ~~~~~~~~iI~tsn~~  421 (607)
                      .....+..+|+++|.-
T Consensus       321 v~ypa~Fqlv~AmNpc  336 (490)
T COG0606         321 VTYPARFQLVAAMNPC  336 (490)
T ss_pred             eEEeeeeEEhhhcCCC
Confidence            5556788888888843

>KOG0818|consensus

Probab=98.79  E-value=1.1e-08  Score=102.42  Aligned_cols=92  Identities=27%  Similarity=0.367  Sum_probs=79.2

Q ss_pred             hHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhh
Q psy1308         154 TVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN  233 (607)
Q Consensus       154 ~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~  233 (607)
                      -||..++.|+.+..--||..|+++|......    |.||||.|+..|+..-+++|+-+|||++..|.+|.||+.+|...|
T Consensus       136 QLhasvRt~nlet~LRll~lGA~~N~~hpek----g~TpLHvAAk~Gq~~Q~ElL~vYGAD~~a~d~~GmtP~~~AR~~g  211 (669)
T KOG0818|consen  136 QLHSSVRTGNLETCLRLLSLGAQANFFHPEK----GNTPLHVAAKAGQILQAELLAVYGADPGAQDSSGMTPVDYARQGG  211 (669)
T ss_pred             HHHHHhhcccHHHHHHHHHcccccCCCCccc----CCchhHHHHhccchhhhhHHhhccCCCCCCCCCCCcHHHHHHhcC
Confidence            5788888888888877888888888776554    999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhHH
Q psy1308         234 IKQILQKYAEKYADLQ  249 (607)
Q Consensus       234 ~~~~~~~ll~~~~~~~  249 (607)
                      +.++...|++..-+..
T Consensus       212 H~~laeRl~e~~y~vt  227 (669)
T KOG0818|consen  212 HHELAERLVEIQYELT  227 (669)
T ss_pred             chHHHHHHHHHHHHHH
Confidence            9999988887654443

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.78  E-value=5.9e-08  Score=102.75  Aligned_cols=133  Identities=19%  Similarity=0.245  Sum_probs=88.1

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc----------
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ----------  338 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~----------  338 (607)
                      .+.||..+++.+.....    +      .-++++.|++|+|||.+++.++..+...  .+-..++.+...          
T Consensus       192 ~v~Gq~~~~~al~laa~----~------G~~llliG~~GsGKTtLak~L~gllpp~--~g~e~le~~~i~s~~g~~~~~~  259 (506)
T PRK09862        192 DVIGQEQGKRGLEITAA----G------GHNLLLIGPPGTGKTMLASRINGLLPDL--SNEEALESAAILSLVNAESVQK  259 (506)
T ss_pred             EEECcHHHHhhhheecc----C------CcEEEEECCCCCcHHHHHHHHhccCCCC--CCcEEEecchhhhhhccccccC
Confidence            35677766655432221    1      1278999999999999999999876432  112223322211          


Q ss_pred             ---------ccc--hhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeec--CCCc
Q psy1308         339 ---------EKH--EVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTD--GKGK  405 (607)
Q Consensus       339 ---------~~~--~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~--~~g~  405 (607)
                               .|+  ....++|..        .....+.+..+++||+|+||++.+++.+|..|++.+++|.++.  .++.
T Consensus       260 ~~~~rPfr~ph~~~s~~~l~GGg--------~~~~pG~l~~A~gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~  331 (506)
T PRK09862        260 QWRQRPFRSPHHSASLTAMVGGG--------AIPGPGEISLAHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAK  331 (506)
T ss_pred             CcCCCCccCCCccchHHHHhCCC--------ceehhhHhhhccCCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcc
Confidence                     111  122344411        0123467889999999999999999999999999999999853  3444


Q ss_pred             EEecCceEEEEecCcc
Q psy1308         406 TIECKDAIFVMTSNLA  421 (607)
Q Consensus       406 ~~~~~~~~iI~tsn~~  421 (607)
                      .....++++|+|+|-.
T Consensus       332 ~~~pa~f~lIAa~NP~  347 (506)
T PRK09862        332 ITYPARFQLVAAMNPS  347 (506)
T ss_pred             eeccCCEEEEEeecCc
Confidence            4456889999999943

>PF00023 Ank: Ankyrin repeat Hereditary spherocytosis; InterPro: IPR002110 The ankyrin repeat is one of the most common protein-protein interaction motifs in nature

Probab=98.78  E-value=7.8e-09  Score=66.40  Aligned_cols=33  Identities=45%  Similarity=0.746  Sum_probs=31.0

Q ss_pred             CCcchhhHHHhcCCHHHHHHHHhcCCCCCccCC
Q psy1308         188 LGFSALHYGVVAGNTEVVELLLKSGADPTVKDN  220 (607)
Q Consensus       188 ~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~  220 (607)
                      +|+||||+|+..|+.+++++|+++|++++.+|+
T Consensus         1 dG~TpLh~A~~~~~~~~v~~Ll~~ga~~~~~d~   33 (33)
T PF00023_consen    1 DGNTPLHYAAQRGHPDIVKLLLKHGADINARDN   33 (33)
T ss_dssp             TSBBHHHHHHHTTCHHHHHHHHHTTSCTTCBCT
T ss_pred             CcccHHHHHHHHHHHHHHHHHHHCcCCCCCCCC
Confidence            399999999999999999999999999999874

Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; GO: 0005515 protein binding; PDB: 1D9S_A 1NFI_F 1IKN_D 1WDY_A 1OT8_C 1QYM_A 1TR4_A 1UOH_A 1N11_A 1K1A_A ....

>KOG0728|consensus

Probab=98.78  E-value=5.1e-08  Score=90.20  Aligned_cols=162  Identities=27%  Similarity=0.403  Sum_probs=106.4

Q ss_pred             hhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc
Q psy1308         270 IVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH  341 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~  341 (607)
                      +-|-+..++.+.+.+.-.        ..|+   .+|--+++.||+|+|||.++++++.+..-    .|+++.-++.    
T Consensus       149 iGgLd~QIkeIkEVIeLPvKHPELF~aLGI---aQPKGvlLygppgtGktLlaraVahht~c----~firvsgsel----  217 (404)
T KOG0728|consen  149 IGGLDKQIKEIKEVIELPVKHPELFEALGI---AQPKGVLLYGPPGTGKTLLARAVAHHTDC----TFIRVSGSEL----  217 (404)
T ss_pred             hccHHHHHHHHHHHHhccccCHHHHHhcCC---CCCcceEEecCCCCchhHHHHHHHhhcce----EEEEechHHH----
Confidence            445566666665555322        2222   34667889999999999999999977533    3777765544    


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                       +.+++|....     ....+.-..+....+++|.||||..           +.++|...|.++..-     +|.. ..+
T Consensus       218 -vqk~igegsr-----mvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnql-----dgfe-atk  285 (404)
T KOG0728|consen  218 -VQKYIGEGSR-----MVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQL-----DGFE-ATK  285 (404)
T ss_pred             -HHHHhhhhHH-----HHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhc-----cccc-ccc
Confidence             7788873211     1223444556667899999999985           567999988887621     2222 236


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      |.-+||+||.-                                           ++..++|   ++ |   +|||.-+.|
T Consensus       286 nikvimatnri-------------------------------------------dild~al---lr-p---gridrkief  315 (404)
T KOG0728|consen  286 NIKVIMATNRI-------------------------------------------DILDPAL---LR-P---GRIDRKIEF  315 (404)
T ss_pred             ceEEEEecccc-------------------------------------------ccccHhh---cC-C---CcccccccC
Confidence            77899999921                                           1122222   22 3   589999999


Q ss_pred             ccCCHHHHHHHHHH
Q psy1308         491 LPFSKSELHTLVCR  504 (607)
Q Consensus       491 ~pl~~~~~~~i~~~  504 (607)
                      .|.+.+.-.+|++.
T Consensus       316 p~p~e~ar~~ilki  329 (404)
T KOG0728|consen  316 PPPNEEARLDILKI  329 (404)
T ss_pred             CCCCHHHHHHHHHH
Confidence            99988877777553

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=98.78  E-value=8.7e-08  Score=93.41  Aligned_cols=100  Identities=19%  Similarity=0.309  Sum_probs=75.4

Q ss_pred             CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCccccc
Q psy1308         371 NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQ  450 (607)
Q Consensus       371 ~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~  450 (607)
                      .||+|+||++.++-+...+|-+.+++-            --.++||+||.|-..+..                   ++..
T Consensus       292 pGVLFIDEvHmLDIE~FsFlnrAlEse------------~aPIii~AtNRG~~kiRG-------------------Td~~  340 (450)
T COG1224         292 PGVLFIDEVHMLDIECFSFLNRALESE------------LAPIIILATNRGMTKIRG-------------------TDIE  340 (450)
T ss_pred             cceEEEechhhhhHHHHHHHHHHhhcc------------cCcEEEEEcCCceeeecc-------------------cCCc
Confidence            589999999999999999999999842            235799999977554421                   1111


Q ss_pred             CCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHH
Q psy1308         451 GSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETI  530 (607)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~  530 (607)
                      .                     .|--+.+|+.|+ -|+...|++++++..|+..-..       +.   .+.++++|+++
T Consensus       341 s---------------------PhGIP~DlLDRl-lII~t~py~~~EireIi~iRa~-------ee---~i~l~~~Ale~  388 (450)
T COG1224         341 S---------------------PHGIPLDLLDRL-LIISTRPYSREEIREIIRIRAK-------EE---DIELSDDALEY  388 (450)
T ss_pred             C---------------------CCCCCHhhhhhe-eEEecCCCCHHHHHHHHHHhhh-------hh---ccccCHHHHHH
Confidence            1                     111148999999 7889999999999999875443       22   67889999999


Q ss_pred             HHc
Q psy1308         531 LAD  533 (607)
Q Consensus       531 L~~  533 (607)
                      |++
T Consensus       389 L~~  391 (450)
T COG1224         389 LTD  391 (450)
T ss_pred             HHh
Confidence            986

>KOG0783|consensus

Probab=98.76  E-value=2.1e-09  Score=113.48  Aligned_cols=81  Identities=23%  Similarity=0.322  Sum_probs=61.3

Q ss_pred             CccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC---CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCC
Q psy1308         113 VNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL---FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLG  189 (607)
Q Consensus       113 ~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~---~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g  189 (607)
                      .|.+|..|+|+||+|+..+..+++++|+++|+|++.+|.   |||||.|..+|+++++-+||.+|.....++.     +|
T Consensus        45 anikD~~GR~alH~~~S~~k~~~l~wLlqhGidv~vqD~ESG~taLHRaiyyG~idca~lLL~~g~SL~i~Dk-----eg  119 (1267)
T KOG0783|consen   45 ANIKDRYGRTALHIAVSENKNSFLRWLLQHGIDVFVQDEESGYTALHRAIYYGNIDCASLLLSKGRSLRIKDK-----EG  119 (1267)
T ss_pred             hhHHHhhccceeeeeeccchhHHHHHHHhcCceeeeccccccchHhhHhhhhchHHHHHHHHhcCCceEEecc-----cC
Confidence            677888888888888888888888888888888888764   5677777777777777777777766655533     38


Q ss_pred             cchhhHHHh
Q psy1308         190 FSALHYGVV  198 (607)
Q Consensus       190 ~TpLh~A~~  198 (607)
                      ..||..-+.
T Consensus       120 lsplq~~~r  128 (1267)
T KOG0783|consen  120 LSPLQFLSR  128 (1267)
T ss_pred             CCHHHHHhh
Confidence            888766554

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.75  E-value=9e-08  Score=97.67  Aligned_cols=166  Identities=22%  Similarity=0.306  Sum_probs=104.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc-cccccchhHhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS-EYQEKHEVAKL  346 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a-~~~~~~~~~~l  346 (607)
                      ..++||..+...+..++.....       |-.++|.||+|+||+.+++.+++.+.........+..+. ..........+
T Consensus        23 ~~l~Gh~~a~~~L~~a~~~grl-------~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i   95 (351)
T PRK09112         23 TRLFGHEEAEAFLAQAYREGKL-------HHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQI   95 (351)
T ss_pred             hhccCcHHHHHHHHHHHHcCCC-------CeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHH
Confidence            4689999999999888875542       336899999999999999999999865211001111110 00011111111


Q ss_pred             -hcCCCCCc-----------------cCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCC
Q psy1308         347 -IGAPPGYL-----------------GHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKG  404 (607)
Q Consensus       347 -lg~~~g~~-----------------g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g  404 (607)
                       -|..|.+.                 +-++-..+.+.+..    ..+-|+++||+|++++..++.||+.+|+..      
T Consensus        96 ~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp------  169 (351)
T PRK09112         96 AQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPP------  169 (351)
T ss_pred             HcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCC------
Confidence             12222211                 00111112223332    235799999999999999999999998632      


Q ss_pred             cEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccc
Q psy1308         405 KTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRI  484 (607)
Q Consensus       405 ~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri  484 (607)
                           .+++||+.|+....                                                   .. |-+.+|+
T Consensus       170 -----~~~~fiLit~~~~~---------------------------------------------------ll-ptIrSRc  192 (351)
T PRK09112        170 -----ARALFILISHSSGR---------------------------------------------------LL-PTIRSRC  192 (351)
T ss_pred             -----CCceEEEEECChhh---------------------------------------------------cc-HHHHhhc
Confidence                 45677777662110                                                   11 6777888


Q ss_pred             cceeeeccCCHHHHHHHHHH
Q psy1308         485 NEIVYFLPFSKSELHTLVCR  504 (607)
Q Consensus       485 ~~iv~f~pl~~~~~~~i~~~  504 (607)
                       ..+.|.|++.+++.+++..
T Consensus       193 -~~i~l~pl~~~~~~~~L~~  211 (351)
T PRK09112        193 -QPISLKPLDDDELKKALSH  211 (351)
T ss_pred             -cEEEecCCCHHHHHHHHHH
Confidence             5889999999999888765

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.75  E-value=5.9e-08  Score=102.32  Aligned_cols=173  Identities=12%  Similarity=0.263  Sum_probs=111.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      +++++|++|+|||.|+++++..+.... ...++.+++..+..  ....-+..       .....+.+.++.  ..+|+||
T Consensus       138 ~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~--~~~~~~~~-------~~~~~~~~~~~~--~dlLiiD  206 (405)
T TIGR00362       138 PLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTN--DFVNALRN-------NKMEEFKEKYRS--VDLLLID  206 (405)
T ss_pred             eEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHH--HHHHHHHc-------CCHHHHHHHHHh--CCEEEEe
Confidence            688999999999999999999875431 23345555544321  11111110       011123333333  4699999


Q ss_pred             cCCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcc
Q psy1308         378 EVDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLD  455 (607)
Q Consensus       378 Eiek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (607)
                      |++.+..  ..+..|+.+++.-.  .        .+..+|+||+.....+..                            
T Consensus       207 Di~~l~~~~~~~~~l~~~~n~~~--~--------~~~~iiits~~~p~~l~~----------------------------  248 (405)
T TIGR00362       207 DIQFLAGKERTQEEFFHTFNALH--E--------NGKQIVLTSDRPPKELPG----------------------------  248 (405)
T ss_pred             hhhhhcCCHHHHHHHHHHHHHHH--H--------CCCCEEEecCCCHHHHhh----------------------------
Confidence            9998643  46777777775211  1        123477888865554321                            


Q ss_pred             hhcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         456 VTISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       456 ~~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                                         +. +.+.+|+.  .++.+.|++.++...|+...+..       .   .+.++++++++|++
T Consensus       249 -------------------l~-~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~-------~---~~~l~~e~l~~ia~  298 (405)
T TIGR00362       249 -------------------LE-ERLRSRFEWGLVVDIEPPDLETRLAILQKKAEE-------E---GLELPDEVLEFIAK  298 (405)
T ss_pred             -------------------hh-hhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHH-------c---CCCCCHHHHHHHHH
Confidence                               11 66777885  37899999999999998776643       1   35679999999985


Q ss_pred             cCCCCCCccchhHHHHHHH
Q psy1308         534 GYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       534 ~~~~~~GaR~L~~~i~~~i  552 (607)
                        ....++|.|...|.+..
T Consensus       299 --~~~~~~r~l~~~l~~l~  315 (405)
T TIGR00362       299 --NIRSNVRELEGALNRLL  315 (405)
T ss_pred             --hcCCCHHHHHHHHHHHH
Confidence              34678899999887754

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.75  E-value=3e-07  Score=104.62  Aligned_cols=179  Identities=15%  Similarity=0.200  Sum_probs=111.7

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~  342 (607)
                      .++||+..+..+...+.+...        ...+|+||+|+|||.+++.+++.+....      +..++.++++.+..   
T Consensus       188 ~~iGr~~ei~~~i~~l~r~~~--------~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~a---  256 (852)
T TIGR03345       188 PVLGRDDEIRQMIDILLRRRQ--------NNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQA---  256 (852)
T ss_pred             cccCCHHHHHHHHHHHhcCCc--------CceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhc---
Confidence            488999998888776655431        2567999999999999999999874321      12355556554321   


Q ss_pred             hHhhhcCCCCCccCCCCchhhHHHh---h-CCCeEEEEecCCccCH--------HHHHHHHHhhccceeecCCCcEEecC
Q psy1308         343 VAKLIGAPPGYLGHDDGGQLTKRLK---K-CPNAVVLFDEVDKAHP--------DVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l~~~~~---~-~~~~vl~lDEiek~~~--------~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                             ...|.|. -...+...+.   . ....|||||||+.+..        +.-+.|+..++.|.            
T Consensus       257 -------g~~~~ge-~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G~------------  316 (852)
T TIGR03345       257 -------GASVKGE-FENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARGE------------  316 (852)
T ss_pred             -------ccccchH-HHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCCC------------
Confidence                   1112221 1112222332   2 3468999999998753        23346778887653            


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                       ..+|.+|+..  +...+.                                 .           . .|.|.+||. +|.+
T Consensus       317 -l~~IgaTT~~--e~~~~~---------------------------------~-----------~-d~AL~rRf~-~i~v  347 (852)
T TIGR03345       317 -LRTIAATTWA--EYKKYF---------------------------------E-----------K-DPALTRRFQ-VVKV  347 (852)
T ss_pred             -eEEEEecCHH--HHhhhh---------------------------------h-----------c-cHHHHHhCe-EEEe
Confidence             4688888821  110000                                 0           0 288889994 7899


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .|++.++...|++.....+..    .+  .+.++++++..++.
T Consensus       348 ~eps~~~~~~iL~~~~~~~e~----~~--~v~i~d~al~~~~~  384 (852)
T TIGR03345       348 EEPDEETAIRMLRGLAPVLEK----HH--GVLILDEAVVAAVE  384 (852)
T ss_pred             CCCCHHHHHHHHHHHHHhhhh----cC--CCeeCHHHHHHHHH
Confidence            999999999997544332221    12  36788888888764

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=98.73  E-value=2.9e-07  Score=94.32  Aligned_cols=196  Identities=21%  Similarity=0.240  Sum_probs=125.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCc-eEEeecccccccchhHhhh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEA-FIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~-~~~l~~a~~~~~~~~~~ll  347 (607)
                      .+.+.+.-+..+...+.....+..    |..++++|++|||||..++.+.+.+....... .+.+||-.+.....+...+
T Consensus        18 ~l~~Re~ei~~l~~~l~~~~~~~~----p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i   93 (366)
T COG1474          18 ELPHREEEINQLASFLAPALRGER----PSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKI   93 (366)
T ss_pred             cccccHHHHHHHHHHHHHHhcCCC----CccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHH
Confidence            356677788888777776655544    66689999999999999999999987654444 7999999988877654322


Q ss_pred             ----cCCCCCccCCCC---chhhHHHhh-CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         348 ----GAPPGYLGHDDG---GQLTKRLKK-CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       348 ----g~~~g~~g~~~~---~~l~~~~~~-~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                          +..| ..|....   ..+.+.+.. ...-||+|||++.+-..-++.|++++.-..-.        ..++.+|+.+|
T Consensus        94 ~~~~~~~p-~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~--------~~~v~vi~i~n  164 (366)
T COG1474          94 LNKLGKVP-LTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGEN--------KVKVSIIAVSN  164 (366)
T ss_pred             HHHcCCCC-CCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhcccc--------ceeEEEEEEec
Confidence                2212 2222111   113333333 34679999999998776556666666532211        35678888888


Q ss_pred             cchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHH
Q psy1308         420 LASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELH  499 (607)
Q Consensus       420 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~  499 (607)
                      -..-                                        .....+.+++.|.        ..-+.|.|++.+++.
T Consensus       165 ~~~~----------------------------------------~~~ld~rv~s~l~--------~~~I~F~pY~a~el~  196 (366)
T COG1474         165 DDKF----------------------------------------LDYLDPRVKSSLG--------PSEIVFPPYTAEELY  196 (366)
T ss_pred             cHHH----------------------------------------HHHhhhhhhhccC--------cceeeeCCCCHHHHH
Confidence            2211                                        1112222333333        123899999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         500 TLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       500 ~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .|+..-....   +     ..-.++++++++++.
T Consensus       197 ~Il~~R~~~~---~-----~~~~~~~~vl~lia~  222 (366)
T COG1474         197 DILRERVEEG---F-----SAGVIDDDVLKLIAA  222 (366)
T ss_pred             HHHHHHHHhh---c-----cCCCcCccHHHHHHH
Confidence            9987666532   1     123578888888874

>PF00023 Ank: Ankyrin repeat Hereditary spherocytosis; InterPro: IPR002110 The ankyrin repeat is one of the most common protein-protein interaction motifs in nature

Probab=98.72  E-value=1.7e-08  Score=64.87  Aligned_cols=32  Identities=50%  Similarity=0.622  Sum_probs=26.7

Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC
Q psy1308         119 LGWTPLHVAAINGKVDNVRVLLEAGANPNLGD  150 (607)
Q Consensus       119 ~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d  150 (607)
                      +|+||||+|+..|+.+++++|+++|++++.+|
T Consensus         1 dG~TpLh~A~~~~~~~~v~~Ll~~ga~~~~~d   32 (33)
T PF00023_consen    1 DGNTPLHYAAQRGHPDIVKLLLKHGADINARD   32 (33)
T ss_dssp             TSBBHHHHHHHTTCHHHHHHHHHTTSCTTCBC
T ss_pred             CcccHHHHHHHHHHHHHHHHHHHCcCCCCCCC
Confidence            47888888888888888888888888888765

Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; GO: 0005515 protein binding; PDB: 1D9S_A 1NFI_F 1IKN_D 1WDY_A 1OT8_C 1QYM_A 1TR4_A 1UOH_A 1N11_A 1K1A_A ....

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=98.72  E-value=1.4e-07  Score=84.03  Aligned_cols=109  Identities=26%  Similarity=0.323  Sum_probs=72.2

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      .+++++|++|+|||.+++.++..+... ...+..+++.............+..       ..............+++++|
T Consensus        20 ~~v~i~G~~G~GKT~l~~~i~~~~~~~-~~~v~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~lilD   91 (151)
T cd00009          20 KNLLLYGPPGTGKTTLARAIANELFRP-GAPFLYLNASDLLEGLVVAELFGHF-------LVRLLFELAEKAKPGVLFID   91 (151)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhhcC-CCCeEEEehhhhhhhhHHHHHhhhh-------hHhHHHHhhccCCCeEEEEe
Confidence            378899999999999999999988543 4567778776655433322221100       00011122334457899999


Q ss_pred             cCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         378 EVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       378 Eiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      |++.+++.....+++.++......     ....++.+|++++
T Consensus        92 e~~~~~~~~~~~~~~~i~~~~~~~-----~~~~~~~ii~~~~  128 (151)
T cd00009          92 EIDSLSRGAQNALLRVLETLNDLR-----IDRENVRVIGATN  128 (151)
T ss_pred             ChhhhhHHHHHHHHHHHHhcCcee-----ccCCCeEEEEecC
Confidence            999998888888888887543211     1235678889988

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=98.71  E-value=3.3e-08  Score=89.77  Aligned_cols=130  Identities=24%  Similarity=0.299  Sum_probs=75.0

Q ss_pred             hhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc----cccchhHhhh
Q psy1308         272 GQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY----QEKHEVAKLI  347 (607)
Q Consensus       272 Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~----~~~~~~~~ll  347 (607)
                      ||+.+++.+...+.....       |-.++|+||.|+||+.+|+.+++.+..........-.|...    .+.+.-..++
T Consensus         1 gq~~~~~~L~~~~~~~~l-------~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~   73 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRL-------PHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIII   73 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC---------SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEE
T ss_pred             CcHHHHHHHHHHHHcCCc-------ceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEE
Confidence            688888888887765532       33689999999999999999999987653221100011000    0000000111


Q ss_pred             cCCCC--CccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         348 GAPPG--YLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       348 g~~~g--~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      .....  ..+.++-..+...+..    .++-|++|||+|+++++.+++||+.+|+.           ..+++||++|+
T Consensus        74 ~~~~~~~~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEep-----------p~~~~fiL~t~  140 (162)
T PF13177_consen   74 KPDKKKKSIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEP-----------PENTYFILITN  140 (162)
T ss_dssp             ETTTSSSSBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHST-----------TTTEEEEEEES
T ss_pred             ecccccchhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCC-----------CCCEEEEEEEC
Confidence            11100  1111111112222222    23569999999999999999999999964           26888999887

...

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.70  E-value=1.6e-07  Score=99.12  Aligned_cols=172  Identities=13%  Similarity=0.260  Sum_probs=111.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      +++++|++|+|||.|+++++..+... ...+..+.+..+..  .....+..  +     ....+...+  ....+|+|||
T Consensus       143 pl~L~G~~G~GKTHLl~Ai~~~l~~~-~~~v~yi~~~~f~~--~~~~~l~~--~-----~~~~f~~~~--~~~dvLiIDD  210 (445)
T PRK12422        143 PIYLFGPEGSGKTHLMQAAVHALRES-GGKILYVRSELFTE--HLVSAIRS--G-----EMQRFRQFY--RNVDALFIED  210 (445)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHc-CCCEEEeeHHHHHH--HHHHHHhc--c-----hHHHHHHHc--ccCCEEEEcc
Confidence            68899999999999999999987543 23344444433321  11111210  0     001112222  2346999999


Q ss_pred             CCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcch
Q psy1308         379 VDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDV  456 (607)
Q Consensus       379 iek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  456 (607)
                      |+.+..  ..|..|+.++..-.  +        .+..+|+||+.....+..                             
T Consensus       211 iq~l~~k~~~qeelf~l~N~l~--~--------~~k~IIlts~~~p~~l~~-----------------------------  251 (445)
T PRK12422        211 IEVFSGKGATQEEFFHTFNSLH--T--------EGKLIVISSTCAPQDLKA-----------------------------  251 (445)
T ss_pred             hhhhcCChhhHHHHHHHHHHHH--H--------CCCcEEEecCCCHHHHhh-----------------------------
Confidence            998753  56777777765211  1        122588888865554421                             


Q ss_pred             hcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHcc
Q psy1308         457 TISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADG  534 (607)
Q Consensus       457 ~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~  534 (607)
                                        +. +.+.+|+.  .++.+.|++.++...|++.....        .+  +.++++++++|+. 
T Consensus       252 ------------------l~-~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~--------~~--~~l~~evl~~la~-  301 (445)
T PRK12422        252 ------------------ME-ERLISRFEWGIAIPLHPLTKEGLRSFLERKAEA--------LS--IRIEETALDFLIE-  301 (445)
T ss_pred             ------------------hH-HHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-
Confidence                              11 66777884  68889999999999998766642        12  6789999999985 


Q ss_pred             CCCCCCccchhHHHHHHH
Q psy1308         535 YDVHYGARSIKHEVERQV  552 (607)
Q Consensus       535 ~~~~~GaR~L~~~i~~~i  552 (607)
                       ....++|+|.+.+.+..
T Consensus       302 -~~~~dir~L~g~l~~l~  318 (445)
T PRK12422        302 -ALSSNVKSLLHALTLLA  318 (445)
T ss_pred             -hcCCCHHHHHHHHHHHH
Confidence             34579999999999874

>CHL00206 ycf2 Ycf2; Provisional

Probab=98.70  E-value=1.7e-07  Score=109.38  Aligned_cols=113  Identities=14%  Similarity=0.215  Sum_probs=71.5

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch---------h-----------------Hhh---hc
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE---------V-----------------AKL---IG  348 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~---------~-----------------~~l---lg  348 (607)
                      --+|++||+|||||.+||++|...+    -||+.+.++.+-+...         +                 .++   +-
T Consensus      1631 KGILLiGPPGTGKTlLAKALA~es~----VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e~~e~~n 1706 (2281)
T CHL00206       1631 RGILVIGSIGTGRSYLVKYLATNSY----VPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLTMMN 1706 (2281)
T ss_pred             CceEEECCCCCCHHHHHHHHHHhcC----CceEEEEHHHHhhcccccccccccccccccccccccccccccchhhhhhcc
Confidence            3799999999999999999998764    4699998876643210         0                 000   00


Q ss_pred             CCCCCccCCCC----chhhHHHhhCCCeEEEEecCCccCHH-----HHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         349 APPGYLGHDDG----GQLTKRLKKCPNAVVLFDEVDKAHPD-----VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       349 ~~~g~~g~~~~----~~l~~~~~~~~~~vl~lDEiek~~~~-----~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      ...++++.+.+    ..+.+..++...|||+|||||.+...     ....|+..|+...-.      ....+++||+|||
T Consensus      1707 ~~~~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~------~s~~~VIVIAATN 1780 (2281)
T CHL00206       1707 ALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCER------CSTRNILVIASTH 1780 (2281)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCCccceehHHHHHHHhcccccc------CCCCCEEEEEeCC
Confidence            00111222211    12455667777999999999998754     356677777631100      1235789999999


Q ss_pred             c
Q psy1308         420 L  420 (607)
Q Consensus       420 ~  420 (607)
                      .
T Consensus      1781 R 1781 (2281)
T CHL00206       1781 I 1781 (2281)
T ss_pred             C
Confidence            3

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.70  E-value=1.3e-07  Score=100.09  Aligned_cols=177  Identities=17%  Similarity=0.296  Sum_probs=113.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhh-CCCeEEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK-CPNAVVLF  376 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~-~~~~vl~l  376 (607)
                      +++++|++|+|||.|+++++..+.... ......+.+..+..  ....-++..        .+.+....+. ....+|+|
T Consensus       143 pl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~--~~~~~l~~~--------~~~~~~~~~~~~~~dvLiI  212 (450)
T PRK14087        143 PLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFAR--KAVDILQKT--------HKEIEQFKNEICQNDVLII  212 (450)
T ss_pred             ceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHH--HHHHHHHHh--------hhHHHHHHHHhccCCEEEE
Confidence            588999999999999999998765321 22333344333221  111111100        0111122111 23469999


Q ss_pred             ecCCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCc
Q psy1308         377 DEVDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNL  454 (607)
Q Consensus       377 DEiek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  454 (607)
                      ||++.+.  +..+..|..++..-.  +.        +..+|+||+.....+.                            
T Consensus       213 DDiq~l~~k~~~~e~lf~l~N~~~--~~--------~k~iIltsd~~P~~l~----------------------------  254 (450)
T PRK14087        213 DDVQFLSYKEKTNEIFFTIFNNFI--EN--------DKQLFFSSDKSPELLN----------------------------  254 (450)
T ss_pred             eccccccCCHHHHHHHHHHHHHHH--Hc--------CCcEEEECCCCHHHHh----------------------------
Confidence            9999876  678888888876321  11        1247899886554431                            


Q ss_pred             chhcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         455 DVTISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       455 ~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                                         .+. +.+.+|+.  -++.+.|++.++..+|+.+.+..        .|..+.++++++++|+
T Consensus       255 -------------------~l~-~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~--------~gl~~~l~~evl~~Ia  306 (450)
T PRK14087        255 -------------------GFD-NRLITRFNMGLSIAIQKLDNKTATAIIKKEIKN--------QNIKQEVTEEAINFIS  306 (450)
T ss_pred             -------------------hcc-HHHHHHHhCCceeccCCcCHHHHHHHHHHHHHh--------cCCCCCCCHHHHHHHH
Confidence                               122 66777774  47888999999999998887753        1333478999999998


Q ss_pred             ccCCCCCCccchhHHHHHHHH
Q psy1308         533 DGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       533 ~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      .  ...+.+|.|.+.+.+...
T Consensus       307 ~--~~~gd~R~L~gaL~~l~~  325 (450)
T PRK14087        307 N--YYSDDVRKIKGSVSRLNF  325 (450)
T ss_pred             H--ccCCCHHHHHHHHHHHHH
Confidence            4  345789999999987653

>KOG0739|consensus

Probab=98.70  E-value=7.2e-08  Score=91.55  Aligned_cols=133  Identities=21%  Similarity=0.317  Sum_probs=90.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHh---hCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRK---ENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~---~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..+.|.+.+.+.+.+++--.   -.-++...+|. -+++.||+|+||++||+++|...+    ..|+.+..+.+     +
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAn----STFFSvSSSDL-----v  203 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEAN----STFFSVSSSDL-----V  203 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcC----CceEEeehHHH-----H
Confidence            35788888888888776322   12245566777 899999999999999999997654    34777766554     6


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCH-----------HHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHP-----------DVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~-----------~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                      ++++|.....     ...+.+..+....+|||+||||.+-.           .+-..||--|+        |.-.|-..+
T Consensus       204 SKWmGESEkL-----VknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMq--------GVG~d~~gv  270 (439)
T KOG0739|consen  204 SKWMGESEKL-----VKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQ--------GVGNDNDGV  270 (439)
T ss_pred             HHHhccHHHH-----HHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhh--------ccccCCCce
Confidence            7788744321     23567778888899999999997632           23333333332        222344667


Q ss_pred             EEEEecCcch
Q psy1308         413 IFVMTSNLAS  422 (607)
Q Consensus       413 ~iI~tsn~~~  422 (607)
                      +++-+||+.-
T Consensus       271 LVLgATNiPw  280 (439)
T KOG0739|consen  271 LVLGATNIPW  280 (439)
T ss_pred             EEEecCCCch
Confidence            8888999643

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.70  E-value=7.1e-08  Score=98.97  Aligned_cols=167  Identities=17%  Similarity=0.265  Sum_probs=102.7

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEE-----eecccccccch
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIR-----LDMSEYQEKHE  342 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~-----l~~a~~~~~~~  342 (607)
                      ..++||+.+++.+..++...+.       |-.++|+||+|+||+.+|..+++.+......+...     -.+..-.....
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~rl-------~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~   91 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSGRL-------HHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPV   91 (365)
T ss_pred             hhccChHHHHHHHHHHHHcCCC-------CceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChH
Confidence            3689999999999988876542       23699999999999999999999986532111000     00000000111


Q ss_pred             hHhhh-cCCCCCccC-----CCC---------chhhH---HHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceee
Q psy1308         343 VAKLI-GAPPGYLGH-----DDG---------GQLTK---RLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLT  400 (607)
Q Consensus       343 ~~~ll-g~~~g~~g~-----~~~---------~~l~~---~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~  400 (607)
                      ...+- |..|.+.-.     +.+         .++..   .+..    ..+-|++|||+|.+++..++.||+.+++..  
T Consensus        92 c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp--  169 (365)
T PRK07471         92 ARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPP--  169 (365)
T ss_pred             HHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCC--
Confidence            11111 222221100     011         11122   2221    235699999999999999999999999532  


Q ss_pred             cCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhh
Q psy1308         401 DGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEF  480 (607)
Q Consensus       401 ~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el  480 (607)
                               .+++||++|+....                                                   .. |-+
T Consensus       170 ---------~~~~~IL~t~~~~~---------------------------------------------------ll-pti  188 (365)
T PRK07471        170 ---------ARSLFLLVSHAPAR---------------------------------------------------LL-PTI  188 (365)
T ss_pred             ---------CCeEEEEEECCchh---------------------------------------------------ch-HHh
Confidence                     45678887772211                                                   11 556


Q ss_pred             hccccceeeeccCCHHHHHHHHHHH
Q psy1308         481 LGRINEIVYFLPFSKSELHTLVCRE  505 (607)
Q Consensus       481 ~~ri~~iv~f~pl~~~~~~~i~~~~  505 (607)
                      .+|. ..+.|.|++.+++.+++...
T Consensus       189 ~SRc-~~i~l~~l~~~~i~~~L~~~  212 (365)
T PRK07471        189 RSRC-RKLRLRPLAPEDVIDALAAA  212 (365)
T ss_pred             hccc-eEEECCCCCHHHHHHHHHHh
Confidence            6677 56788999999998887664

>KOG0744|consensus

Probab=98.69  E-value=3.7e-08  Score=94.61  Aligned_cols=151  Identities=20%  Similarity=0.287  Sum_probs=96.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCC-CeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCP-NAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~-~~vl~lD  377 (607)
                      .++++||||+|||.|+|++|+.+-.+-.+.+..-.+-+.+.+...+++|+.....+. ..-.++.++++... --.|+||
T Consensus       179 liLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFsESgKlV~-kmF~kI~ELv~d~~~lVfvLID  257 (423)
T KOG0744|consen  179 LILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFSESGKLVA-KMFQKIQELVEDRGNLVFVLID  257 (423)
T ss_pred             EEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhHHHHHHHhhhhhHHH-HHHHHHHHHHhCCCcEEEEEeH
Confidence            689999999999999999999985543333333344455556667888874322111 00012334444322 3457899


Q ss_pred             cCCccCH---------------HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccC
Q psy1308         378 EVDKAHP---------------DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKR  442 (607)
Q Consensus       378 Eiek~~~---------------~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~  442 (607)
                      |+|.+..               .+++.||.-+|.-+         ...|+++.+|||+... +                 
T Consensus       258 EVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK---------~~~NvliL~TSNl~~s-i-----------------  310 (423)
T KOG0744|consen  258 EVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLK---------RYPNVLILATSNLTDS-I-----------------  310 (423)
T ss_pred             HHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhc---------cCCCEEEEeccchHHH-H-----------------
Confidence            9998632               27889998887322         3578999999995321 1                 


Q ss_pred             CCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHH
Q psy1308         443 TPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAK  511 (607)
Q Consensus       443 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~  511 (607)
                                                        .-.|..|-|.+..--|++...+.+|.+..+.++.+
T Consensus       311 ----------------------------------D~AfVDRADi~~yVG~Pt~~ai~~IlkscieEL~~  345 (423)
T KOG0744|consen  311 ----------------------------------DVAFVDRADIVFYVGPPTAEAIYEILKSCIEELIS  345 (423)
T ss_pred             ----------------------------------HHHhhhHhhheeecCCccHHHHHHHHHHHHHHHHh
Confidence                                              04456666666666677777777777777776654

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.69  E-value=4.6e-07  Score=84.83  Aligned_cols=155  Identities=17%  Similarity=0.287  Sum_probs=92.3

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEe-e---ccccc--ccchhHhhhcCCCCCccCCCCchhhHHHhh---
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRL-D---MSEYQ--EKHEVAKLIGAPPGYLGHDDGGQLTKRLKK---  368 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l-~---~a~~~--~~~~~~~llg~~~g~~g~~~~~~l~~~~~~---  368 (607)
                      -.++|+||+|+|||.+++.+++.+.........+. .   |....  .+.+. .++....+..+.+.-..+.+.+..   
T Consensus        15 ~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~-~~~~~~~~~~~~~~i~~i~~~~~~~~~   93 (188)
T TIGR00678        15 HAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDL-HRLEPEGQSIKVDQVRELVEFLSRTPQ   93 (188)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcE-EEeccccCcCCHHHHHHHHHHHccCcc
Confidence            47999999999999999999998864311100000 0   00000  00000 000000000111111112233333   


Q ss_pred             -CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcc
Q psy1308         369 -CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSIS  447 (607)
Q Consensus       369 -~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~  447 (607)
                       .+..++++||+++++++.++.|+..+++..           .+++||++++.. ..                       
T Consensus        94 ~~~~kviiide~~~l~~~~~~~Ll~~le~~~-----------~~~~~il~~~~~-~~-----------------------  138 (188)
T TIGR00678        94 ESGRRVVIIEDAERMNEAAANALLKTLEEPP-----------PNTLFILITPSP-EK-----------------------  138 (188)
T ss_pred             cCCeEEEEEechhhhCHHHHHHHHHHhcCCC-----------CCeEEEEEECCh-Hh-----------------------
Confidence             346799999999999999999999998532           466788877611 11                       


Q ss_pred             cccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH
Q psy1308         448 KSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV  527 (607)
Q Consensus       448 ~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a  527 (607)
                                                 +. +.+.+|. .++.|.|++.+++.+++...            |    +++++
T Consensus       139 ---------------------------l~-~~i~sr~-~~~~~~~~~~~~~~~~l~~~------------g----i~~~~  173 (188)
T TIGR00678       139 ---------------------------LL-PTIRSRC-QVLPFPPLSEEALLQWLIRQ------------G----ISEEA  173 (188)
T ss_pred             ---------------------------Ch-HHHHhhc-EEeeCCCCCHHHHHHHHHHc------------C----CCHHH
Confidence                                       11 5666777 57999999999988776543            2    57888


Q ss_pred             HHHHHc
Q psy1308         528 ETILAD  533 (607)
Q Consensus       528 ~~~L~~  533 (607)
                      ++.|+.
T Consensus       174 ~~~i~~  179 (188)
T TIGR00678       174 AELLLA  179 (188)
T ss_pred             HHHHHH
Confidence            888875

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.69  E-value=1.2e-07  Score=95.34  Aligned_cols=165  Identities=19%  Similarity=0.335  Sum_probs=104.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC-CceEEeecccccccchhHhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK-EAFIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~-~~~~~l~~a~~~~~~~~~~l  346 (607)
                      ..++||+.+++.+...+.....       |-.++|+||.|+||+.+|+.+++.+..... +.+....+...+ +.++..+
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~rl-------~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~-hPDl~~i   75 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNRI-------APAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGN-HPDLLWV   75 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCCC-------CceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCC-CCCEEEE
Confidence            4689999999999998876542       337999999999999999999999865421 001110011110 0000000


Q ss_pred             h------cC---------------CCCCccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeec
Q psy1308         347 I------GA---------------PPGYLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTD  401 (607)
Q Consensus       347 l------g~---------------~~g~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~  401 (607)
                      .      |.               ..+.++-++-..+...+...    .+-|++||++|+++...++.||+.+|+-    
T Consensus        76 ~p~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEP----  151 (314)
T PRK07399         76 EPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEP----  151 (314)
T ss_pred             eccccccccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCC----
Confidence            0      00               00001101111233334433    3689999999999999999999999962    


Q ss_pred             CCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh
Q psy1308         402 GKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL  481 (607)
Q Consensus       402 ~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~  481 (607)
                             . +++||++|+.. +.                                                  +. |-+.
T Consensus       152 -------p-~~~fILi~~~~-~~--------------------------------------------------Ll-~TI~  171 (314)
T PRK07399        152 -------G-NGTLILIAPSP-ES--------------------------------------------------LL-PTIV  171 (314)
T ss_pred             -------C-CCeEEEEECCh-Hh--------------------------------------------------Cc-HHHH
Confidence                   1 45678777611 11                                                  22 6677


Q ss_pred             ccccceeeeccCCHHHHHHHHHHH
Q psy1308         482 GRINEIVYFLPFSKSELHTLVCRE  505 (607)
Q Consensus       482 ~ri~~iv~f~pl~~~~~~~i~~~~  505 (607)
                      +|. .++.|.|++.+++.+++...
T Consensus       172 SRc-q~i~f~~l~~~~~~~~L~~~  194 (314)
T PRK07399        172 SRC-QIIPFYRLSDEQLEQVLKRL  194 (314)
T ss_pred             hhc-eEEecCCCCHHHHHHHHHHh
Confidence            887 67899999999998887654

>KOG0506|consensus

Probab=98.67  E-value=2.5e-08  Score=99.39  Aligned_cols=92  Identities=29%  Similarity=0.407  Sum_probs=73.2

Q ss_pred             CCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHc-CCCCCCCCCCchHHHHHHc
Q psy1308          83 QSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEA-GANPNLGDLFNTVHRTAAE  161 (607)
Q Consensus        83 ~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~-ga~~~~~d~~~~l~~A~~~  161 (607)
                      +.++-.++++|+..|++..++.+.-.+ .|++.+|.+.+|+||.|+..|+.+++++|++. +.+++.+|.|         
T Consensus       503 ~~~~~i~~~~aa~~GD~~alrRf~l~g-~D~~~~DyD~RTaLHvAAaEG~v~v~kfl~~~~kv~~~~kDRw---------  572 (622)
T KOG0506|consen  503 ENDTVINVMYAAKNGDLSALRRFALQG-MDLETKDYDDRTALHVAAAEGHVEVVKFLLNACKVDPDPKDRW---------  572 (622)
T ss_pred             cccchhhhhhhhhcCCHHHHHHHHHhc-ccccccccccchhheeecccCceeHHHHHHHHHcCCCChhhcc---------
Confidence            345567788999999999998888888 89999999999999999999999999999865 7778777765         


Q ss_pred             CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhc
Q psy1308         162 KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKS  211 (607)
Q Consensus       162 ~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~  211 (607)
                                                 |+|||--|...+|.+++++|-+.
T Consensus       573 ---------------------------~rtPlDdA~~F~h~~v~k~L~~~  595 (622)
T KOG0506|consen  573 ---------------------------GRTPLDDAKHFKHKEVVKLLEEA  595 (622)
T ss_pred             ---------------------------CCCcchHhHhcCcHHHHHHHHHH
Confidence                                       66666666666666666666554

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=98.66  E-value=3.3e-07  Score=102.24  Aligned_cols=185  Identities=18%  Similarity=0.274  Sum_probs=114.7

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|.+..++.+.+.+.+..        +..++++||+|+|||.+++.++..+... ..|+...++..+.-.  ...++.
T Consensus       187 ~liGR~~ei~~~i~iL~r~~--------~~n~LLvGppGvGKT~lae~la~~i~~~-~vP~~l~~~~~~~l~--~~~lla  255 (758)
T PRK11034        187 PLIGREKELERAIQVLCRRR--------KNNPLLVGESGVGKTAIAEGLAWRIVQG-DVPEVMADCTIYSLD--IGSLLA  255 (758)
T ss_pred             cCcCCCHHHHHHHHHHhccC--------CCCeEEECCCCCCHHHHHHHHHHHHHhc-CCCchhcCCeEEecc--HHHHhc
Confidence            37899999999988777632        2346789999999999999999876433 334444444444321  222221


Q ss_pred             CCCCCccCCCC--chhhHHHhhCCCeEEEEecCCcc---------CHHHHHHHHHhhccceeecCCCcEEecCceEEEEe
Q psy1308         349 APPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKA---------HPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMT  417 (607)
Q Consensus       349 ~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~---------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~t  417 (607)
                       ...|.|.-+.  ..+...+++...++||||||+.+         ..++.+.|..++..|             +..+|.+
T Consensus       256 -G~~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g-------------~i~vIgA  321 (758)
T PRK11034        256 -GTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-------------KIRVIGS  321 (758)
T ss_pred             -ccchhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCC-------------CeEEEec
Confidence             1223332111  12334455667889999999875         234555666676643             4568888


Q ss_pred             cCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHH
Q psy1308         418 SNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSE  497 (607)
Q Consensus       418 sn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~  497 (607)
                      |+..  +..++.                                 .           . .|.|.+||+ .|.+.+++.++
T Consensus       322 Tt~~--E~~~~~---------------------------------~-----------~-D~AL~rRFq-~I~v~ePs~~~  353 (758)
T PRK11034        322 TTYQ--EFSNIF---------------------------------E-----------K-DRALARRFQ-KIDITEPSIEE  353 (758)
T ss_pred             CChH--HHHHHh---------------------------------h-----------c-cHHHHhhCc-EEEeCCCCHHH
Confidence            8832  111100                                 0           0 277888995 57888889999


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       498 ~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                      ...|++.....+..    .+  .+.++++|+...+
T Consensus       354 ~~~IL~~~~~~ye~----~h--~v~i~~~al~~a~  382 (758)
T PRK11034        354 TVQIINGLKPKYEA----HH--DVRYTAKAVRAAV  382 (758)
T ss_pred             HHHHHHHHHHHhhh----cc--CCCcCHHHHHHHH
Confidence            99997765544332    22  4567788876654

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.66  E-value=1.8e-07  Score=94.97  Aligned_cols=121  Identities=20%  Similarity=0.334  Sum_probs=77.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++||+.+++.+...+.....       |-.++|+||.|+||+.+|+.+++.+......+          .+.++..+.
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~-------~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~----------~h~D~~~~~   66 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRF-------SHAHIIVGEDGIGKSLLAKEIALKILGKSQQR----------EYVDIIEFK   66 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCC-------CceEEeECCCCCCHHHHHHHHHHHHcCCCCCC----------CCCCeEEec
Confidence            3588999999998888754331       33689999999999999999999875431110          000111110


Q ss_pred             cCCCCCccCCCCchhhHHHh---hC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         348 GAPPGYLGHDDGGQLTKRLK---KC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~---~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      .......+.   ..+.+.++   ..    .+-|+++|++|+++.+.++.||+.+|+-           ..+++||++|+
T Consensus        67 ~~~~~~i~v---~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEep-----------p~~t~~il~~~  131 (313)
T PRK05564         67 PINKKSIGV---DDIRNIIEEVNKKPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEP-----------PKGVFIILLCE  131 (313)
T ss_pred             cccCCCCCH---HHHHHHHHHHhcCcccCCceEEEEechhhcCHHHHHHHHHHhcCC-----------CCCeEEEEEeC
Confidence            000011111   12222222   22    3569999999999999999999999963           25677888765

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.65  E-value=5e-07  Score=96.50  Aligned_cols=173  Identities=14%  Similarity=0.270  Sum_probs=111.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      +++++||+|+|||.|+++++..+.... ...+..+++..+...  ....+..       .....+.+.++  ...+|+||
T Consensus       150 ~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~--~~~~~~~-------~~~~~~~~~~~--~~dlLiiD  218 (450)
T PRK00149        150 PLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTND--FVNALRN-------NTMEEFKEKYR--SVDVLLID  218 (450)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHH--HHHHHHc-------CcHHHHHHHHh--cCCEEEEe
Confidence            688999999999999999999875431 223444555444211  1111110       01112333333  35699999


Q ss_pred             cCCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcc
Q psy1308         378 EVDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLD  455 (607)
Q Consensus       378 Eiek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (607)
                      ||+.+..  ..+..|+.+++.-.  +.        +..+|+||+.....+..                            
T Consensus       219 Di~~l~~~~~~~~~l~~~~n~l~--~~--------~~~iiits~~~p~~l~~----------------------------  260 (450)
T PRK00149        219 DIQFLAGKERTQEEFFHTFNALH--EA--------GKQIVLTSDRPPKELPG----------------------------  260 (450)
T ss_pred             hhhhhcCCHHHHHHHHHHHHHHH--HC--------CCcEEEECCCCHHHHHH----------------------------
Confidence            9998643  46677777665211  11        12367788865544421                            


Q ss_pred             hhcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         456 VTISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       456 ~~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                                         +. +.+.+|+.  .++.+.|++.++..+|++..+..       .   .+.++++++++|+.
T Consensus       261 -------------------l~-~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~-------~---~~~l~~e~l~~ia~  310 (450)
T PRK00149        261 -------------------LE-ERLRSRFEWGLTVDIEPPDLETRIAILKKKAEE-------E---GIDLPDEVLEFIAK  310 (450)
T ss_pred             -------------------HH-HHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHH-------c---CCCCCHHHHHHHHc
Confidence                               11 66778885  47889999999999998776652       1   36789999999985


Q ss_pred             cCCCCCCccchhHHHHHHH
Q psy1308         534 GYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       534 ~~~~~~GaR~L~~~i~~~i  552 (607)
                        ...+.+|.|...|.+..
T Consensus       311 --~~~~~~R~l~~~l~~l~  327 (450)
T PRK00149        311 --NITSNVRELEGALNRLI  327 (450)
T ss_pred             --CcCCCHHHHHHHHHHHH
Confidence              34678899998887654

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=98.65  E-value=2.1e-07  Score=88.95  Aligned_cols=173  Identities=17%  Similarity=0.288  Sum_probs=105.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccC-cCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRD-KKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~-~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      ++.++|++|+|||.|.++++..+... .+.....++...+...  ....+-.       +.-..+...++  ...+++||
T Consensus        36 ~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~--~~~~~~~-------~~~~~~~~~~~--~~DlL~iD  104 (219)
T PF00308_consen   36 PLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIRE--FADALRD-------GEIEEFKDRLR--SADLLIID  104 (219)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHH--HHHHHHT-------TSHHHHHHHHC--TSSEEEEE
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHH--HHHHHHc-------ccchhhhhhhh--cCCEEEEe
Confidence            57899999999999999999876442 1333455555444321  1222210       01112222233  45699999


Q ss_pred             cCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcc
Q psy1308         378 EVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLD  455 (607)
Q Consensus       378 Eiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (607)
                      +++.+...  .|..|+.+++.-.  .        .+..+|+||+....++                              
T Consensus       105 Di~~l~~~~~~q~~lf~l~n~~~--~--------~~k~li~ts~~~P~~l------------------------------  144 (219)
T PF00308_consen  105 DIQFLAGKQRTQEELFHLFNRLI--E--------SGKQLILTSDRPPSEL------------------------------  144 (219)
T ss_dssp             TGGGGTTHHHHHHHHHHHHHHHH--H--------TTSEEEEEESS-TTTT------------------------------
T ss_pred             cchhhcCchHHHHHHHHHHHHHH--h--------hCCeEEEEeCCCCccc------------------------------
Confidence            99998654  5888998887322  1        2334788887433321                              


Q ss_pred             hhcchhhhhhhhhHHHHhccCChhhhccccc--eeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         456 VTISRHFKDHVVQPILKRHFRRDEFLGRINE--IVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       456 ~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~--iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                                       ..+. |+|.+|+..  ++...|++.++..+|+......        .+  +.++++++++|++
T Consensus       145 -----------------~~~~-~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~--------~~--~~l~~~v~~~l~~  196 (219)
T PF00308_consen  145 -----------------SGLL-PDLRSRLSWGLVVELQPPDDEDRRRILQKKAKE--------RG--IELPEEVIEYLAR  196 (219)
T ss_dssp             -----------------TTS--HHHHHHHHCSEEEEE----HHHHHHHHHHHHHH--------TT----S-HHHHHHHHH
T ss_pred             -----------------cccC-hhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHH--------hC--CCCcHHHHHHHHH
Confidence                             1133 788888854  7778889999999997776652        23  3489999999986


Q ss_pred             cCCCCCCccchhHHHHHHH
Q psy1308         534 GYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       534 ~~~~~~GaR~L~~~i~~~i  552 (607)
                      .  .+.++|+|...+.+..
T Consensus       197 ~--~~~~~r~L~~~l~~l~  213 (219)
T PF00308_consen  197 R--FRRDVRELEGALNRLD  213 (219)
T ss_dssp             H--TTSSHHHHHHHHHHHH
T ss_pred             h--hcCCHHHHHHHHHHHH
Confidence            3  3567899998888754

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=98.65  E-value=9.9e-08  Score=94.66  Aligned_cols=100  Identities=17%  Similarity=0.283  Sum_probs=64.7

Q ss_pred             CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCccccc
Q psy1308         371 NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQ  450 (607)
Q Consensus       371 ~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~  450 (607)
                      +||+|+||++.++.+...+|-+++|..            --.++||+||.|-..+..                   ++..
T Consensus       279 pGVLFIDEvHmLDiEcFsfLnralEs~------------~sPiiIlATNRg~~~irG-------------------t~~~  327 (398)
T PF06068_consen  279 PGVLFIDEVHMLDIECFSFLNRALESE------------LSPIIILATNRGITKIRG-------------------TDII  327 (398)
T ss_dssp             E-EEEEESGGGSBHHHHHHHHHHHTST------------T--EEEEEES-SEEE-BT-------------------TS-E
T ss_pred             cceEEecchhhccHHHHHHHHHHhcCC------------CCcEEEEecCceeeeccC-------------------ccCc
Confidence            589999999999999999999999843            235799999966543311                   0000


Q ss_pred             CCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHH
Q psy1308         451 GSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETI  530 (607)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~  530 (607)
                                           ..|--+.+|+.|+ -+|...|++.+|+.+|+.....       +.   .+.++++|+++
T Consensus       328 ---------------------sphGiP~DlLDRl-lII~t~py~~~ei~~Il~iR~~-------~E---~v~i~~~al~~  375 (398)
T PF06068_consen  328 ---------------------SPHGIPLDLLDRL-LIIRTKPYSEEEIKQILKIRAK-------EE---DVEISEDALDL  375 (398)
T ss_dssp             ---------------------EETT--HHHHTTE-EEEEE----HHHHHHHHHHHHH-------HC---T--B-HHHHHH
T ss_pred             ---------------------CCCCCCcchHhhc-EEEECCCCCHHHHHHHHHhhhh-------hh---cCcCCHHHHHH
Confidence                                 0111138999999 7889999999999999775543       22   57889999999


Q ss_pred             HHc
Q psy1308         531 LAD  533 (607)
Q Consensus       531 L~~  533 (607)
                      |.+
T Consensus       376 L~~  378 (398)
T PF06068_consen  376 LTK  378 (398)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            975

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.61  E-value=4.6e-07  Score=95.83  Aligned_cols=174  Identities=17%  Similarity=0.315  Sum_probs=107.2

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      +++++|++|+|||.|+++++..+.... ...+..+++..+.     ..+...-.    ......+...++ ....+|+||
T Consensus       132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~-----~~~~~~~~----~~~~~~f~~~~~-~~~dvLlID  201 (440)
T PRK14088        132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFL-----NDLVDSMK----EGKLNEFREKYR-KKVDVLLID  201 (440)
T ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH-----HHHHHHHh----cccHHHHHHHHH-hcCCEEEEe
Confidence            689999999999999999998875421 1234444443321     12211000    001112222222 235699999


Q ss_pred             cCCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcc
Q psy1308         378 EVDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLD  455 (607)
Q Consensus       378 Eiek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (607)
                      |++.+.  ...|..|+..+..-.  +        .+..+|+||+.....+..                            
T Consensus       202 Di~~l~~~~~~q~elf~~~n~l~--~--------~~k~iIitsd~~p~~l~~----------------------------  243 (440)
T PRK14088        202 DVQFLIGKTGVQTELFHTFNELH--D--------SGKQIVICSDREPQKLSE----------------------------  243 (440)
T ss_pred             chhhhcCcHHHHHHHHHHHHHHH--H--------cCCeEEEECCCCHHHHHH----------------------------
Confidence            999763  345666776664211  1        122477777755554422                            


Q ss_pred             hhcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         456 VTISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       456 ~~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                                         +. +.+.+|+.  .++.+.|++.++...|++..+..       .   .+.++++++++|++
T Consensus       244 -------------------l~-~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~-------~---~~~l~~ev~~~Ia~  293 (440)
T PRK14088        244 -------------------FQ-DRLVSRFQMGLVAKLEPPDEETRKKIARKMLEI-------E---HGELPEEVLNFVAE  293 (440)
T ss_pred             -------------------HH-HHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHh-------c---CCCCCHHHHHHHHh
Confidence                               11 55666663  47788999999999998766541       1   35689999999985


Q ss_pred             cCCCCCCccchhHHHHHHH
Q psy1308         534 GYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       534 ~~~~~~GaR~L~~~i~~~i  552 (607)
                        ...+++|.|...+.+..
T Consensus       294 --~~~~~~R~L~g~l~~l~  310 (440)
T PRK14088        294 --NVDDNLRRLRGAIIKLL  310 (440)
T ss_pred             --ccccCHHHHHHHHHHHH
Confidence              23578999999998764

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.61  E-value=2.3e-07  Score=94.51  Aligned_cols=130  Identities=16%  Similarity=0.267  Sum_probs=79.1

Q ss_pred             HhHhhh-hHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHh
Q psy1308         267 KDRIVG-QESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAK  345 (607)
Q Consensus       267 ~~~i~G-q~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~  345 (607)
                      +..++| |+.+++.+...+.....       |-.++|+||+|+||+.+|+.+++.+...+..+-.  -|..-   .....
T Consensus         4 ~~~i~~~q~~~~~~L~~~~~~~~l-------~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~--~cg~C---~~c~~   71 (329)
T PRK08058          4 WEQLTALQPVVVKMLQNSIAKNRL-------SHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE--PCGTC---TNCKR   71 (329)
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCCC-------CceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC--CCCcC---HHHHH
Confidence            345777 88899988888764432       3367999999999999999999998643211100  01000   01111


Q ss_pred             hh-cCCCC--CccCC---C-CchhhHHH---h----hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCc
Q psy1308         346 LI-GAPPG--YLGHD---D-GGQLTKRL---K----KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKD  411 (607)
Q Consensus       346 ll-g~~~g--~~g~~---~-~~~l~~~~---~----~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~  411 (607)
                      +. |..|.  ++..+   - ..++.+.+   .    .+++-|++|||+|+++.+.++.||+.+|+.           ..+
T Consensus        72 ~~~~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEP-----------p~~  140 (329)
T PRK08058         72 IDSGNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEP-----------SGG  140 (329)
T ss_pred             HhcCCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCC-----------CCC
Confidence            11 11111  01000   0 01222222   2    123569999999999999999999999963           257


Q ss_pred             eEEEEecC
Q psy1308         412 AIFVMTSN  419 (607)
Q Consensus       412 ~~iI~tsn  419 (607)
                      ++||++|+
T Consensus       141 ~~~Il~t~  148 (329)
T PRK08058        141 TTAILLTE  148 (329)
T ss_pred             ceEEEEeC
Confidence            78888877

>KOG0735|consensus

Probab=98.59  E-value=8.9e-07  Score=93.60  Aligned_cols=114  Identities=26%  Similarity=0.324  Sum_probs=75.7

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCC---C--CCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         269 RIVGQESAINIISAAIKRKENG---W--TDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~---~--~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      .+-|..++.+.+.+.+......   +  ..-.-+.-++++||||+|||.||-+++...+.+    |+.     ..+....
T Consensus       668 digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~----fis-----vKGPElL  738 (952)
T KOG0735|consen  668 DIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLR----FIS-----VKGPELL  738 (952)
T ss_pred             ecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCee----EEE-----ecCHHHH
Confidence            3556666666665555422110   0  001112368999999999999999999765332    433     4556667


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHH-----------HHHHHHHhhcc
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPD-----------VLTVLLQLFDE  396 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~-----------~~~~Ll~~~~~  396 (607)
                      .+++|..+..     ...+....+.+..||+||||+|.+.|.           |++.||.-||.
T Consensus       739 ~KyIGaSEq~-----vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG  797 (952)
T KOG0735|consen  739 SKYIGASEQN-----VRDLFERAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDG  797 (952)
T ss_pred             HHHhcccHHH-----HHHHHHHhhccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhcc
Confidence            8888765432     235677777788999999999997553           88899988873

>KOG3609|consensus

Probab=98.58  E-value=1.7e-07  Score=100.91  Aligned_cols=130  Identities=20%  Similarity=0.216  Sum_probs=106.6

Q ss_pred             CCCCHHHHHHHHcCCHHHHHHHHhcCC---CCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHH
Q psy1308          84 SIKDLTLFRAARYGSAKELKTFIENSK---LDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAA  160 (607)
Q Consensus        84 ~~g~t~Lh~A~~~g~~~~v~~Ll~~~~---~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~  160 (607)
                      ..+.-....||.+|+...|+..++...   .++|+.|.-|+++|++|..+.+.+++++|++++...     ..+|.+|+.
T Consensus        23 ~~~e~~fL~a~E~gd~~~V~k~l~~~~~~~lninc~d~lGr~al~iai~nenle~~eLLl~~~~~~-----gdALL~aI~   97 (822)
T KOG3609|consen   23 NEGEKGFLLAHENGDVPLVAKALEYKAVSKLNINCRDPLGRLALHIAIDNENLELQELLLDTSSEE-----GDALLLAIA   97 (822)
T ss_pred             chhhHHHHHHHHcCChHHHHHHHHhccccccchhccChHhhhceecccccccHHHHHHHhcCcccc-----chHHHHHHH
Confidence            445566889999999999999998642   578999999999999999999999999999987766     238999999


Q ss_pred             cCCccHHHHHHhcCCCccccC-----CCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCcc
Q psy1308         161 EKKMNPFEVLLKREDEFNDVL-----NPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVK  218 (607)
Q Consensus       161 ~~~~~~~~~Ll~~g~~~~~~~-----~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~  218 (607)
                      .|..+++++++.+-.......     +...-..+.|||++||..+|.+|+++||++|+++...
T Consensus        98 ~~~v~~VE~ll~~~~~~~~~~~~~d~~~~~ft~ditPliLAAh~NnyEil~~Ll~kg~~i~~P  160 (822)
T KOG3609|consen   98 VGSVPLVELLLVHFVDAPYLERSGDANSPHFTPDITPLMLAAHLNNFEILQCLLTRGHCIPIP  160 (822)
T ss_pred             HHHHHHHHHHHhcccccchhccccccCcccCCCCccHHHHHHHhcchHHHHHHHHcCCCCCCC
Confidence            999999999998755432111     1111234889999999999999999999999887554

>KOG0506|consensus

Probab=98.58  E-value=4.7e-08  Score=97.47  Aligned_cols=87  Identities=24%  Similarity=0.348  Sum_probs=80.2

Q ss_pred             hHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhc-CCCCCccCCCCCCCCcchhhh
Q psy1308         154 TVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKS-GADPTVKDNSGHIPSDYAEDA  232 (607)
Q Consensus       154 ~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~-gad~~~~d~~g~Tpl~~A~~~  232 (607)
                      ++++|+..|.+..++-+.-.|.|.+..     |++.+|+||.|+..|+.+++++|++. +.|++.+|.+|+|||+-|..-
T Consensus       509 ~~~~aa~~GD~~alrRf~l~g~D~~~~-----DyD~RTaLHvAAaEG~v~v~kfl~~~~kv~~~~kDRw~rtPlDdA~~F  583 (622)
T KOG0506|consen  509 NVMYAAKNGDLSALRRFALQGMDLETK-----DYDDRTALHVAAAEGHVEVVKFLLNACKVDPDPKDRWGRTPLDDAKHF  583 (622)
T ss_pred             hhhhhhhcCCHHHHHHHHHhccccccc-----ccccchhheeecccCceeHHHHHHHHHcCCCChhhccCCCcchHhHhc
Confidence            899999999999999999999988766     66699999999999999999999984 899999999999999999999


Q ss_pred             hHHHHHHHHHHhh
Q psy1308         233 NIKQILQKYAEKY  245 (607)
Q Consensus       233 ~~~~~~~~ll~~~  245 (607)
                      ++.+++++|-+..
T Consensus       584 ~h~~v~k~L~~~~  596 (622)
T KOG0506|consen  584 KHKEVVKLLEEAQ  596 (622)
T ss_pred             CcHHHHHHHHHHh
Confidence            9999999887653

>PRK04132 replication factor C small subunit; Provisional

Probab=98.56  E-value=5.6e-07  Score=100.47  Aligned_cols=166  Identities=13%  Similarity=0.146  Sum_probs=113.4

Q ss_pred             eeeeec--cCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEE
Q psy1308         299 VFLFLG--SSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVL  375 (607)
Q Consensus       299 ~~ll~G--~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~  375 (607)
                      ..+..|  |++.|||.+|+++++.+++.+ ...++.+|.|...+-..+..++.....+..          +...++-|++
T Consensus       566 ~~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~----------~~~~~~KVvI  635 (846)
T PRK04132        566 HNFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKP----------IGGASFKIIF  635 (846)
T ss_pred             hhhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCC----------cCCCCCEEEE
Confidence            455567  899999999999999986642 346899999987666666555531100000          0012356999


Q ss_pred             EecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcc
Q psy1308         376 FDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLD  455 (607)
Q Consensus       376 lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (607)
                      |||+|+++++.|+.|++.+|+.           ..+++||+++|-...                                
T Consensus       636 IDEaD~Lt~~AQnALLk~lEep-----------~~~~~FILi~N~~~k--------------------------------  672 (846)
T PRK04132        636 LDEADALTQDAQQALRRTMEMF-----------SSNVRFILSCNYSSK--------------------------------  672 (846)
T ss_pred             EECcccCCHHHHHHHHHHhhCC-----------CCCeEEEEEeCChhh--------------------------------
Confidence            9999999999999999999952           257889999882111                                


Q ss_pred             hhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccC
Q psy1308         456 VTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGY  535 (607)
Q Consensus       456 ~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~  535 (607)
                                         .. |.+.+|+ .++.|.|++.+++...+.....        ..+  +.++++++..|+.  
T Consensus       673 -------------------Ii-~tIrSRC-~~i~F~~ls~~~i~~~L~~I~~--------~Eg--i~i~~e~L~~Ia~--  719 (846)
T PRK04132        673 -------------------II-EPIQSRC-AIFRFRPLRDEDIAKRLRYIAE--------NEG--LELTEEGLQAILY--  719 (846)
T ss_pred             -------------------Cc-hHHhhhc-eEEeCCCCCHHHHHHHHHHHHH--------hcC--CCCCHHHHHHHHH--
Confidence                               11 6788888 6789999999988877554332        113  4467888888874  


Q ss_pred             CCCCCccchhHHHHH
Q psy1308         536 DVHYGARSIKHEVER  550 (607)
Q Consensus       536 ~~~~GaR~L~~~i~~  550 (607)
                      ...+..|..-+.++.
T Consensus       720 ~s~GDlR~AIn~Lq~  734 (846)
T PRK04132        720 IAEGDMRRAINILQA  734 (846)
T ss_pred             HcCCCHHHHHHHHHH
Confidence            223455555555543

>KOG0731|consensus

Probab=98.56  E-value=5.7e-07  Score=97.59  Aligned_cols=129  Identities=26%  Similarity=0.342  Sum_probs=84.7

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCC----CCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGW----TDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~----~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..++|.+++.+.+.+.+..-++..    -...-|--++|+||||||||.|||++|-..    .-||+.+.-+++     +
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA----gVPF~svSGSEF-----v  381 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA----GVPFFSVSGSEF-----V  381 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc----CCceeeechHHH-----H
Confidence            468999999999887775432110    011224478999999999999999999654    557888887776     3


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHH---------------HHHHHHHhhccceeecCCCcEEe
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPD---------------VLTVLLQLFDEGRLTDGKGKTIE  408 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~---------------~~~~Ll~~~~~~~~~~~~g~~~~  408 (607)
                      ..+.|.     |......+....+..-.+++|+||||.....               .++.||-=||        |....
T Consensus       382 E~~~g~-----~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emD--------gf~~~  448 (774)
T KOG0731|consen  382 EMFVGV-----GASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMD--------GFETS  448 (774)
T ss_pred             HHhccc-----chHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhc--------CCcCC
Confidence            333331     1122345666666677899999999875322               3444444443        22222


Q ss_pred             cCceEEEEecC
Q psy1308         409 CKDAIFVMTSN  419 (607)
Q Consensus       409 ~~~~~iI~tsn  419 (607)
                       .+++|+++||
T Consensus       449 -~~vi~~a~tn  458 (774)
T KOG0731|consen  449 -KGVIVLAATN  458 (774)
T ss_pred             -CcEEEEeccC
Confidence             6789999999

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.55  E-value=1.6e-06  Score=99.17  Aligned_cols=179  Identities=21%  Similarity=0.291  Sum_probs=111.0

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~  342 (607)
                      .++|.+..++.+...+.+..        +-..+++||||+|||.+++.++..+...+      ...++.+|++..     
T Consensus       180 ~~igr~~ei~~~~~~L~r~~--------~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l-----  246 (821)
T CHL00095        180 PVIGREKEIERVIQILGRRT--------KNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLL-----  246 (821)
T ss_pred             CCCCcHHHHHHHHHHHcccc--------cCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHH-----
Confidence            37899999999988876542        22567999999999999999998864321      234666665432     


Q ss_pred             hHhhhcCCCCCccCCCCch---hhHHHhhCCCeEEEEecCCccC--------HHHHHHHHHhhccceeecCCCcEEecCc
Q psy1308         343 VAKLIGAPPGYLGHDDGGQ---LTKRLKKCPNAVVLFDEVDKAH--------PDVLTVLLQLFDEGRLTDGKGKTIECKD  411 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~---l~~~~~~~~~~vl~lDEiek~~--------~~~~~~Ll~~~~~~~~~~~~g~~~~~~~  411 (607)
                          +. ...|.|. -...   +.+.+......|||||||+.+.        .++.+.|...+..|             +
T Consensus       247 ----~a-g~~~~ge-~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg-------------~  307 (821)
T CHL00095        247 ----LA-GTKYRGE-FEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARG-------------E  307 (821)
T ss_pred             ----hc-cCCCccH-HHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCC-------------C
Confidence                21 1223331 1112   2333344567899999997543        24667777777654             3


Q ss_pred             eEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeec
Q psy1308         412 AIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFL  491 (607)
Q Consensus       412 ~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~  491 (607)
                      ..+|.+|+..  +..++.                                  +          - .|.|..|+.. +...
T Consensus       308 l~~IgaTt~~--ey~~~i----------------------------------e----------~-D~aL~rRf~~-I~v~  339 (821)
T CHL00095        308 LQCIGATTLD--EYRKHI----------------------------------E----------K-DPALERRFQP-VYVG  339 (821)
T ss_pred             cEEEEeCCHH--HHHHHH----------------------------------h----------c-CHHHHhcceE-EecC
Confidence            5688888821  110000                                  0          0 2677788854 5666


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         492 PFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       492 pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      +++.++...|++.....+.+    .+++.  ++++++..++.
T Consensus       340 ep~~~e~~aILr~l~~~~e~----~~~v~--i~deal~~i~~  375 (821)
T CHL00095        340 EPSVEETIEILFGLRSRYEK----HHNLS--ISDKALEAAAK  375 (821)
T ss_pred             CCCHHHHHHHHHHHHHHHHH----HcCCC--CCHHHHHHHHH
Confidence            67888888887665544332    23333  78888887753

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.53  E-value=1.6e-06  Score=98.41  Aligned_cols=126  Identities=25%  Similarity=0.324  Sum_probs=77.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCC-----CCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         269 RIVGQESAINIISAAIKRKENG-----WTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~-----~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      .+.|.+..++.+...+......     ...-..|..++|+||+|+|||.+++.++..+..    +++.++++.+..    
T Consensus       179 di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~----~~i~i~~~~i~~----  250 (733)
T TIGR01243       179 DIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGA----YFISINGPEIMS----  250 (733)
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCC----eEEEEecHHHhc----
Confidence            4778888888877666432100     001123447899999999999999999988743    477777654321    


Q ss_pred             HhhhcCCCCCccCCC--CchhhHHHhhCCCeEEEEecCCccC-----------HHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         344 AKLIGAPPGYLGHDD--GGQLTKRLKKCPNAVVLFDEVDKAH-----------PDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       344 ~~llg~~~g~~g~~~--~~~l~~~~~~~~~~vl~lDEiek~~-----------~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                       +       |.|...  -..+.........++|||||||.+.           ..+++.|+++++.-.         ...
T Consensus       251 -~-------~~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~---------~~~  313 (733)
T TIGR01243       251 -K-------YYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLK---------GRG  313 (733)
T ss_pred             -c-------cccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccc---------cCC
Confidence             1       122110  0112233334456899999998763           346778888886321         123


Q ss_pred             ceEEEEecC
Q psy1308         411 DAIFVMTSN  419 (607)
Q Consensus       411 ~~~iI~tsn  419 (607)
                      ++++|.+||
T Consensus       314 ~vivI~atn  322 (733)
T TIGR01243       314 RVIVIGATN  322 (733)
T ss_pred             CEEEEeecC
Confidence            567888888

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=98.53  E-value=1.5e-06  Score=96.49  Aligned_cols=136  Identities=21%  Similarity=0.314  Sum_probs=87.9

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      |..++++||+|+|||.+++.++..+.    .+|+.++.+.+..     .+.|...     ..-..+....+....+||||
T Consensus       185 ~~gill~G~~G~GKt~~~~~~a~~~~----~~f~~is~~~~~~-----~~~g~~~-----~~~~~~f~~a~~~~P~IifI  250 (644)
T PRK10733        185 PKGVLMVGPPGTGKTLLAKAIAGEAK----VPFFTISGSDFVE-----MFVGVGA-----SRVRDMFEQAKKAAPCIIFI  250 (644)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHcC----CCEEEEehHHhHH-----hhhcccH-----HHHHHHHHHHHhcCCcEEEe
Confidence            34699999999999999999998764    3588888766532     2222111     01112333445556789999


Q ss_pred             ecCCccCH--------------HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccC
Q psy1308         377 DEVDKAHP--------------DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKR  442 (607)
Q Consensus       377 DEiek~~~--------------~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~  442 (607)
                      ||||.+..              .+++.||..++.  +.       ....+++|+|||... .                  
T Consensus       251 DEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg--~~-------~~~~vivIaaTN~p~-~------------------  302 (644)
T PRK10733        251 DEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDG--FE-------GNEGIIVIAATNRPD-V------------------  302 (644)
T ss_pred             hhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhc--cc-------CCCCeeEEEecCChh-h------------------
Confidence            99998732              245556655552  11       124678999999321 1                  


Q ss_pred             CCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--ccccceeeeccCCHHHHHHHHHHHHH
Q psy1308         443 TPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRINEIVYFLPFSKSELHTLVCRELN  507 (607)
Q Consensus       443 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~~iv~f~pl~~~~~~~i~~~~l~  507 (607)
                                              +.         |.+.  +|||..+.+.+++.++..+|+...+.
T Consensus       303 ------------------------lD---------~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~  336 (644)
T PRK10733        303 ------------------------LD---------PALLRPGRFDRQVVVGLPDVRGREQILKVHMR  336 (644)
T ss_pred             ------------------------cC---------HHHhCCcccceEEEcCCCCHHHHHHHHHHHhh
Confidence                                    11         3333  48888898888899999999777664

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=98.52  E-value=8.8e-07  Score=89.30  Aligned_cols=144  Identities=19%  Similarity=0.201  Sum_probs=86.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch-----
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE-----  342 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~-----  342 (607)
                      ..++||+.....+....-...-        ..+|+.|+.|+|||.++|+|+..|....---=.+++|.-......     
T Consensus        17 ~aivGqd~lk~aL~l~av~P~i--------ggvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~~P~~~c~~c~   88 (423)
T COG1239          17 TAIVGQDPLKLALGLNAVDPQI--------GGALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPDDPEEMCDECR   88 (423)
T ss_pred             hhhcCchHHHHHHhhhhccccc--------ceeEEecCCCccHHHHHHHHHHhCCccceecCCCCCCCCCChhhhhHHHH
Confidence            3578888777765433111111        168899999999999999999998542100000111111111000     


Q ss_pred             --------------hHhhhcCCCCCc-----cC---------CCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhh
Q psy1308         343 --------------VAKLIGAPPGYL-----GH---------DDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLF  394 (607)
Q Consensus       343 --------------~~~llg~~~g~~-----g~---------~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~  394 (607)
                                    -..+.+-|-|-+     |.         +...--.+++.++++||+++||+..++..+|+.||.++
T Consensus        89 ~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d~lvd~LLd~a  168 (423)
T COG1239          89 AKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLDDHLVDALLDVA  168 (423)
T ss_pred             hhccccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccccHHHHHHHHHHH
Confidence                          001111111111     10         01111245677889999999999999999999999999


Q ss_pred             ccc-eeecCCCcEEe-cCceEEEEecC
Q psy1308         395 DEG-RLTDGKGKTIE-CKDAIFVMTSN  419 (607)
Q Consensus       395 ~~~-~~~~~~g~~~~-~~~~~iI~tsn  419 (607)
                      ++| ......|..+. ..++++|.|.|
T Consensus       169 aeG~n~vereGisi~hpa~fvligTmN  195 (423)
T COG1239         169 AEGVNDVEREGISIRHPARFLLIGTMN  195 (423)
T ss_pred             HhCCceeeeCceeeccCccEEEEeecC
Confidence            998 34444566554 47788889988

>KOG0818|consensus

Probab=98.52  E-value=3.6e-07  Score=91.72  Aligned_cols=82  Identities=28%  Similarity=0.350  Sum_probs=45.6

Q ss_pred             HHHHHHcCCHHHHHHHHhcCCCCCccCCCC-CCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCC--chHHHHHHcCCccH
Q psy1308          90 LFRAARYGSAKELKTFIENSKLDVNMRHPL-GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF--NTVHRTAAEKKMNP  166 (607)
Q Consensus        90 Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~-g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~--~~l~~A~~~~~~~~  166 (607)
                      ||..++.|++++.-.||..| +++|..+.. |.||||.|++.|+..-+++|+=+|||++..|+.  ||+.+|-..||-++
T Consensus       137 LhasvRt~nlet~LRll~lG-A~~N~~hpekg~TpLHvAAk~Gq~~Q~ElL~vYGAD~~a~d~~GmtP~~~AR~~gH~~l  215 (669)
T KOG0818|consen  137 LHSSVRTGNLETCLRLLSLG-AQANFFHPEKGNTPLHVAAKAGQILQAELLAVYGADPGAQDSSGMTPVDYARQGGHHEL  215 (669)
T ss_pred             HHHHhhcccHHHHHHHHHcc-cccCCCCcccCCchhHHHHhccchhhhhHHhhccCCCCCCCCCCCcHHHHHHhcCchHH
Confidence            55666666666666666655 565555432 556666666666666666666666666655442  25555555555444


Q ss_pred             HHHHHh
Q psy1308         167 FEVLLK  172 (607)
Q Consensus       167 ~~~Ll~  172 (607)
                      .+-|++
T Consensus       216 aeRl~e  221 (669)
T KOG0818|consen  216 AERLVE  221 (669)
T ss_pred             HHHHHH
Confidence            444443

>KOG0783|consensus

Probab=98.52  E-value=5.2e-08  Score=103.25  Aligned_cols=81  Identities=20%  Similarity=0.223  Sum_probs=74.7

Q ss_pred             hhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCC-CCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCc--hH
Q psy1308          79 LLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPL-GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFN--TV  155 (607)
Q Consensus        79 ~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~-g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~--~l  155 (607)
                      .+..|..|+|+||+|+..|...++++||++| +|++.+|.. |+||||-|...|+++|+-+||.+|+....+|..|  ||
T Consensus        45 anikD~~GR~alH~~~S~~k~~~l~wLlqhG-idv~vqD~ESG~taLHRaiyyG~idca~lLL~~g~SL~i~Dkeglspl  123 (1267)
T KOG0783|consen   45 ANIKDRYGRTALHIAVSENKNSFLRWLLQHG-IDVFVQDEESGYTALHRAIYYGNIDCASLLLSKGRSLRIKDKEGLSPL  123 (1267)
T ss_pred             hhHHHhhccceeeeeeccchhHHHHHHHhcC-ceeeeccccccchHhhHhhhhchHHHHHHHHhcCCceEEecccCCCHH
Confidence            4788999999999999999999999999998 999999975 9999999999999999999999999998888766  88


Q ss_pred             HHHHH
Q psy1308         156 HRTAA  160 (607)
Q Consensus       156 ~~A~~  160 (607)
                      ..-++
T Consensus       124 q~~~r  128 (1267)
T KOG0783|consen  124 QFLSR  128 (1267)
T ss_pred             HHHhh
Confidence            77666

>PRK09087 hypothetical protein; Validated

Probab=98.51  E-value=6e-07  Score=86.14  Aligned_cols=152  Identities=18%  Similarity=0.180  Sum_probs=96.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .+.++|++|+|||.|++.+++...      ...++...+..                     .   .+.....+.|++|+
T Consensus        46 ~l~l~G~~GsGKThLl~~~~~~~~------~~~i~~~~~~~---------------------~---~~~~~~~~~l~iDD   95 (226)
T PRK09087         46 VVVLAGPVGSGKTHLASIWREKSD------ALLIHPNEIGS---------------------D---AANAAAEGPVLIED   95 (226)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhcC------CEEecHHHcch---------------------H---HHHhhhcCeEEEEC
Confidence            478999999999999998875431      11222211110                     0   11111125899999


Q ss_pred             CCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhc
Q psy1308         379 VDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTI  458 (607)
Q Consensus       379 iek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  458 (607)
                      ++... ..+..|+.++..-.  +        ....+|+||+.....+..                               
T Consensus        96 i~~~~-~~~~~lf~l~n~~~--~--------~g~~ilits~~~p~~~~~-------------------------------  133 (226)
T PRK09087         96 IDAGG-FDETGLFHLINSVR--Q--------AGTSLLMTSRLWPSSWNV-------------------------------  133 (226)
T ss_pred             CCCCC-CCHHHHHHHHHHHH--h--------CCCeEEEECCCChHHhcc-------------------------------
Confidence            99774 33566776664210  1        123477887755444311                               


Q ss_pred             chhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCC
Q psy1308         459 SRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYD  536 (607)
Q Consensus       459 ~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~  536 (607)
                                      +. |++.+|+.  .++.+.|++.+++.+++++.+..       +   .+.++++++++|++.++
T Consensus       134 ----------------~~-~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~-------~---~~~l~~ev~~~La~~~~  186 (226)
T PRK09087        134 ----------------KL-PDLKSRLKAATVVEIGEPDDALLSQVIFKLFAD-------R---QLYVDPHVVYYLVSRME  186 (226)
T ss_pred             ----------------cc-ccHHHHHhCCceeecCCCCHHHHHHHHHHHHHH-------c---CCCCCHHHHHHHHHHhh
Confidence                            11 78888885  57888999999999998877753       1   36789999999986332


Q ss_pred             CCCCccchhHHHHHH
Q psy1308         537 VHYGARSIKHEVERQ  551 (607)
Q Consensus       537 ~~~GaR~L~~~i~~~  551 (607)
                        ...|.+...+.+.
T Consensus       187 --r~~~~l~~~l~~L  199 (226)
T PRK09087        187 --RSLFAAQTIVDRL  199 (226)
T ss_pred             --hhHHHHHHHHHHH
Confidence              5566666655443

>KOG0743|consensus

Probab=98.50  E-value=1.1e-06  Score=89.23  Aligned_cols=152  Identities=20%  Similarity=0.302  Sum_probs=103.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      -.||+||||||||.++.++|.++.-+    ..-++.+....+.+..+|+-                  ...+.+||+|++
T Consensus       237 GYLLYGPPGTGKSS~IaAmAn~L~yd----IydLeLt~v~~n~dLr~LL~------------------~t~~kSIivIED  294 (457)
T KOG0743|consen  237 GYLLYGPPGTGKSSFIAAMANYLNYD----IYDLELTEVKLDSDLRHLLL------------------ATPNKSILLIED  294 (457)
T ss_pred             cceeeCCCCCCHHHHHHHHHhhcCCc----eEEeeeccccCcHHHHHHHH------------------hCCCCcEEEEee
Confidence            68999999999999999999998544    77788888877766666653                  233478999999


Q ss_pred             CCcc------------------CHHHHHHHHHhhccceeecCCCcEEec-CceEEEEecCcchHHHHHHHhhhhhccccc
Q psy1308         379 VDKA------------------HPDVLTVLLQLFDEGRLTDGKGKTIEC-KDAIFVMTSNLASNEIAQHALQLRKEGEEF  439 (607)
Q Consensus       379 iek~------------------~~~~~~~Ll~~~~~~~~~~~~g~~~~~-~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~  439 (607)
                      ||-.                  .+-.+.-||.++|.-+        -.+ ..-|||||||--                  
T Consensus       295 IDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlw--------Sscg~ERIivFTTNh~------------------  348 (457)
T KOG0743|consen  295 IDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLW--------SSCGDERIIVFTTNHK------------------  348 (457)
T ss_pred             cccccccccccccccccccCCcceeehHHhhhhhcccc--------ccCCCceEEEEecCCh------------------
Confidence            9865                  1124456777776222        122 245789999921                  


Q ss_pred             ccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--cccceeeeccCCHHHHHHHHHHHHHH-----HHHH
Q psy1308         440 SKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RINEIVYFLPFSKSELHTLVCRELNF-----WAKK  512 (607)
Q Consensus       440 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~~iv~f~pl~~~~~~~i~~~~l~~-----~~~~  512 (607)
                                                       ..+- |.|+.  |+|-.|.+.--+.+.+..++..++.-     +...
T Consensus       349 ---------------------------------EkLD-PALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~~h~L~~e  394 (457)
T KOG0743|consen  349 ---------------------------------EKLD-PALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEEDHRLFDE  394 (457)
T ss_pred             ---------------------------------hhcC-HhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCCCCcchhHH
Confidence                                             1122 66665  99988888778999999999988852     3333


Q ss_pred             HhhcCCcEEEeCHh-HHHHHHc
Q psy1308         513 ALDKHNINIVWDID-VETILAD  533 (607)
Q Consensus       513 ~~~~~~i~l~~~~~-a~~~L~~  533 (607)
                      +.+ .--..+++|+ +.+.|+.
T Consensus       395 ie~-l~~~~~~tPA~V~e~lm~  415 (457)
T KOG0743|consen  395 IER-LIEETEVTPAQVAEELMK  415 (457)
T ss_pred             HHH-HhhcCccCHHHHHHHHhh
Confidence            322 1223456665 4556664

>KOG0782|consensus

Probab=98.48  E-value=1.8e-07  Score=95.00  Aligned_cols=121  Identities=25%  Similarity=0.308  Sum_probs=94.8

Q ss_pred             HHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHHH
Q psy1308          90 LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEV  169 (607)
Q Consensus        90 Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~  169 (607)
                      +..|+..+++--++.+-..| .++-.++.+.+|.||+|+..|+-++|+|++++|..-                       
T Consensus       870 il~av~~~D~~klqE~h~~g-g~ll~~~~~~~sllh~a~~tg~~eivkyildh~p~e-----------------------  925 (1004)
T KOG0782|consen  870 ILRAVLSSDLMKLQETHLNG-GSLLIQGPDHCSLLHYAAKTGNGEIVKYILDHGPSE-----------------------  925 (1004)
T ss_pred             HHHHHHhccHHHHHHHHhcC-CceEeeCcchhhHHHHHHhcCChHHHHHHHhcCCHH-----------------------
Confidence            56677777766666666666 567777778888888888888888888888876521                       


Q ss_pred             HHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhh
Q psy1308         170 LLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKY  245 (607)
Q Consensus       170 Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~  245 (607)
                      ||      +.     .|..|.|+||.|+..++..++++|++.||.....|..|.||-.-|-+.|..++..+|-.+.
T Consensus       926 ll------d~-----~de~get~lhkaa~~~~r~vc~~lvdagasl~ktd~kg~tp~eraqqa~d~dlaayle~rq  990 (1004)
T KOG0782|consen  926 LL------DM-----ADETGETALHKAACQRNRAVCQLLVDAGASLRKTDSKGKTPQERAQQAGDPDLAAYLESRQ  990 (1004)
T ss_pred             HH------HH-----HhhhhhHHHHHHHHhcchHHHHHHHhcchhheecccCCCChHHHHHhcCCchHHHHHhhhh
Confidence            00      11     1234999999999999999999999999999999999999999999999999998886553

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=98.47  E-value=5.3e-06  Score=78.44  Aligned_cols=180  Identities=17%  Similarity=0.225  Sum_probs=106.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++|-+...+.+.........+.+    ..++|++|+.|||||.++|++...+..+ .=.++.+.-.....        
T Consensus        27 ~~L~Gie~Qk~~l~~Nt~~Fl~G~p----annvLL~G~rGtGKSSlVkall~~y~~~-GLRlIev~k~~L~~--------   93 (249)
T PF05673_consen   27 DDLIGIERQKEALIENTEQFLQGLP----ANNVLLWGARGTGKSSLVKALLNEYADQ-GLRLIEVSKEDLGD--------   93 (249)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcCCC----CcceEEecCCCCCHHHHHHHHHHHHhhc-CceEEEECHHHhcc--------
Confidence            3578888888888777777666643    3379999999999999999999887654 22233332222211        


Q ss_pred             cCCCCCccCCCCchhhHHHhhCC-CeEEEEecCCc-cCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHH
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKKCP-NAVVLFDEVDK-AHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEI  425 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~~~-~~vl~lDEiek-~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i  425 (607)
                                 -..+...++..| .=|||+|+..= ....-...|..++|.| +.      ....|++|.+|||.-.  +
T Consensus        94 -----------l~~l~~~l~~~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGg-le------~~P~NvliyATSNRRH--L  153 (249)
T PF05673_consen   94 -----------LPELLDLLRDRPYKFILFCDDLSFEEGDTEYKALKSVLEGG-LE------ARPDNVLIYATSNRRH--L  153 (249)
T ss_pred             -----------HHHHHHHHhcCCCCEEEEecCCCCCCCcHHHHHHHHHhcCc-cc------cCCCcEEEEEecchhh--c
Confidence                       113444555454 45888887532 1233446677777633 22      2358999999999321  1


Q ss_pred             HHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHH
Q psy1308         426 AQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRE  505 (607)
Q Consensus       426 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~  505 (607)
                      +....              .+... ....  ++..   .+.+    ...   -.|..||.-.+.|.|++.++..+|+...
T Consensus       154 v~E~~--------------~d~~~-~~~~--eih~---~d~~----eEk---lSLsDRFGL~l~F~~~~q~~YL~IV~~~  206 (249)
T PF05673_consen  154 VPESF--------------SDRED-IQDD--EIHP---SDTI----EEK---LSLSDRFGLWLSFYPPDQEEYLAIVRHY  206 (249)
T ss_pred             cchhh--------------hhccC-CCcc--ccCc---chHH----HHH---HhHHHhCCcEEEecCCCHHHHHHHHHHH
Confidence            11000              00000 0000  0000   1111    111   3467788889999999999999999888


Q ss_pred             HH
Q psy1308         506 LN  507 (607)
Q Consensus       506 l~  507 (607)
                      +.
T Consensus       207 ~~  208 (249)
T PF05673_consen  207 AE  208 (249)
T ss_pred             HH
Confidence            85

>KOG1942|consensus

Probab=98.45  E-value=2.5e-06  Score=80.99  Aligned_cols=117  Identities=19%  Similarity=0.287  Sum_probs=82.6

Q ss_pred             CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCccccc
Q psy1308         371 NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQ  450 (607)
Q Consensus       371 ~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~  450 (607)
                      .||+|+||++.++-+....|-+.++..            --.++||+||.|-..+..                   +++.
T Consensus       297 PGVLFIDEVhMLDiEcFTyL~kalES~------------iaPivifAsNrG~~~irG-------------------t~d~  345 (456)
T KOG1942|consen  297 PGVLFIDEVHMLDIECFTYLHKALESP------------IAPIVIFASNRGMCTIRG-------------------TEDI  345 (456)
T ss_pred             CcceEeeehhhhhhHHHHHHHHHhcCC------------CCceEEEecCCcceeecC-------------------CcCC
Confidence            589999999999999999999999832            235799999977655421                   0000


Q ss_pred             CCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHH
Q psy1308         451 GSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETI  530 (607)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~  530 (607)
                                          ...|--+++++.|+ .||...|++.+++++|+.....       ..   .+.++++++++
T Consensus       346 --------------------~sPhGip~dllDRl-~Iirt~~y~~~e~r~Ii~~Ra~-------~E---~l~~~e~a~~~  394 (456)
T KOG1942|consen  346 --------------------LSPHGIPPDLLDRL-LIIRTLPYDEEEIRQIIKIRAQ-------VE---GLQVEEEALDL  394 (456)
T ss_pred             --------------------CCCCCCCHHHhhhe-eEEeeccCCHHHHHHHHHHHHh-------hh---cceecHHHHHH
Confidence                                01111149999999 6788899999999999875443       12   57889999999


Q ss_pred             HHccCCCCCCccchhHHHHHHHHHH
Q psy1308         531 LADGYDVHYGARSIKHEVERQVVSQ  555 (607)
Q Consensus       531 L~~~~~~~~GaR~L~~~i~~~i~~~  555 (607)
                      |..    -+--+.||-.++  +..|
T Consensus       395 l~~----~gt~tsLRy~vq--Ll~p  413 (456)
T KOG1942|consen  395 LAE----IGTSTSLRYAVQ--LLTP  413 (456)
T ss_pred             HHh----hccchhHHHHHH--hcCH
Confidence            985    223456776665  4444

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.45  E-value=1.3e-06  Score=93.92  Aligned_cols=173  Identities=14%  Similarity=0.263  Sum_probs=108.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      .++|+|++|+|||.|+.+++..+.... ......+.+..+.... ...+..        .....+.+.++.  ..+|+||
T Consensus       316 pL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el-~~al~~--------~~~~~f~~~y~~--~DLLlID  384 (617)
T PRK14086        316 PLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEF-INSIRD--------GKGDSFRRRYRE--MDILLVD  384 (617)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHH-HHHHHh--------ccHHHHHHHhhc--CCEEEEe
Confidence            488999999999999999999875321 2233444444332111 111110        011122233333  4799999


Q ss_pred             cCCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcc
Q psy1308         378 EVDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLD  455 (607)
Q Consensus       378 Eiek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (607)
                      ||+.+..  ..+..|+.+++.-.  +        .+.-+|+||+.....+..                            
T Consensus       385 DIq~l~gke~tqeeLF~l~N~l~--e--------~gk~IIITSd~~P~eL~~----------------------------  426 (617)
T PRK14086        385 DIQFLEDKESTQEEFFHTFNTLH--N--------ANKQIVLSSDRPPKQLVT----------------------------  426 (617)
T ss_pred             hhccccCCHHHHHHHHHHHHHHH--h--------cCCCEEEecCCChHhhhh----------------------------
Confidence            9998743  45677777776321  1        122377798866555421                            


Q ss_pred             hhcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         456 VTISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       456 ~~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                                         +. +.|.+||.  .++...|++.+....|++.....       +   .+.++++++++|+.
T Consensus       427 -------------------l~-~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~-------r---~l~l~~eVi~yLa~  476 (617)
T PRK14086        427 -------------------LE-DRLRNRFEWGLITDVQPPELETRIAILRKKAVQ-------E---QLNAPPEVLEFIAS  476 (617)
T ss_pred             -------------------cc-HHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHh-------c---CCCCCHHHHHHHHH
Confidence                               11 66777774  46777888999999998765432       1   36789999999986


Q ss_pred             cCCCCCCccchhHHHHHHH
Q psy1308         534 GYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       534 ~~~~~~GaR~L~~~i~~~i  552 (607)
                      .+  ..++|+|...|.+..
T Consensus       477 r~--~rnvR~LegaL~rL~  493 (617)
T PRK14086        477 RI--SRNIRELEGALIRVT  493 (617)
T ss_pred             hc--cCCHHHHHHHHHHHH
Confidence            33  567899999998754

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.45  E-value=1.4e-06  Score=99.59  Aligned_cols=120  Identities=22%  Similarity=0.330  Sum_probs=77.4

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~  342 (607)
                      .++|++..++.+...+.+...        -..+|+||+|+|||.+++.++..+....      ...++.++++....   
T Consensus       179 ~vigr~~ei~~~i~iL~r~~~--------~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~a---  247 (857)
T PRK10865        179 PVIGRDEEIRRTIQVLQRRTK--------NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVA---  247 (857)
T ss_pred             cCCCCHHHHHHHHHHHhcCCc--------CceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhh---
Confidence            488999998888887766532        1467999999999999999999874321      23455555554311   


Q ss_pred             hHhhhcCCCCCccCCCCchhhHHH---h-hCCCeEEEEecCCccCH--------HHHHHHHHhhccceeecCCCcEEecC
Q psy1308         343 VAKLIGAPPGYLGHDDGGQLTKRL---K-KCPNAVVLFDEVDKAHP--------DVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l~~~~---~-~~~~~vl~lDEiek~~~--------~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                             ...|.|. -...+...+   . .....||||||++.+..        +.++.|...+..|             
T Consensus       248 -------g~~~~g~-~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g-------------  306 (857)
T PRK10865        248 -------GAKYRGE-FEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG-------------  306 (857)
T ss_pred             -------ccchhhh-hHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhcC-------------
Confidence                   0112221 111222222   2 23468999999998753        3678888887655             


Q ss_pred             ceEEEEecCc
Q psy1308         411 DAIFVMTSNL  420 (607)
Q Consensus       411 ~~~iI~tsn~  420 (607)
                      ..++|.+|+.
T Consensus       307 ~l~~IgaTt~  316 (857)
T PRK10865        307 ELHCVGATTL  316 (857)
T ss_pred             CCeEEEcCCC
Confidence            3568888883

>KOG0522|consensus

Probab=98.44  E-value=4.4e-07  Score=92.40  Aligned_cols=91  Identities=23%  Similarity=0.288  Sum_probs=71.6

Q ss_pred             hHHHHHHcCCccHHHHHHhc--CCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhh
Q psy1308         154 TVHRTAAEKKMNPFEVLLKR--EDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAED  231 (607)
Q Consensus       154 ~l~~A~~~~~~~~~~~Ll~~--g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~  231 (607)
                      |+|+++.....+-+..++..  +..++..     |..|+||||+|+..|+...++.|+.+|||+..+|++||+|||-|+.
T Consensus        23 ~lh~~~~~~~~~sl~~el~~~~~~~id~~-----D~~g~TpLhlAV~Lg~~~~a~~Ll~a~Adv~~kN~~gWs~L~EAv~   97 (560)
T KOG0522|consen   23 PLHWAVVTTDSDSLEQELLAKVSLVIDRR-----DPPGRTPLHLAVRLGHVEAARILLSAGADVSIKNNEGWSPLHEAVS   97 (560)
T ss_pred             ccchhhhccchhhHHHHHhhhhhceeccc-----cCCCCccHHHHHHhcCHHHHHHHHhcCCCccccccccccHHHHHHH
Confidence            47777777666655443332  2233333     5559999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhhhhHH
Q psy1308         232 ANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       232 ~~~~~~~~~ll~~~~~~~  249 (607)
                      .|+.+++..++.+.....
T Consensus        98 ~g~~q~i~~vlr~~~~q~  115 (560)
T KOG0522|consen   98 TGNEQIITEVLRHLKYQA  115 (560)
T ss_pred             cCCHHHHHHHHHHhHHHH
Confidence            999999988887765433

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=98.43  E-value=2.3e-06  Score=87.66  Aligned_cols=121  Identities=26%  Similarity=0.363  Sum_probs=76.3

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcC--------------------Cce
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK--------------------EAF  329 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~--------------------~~~  329 (607)
                      ++++...+..+..........      |-.++|.||+|+|||.+|..+++.+.....                    ..+
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~------~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~   76 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRL------PHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDF   76 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCC------CceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCce
Confidence            445555665555554433211      225999999999999999999999875321                    233


Q ss_pred             EEeecccccccchhHhhhcCCCCCccCCCCchhhHHHh----hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCc
Q psy1308         330 IRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLK----KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGK  405 (607)
Q Consensus       330 ~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~----~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~  405 (607)
                      ..++-+.........+.            -..+.....    ..+.-|+++||+|+++++.++.|++.+++.        
T Consensus        77 lel~~s~~~~~~i~~~~------------vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep--------  136 (325)
T COG0470          77 LELNPSDLRKIDIIVEQ------------VRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEP--------  136 (325)
T ss_pred             EEecccccCCCcchHHH------------HHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccC--------
Confidence            44443333221100000            001111111    134679999999999999999999999954        


Q ss_pred             EEecCceEEEEecC
Q psy1308         406 TIECKDAIFVMTSN  419 (607)
Q Consensus       406 ~~~~~~~~iI~tsn  419 (607)
                         ..+++||+++|
T Consensus       137 ---~~~~~~il~~n  147 (325)
T COG0470         137 ---PKNTRFILITN  147 (325)
T ss_pred             ---CCCeEEEEEcC
Confidence               37889999999

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.43  E-value=1.1e-06  Score=88.15  Aligned_cols=137  Identities=17%  Similarity=0.306  Sum_probs=86.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh-cCCCC----------CccCCCCchhhHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI-GAPPG----------YLGHDDGGQLTKRLK  367 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll-g~~~g----------~~g~~~~~~l~~~~~  367 (607)
                      .++|.||.|+||+.+|+.+++.+.-.+..+-.  -|..-   ..+..+. |..|.          .++-++-..+...+.
T Consensus        26 A~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~--~Cg~C---~sC~~~~~g~HPD~~~i~p~~~~~I~id~iR~l~~~~~  100 (325)
T PRK06871         26 ALLFKADSGLGTEQLIRALAQWLMCQTPQGDQ--PCGQC---HSCHLFQAGNHPDFHILEPIDNKDIGVDQVREINEKVS  100 (325)
T ss_pred             eEEeECCCCCCHHHHHHHHHHHHcCCCCCCCC--CCCCC---HHHHHHhcCCCCCEEEEccccCCCCCHHHHHHHHHHHh
Confidence            68899999999999999999998653211100  11110   1111111 11111          122222222333333


Q ss_pred             hC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCC
Q psy1308         368 KC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRT  443 (607)
Q Consensus       368 ~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~  443 (607)
                      ..    .+-|++||++|+++...++.||+.+|+.           ..+++||++|+....                    
T Consensus       101 ~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEP-----------p~~~~fiL~t~~~~~--------------------  149 (325)
T PRK06871        101 QHAQQGGNKVVYIQGAERLTEAAANALLKTLEEP-----------RPNTYFLLQADLSAA--------------------  149 (325)
T ss_pred             hccccCCceEEEEechhhhCHHHHHHHHHHhcCC-----------CCCeEEEEEECChHh--------------------
Confidence            33    3579999999999999999999999964           367889988872111                    


Q ss_pred             CCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHH
Q psy1308         444 PSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCR  504 (607)
Q Consensus       444 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~  504 (607)
                                                     .. |-..+|. ..+.|.|++.+++.+.+..
T Consensus       150 -------------------------------ll-pTI~SRC-~~~~~~~~~~~~~~~~L~~  177 (325)
T PRK06871        150 -------------------------------LL-PTIYSRC-QTWLIHPPEEQQALDWLQA  177 (325)
T ss_pred             -------------------------------Cc-hHHHhhc-eEEeCCCCCHHHHHHHHHH
Confidence                                           11 6677888 5678899988888766654

>PRK06620 hypothetical protein; Validated

Probab=98.41  E-value=5.8e-06  Score=78.65  Aligned_cols=61  Identities=10%  Similarity=0.136  Sum_probs=46.7

Q ss_pred             hhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         478 DEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       478 ~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      |++.+|+.  .++.+.|++.+++..++.+....       +   .+.++++++++|++.  .+..+|.+.+.+++
T Consensus       130 ~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~-------~---~l~l~~ev~~~L~~~--~~~d~r~l~~~l~~  192 (214)
T PRK06620        130 PDLSSRIKSVLSILLNSPDDELIKILIFKHFSI-------S---SVTISRQIIDFLLVN--LPREYSKIIEILEN  192 (214)
T ss_pred             HHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHH-------c---CCCCCHHHHHHHHHH--ccCCHHHHHHHHHH
Confidence            67778884  26888999999988887665542       1   367899999999852  36778999999987

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=98.41  E-value=1.5e-05  Score=79.27  Aligned_cols=188  Identities=18%  Similarity=0.223  Sum_probs=104.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEee--cccccccc---hhHhhhcCCCCCccCCCCc---hhhH----HH
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD--MSEYQEKH---EVAKLIGAPPGYLGHDDGG---QLTK----RL  366 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~--~a~~~~~~---~~~~llg~~~g~~g~~~~~---~l~~----~~  366 (607)
                      .++++|++|+|||.+++.++..+...   ......  ........   .+...+|.+..  +.....   .+..    ..
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~l~~~---~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~--~~~~~~~~~~l~~~l~~~~  119 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKRLDQE---RVVAAKLVNTRVDAEDLLRMVAADFGLETE--GRDKAALLRELEDFLIEQF  119 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCC---CeEEeeeeCCCCCHHHHHHHHHHHcCCCCC--CCCHHHHHHHHHHHHHHHH
Confidence            57899999999999999999877532   122111  11121111   12233443221  111111   1211    12


Q ss_pred             hhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCc
Q psy1308         367 KKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSI  446 (607)
Q Consensus       367 ~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~  446 (607)
                      ......++++||++.+++..++.|..+.+-.   ...     ...+.|++++.........                   
T Consensus       120 ~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~---~~~-----~~~~~vvl~g~~~~~~~l~-------------------  172 (269)
T TIGR03015       120 AAGKRALLVVDEAQNLTPELLEELRMLSNFQ---TDN-----AKLLQIFLVGQPEFRETLQ-------------------  172 (269)
T ss_pred             hCCCCeEEEEECcccCCHHHHHHHHHHhCcc---cCC-----CCeEEEEEcCCHHHHHHHc-------------------
Confidence            2445679999999999998887776554421   111     1233456665421111000                   


Q ss_pred             ccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHh
Q psy1308         447 SKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDID  526 (607)
Q Consensus       447 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~  526 (607)
                                               ...+  ..+.+|+...+.+.|++.+++.+++...+....      ..-...++++
T Consensus       173 -------------------------~~~~--~~l~~r~~~~~~l~~l~~~e~~~~l~~~l~~~g------~~~~~~~~~~  219 (269)
T TIGR03015       173 -------------------------SPQL--QQLRQRIIASCHLGPLDREETREYIEHRLERAG------NRDAPVFSEG  219 (269)
T ss_pred             -------------------------Cchh--HHHHhheeeeeeCCCCCHHHHHHHHHHHHHHcC------CCCCCCcCHH
Confidence                                     0001  346778877888999999999998887775321      1113457999


Q ss_pred             HHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         527 VETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       527 a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      +++.|.+ +. .+..|.+.......+.
T Consensus       220 ~~~~i~~-~s-~G~p~~i~~l~~~~~~  244 (269)
T TIGR03015       220 AFDAIHR-FS-RGIPRLINILCDRLLL  244 (269)
T ss_pred             HHHHHHH-Hc-CCcccHHHHHHHHHHH
Confidence            9999974 21 2335656655554444

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>KOG0705|consensus

Probab=98.40  E-value=3.3e-07  Score=93.66  Aligned_cols=93  Identities=20%  Similarity=0.202  Sum_probs=80.7

Q ss_pred             hHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhh
Q psy1308         154 TVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN  233 (607)
Q Consensus       154 ~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~  233 (607)
                      -|..|+....+..+-+||.+|..... +....+.+|+|+||+||..|++.+.++|+=+|+|+.++|..|+|||.||...|
T Consensus       627 qLl~A~~~~Dl~t~~lLLAhg~~~e~-~~t~~~~~grt~LHLa~~~gnVvl~QLLiWyg~dv~~rda~g~t~l~yar~a~  705 (749)
T KOG0705|consen  627 QLLRAVAAEDLQTAILLLAHGSREEV-NETCGEGDGRTALHLAARKGNVVLAQLLIWYGVDVMARDAHGRTALFYARQAG  705 (749)
T ss_pred             HHHHHHHHHHHHHHHHHHhccCchhh-hccccCCCCcchhhhhhhhcchhHHHHHHHhCccceecccCCchhhhhHhhcc
Confidence            46778888888899999999876443 22334566999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhh
Q psy1308         234 IKQILQKYAEKYAD  247 (607)
Q Consensus       234 ~~~~~~~ll~~~~~  247 (607)
                      ..+++..|+..|..
T Consensus       706 sqec~d~llq~gcp  719 (749)
T KOG0705|consen  706 SQECIDVLLQYGCP  719 (749)
T ss_pred             cHHHHHHHHHcCCC
Confidence            99999999988754

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.38  E-value=3.3e-06  Score=96.89  Aligned_cols=178  Identities=17%  Similarity=0.217  Sum_probs=104.0

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~  342 (607)
                      .++|++..++.+...+.+...        ...+++||+|+|||.+++.++..+....      ...++.++++..     
T Consensus       174 ~~igr~~ei~~~~~~l~r~~~--------~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l-----  240 (852)
T TIGR03346       174 PVIGRDEEIRRTIQVLSRRTK--------NNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGAL-----  240 (852)
T ss_pred             cCCCcHHHHHHHHHHHhcCCC--------CceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHH-----
Confidence            388999998888887765431        2466899999999999999998764321      223445554332     


Q ss_pred             hHhhhcCCCCCccCCCCchhhHHH---hh-CCCeEEEEecCCccC--------HHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         343 VAKLIGAPPGYLGHDDGGQLTKRL---KK-CPNAVVLFDEVDKAH--------PDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l~~~~---~~-~~~~vl~lDEiek~~--------~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                          + ....|.|. -...+...+   .. ....|||||||+.+.        .+..+.|...+..|             
T Consensus       241 ----~-a~~~~~g~-~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g-------------  301 (852)
T TIGR03346       241 ----I-AGAKYRGE-FEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARG-------------  301 (852)
T ss_pred             ----h-hcchhhhh-HHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcC-------------
Confidence                1 01123321 111223333   22 247899999999774        24566666666543             


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      ...+|.+|+...  ...+ +                                           .. .|.|.+||..+. .
T Consensus       302 ~i~~IgaTt~~e--~r~~-~-------------------------------------------~~-d~al~rRf~~i~-v  333 (852)
T TIGR03346       302 ELHCIGATTLDE--YRKY-I-------------------------------------------EK-DAALERRFQPVF-V  333 (852)
T ss_pred             ceEEEEeCcHHH--HHHH-h-------------------------------------------hc-CHHHHhcCCEEE-e
Confidence            456888888311  1000 0                                           01 288888997654 4


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                      .+++.++...|+.....    ++...+  .+.++++++...+
T Consensus       334 ~~p~~~~~~~iL~~~~~----~~e~~~--~v~~~d~~i~~~~  369 (852)
T TIGR03346       334 DEPTVEDTISILRGLKE----RYEVHH--GVRITDPAIVAAA  369 (852)
T ss_pred             CCCCHHHHHHHHHHHHH----Hhcccc--CCCCCHHHHHHHH
Confidence            45588888888655433    332222  3345666665544

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.37  E-value=3.1e-06  Score=85.69  Aligned_cols=138  Identities=20%  Similarity=0.235  Sum_probs=86.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh-cCCCC-----------CccCCCCchhhHHH
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI-GAPPG-----------YLGHDDGGQLTKRL  366 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll-g~~~g-----------~~g~~~~~~l~~~~  366 (607)
                      .++|+||+|+||+.+|+.+|+.+.-.+..+..  -|..-   .+...+. |..|.           .++-++-..+.+.+
T Consensus        24 a~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~--~Cg~C---~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~   98 (328)
T PRK05707         24 AYLLHGPAGIGKRALAERLAAALLCEAPQGGG--ACGSC---KGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFV   98 (328)
T ss_pred             eeeeECCCCCCHHHHHHHHHHHHcCCCCCCCC--CCCCC---HHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHH
Confidence            68999999999999999999998653211100  11110   1111111 11111           11112222233333


Q ss_pred             hhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccC
Q psy1308         367 KKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKR  442 (607)
Q Consensus       367 ~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~  442 (607)
                      ...    ++-|++||++|+++.+.++.||+.+|+-           ..+++||++|+....                   
T Consensus        99 ~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEP-----------p~~~~fiL~t~~~~~-------------------  148 (328)
T PRK05707         99 VQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEP-----------SGDTVLLLISHQPSR-------------------  148 (328)
T ss_pred             hhccccCCCeEEEECChhhCCHHHHHHHHHHHhCC-----------CCCeEEEEEECChhh-------------------
Confidence            333    3679999999999999999999999963           256788888882211                   


Q ss_pred             CCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHH
Q psy1308         443 TPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRE  505 (607)
Q Consensus       443 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~  505 (607)
                                                      +. |-+.+|. ..+.|.|++.+++.+.+...
T Consensus       149 --------------------------------ll-~TI~SRc-~~~~~~~~~~~~~~~~L~~~  177 (328)
T PRK05707        149 --------------------------------LL-PTIKSRC-QQQACPLPSNEESLQWLQQA  177 (328)
T ss_pred             --------------------------------Cc-HHHHhhc-eeeeCCCcCHHHHHHHHHHh
Confidence                                            22 6778888 45888999988887776543

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.36  E-value=1.4e-06  Score=87.32  Aligned_cols=127  Identities=20%  Similarity=0.261  Sum_probs=73.6

Q ss_pred             hHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc----cccchhHhhhc
Q psy1308         273 QESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY----QEKHEVAKLIG  348 (607)
Q Consensus       273 q~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~----~~~~~~~~llg  348 (607)
                      +..+.+.+...+...+.       |-.++|.||.|+||+.+|..+++.+.-....+.-  .|.+.    .++|--..++.
T Consensus         9 ~~~~~~~l~~~~~~~rl-------~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~--~c~~c~~~~~g~HPD~~~i~   79 (319)
T PRK08769          9 QQRAYDQTVAALDAGRL-------GHGLLICGPEGLGKRAVALALAEHVLASGPDPAA--AQRTRQLIAAGTHPDLQLVS   79 (319)
T ss_pred             HHHHHHHHHHHHHcCCc-------ceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCC--cchHHHHHhcCCCCCEEEEe
Confidence            45556666655544331       3368999999999999999999988653211110  11110    01111111111


Q ss_pred             CCCCCccC--------CCCchhhHHHhhCC----CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEE
Q psy1308         349 APPGYLGH--------DDGGQLTKRLKKCP----NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVM  416 (607)
Q Consensus       349 ~~~g~~g~--------~~~~~l~~~~~~~~----~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~  416 (607)
                      ..|...|.        ++-..+.+.+...+    +-|++||++|+++.+..+.||+.+|+-           ..+++||+
T Consensus        80 ~~p~~~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEP-----------p~~~~fiL  148 (319)
T PRK08769         80 FIPNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEP-----------SPGRYLWL  148 (319)
T ss_pred             cCCCcccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCC-----------CCCCeEEE
Confidence            01211111        11111222222333    569999999999999999999999963           25778888


Q ss_pred             ecC
Q psy1308         417 TSN  419 (607)
Q Consensus       417 tsn  419 (607)
                      +|+
T Consensus       149 ~~~  151 (319)
T PRK08769        149 ISA  151 (319)
T ss_pred             EEC
Confidence            887

>KOG0652|consensus

Probab=98.36  E-value=2.6e-06  Score=79.53  Aligned_cols=128  Identities=23%  Similarity=0.305  Sum_probs=78.4

Q ss_pred             HhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc
Q psy1308         269 RIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK  340 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~  340 (607)
                      .+-|.+..|+.+.+++.-.        ..+..   .|.-++++||||+|||.+||+-|..-+.    .|..+     .+.
T Consensus       172 DiGGldkQIqELvEAiVLpmth~ekF~~lgi~---pPKGvLmYGPPGTGKTlmARAcAaqT~a----TFLKL-----AgP  239 (424)
T KOG0652|consen  172 DIGGLDKQIQELVEAIVLPMTHKEKFENLGIR---PPKGVLMYGPPGTGKTLMARACAAQTNA----TFLKL-----AGP  239 (424)
T ss_pred             ccccHHHHHHHHHHHhccccccHHHHHhcCCC---CCCceEeeCCCCCcHHHHHHHHHHhccc----hHHHh-----cch
Confidence            4667777777777776422        22222   2447889999999999999998865432    23332     233


Q ss_pred             chhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEec
Q psy1308         341 HEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIEC  409 (607)
Q Consensus       341 ~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~  409 (607)
                      ..+..++|.....     ..+-..+......+++|+||+|..           +.++|...|.++..-     +|.. .-
T Consensus       240 QLVQMfIGdGAkL-----VRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQL-----DGFs-s~  308 (424)
T KOG0652|consen  240 QLVQMFIGDGAKL-----VRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQL-----DGFS-SD  308 (424)
T ss_pred             HHHhhhhcchHHH-----HHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhh-----cCCC-Cc
Confidence            4455666632111     112233344455789999999864           567999888887621     1221 11


Q ss_pred             CceEEEEecC
Q psy1308         410 KDAIFVMTSN  419 (607)
Q Consensus       410 ~~~~iI~tsn  419 (607)
                      ..+-+|.+||
T Consensus       309 ~~vKviAATN  318 (424)
T KOG0652|consen  309 DRVKVIAATN  318 (424)
T ss_pred             cceEEEeecc
Confidence            3456899998

>KOG0726|consensus

Probab=98.34  E-value=1.3e-06  Score=82.91  Aligned_cols=127  Identities=27%  Similarity=0.402  Sum_probs=82.0

Q ss_pred             hhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc
Q psy1308         270 IVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH  341 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~  341 (607)
                      +-|.+..++.+.+.+.-.        ..|..   .|--++++|++|+|||.||+++|..-    .-.|.++-     ++.
T Consensus       187 iGGle~QiQEiKEsvELPLthPE~YeemGik---pPKGVIlyG~PGTGKTLLAKAVANqT----SATFlRvv-----Gse  254 (440)
T KOG0726|consen  187 IGGLESQIQEIKESVELPLTHPEYYEEMGIK---PPKGVILYGEPGTGKTLLAKAVANQT----SATFLRVV-----GSE  254 (440)
T ss_pred             cccHHHHHHHHHHhhcCCCCCHHHHHHcCCC---CCCeeEEeCCCCCchhHHHHHHhccc----chhhhhhh-----hHH
Confidence            445566666666655322        22222   24478899999999999999999543    22355443     344


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                      .+.+++|..|..+     .++....+....+|+|+||||..           ..++|..+|.++..-.-.|.      ..
T Consensus       255 LiQkylGdGpklv-----RqlF~vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFds------rg  323 (440)
T KOG0726|consen  255 LIQKYLGDGPKLV-----RELFRVAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDS------RG  323 (440)
T ss_pred             HHHHHhccchHHH-----HHHHHHHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccc------cC
Confidence            5778887544322     23444455556899999999975           35699998888863322222      35


Q ss_pred             ceEEEEecC
Q psy1308         411 DAIFVMTSN  419 (607)
Q Consensus       411 ~~~iI~tsn  419 (607)
                      ++-+||+||
T Consensus       324 DvKvimATn  332 (440)
T KOG0726|consen  324 DVKVIMATN  332 (440)
T ss_pred             CeEEEEecc
Confidence            667999999

>KOG0705|consensus

Probab=98.33  E-value=1.4e-06  Score=89.26  Aligned_cols=63  Identities=29%  Similarity=0.288  Sum_probs=37.3

Q ss_pred             CCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCC
Q psy1308          83 QSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP  146 (607)
Q Consensus        83 ~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~  146 (607)
                      +.+|.|+||+||+.|++.+.++|+=+| +|+..+|..|+|||.||-+.|..+|+.+|+.+|+..
T Consensus       658 ~~~grt~LHLa~~~gnVvl~QLLiWyg-~dv~~rda~g~t~l~yar~a~sqec~d~llq~gcp~  720 (749)
T KOG0705|consen  658 EGDGRTALHLAARKGNVVLAQLLIWYG-VDVMARDAHGRTALFYARQAGSQECIDVLLQYGCPD  720 (749)
T ss_pred             CCCCcchhhhhhhhcchhHHHHHHHhC-ccceecccCCchhhhhHhhcccHHHHHHHHHcCCCc
Confidence            344556666666666666666666544 666666666666666666666666666666665543

>KOG0729|consensus

Probab=98.31  E-value=2.6e-06  Score=79.87  Aligned_cols=129  Identities=24%  Similarity=0.326  Sum_probs=84.4

Q ss_pred             HhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc
Q psy1308         269 RIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK  340 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~  340 (607)
                      .+-|-.+.++.+.+.+...        ..|+.   .|.-++++||+|+|||.+||++|.--    .--|+++--|++   
T Consensus       178 dvggckeqieklrevve~pll~perfv~lgid---ppkgvllygppgtgktl~aravanrt----dacfirvigsel---  247 (435)
T KOG0729|consen  178 DVGGCKEQIEKLREVVELPLLHPERFVNLGID---PPKGVLLYGPPGTGKTLCARAVANRT----DACFIRVIGSEL---  247 (435)
T ss_pred             cccchHHHHHHHHHHHhccccCHHHHhhcCCC---CCCceEEeCCCCCchhHHHHHHhccc----CceEEeehhHHH---
Confidence            3555666666665555322        22322   24578999999999999999998543    334777665443   


Q ss_pred             chhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEec
Q psy1308         341 HEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIEC  409 (607)
Q Consensus       341 ~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~  409 (607)
                        +.++.|....     ....+.+..+...-|++||||||..           +.++|...|.++..-.-.|..      
T Consensus       248 --vqkyvgegar-----mvrelf~martkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdpr------  314 (435)
T KOG0729|consen  248 --VQKYVGEGAR-----MVRELFEMARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPR------  314 (435)
T ss_pred             --HHHHhhhhHH-----HHHHHHHHhcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCC------
Confidence              6666663221     1234556666667899999999864           567999999888643333443      


Q ss_pred             CceEEEEecCc
Q psy1308         410 KDAIFVMTSNL  420 (607)
Q Consensus       410 ~~~~iI~tsn~  420 (607)
                      .|.-++|+||.
T Consensus       315 gnikvlmatnr  325 (435)
T KOG0729|consen  315 GNIKVLMATNR  325 (435)
T ss_pred             CCeEEEeecCC
Confidence            45568899994

>KOG0651|consensus

Probab=98.29  E-value=1.7e-06  Score=83.03  Aligned_cols=103  Identities=23%  Similarity=0.379  Sum_probs=69.9

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhC---CC
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKC---PN  371 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~---~~  371 (607)
                      ..|..++++||+|+|||.++++++..+...    |+.+-.++.     +...+|.        ....+.+.++.+   ..
T Consensus       164 k~Pkg~ll~GppGtGKTlla~~Vaa~mg~n----fl~v~ss~l-----v~kyiGE--------saRlIRemf~yA~~~~p  226 (388)
T KOG0651|consen  164 KPPKGLLLYGPPGTGKTLLARAVAATMGVN----FLKVVSSAL-----VDKYIGE--------SARLIRDMFRYAREVIP  226 (388)
T ss_pred             CCCceeEEeCCCCCchhHHHHHHHHhcCCc----eEEeeHhhh-----hhhhccc--------HHHHHHHHHHHHhhhCc
Confidence            346689999999999999999999887442    555555444     3333332        233344444333   36


Q ss_pred             eEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         372 AVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       372 ~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                      |++|+||||..           +.++|..|+++++.-.=.|.-      ..+=+|||+|.
T Consensus       227 ciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l------~rVk~ImatNr  280 (388)
T KOG0651|consen  227 CIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTL------HRVKTIMATNR  280 (388)
T ss_pred             eEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhc------ccccEEEecCC
Confidence            99999999873           567999999999843322322      34559999994

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=98.27  E-value=1.2e-05  Score=87.24  Aligned_cols=254  Identities=15%  Similarity=0.133  Sum_probs=136.3

Q ss_pred             HHHHHhHhhhhHHHHHHHHHHHHHhhCCCCC----CCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc
Q psy1308         263 EQRLKDRIVGQESAINIISAAIKRKENGWTD----DDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ  338 (607)
Q Consensus       263 ~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~----~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~  338 (607)
                      ...+...+.|.+...+.+.-.+-........    -..-+++|+.|-||++|+.+.+.+.+..++.   -++..-.+.-.
T Consensus       281 ~~SiaPsIyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aPr~---vytsgkgss~~  357 (682)
T COG1241         281 IKSIAPSIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPRG---VYTSGKGSSAA  357 (682)
T ss_pred             HHHhcccccCcHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCCce---EEEcccccccc
Confidence            3344556788888666554443222111111    1123689999999999999999999887552   11111111110


Q ss_pred             ccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEec--CceEEEE
Q psy1308         339 EKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIEC--KDAIFVM  416 (607)
Q Consensus       339 ~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~--~~~~iI~  416 (607)
                      +-  .+... ..+. +| + --.-.+++--+.+||.++||+||++..-...|...|+.++++-.++--...  ..+=+++
T Consensus       358 GL--TAav~-rd~~-tg-e-~~LeaGALVlAD~Gv~cIDEfdKm~~~dr~aihEaMEQQtIsIaKAGI~atLnARcsvLA  431 (682)
T COG1241         358 GL--TAAVV-RDKV-TG-E-WVLEAGALVLADGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAGITATLNARCSVLA  431 (682)
T ss_pred             Cc--eeEEE-EccC-CC-e-EEEeCCEEEEecCCEEEEEeccCCChHHHHHHHHHHHhcEeeecccceeeecchhhhhhh
Confidence            00  00000 0000 11 0 001123455678899999999999999999999999999988754331111  3333556


Q ss_pred             ecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-CCH
Q psy1308         417 TSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-FSK  495 (607)
Q Consensus       417 tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l~~  495 (607)
                      +.|-....               +..                +....+.       =.+. +.|++|||-+++..- .++
T Consensus       432 AaNP~~Gr---------------yd~----------------~~~~~en-------I~l~-~~lLSRFDLifvl~D~~d~  472 (682)
T COG1241         432 AANPKFGR---------------YDP----------------KKTVAEN-------INLP-APLLSRFDLIFVLKDDPDE  472 (682)
T ss_pred             hhCCCCCc---------------CCC----------------CCCHHHh-------cCCC-hhHHhhCCeeEEecCCCCc
Confidence            65521110               000                0000011       1143 789999997654433 344


Q ss_pred             HHHHHHHHHHHHHHH------------------------HHHh--hcCCcEEEeCHhHHHHHHccCCC------------
Q psy1308         496 SELHTLVCRELNFWA------------------------KKAL--DKHNINIVWDIDVETILADGYDV------------  537 (607)
Q Consensus       496 ~~~~~i~~~~l~~~~------------------------~~~~--~~~~i~l~~~~~a~~~L~~~~~~------------  537 (607)
                      +.=..|+.+.+....                        +++-  .+..+...++++|.+.|.+.|-.            
T Consensus       473 ~~D~~ia~hil~~h~~~~~~~~~~~~~~~~~~~~~~~~lrkYI~YAR~~v~P~lt~ea~e~l~~~Yv~~Rk~~~~~~~~~  552 (682)
T COG1241         473 EKDEEIAEHILDKHRGEEPEETISLDGVDEVEERDFELLRKYISYARKNVTPVLTEEAREELEDYYVEMRKKSALVEEKR  552 (682)
T ss_pred             cchHHHHHHHHHHHhccccccccccccccccccCcHHHHHHHHHHHhccCCcccCHHHHHHHHHHHHHhhhccccccccC
Confidence            445556665554331                        1110  12235678999999988752321            


Q ss_pred             --CCCccchhHHHHHHHHHHHHHHHHhccCC
Q psy1308         538 --HYGARSIKHEVERQVVSQLAAAHEKSVIG  566 (607)
Q Consensus       538 --~~GaR~L~~~i~~~i~~~l~~~~l~~~~~  566 (607)
                        +-=+|.|+..|+  +..+.|+.-+++.+.
T Consensus       553 ~~piT~RqLEsiiR--LaeA~Ak~rLS~~V~  581 (682)
T COG1241         553 TIPITARQLESIIR--LAEAHAKMRLSDVVE  581 (682)
T ss_pred             cccccHHHHHHHHH--HHHHHHhhhccCCCC
Confidence              122566666664  555556665555443

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.27  E-value=6.2e-06  Score=88.05  Aligned_cols=131  Identities=24%  Similarity=0.342  Sum_probs=84.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCC--CC--CCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKENG--WT--DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~--~~--~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..+.|.+++.+.+.+.+...+..  +.  ...-|.-+++.||||+|||.|||+++-..    +-||.....|.+     +
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA----~VPFf~iSGS~F-----V  220 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA----GVPFFSISGSDF-----V  220 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc----CCCceeccchhh-----h
Confidence            35889999998888877544311  11  11335678999999999999999999543    556777766665     4


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCH--------------HHHHHHHHhhccceeecCCCcEEec
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHP--------------DVLTVLLQLFDEGRLTDGKGKTIEC  409 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~--------------~~~~~Ll~~~~~~~~~~~~g~~~~~  409 (607)
                      ..+.|.+     .....++....++...||+||||||....              ...+.||.-+| |.       . .-
T Consensus       221 emfVGvG-----AsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmD-GF-------~-~~  286 (596)
T COG0465         221 EMFVGVG-----ASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMD-GF-------G-GN  286 (596)
T ss_pred             hhhcCCC-----cHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhc-cC-------C-CC
Confidence            4444532     22233455555555569999999998632              25566666665 11       1 11


Q ss_pred             CceEEEEecCcc
Q psy1308         410 KDAIFVMTSNLA  421 (607)
Q Consensus       410 ~~~~iI~tsn~~  421 (607)
                      ..+++|.+||..
T Consensus       287 ~gviviaaTNRp  298 (596)
T COG0465         287 EGVIVIAATNRP  298 (596)
T ss_pred             CceEEEecCCCc
Confidence            457888888843

>KOG0522|consensus

Probab=98.27  E-value=1.9e-06  Score=87.88  Aligned_cols=87  Identities=32%  Similarity=0.490  Sum_probs=64.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHh-cCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccH
Q psy1308          88 LTLFRAARYGSAKELKTFIE-NSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNP  166 (607)
Q Consensus        88 t~Lh~A~~~g~~~~v~~Ll~-~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~  166 (607)
                      -|+|+++.....+-+..++. .-...++.+|..|.||||+|+..|+.+.++.|+..||++..++.               
T Consensus        22 ~~lh~~~~~~~~~sl~~el~~~~~~~id~~D~~g~TpLhlAV~Lg~~~~a~~Ll~a~Adv~~kN~---------------   86 (560)
T KOG0522|consen   22 KPLHWAVVTTDSDSLEQELLAKVSLVIDRRDPPGRTPLHLAVRLGHVEAARILLSAGADVSIKNN---------------   86 (560)
T ss_pred             cccchhhhccchhhHHHHHhhhhhceeccccCCCCccHHHHHHhcCHHHHHHHHhcCCCcccccc---------------
Confidence            45888888877766555433 22356788888999999999999999999999999998877653               


Q ss_pred             HHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHh
Q psy1308         167 FEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLK  210 (607)
Q Consensus       167 ~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~  210 (607)
                                           .||+|||-|+..|+.+++..++.
T Consensus        87 ---------------------~gWs~L~EAv~~g~~q~i~~vlr  109 (560)
T KOG0522|consen   87 ---------------------EGWSPLHEAVSTGNEQIITEVLR  109 (560)
T ss_pred             ---------------------ccccHHHHHHHcCCHHHHHHHHH
Confidence                                 16666666666666666655554

>KOG0782|consensus

Probab=98.26  E-value=1.2e-06  Score=89.15  Aligned_cols=96  Identities=22%  Similarity=0.182  Sum_probs=79.5

Q ss_pred             cchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCC-CccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCC--c
Q psy1308          77 LTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLD-VNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF--N  153 (607)
Q Consensus        77 ~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~-~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~--~  153 (607)
                      ..+..++.+..|.||+|+..|+-++|+|+|++++.. ++..|..|.|+||-|+..++..++.+|++.|+.....|..  |
T Consensus       890 g~ll~~~~~~~sllh~a~~tg~~eivkyildh~p~elld~~de~get~lhkaa~~~~r~vc~~lvdagasl~ktd~kg~t  969 (1004)
T KOG0782|consen  890 GSLLIQGPDHCSLLHYAAKTGNGEIVKYILDHGPSELLDMADETGETALHKAACQRNRAVCQLLVDAGASLRKTDSKGKT  969 (1004)
T ss_pred             CceEeeCcchhhHHHHHHhcCChHHHHHHHhcCCHHHHHHHhhhhhHHHHHHHHhcchHHHHHHHhcchhheecccCCCC
Confidence            345567888899999999999999999999999654 5788899999999999999999999999999998877653  4


Q ss_pred             hHHHHHHcCCccHHHHHHh
Q psy1308         154 TVHRTAAEKKMNPFEVLLK  172 (607)
Q Consensus       154 ~l~~A~~~~~~~~~~~Ll~  172 (607)
                      |-..|-..|..+...||-.
T Consensus       970 p~eraqqa~d~dlaayle~  988 (1004)
T KOG0782|consen  970 PQERAQQAGDPDLAAYLES  988 (1004)
T ss_pred             hHHHHHhcCCchHHHHHhh
Confidence            6666666666666666544

>KOG0737|consensus

Probab=98.24  E-value=1.9e-05  Score=78.18  Aligned_cols=210  Identities=17%  Similarity=0.186  Sum_probs=118.0

Q ss_pred             HhhhhHHHHHHHHHHHHHhh-----CCCCC-CCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKE-----NGWTD-DDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~-----~~~~~-~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~  342 (607)
                      .+-|.+..++.+.+.+.-..     ..... -..|.-++++||+|+|||.+|+++++....    .|+-+.++...+   
T Consensus        93 DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga----~fInv~~s~lt~---  165 (386)
T KOG0737|consen   93 DIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGA----NFINVSVSNLTS---  165 (386)
T ss_pred             hccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCC----Ccceeeccccch---
Confidence            45566666666665553211     10111 123457899999999999999999987644    488889888765   


Q ss_pred             hHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccC--------H---HHHHHHHHhhccceeecCCCcEEecCc
Q psy1308         343 VAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAH--------P---DVLTVLLQLFDEGRLTDGKGKTIECKD  411 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~--------~---~~~~~Ll~~~~~~~~~~~~g~~~~~~~  411 (607)
                        ++||....++     ..+.-+..+-.++++|+||||..-        .   .+-+.++...| |-.++.      -..
T Consensus       166 --KWfgE~eKlv-----~AvFslAsKl~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WD-Gl~s~~------~~r  231 (386)
T KOG0737|consen  166 --KWFGEAQKLV-----KAVFSLASKLQPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWD-GLSSKD------SER  231 (386)
T ss_pred             --hhHHHHHHHH-----HHHHhhhhhcCcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhc-cccCCC------Cce
Confidence              5555221111     012222233457999999998742        1   13344555444 322222      123


Q ss_pred             eEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeec
Q psy1308         412 AIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFL  491 (607)
Q Consensus       412 ~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~  491 (607)
                      ++++.+||.+.+.-                                                    ...+.|+...+.-.
T Consensus       232 VlVlgATNRP~DlD----------------------------------------------------eAiiRR~p~rf~V~  259 (386)
T KOG0737|consen  232 VLVLGATNRPFDLD----------------------------------------------------EAIIRRLPRRFHVG  259 (386)
T ss_pred             EEEEeCCCCCccHH----------------------------------------------------HHHHHhCcceeeeC
Confidence            67778899554321                                                    33455665533322


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHHHhc
Q psy1308         492 PFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKS  563 (607)
Q Consensus       492 pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~  563 (607)
                      =.+.+.-.+|+...|..        .++.-.++-.-+..+.+||+    .+.|++........++-+.+..+
T Consensus       260 lP~~~qR~kILkviLk~--------e~~e~~vD~~~iA~~t~GyS----GSDLkelC~~Aa~~~ire~~~~~  319 (386)
T KOG0737|consen  260 LPDAEQRRKILKVILKK--------EKLEDDVDLDEIAQMTEGYS----GSDLKELCRLAALRPIRELLVSE  319 (386)
T ss_pred             CCchhhHHHHHHHHhcc--------cccCcccCHHHHHHhcCCCc----HHHHHHHHHHHhHhHHHHHHHhc
Confidence            22566677777666641        11222222222333334554    46688888888888887776554

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.22  E-value=7.9e-06  Score=83.00  Aligned_cols=108  Identities=16%  Similarity=0.225  Sum_probs=65.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc--------cccchhHhhhcCCC-CCccCCCCchhhHHHhhC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY--------QEKHEVAKLIGAPP-GYLGHDDGGQLTKRLKKC  369 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~--------~~~~~~~~llg~~~-g~~g~~~~~~l~~~~~~~  369 (607)
                      .++|+||.|+||+.+|+.+|+.+.-....+-.  .|..-        ..|.++..+..... ..++-++-..+...+...
T Consensus        26 A~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~--~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~  103 (334)
T PRK07993         26 ALLIQALPGMGDDALIYALSRWLMCQQPQGHK--SCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKLYEH  103 (334)
T ss_pred             EEeeECCCCCCHHHHHHHHHHHHcCCCCCCCC--CCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHHHHHhhc
Confidence            68999999999999999999998542111100  12111        11111111111000 012222222233333333


Q ss_pred             ----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         370 ----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       370 ----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                          .+-|++||++|+++.+..+.||+.+|+-           ..+++||++|+
T Consensus       104 ~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEP-----------p~~t~fiL~t~  146 (334)
T PRK07993        104 ARLGGAKVVWLPDAALLTDAAANALLKTLEEP-----------PENTWFFLACR  146 (334)
T ss_pred             cccCCceEEEEcchHhhCHHHHHHHHHHhcCC-----------CCCeEEEEEEC
Confidence                3679999999999999999999999964           25778988887

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.22  E-value=8.2e-06  Score=81.83  Aligned_cols=104  Identities=13%  Similarity=0.250  Sum_probs=65.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh-cCCCC-----------CccCCCCchhhHHH
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI-GAPPG-----------YLGHDDGGQLTKRL  366 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll-g~~~g-----------~~g~~~~~~l~~~~  366 (607)
                      .++|.||.|+||+.+|+.+++.+.-.+...   --|..-   .+...+. |..|.           .++-++-..+...+
T Consensus        27 A~L~~G~~G~Gk~~lA~~~a~~llC~~~~~---~~Cg~C---~sC~~~~~g~HPD~~~i~p~~~~~~I~vdqiR~l~~~~  100 (319)
T PRK06090         27 ALLLQSDEGLGVESLVELFSRALLCQNYQS---EACGFC---HSCELMQSGNHPDLHVIKPEKEGKSITVEQIRQCNRLA  100 (319)
T ss_pred             eEeeECCCCCCHHHHHHHHHHHHcCCCCCC---CCCCCC---HHHHHHHcCCCCCEEEEecCcCCCcCCHHHHHHHHHHH
Confidence            799999999999999999999986542111   011111   1111111 11222           11111112223333


Q ss_pred             hhCC----CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         367 KKCP----NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       367 ~~~~----~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      ...+    +-|++||++|+++.+..+.||+.+|+-           ..+++||++|+
T Consensus       101 ~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEP-----------p~~t~fiL~t~  146 (319)
T PRK06090        101 QESSQLNGYRLFVIEPADAMNESASNALLKTLEEP-----------APNCLFLLVTH  146 (319)
T ss_pred             hhCcccCCceEEEecchhhhCHHHHHHHHHHhcCC-----------CCCeEEEEEEC
Confidence            3333    679999999999999999999999964           36788999877

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.21  E-value=1.2e-05  Score=87.77  Aligned_cols=51  Identities=22%  Similarity=0.312  Sum_probs=39.2

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ..+++|...++.+...+......    ..+- .++|.||+|+|||.+++.++..+.
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~----~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLE----NAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccc----cCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            45889999999887777654322    1233 589999999999999999998764

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.21  E-value=8.6e-06  Score=88.42  Aligned_cols=174  Identities=10%  Similarity=0.081  Sum_probs=113.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCC--CCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPP--GYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~--g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      -+++.|+.|++|+.+++.++..+..  ..||+.++.+.-     ...++|...  .-..........+++..+++||||+
T Consensus        27 Gv~i~g~~G~~ks~~~r~l~~llp~--~~p~r~~p~~~t-----~~~L~Gg~Dl~~~l~~g~~~~~pGlla~Ah~GvL~l   99 (584)
T PRK13406         27 GVVLRARAGPVRDRWLAALRALLPA--GTPLRRLPPGIA-----DDRLLGGLDLAATLRAGRPVAQRGLLAEADGGVLVL   99 (584)
T ss_pred             eEEEEcCCCcHHHHHHHHHHHhcCC--CCCcccCCCCCc-----HHHccCCchHHhHhhcCCcCCCCCceeeccCCEEEe
Confidence            6899999999999999999999864  356777766543     456776420  0000001112245677889999999


Q ss_pred             ecCCccCHHHHHHHHHhhccceeecC-CCcEEec-CceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCc
Q psy1308         377 DEVDKAHPDVLTVLLQLFDEGRLTDG-KGKTIEC-KDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNL  454 (607)
Q Consensus       377 DEiek~~~~~~~~Ll~~~~~~~~~~~-~g~~~~~-~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  454 (607)
                      ||+..+++.+++.|++.+++|.++-. .|.++.+ .+.++|.|-| +.+.                              
T Consensus       100 De~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~-~~~~------------------------------  148 (584)
T PRK13406        100 AMAERLEPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDE-GAEE------------------------------  148 (584)
T ss_pred             cCcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCC-Chhc------------------------------
Confidence            99999999999999999999988763 3444443 5666666522 1100                              


Q ss_pred             chhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHH--HHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         455 DVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTL--VCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       455 ~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i--~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                                       ...++ +.++.||+-.+...+++..+....  ....+....+++    + .+.+++++++++.
T Consensus       149 -----------------~~~L~-~~lLDRf~l~v~v~~~~~~~~~~~~~~~~~I~~AR~rl----~-~v~v~~~~l~~i~  205 (584)
T PRK13406        149 -----------------DERAP-AALADRLAFHLDLDGLALRDAREIPIDADDIAAARARL----P-AVGPPPEAIAALC  205 (584)
T ss_pred             -----------------ccCCC-HHhHhheEEEEEcCCCChHHhcccCCCHHHHHHHHHHH----c-cCCCCHHHHHHHH
Confidence                             01233 779999988888877766554321  111233333333    1 4677888888875


Q ss_pred             c
Q psy1308         533 D  533 (607)
Q Consensus       533 ~  533 (607)
                      .
T Consensus       206 ~  206 (584)
T PRK13406        206 A  206 (584)
T ss_pred             H
Confidence            4

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=98.18  E-value=3.9e-06  Score=84.99  Aligned_cols=70  Identities=13%  Similarity=0.151  Sum_probs=54.7

Q ss_pred             CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCccccc
Q psy1308         371 NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQ  450 (607)
Q Consensus       371 ~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~  450 (607)
                      +-|++||++|+++++..+.||+.+|+-           ..+++||++|+...                            
T Consensus       133 ~kV~iI~~ae~m~~~AaNaLLKtLEEP-----------p~~t~fiL~t~~~~----------------------------  173 (342)
T PRK06964        133 ARVVVLYPAEALNVAAANALLKTLEEP-----------PPGTVFLLVSARID----------------------------  173 (342)
T ss_pred             ceEEEEechhhcCHHHHHHHHHHhcCC-----------CcCcEEEEEECChh----------------------------
Confidence            569999999999999999999999953           26778888877211                            


Q ss_pred             CCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHH
Q psy1308         451 GSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCR  504 (607)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~  504 (607)
                                             .+. |-+.+|. ..+.|.|++.+++.+.+..
T Consensus       174 -----------------------~LL-pTI~SRc-q~i~~~~~~~~~~~~~L~~  202 (342)
T PRK06964        174 -----------------------RLL-PTILSRC-RQFPMTVPAPEAAAAWLAA  202 (342)
T ss_pred             -----------------------hCc-HHHHhcC-EEEEecCCCHHHHHHHHHH
Confidence                                   122 6778888 5688889999888877654

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=98.14  E-value=7.1e-05  Score=69.66  Aligned_cols=206  Identities=17%  Similarity=0.214  Sum_probs=120.4

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|-+...+.+.+.-.+...|.+    ...++++|..|+||+.++|++...+... .-.++.++-.....         
T Consensus        61 ~l~Gvd~qk~~L~~NT~~F~~G~p----ANnVLLwGaRGtGKSSLVKA~~~e~~~~-glrLVEV~k~dl~~---------  126 (287)
T COG2607          61 DLVGVDRQKEALVRNTEQFAEGLP----ANNVLLWGARGTGKSSLVKALLNEYADE-GLRLVEVDKEDLAT---------  126 (287)
T ss_pred             HHhCchHHHHHHHHHHHHHHcCCc----ccceEEecCCCCChHHHHHHHHHHHHhc-CCeEEEEcHHHHhh---------
Confidence            477777777777777666666643    2279999999999999999999887665 33355555433321         


Q ss_pred             CCCCCccCCCCchhhHHHhhCCCe-EEEEecCCcc-CHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHH
Q psy1308         349 APPGYLGHDDGGQLTKRLKKCPNA-VVLFDEVDKA-HPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA  426 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~~~~~~-vl~lDEiek~-~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~  426 (607)
                                -..+.+.++..+.- |||.|+.-== ..+....|-.++|.| +      .-...|++|..|||.-.- +.
T Consensus       127 ----------Lp~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~-v------e~rP~NVl~YATSNRRHL-l~  188 (287)
T COG2607         127 ----------LPDLVELLRARPEKFILFCDDLSFEEGDDAYKALKSALEGG-V------EGRPANVLFYATSNRRHL-LP  188 (287)
T ss_pred             ----------HHHHHHHHhcCCceEEEEecCCCCCCCchHHHHHHHHhcCC-c------ccCCCeEEEEEecCCccc-cc
Confidence                      12456667777744 5666653211 234556666677633 2      234589999999994321 11


Q ss_pred             HHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHH
Q psy1308         427 QHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCREL  506 (607)
Q Consensus       427 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l  506 (607)
                      +...               +..  +.....--+         +++...   -.|-.||.--.-|.|.+.++.-+|+....
T Consensus       189 e~~~---------------dn~--~~~~eih~~---------eaveEK---lSlSDRFGLwL~F~~~~Q~~YL~~V~~~a  239 (287)
T COG2607         189 EDMK---------------DNE--GSTGEIHPS---------EAVEEK---LSLSDRFGLWLSFYPCDQDEYLKIVDHYA  239 (287)
T ss_pred             Hhhh---------------hCC--CcccccChh---------HHHHHh---hchhhhcceeecccCCCHHHHHHHHHHHH
Confidence            1100               000  000000001         111111   23666787889999999999999988877


Q ss_pred             HHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchh
Q psy1308         507 NFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIK  545 (607)
Q Consensus       507 ~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~  545 (607)
                      ..        ++  +.++++.++.=+..|...-|.|.=|
T Consensus       240 ~~--------~~--l~~~~e~l~~eAl~WAt~rg~RSGR  268 (287)
T COG2607         240 KH--------FG--LDISDEELHAEALQWATTRGGRSGR  268 (287)
T ss_pred             HH--------cC--CCCCHHHHHHHHHHHHHhcCCCccH
Confidence            42        23  3344555544332355556666554

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=98.14  E-value=5.5e-05  Score=80.08  Aligned_cols=146  Identities=27%  Similarity=0.354  Sum_probs=93.1

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec----cccccc----
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM----SEYQEK----  340 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~----a~~~~~----  340 (607)
                      .++|++.+++.+...++....++...  ...++|+||+|+|||+|++.|++.+..-   ++.++..    +...++    
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~--~~IL~LvGPpG~GKSsLa~~la~~le~~---~~Y~~kg~~~~sP~~e~PL~L  151 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEK--KQILYLLGPVGGGKSSLAERLKSLMERV---PIYVLKANGERSPVNESPLGL  151 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCC--CceEEEecCCCCCchHHHHHHHHHHHhC---cceeecCCCCCCCCCCCCCCC
Confidence            47899999999999998877776443  2379999999999999999999986331   2222111    000000    


Q ss_pred             -------chhHhhhcCCCCCccC-----------------------------------------CC----Cc--------
Q psy1308         341 -------HEVAKLIGAPPGYLGH-----------------------------------------DD----GG--------  360 (607)
Q Consensus       341 -------~~~~~llg~~~g~~g~-----------------------------------------~~----~~--------  360 (607)
                             ....+.+|-+..+...                                         +.    ..        
T Consensus       152 ~p~~~~~~~le~~~gi~~r~i~g~lsP~~r~rL~e~~Gd~~~~~V~r~~~S~~~riGIg~~eP~D~~nQD~s~L~G~vdi  231 (644)
T PRK15455        152 FDPDEDGPILEEEYGIPRRYLGTIMSPWAVKRLHEFGGDISKFRVVKVYPSILRQIAIAKTEPGDENNQDISSLVGKVDI  231 (644)
T ss_pred             CChhhhHHHHHHHhCCCccccCCCCCHHHHHHHHHhCCCchheEEEEEeeccccceEEEecCCCCCCCCChhHhccceeH
Confidence                   0001111111000000                                         00    00        


Q ss_pred             --------------hhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         361 --------------QLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       361 --------------~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                                    ...+.+..+++|++=|=|+-|++.+++..||.+.++|.+.-.+|...-.-+.+||..||
T Consensus       232 ~kl~~ys~~dp~aysf~G~L~~aNrGl~EFvEm~K~~~~~L~~LLtatQE~~i~~~~~~~~i~~D~vIiaHsN  304 (644)
T PRK15455        232 RKLEHYAQNDPDAYSYSGGLCRANQGLLEFVEMFKAPIKVLHPLLTATQEGNYNGTEGIGAIPFDGIILAHSN  304 (644)
T ss_pred             HhhhccCCCCCccccCCchhhhccCCcEeeHHHhcCcHHHHHHhcCCCccCcccCCCCcceeccceeEEecCC
Confidence                          12234455667888888999999999999999999999976555433345778999999

>KOG0742|consensus

Probab=98.12  E-value=1.9e-05  Score=78.62  Aligned_cols=138  Identities=29%  Similarity=0.393  Sum_probs=83.0

Q ss_pred             CCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCC-Ce
Q psy1308         295 DHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCP-NA  372 (607)
Q Consensus       295 ~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~-~~  372 (607)
                      ..|. .++|+||||+|||..||.|+....         +|++..++.. ++     |-|--+-..-..+.....+.. +=
T Consensus       381 ~apfRNilfyGPPGTGKTm~ArelAr~SG---------lDYA~mTGGD-VA-----PlG~qaVTkiH~lFDWakkS~rGL  445 (630)
T KOG0742|consen  381 QAPFRNILFYGPPGTGKTMFARELARHSG---------LDYAIMTGGD-VA-----PLGAQAVTKIHKLFDWAKKSRRGL  445 (630)
T ss_pred             cchhhheeeeCCCCCCchHHHHHHHhhcC---------CceehhcCCC-cc-----ccchHHHHHHHHHHHHHhhcccce
Confidence            3355 899999999999999999997643         3454443311 10     111000001112333334444 45


Q ss_pred             EEEEecCCcc---------CHH---HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccc
Q psy1308         373 VVLFDEVDKA---------HPD---VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFS  440 (607)
Q Consensus       373 vl~lDEiek~---------~~~---~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~  440 (607)
                      +|||||.|..         +.+   .++.||  +..|.         ..++.+++++||...+                 
T Consensus       446 llFIDEADAFLceRnktymSEaqRsaLNAlL--fRTGd---------qSrdivLvlAtNrpgd-----------------  497 (630)
T KOG0742|consen  446 LLFIDEADAFLCERNKTYMSEAQRSALNALL--FRTGD---------QSRDIVLVLATNRPGD-----------------  497 (630)
T ss_pred             EEEehhhHHHHHHhchhhhcHHHHHHHHHHH--HHhcc---------cccceEEEeccCCccc-----------------
Confidence            7888998753         222   333333  22232         2256788999994322                 


Q ss_pred             cCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHH
Q psy1308         441 KRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWA  510 (607)
Q Consensus       441 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~  510 (607)
                                                        |. ...-.|||++|.|.-...+|-..|+..+++.+.
T Consensus       498 ----------------------------------lD-sAV~DRide~veFpLPGeEERfkll~lYlnkyi  532 (630)
T KOG0742|consen  498 ----------------------------------LD-SAVNDRIDEVVEFPLPGEEERFKLLNLYLNKYI  532 (630)
T ss_pred             ----------------------------------hh-HHHHhhhhheeecCCCChHHHHHHHHHHHHHHh
Confidence                                              11 445568999999877788999999999998776

>PRK12377 putative replication protein; Provisional

Probab=98.12  E-value=2e-05  Score=76.31  Aligned_cols=109  Identities=18%  Similarity=0.308  Sum_probs=67.5

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      ..++|+|++|+|||.|+.+++..+... ......+.++.+...  +...+.      .......+...+.  .-.+|+||
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~~-g~~v~~i~~~~l~~~--l~~~~~------~~~~~~~~l~~l~--~~dLLiID  170 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLAK-GRSVIVVTVPDVMSR--LHESYD------NGQSGEKFLQELC--KVDLLVLD  170 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHc-CCCeEEEEHHHHHHH--HHHHHh------ccchHHHHHHHhc--CCCEEEEc
Confidence            378999999999999999999988654 333444444332111  111111      0001112222232  34699999


Q ss_pred             cC--CccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         378 EV--DKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       378 Ei--ek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      |+  +..++..+..|.++++... .         ...=.|+|||+..+++.+
T Consensus       171 Dlg~~~~s~~~~~~l~~ii~~R~-~---------~~~ptiitSNl~~~~l~~  212 (248)
T PRK12377        171 EIGIQRETKNEQVVLNQIIDRRT-A---------SMRSVGMLTNLNHEAMST  212 (248)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHH-h---------cCCCEEEEcCCCHHHHHH
Confidence            99  6677888889999998432 1         112268899999887754

>PRK08116 hypothetical protein; Validated

Probab=98.10  E-value=3.7e-05  Score=75.83  Aligned_cols=111  Identities=19%  Similarity=0.312  Sum_probs=68.7

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      ..++|+|++|+|||.|+.+++..+... ..++..++.+.+-.  .+..-+...    +......+...+.  ...+|+||
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~-~~~v~~~~~~~ll~--~i~~~~~~~----~~~~~~~~~~~l~--~~dlLviD  185 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEK-GVPVIFVNFPQLLN--RIKSTYKSS----GKEDENEIIRSLV--NADLLILD  185 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEEEHHHHHH--HHHHHHhcc----ccccHHHHHHHhc--CCCEEEEe
Confidence            468999999999999999999988654 34455555433211  111111100    0001112223333  34599999


Q ss_pred             cC--CccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         378 EV--DKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       378 Ei--ek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      |+  ++..+..+..|.++++... .         .+..+|+|||....++.+
T Consensus       186 Dlg~e~~t~~~~~~l~~iin~r~-~---------~~~~~IiTsN~~~~eL~~  227 (268)
T PRK08116        186 DLGAERDTEWAREKVYNIIDSRY-R---------KGLPTIVTTNLSLEELKN  227 (268)
T ss_pred             cccCCCCCHHHHHHHHHHHHHHH-H---------CCCCEEEECCCCHHHHHH
Confidence            99  6678888999999988431 1         123489999988777643

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.08  E-value=7.5e-06  Score=72.20  Aligned_cols=119  Identities=23%  Similarity=0.188  Sum_probs=68.6

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHh---hhcC-CCCCccCCCCchhhHHHhhCCCeE
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAK---LIGA-PPGYLGHDDGGQLTKRLKKCPNAV  373 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~---llg~-~~g~~g~~~~~~l~~~~~~~~~~v  373 (607)
                      ..+++.||+|+|||.+++.++..+... ..++..+++...........   .... .....+..........++..+..+
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v   81 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPP-GGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDV   81 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCC-CCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCE
Confidence            368999999999999999999988654 23577777766544332221   1111 111111111112334444444599


Q ss_pred             EEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         374 VLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       374 l~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                      +++||++.+..............   ...........+..+|+++|.
T Consensus        82 iiiDei~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~i~~~~~  125 (148)
T smart00382       82 LILDEITSLLDAEQEALLLLLEE---LRLLLLLKSEKNLTVILTTND  125 (148)
T ss_pred             EEEECCcccCCHHHHHHHHhhhh---hHHHHHHHhcCCCEEEEEeCC
Confidence            99999999988777665543110   000000012356678888883

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>KOG2035|consensus

Probab=98.06  E-value=3.4e-05  Score=73.12  Aligned_cols=110  Identities=19%  Similarity=0.257  Sum_probs=71.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch-------hH--hhhcCCCCCccCCCCchhhHHHh--
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE-------VA--KLIGAPPGYLGHDDGGQLTKRLK--  367 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~-------~~--~llg~~~g~~g~~~~~~l~~~~~--  367 (607)
                      +++++||+|+||...+..+.+.+++.+- .-.+++...+.....       ++  .-+.-.|...|+.+.--+.+++.  
T Consensus        36 Hll~yGPSGaGKKTrimclL~elYG~gv-eklki~~~t~~tpS~kklEistvsS~yHlEitPSDaG~~DRvViQellKev  114 (351)
T KOG2035|consen   36 HLLVYGPSGAGKKTRIMCLLRELYGVGV-EKLKIETRTFTTPSKKKLEISTVSSNYHLEITPSDAGNYDRVVIQELLKEV  114 (351)
T ss_pred             eEEEECCCCCCchhhHHHHHHHHhCCCc-hheeeeeEEEecCCCceEEEEEecccceEEeChhhcCcccHHHHHHHHHHH
Confidence            8999999999999999999999988531 122222222211100       00  00111234444444333333332  


Q ss_pred             ----------hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         368 ----------KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       368 ----------~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                                +.++-+|+|-|+|++..+.|..|..-||.           ..+++++|+.+|.
T Consensus       115 AQt~qie~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEk-----------Ys~~~RlIl~cns  166 (351)
T KOG2035|consen  115 AQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTMEK-----------YSSNCRLILVCNS  166 (351)
T ss_pred             HhhcchhhccccceEEEEEechHhhhHHHHHHHHHHHHH-----------HhcCceEEEEecC
Confidence                      23578999999999999999999999983           4478999999993

>KOG0521|consensus

Probab=98.06  E-value=2.1e-06  Score=95.45  Aligned_cols=87  Identities=29%  Similarity=0.394  Sum_probs=74.8

Q ss_pred             CCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcch
Q psy1308         150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYA  229 (607)
Q Consensus       150 d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A  229 (607)
                      .+.++||.|+..+..-++++|++.|+++|..+..     |+||||.+...|+...+..|+++|+++++.+.+|++|+++|
T Consensus       655 ~~~s~lh~a~~~~~~~~~e~ll~~ga~vn~~d~~-----g~~plh~~~~~g~~~~~~~ll~~~a~~~a~~~~~~~~l~~a  729 (785)
T KOG0521|consen  655 IGCSLLHVAVGTGDSGAVELLLQNGADVNALDSK-----GRTPLHHATASGHTSIACLLLKRGADPNAFDPDGKLPLDIA  729 (785)
T ss_pred             cccchhhhhhccchHHHHHHHHhcCCcchhhhcc-----CCCcchhhhhhcccchhhhhccccccccccCccCcchhhHH
Confidence            3466899999999999999999999998877444     99999999999999999999999999999999999999999


Q ss_pred             hhhhHHHHHHHH
Q psy1308         230 EDANIKQILQKY  241 (607)
Q Consensus       230 ~~~~~~~~~~~l  241 (607)
                      ....+.+++-++
T Consensus       730 ~~~~~~d~~~l~  741 (785)
T KOG0521|consen  730 MEAANADIVLLL  741 (785)
T ss_pred             hhhccccHHHHH
Confidence            777666655443

>KOG0732|consensus

Probab=98.06  E-value=3e-05  Score=86.94  Aligned_cols=130  Identities=26%  Similarity=0.359  Sum_probs=79.5

Q ss_pred             HhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc
Q psy1308         269 RIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK  340 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~  340 (607)
                      .+.|.+..+..+.+.+-..        ..+++   .|--++|+||+|+|||.++++++...... + .-+.+.|.-  +.
T Consensus       266 ~vggl~~~i~~LKEmVl~PLlyPE~f~~~~it---pPrgvL~~GppGTGkTl~araLa~~~s~~-~-~kisffmrk--ga  338 (1080)
T KOG0732|consen  266 SVGGLENYINQLKEMVLLPLLYPEFFDNFNIT---PPRGVLFHGPPGTGKTLMARALAAACSRG-N-RKISFFMRK--GA  338 (1080)
T ss_pred             ccccHHHHHHHHHHHHHhHhhhhhHhhhcccC---CCcceeecCCCCCchhHHHHhhhhhhccc-c-cccchhhhc--Cc
Confidence            4666777777776655322        12222   23368999999999999999999886442 1 122222211  11


Q ss_pred             chhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEec
Q psy1308         341 HEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIEC  409 (607)
Q Consensus       341 ~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~  409 (607)
                      .-..+++|...     .+-..+.+..++...+|+|||||+-+           |..+...||-+|+.-   +      ..
T Consensus       339 D~lskwvgEaE-----RqlrllFeeA~k~qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGl---d------sR  404 (1080)
T KOG0732|consen  339 DCLSKWVGEAE-----RQLRLLFEEAQKTQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGL---D------SR  404 (1080)
T ss_pred             hhhccccCcHH-----HHHHHHHHHHhccCceEEeccccccccccccchHHHhhhhHHHHHHHhccCC---C------CC
Confidence            11233333211     11123455566667899999999954           456888999999732   1      23


Q ss_pred             CceEEEEecC
Q psy1308         410 KDAIFVMTSN  419 (607)
Q Consensus       410 ~~~~iI~tsn  419 (607)
                      ..+++|-+||
T Consensus       405 gqVvvigATn  414 (1080)
T KOG0732|consen  405 GQVVVIGATN  414 (1080)
T ss_pred             CceEEEcccC
Confidence            5678999999

>KOG0520|consensus

Probab=98.04  E-value=5.3e-06  Score=91.55  Aligned_cols=126  Identities=20%  Similarity=0.154  Sum_probs=98.5

Q ss_pred             CccCCCCCCcHHHHHHHcCCHHHHHHHHHc-CCCC--CCCCCCchHHHHHHcCCccHHHHHH-hcCCCccccCCCCcCcC
Q psy1308         113 VNMRHPLGWTPLHVAAINGKVDNVRVLLEA-GANP--NLGDLFNTVHRTAAEKKMNPFEVLL-KREDEFNDVLNPNMTFL  188 (607)
Q Consensus       113 ~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~-ga~~--~~~d~~~~l~~A~~~~~~~~~~~Ll-~~g~~~~~~~~~~~d~~  188 (607)
                      .......|+|-||+++..++.-.++.+++- |...  ...|+.|-+|+ |..++.++.-+|+ -.|..++..+.+     
T Consensus       567 ~~~~~~r~~lllhL~a~~lyawLie~~~e~~~~~~~eld~d~qgV~hf-ca~lg~ewA~ll~~~~~~ai~i~D~~-----  640 (975)
T KOG0520|consen  567 SSSVNFRDMLLLHLLAELLYAWLIEKVIEWAGSGDLELDRDGQGVIHF-CAALGYEWAFLPISADGVAIDIRDRN-----  640 (975)
T ss_pred             cccCCCcchHHHHHHHHHhHHHHHHHHhcccccCchhhcccCCChhhH-hhhcCCceeEEEEeecccccccccCC-----
Confidence            444566789999999999999999999985 4333  34667788998 5556666655544 456667766554     


Q ss_pred             CcchhhHHHhcCCHHHHHHHHhcCCCC------CccCCCCCCCCcchhhhhHHHHHHHHHHh
Q psy1308         189 GFSALHYGVVAGNTEVVELLLKSGADP------TVKDNSGHIPSDYAEDANIKQILQKYAEK  244 (607)
Q Consensus       189 g~TpLh~A~~~g~~~~v~~Ll~~gad~------~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~  244 (607)
                      ||||||||+.+|+..++..|+..|+++      +..+..|.|+-.+|..+|+..+..+|-+.
T Consensus       641 G~tpL~wAa~~G~e~l~a~l~~lga~~~~~tdps~~~p~g~ta~~la~s~g~~gia~~lse~  702 (975)
T KOG0520|consen  641 GWTPLHWAAFRGREKLVASLIELGADPGAVTDPSPETPGGKTAADLARANGHKGIAGYLSEK  702 (975)
T ss_pred             CCcccchHhhcCHHHHHHHHHHhccccccccCCCCCCCCCCchhhhhhcccccchHHHHhhh
Confidence            999999999999999999999888654      44456799999999999999999888776

>KOG0740|consensus

Probab=98.02  E-value=3.5e-05  Score=79.01  Aligned_cols=100  Identities=26%  Similarity=0.326  Sum_probs=60.3

Q ss_pred             HhhhhHHHHHHHHHHHHHhhC---CCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         269 RIVGQESAINIISAAIKRKEN---GWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~---~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      .+.|...+...+..++.....   .+..-..|. .+++.||+|+|||.|++++|......    |+-+..+..     ..
T Consensus       154 di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~~at----ff~iSassL-----ts  224 (428)
T KOG0740|consen  154 DIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATESGAT----FFNISASSL-----TS  224 (428)
T ss_pred             CCcchhhHHHHhhhhhhhcccchHhhhccccccchhheecCCCCchHHHHHHHHhhhcce----EeeccHHHh-----hh
Confidence            466666666666555543211   122222344 78999999999999999999776443    443333332     23


Q ss_pred             hhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA  382 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~  382 (607)
                      ++.|..     ..-...+....+....+|+|+||||++
T Consensus       225 K~~Ge~-----eK~vralf~vAr~~qPsvifidEidsl  257 (428)
T KOG0740|consen  225 KYVGES-----EKLVRALFKVARSLQPSVIFIDEIDSL  257 (428)
T ss_pred             hccChH-----HHHHHHHHHHHHhcCCeEEEechhHHH
Confidence            333321     011124555667777999999999874

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.00  E-value=1.2e-05  Score=81.28  Aligned_cols=111  Identities=17%  Similarity=0.251  Sum_probs=62.8

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcC----CceEEe-ecc--cccccchhHhhhcC----CCC----CccCCCCchh
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKK----EAFIRL-DMS--EYQEKHEVAKLIGA----PPG----YLGHDDGGQL  362 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~----~~~~~l-~~a--~~~~~~~~~~llg~----~~g----~~g~~~~~~l  362 (607)
                      -.++|.||+|+||+.+|+.+++.+.-...    .++-.. .|.  .-..|.++..+-..    .+|    .++-++-..+
T Consensus        22 hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR~l  101 (325)
T PRK08699         22 NAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVREI  101 (325)
T ss_pred             eEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHHHH
Confidence            36899999999999999999999753211    111000 000  00011111111000    001    0111122233


Q ss_pred             hHHHhhCC----CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         363 TKRLKKCP----NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       363 ~~~~~~~~----~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      .+.+...|    +-|+++|+++.+++..++.|++.+++..           .++.||++|+
T Consensus       102 ~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~-----------~~~~~Ilvth  151 (325)
T PRK08699        102 IDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPP-----------PQVVFLLVSH  151 (325)
T ss_pred             HHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCc-----------CCCEEEEEeC
Confidence            34444333    6799999999999999999999999642           2355666666

>KOG2384|consensus

Probab=97.98  E-value=2.2e-05  Score=69.72  Aligned_cols=40  Identities=38%  Similarity=0.596  Sum_probs=28.8

Q ss_pred             CCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcC-CCCCCCC
Q psy1308         111 LDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG-ANPNLGD  150 (607)
Q Consensus       111 ~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~g-a~~~~~d  150 (607)
                      .++|.+|..|||||++|+..|+.+.|.+|+.+| +.+...|
T Consensus         3 ~~in~rD~fgWTalmcaa~eg~~eavsyllgrg~a~vgv~d   43 (223)
T KOG2384|consen    3 GNINARDAFGWTALMCAAMEGSNEAVSYLLGRGVAFVGVTD   43 (223)
T ss_pred             CCccchhhhcchHHHHHhhhcchhHHHHHhccCcccccccc
Confidence            467777777777777777777777777777777 5665544

>KOG0741|consensus

Probab=97.96  E-value=2.3e-05  Score=80.55  Aligned_cols=104  Identities=20%  Similarity=0.318  Sum_probs=65.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccC---CCCchhhHHHhhCCCeEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGH---DDGGQLTKRLKKCPNAVVL  375 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~---~~~~~l~~~~~~~~~~vl~  375 (607)
                      -++++||||||||.+||.|...++.+.  |      .-.++..-..++.|..+..+..   +........-....-.|++
T Consensus       258 GiLLyGPPGTGKTLiARqIGkMLNAre--P------KIVNGPeIL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIII  329 (744)
T KOG0741|consen  258 GILLYGPPGTGKTLIARQIGKMLNARE--P------KIVNGPEILNKYVGESEENVRKLFADAEEEQRRLGANSGLHIII  329 (744)
T ss_pred             eEEEECCCCCChhHHHHHHHHHhcCCC--C------cccCcHHHHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEEE
Confidence            589999999999999999999998852  2      1234444444554433221110   0000000011112346999


Q ss_pred             EecCCc-------------cCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         376 FDEVDK-------------AHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       376 lDEiek-------------~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      |||||.             .|..|++.||.-+|.-         -...|+++|--||
T Consensus       330 FDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGV---------eqLNNILVIGMTN  377 (744)
T KOG0741|consen  330 FDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGV---------EQLNNILVIGMTN  377 (744)
T ss_pred             ehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccH---------HhhhcEEEEeccC
Confidence            999986             4778999999988721         1357888998888

>KOG0511|consensus

Probab=97.95  E-value=1.6e-05  Score=77.75  Aligned_cols=75  Identities=27%  Similarity=0.342  Sum_probs=62.0

Q ss_pred             CHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCc-hHHHHHHcC
Q psy1308          87 DLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFN-TVHRTAAEK  162 (607)
Q Consensus        87 ~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~-~l~~A~~~~  162 (607)
                      .--|..||+.|+.+.|++|++.| .++|..|....+||.+|+-.||.++|++|+++||-.....-.| --|+++.+.
T Consensus        37 f~elceacR~GD~d~v~~LVetg-vnVN~vD~fD~spL~lAsLcGHe~vvklLLenGAiC~rdtf~G~RC~YgaLnd  112 (516)
T KOG0511|consen   37 FGELCEACRAGDVDRVRYLVETG-VNVNAVDRFDSSPLYLASLCGHEDVVKLLLENGAICSRDTFDGDRCHYGALND  112 (516)
T ss_pred             hHHHHHHhhcccHHHHHHHHHhC-CCcchhhcccccHHHHHHHcCcHHHHHHHHHcCCcccccccCcchhhhhhhhH
Confidence            44589999999999999999988 9999999999999999999999999999999998655422223 335555443

>KOG2227|consensus

Probab=97.94  E-value=8.4e-05  Score=75.69  Aligned_cols=215  Identities=17%  Similarity=0.221  Sum_probs=127.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCC-ceEEeecccccccchhH-hh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKE-AFIRLDMSEYQEKHEVA-KL  346 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~-~~~~l~~a~~~~~~~~~-~l  346 (607)
                      .+.|.+.-++.+...+..+...    +++.++.+.|.+|+|||.+...+...+...... ..+.++|...+....+- .+
T Consensus       151 ~l~gRe~e~~~v~~F~~~hle~----~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI  226 (529)
T KOG2227|consen  151 TLKGRELEMDIVREFFSLHLEL----NTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKI  226 (529)
T ss_pred             CccchHHHHHHHHHHHHhhhhc----ccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHH
Confidence            4667777777777666665443    335688999999999999988666554333233 23667777766655542 22


Q ss_pred             hcCC-CCCccCCCCch----hhHHHhhC-CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         347 IGAP-PGYLGHDDGGQ----LTKRLKKC-PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       347 lg~~-~g~~g~~~~~~----l~~~~~~~-~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                      ++.- .+-.+...+.+    +...+... ..=++++||+|.+-..-+..|+.+++=-++        ..+..++|-..|.
T Consensus       227 ~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~l--------p~sr~iLiGiANs  298 (529)
T KOG2227|consen  227 FSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKL--------PNSRIILIGIANS  298 (529)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccC--------Ccceeeeeeehhh
Confidence            2221 01111112212    22222222 256899999999998888888888873222        1234455555551


Q ss_pred             chHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccc---cceeeeccCCHHH
Q psy1308         421 ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRI---NEIVYFLPFSKSE  497 (607)
Q Consensus       421 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri---~~iv~f~pl~~~~  497 (607)
                        -.                                              +.++|. |-|..|.   ..++.|.|++.++
T Consensus       299 --lD----------------------------------------------lTdR~L-prL~~~~~~~P~~l~F~PYTk~q  329 (529)
T KOG2227|consen  299 --LD----------------------------------------------LTDRFL-PRLNLDLTIKPKLLVFPPYTKDQ  329 (529)
T ss_pred             --hh----------------------------------------------HHHHHh-hhhhhccCCCCceeeecCCCHHH
Confidence              11                                              112233 4444433   4589999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHH
Q psy1308         498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       498 ~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~  553 (607)
                      +.+|+...+....         ...+-+.|+++.+. -..+.+..|-+-.++++.|+
T Consensus       330 I~~Il~~rl~~~~---------t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~aiE  377 (529)
T KOG2227|consen  330 IVEILQQRLSEES---------TSIFLNAAIELCARKVAAPSGDLRKALDVCRRAIE  377 (529)
T ss_pred             HHHHHHHHHhccc---------ccccchHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            9999887776432         22233467787774 45566777776666665544

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.93  E-value=0.00022  Score=78.53  Aligned_cols=112  Identities=22%  Similarity=0.398  Sum_probs=77.3

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccchh
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~~  343 (607)
                      ++|.+..++.+.+.+.+....        .-++.|++|+|||.++.-+|...-..+      ......+||+...     
T Consensus       172 vIGRd~EI~r~iqIL~RR~KN--------NPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~Lv-----  238 (786)
T COG0542         172 VIGRDEEIRRTIQILSRRTKN--------NPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLV-----  238 (786)
T ss_pred             CcChHHHHHHHHHHHhccCCC--------CCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHh-----
Confidence            789999999998888766422        234889999999999999998764321      3346677776542     


Q ss_pred             HhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCcc---------CHHHHHHHHHhhcccee
Q psy1308         344 AKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKA---------HPDVLTVLLQLFDEGRL  399 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~---------~~~~~~~Ll~~~~~~~~  399 (607)
                           +...|.|.=+.  ..+...++.++.-|+|||||+.+         .-+.-+.|...+..|++
T Consensus       239 -----AGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL  300 (786)
T COG0542         239 -----AGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGEL  300 (786)
T ss_pred             -----ccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCe
Confidence                 22345553111  23556677777999999998763         24577788888887653

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.93  E-value=6.4e-05  Score=77.11  Aligned_cols=173  Identities=16%  Similarity=0.266  Sum_probs=107.2

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCC-ceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKE-AFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~-~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      +++++|++|.|||.|.+++.........+ .+..+....+.. ..+..+..        +....+.+..   .-.+++||
T Consensus       115 plfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~-~~v~a~~~--------~~~~~Fk~~y---~~dlllID  182 (408)
T COG0593         115 PLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTN-DFVKALRD--------NEMEKFKEKY---SLDLLLID  182 (408)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHH-HHHHHHHh--------hhHHHHHHhh---ccCeeeec
Confidence            68899999999999999999887554222 233333323211 11111111        0011122222   34599999


Q ss_pred             cCCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcc
Q psy1308         378 EVDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLD  455 (607)
Q Consensus       378 Eiek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  455 (607)
                      +|+-+..  ..|..|...+..  +.+.        +..+|+||...+.++..                            
T Consensus       183 Diq~l~gk~~~qeefFh~FN~--l~~~--------~kqIvltsdr~P~~l~~----------------------------  224 (408)
T COG0593         183 DIQFLAGKERTQEEFFHTFNA--LLEN--------GKQIVLTSDRPPKELNG----------------------------  224 (408)
T ss_pred             hHhHhcCChhHHHHHHHHHHH--HHhc--------CCEEEEEcCCCchhhcc----------------------------
Confidence            9998543  567777776642  1111        11588888865554421                            


Q ss_pred             hhcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         456 VTISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       456 ~~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                                         +. |.|.+|+.  .++.-.|++.+....|+.....       .   -.+.+++++..+|++
T Consensus       225 -------------------~~-~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~-------~---~~~~i~~ev~~~la~  274 (408)
T COG0593         225 -------------------LE-DRLRSRLEWGLVVEIEPPDDETRLAILRKKAE-------D---RGIEIPDEVLEFLAK  274 (408)
T ss_pred             -------------------cc-HHHHHHHhceeEEeeCCCCHHHHHHHHHHHHH-------h---cCCCCCHHHHHHHHH
Confidence                               11 66677774  3677788899999988776322       1   257789999999985


Q ss_pred             cCCCCCCccchhHHHHHHHH
Q psy1308         534 GYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       534 ~~~~~~GaR~L~~~i~~~i~  553 (607)
                        ....++|+|...+++...
T Consensus       275 --~~~~nvReLegaL~~l~~  292 (408)
T COG0593         275 --RLDRNVRELEGALNRLDA  292 (408)
T ss_pred             --HhhccHHHHHHHHHHHHH
Confidence              345778999988876544

>PF13173 AAA_14: AAA domain

Probab=97.92  E-value=5.9e-05  Score=65.64  Aligned_cols=91  Identities=22%  Similarity=0.353  Sum_probs=59.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhh---CCCeEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK---CPNAVVL  375 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~---~~~~vl~  375 (607)
                      .+++.||.|+|||.+++.+++.+.  .......+++..........  .             .+...+.+   .....||
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi~~~~~~~~~~~~--~-------------~~~~~~~~~~~~~~~~i~   66 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLL--PPENILYINFDDPRDRRLAD--P-------------DLLEYFLELIKPGKKYIF   66 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc--ccccceeeccCCHHHHHHhh--h-------------hhHHHHHHhhccCCcEEE
Confidence            578999999999999999998775  24457777776654321110  0             01111111   1467999


Q ss_pred             EecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         376 FDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       376 lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      ||||.+++ +....+-.+.+++            .+..||+|++
T Consensus        67 iDEiq~~~-~~~~~lk~l~d~~------------~~~~ii~tgS   97 (128)
T PF13173_consen   67 IDEIQYLP-DWEDALKFLVDNG------------PNIKIILTGS   97 (128)
T ss_pred             Eehhhhhc-cHHHHHHHHHHhc------------cCceEEEEcc
Confidence            99999996 5777777777643            2445677665

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=97.89  E-value=0.00011  Score=72.46  Aligned_cols=115  Identities=27%  Similarity=0.397  Sum_probs=74.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      +++++||+|+|||.+++...+.+... ..-...++++..+....+.+++...   .-...++.+..  ......|+|+|+
T Consensus        35 pvLl~G~~GtGKT~li~~~l~~l~~~-~~~~~~~~~s~~Tts~~~q~~ie~~---l~k~~~~~~gP--~~~k~lv~fiDD  108 (272)
T PF12775_consen   35 PVLLVGPSGTGKTSLIQNFLSSLDSD-KYLVITINFSAQTTSNQLQKIIESK---LEKRRGRVYGP--PGGKKLVLFIDD  108 (272)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHCSTTC-CEEEEEEES-TTHHHHHHHHCCCTT---ECECTTEEEEE--ESSSEEEEEEET
T ss_pred             cEEEECCCCCchhHHHHhhhccCCcc-ccceeEeeccCCCCHHHHHHHHhhc---EEcCCCCCCCC--CCCcEEEEEecc
Confidence            68999999999999999877655432 2235568888887777776666431   11111111111  123457999999


Q ss_pred             CCccCHH------HHHHHHHhhccceeecCCC-cEEecCceEEEEecC
Q psy1308         379 VDKAHPD------VLTVLLQLFDEGRLTDGKG-KTIECKDAIFVMTSN  419 (607)
Q Consensus       379 iek~~~~------~~~~Ll~~~~~~~~~~~~g-~~~~~~~~~iI~tsn  419 (607)
                      +.-..++      ....|.|+++.|-+.|... .-....++.+|++.+
T Consensus       109 lN~p~~d~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~  156 (272)
T PF12775_consen  109 LNMPQPDKYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMN  156 (272)
T ss_dssp             TT-S---TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEES
T ss_pred             cCCCCCCCCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecC
Confidence            8765433      5688999999988888643 335667888998877

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=97.87  E-value=8.9e-05  Score=73.21  Aligned_cols=127  Identities=19%  Similarity=0.263  Sum_probs=74.6

Q ss_pred             hhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEE-eecc---c--ccccchhHh
Q psy1308         272 GQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIR-LDMS---E--YQEKHEVAK  345 (607)
Q Consensus       272 Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~-l~~a---~--~~~~~~~~~  345 (607)
                      .|..+++.+..++...+.       |-.++|.|+  +||+.+|+.+++.+.-.+..+..+ -.|.   .  -..|.++ .
T Consensus         6 ~q~~~~~~L~~~~~~~rl-------~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~-~   75 (290)
T PRK07276          6 KQPKVFQRFQTILEQDRL-------NHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDV-T   75 (290)
T ss_pred             HHHHHHHHHHHHHHcCCc-------ceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCe-e
Confidence            467778888777766542       236899996  689999999999886542111000 0010   0  0011111 1


Q ss_pred             hhcCCCCCccCCCCchhhHHHhhC----CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         346 LIGAPPGYLGHDDGGQLTKRLKKC----PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       346 llg~~~g~~g~~~~~~l~~~~~~~----~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      ++......++-++-..+...+...    ++-|++||++|+++++..+.||+.+|+-           ..+++||++|+
T Consensus        76 ~i~p~~~~I~idqIR~l~~~~~~~p~~~~~kV~II~~ad~m~~~AaNaLLKtLEEP-----------p~~t~~iL~t~  142 (290)
T PRK07276         76 VIEPQGQVIKTDTIRELVKNFSQSGYEGKQQVFIIKDADKMHVNAANSLLKVIEEP-----------QSEIYIFLLTN  142 (290)
T ss_pred             eecCCCCcCCHHHHHHHHHHHhhCcccCCcEEEEeehhhhcCHHHHHHHHHHhcCC-----------CCCeEEEEEEC
Confidence            111111111112222233333333    3579999999999999999999999963           25678888877

>KOG0521|consensus

Probab=97.87  E-value=1.1e-05  Score=89.80  Aligned_cols=86  Identities=31%  Similarity=0.339  Sum_probs=55.2

Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHH
Q psy1308         119 LGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYG  196 (607)
Q Consensus       119 ~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A  196 (607)
                      .|.|+||.|+..|..-++++|++.|+++|..|.  .+|+|.+...|+...+..|+++|++.+..+.     +|.+||++|
T Consensus       655 ~~~s~lh~a~~~~~~~~~e~ll~~ga~vn~~d~~g~~plh~~~~~g~~~~~~~ll~~~a~~~a~~~-----~~~~~l~~a  729 (785)
T KOG0521|consen  655 IGCSLLHVAVGTGDSGAVELLLQNGADVNALDSKGRTPLHHATASGHTSIACLLLKRGADPNAFDP-----DGKLPLDIA  729 (785)
T ss_pred             cccchhhhhhccchHHHHHHHHhcCCcchhhhccCCCcchhhhhhcccchhhhhccccccccccCc-----cCcchhhHH
Confidence            456666666666666666666666666666554  3466666666666666666666666665533     377777777


Q ss_pred             HhcCCHHHHHHHH
Q psy1308         197 VVAGNTEVVELLL  209 (607)
Q Consensus       197 ~~~g~~~~v~~Ll  209 (607)
                      ....+.+++-+|.
T Consensus       730 ~~~~~~d~~~l~~  742 (785)
T KOG0521|consen  730 MEAANADIVLLLR  742 (785)
T ss_pred             hhhccccHHHHHh
Confidence            6666666655444

>KOG0511|consensus

Probab=97.85  E-value=8.7e-05  Score=72.69  Aligned_cols=69  Identities=36%  Similarity=0.409  Sum_probs=42.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCH
Q psy1308         123 PLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNT  202 (607)
Q Consensus       123 pLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~  202 (607)
                      -|..||+.|..+.|++|++.|.++|..|.+                                    ..+||.+|+..||.
T Consensus        39 elceacR~GD~d~v~~LVetgvnVN~vD~f------------------------------------D~spL~lAsLcGHe   82 (516)
T KOG0511|consen   39 ELCEACRAGDVDRVRYLVETGVNVNAVDRF------------------------------------DSSPLYLASLCGHE   82 (516)
T ss_pred             HHHHHhhcccHHHHHHHHHhCCCcchhhcc------------------------------------cccHHHHHHHcCcH
Confidence            455666666666666666666666666553                                    45566666666666


Q ss_pred             HHHHHHHhcCCCCCccCCCCCCCCc
Q psy1308         203 EVVELLLKSGADPTVKDNSGHIPSD  227 (607)
Q Consensus       203 ~~v~~Ll~~gad~~~~d~~g~Tpl~  227 (607)
                      ++|++||++||-...-..+|.-++.
T Consensus        83 ~vvklLLenGAiC~rdtf~G~RC~Y  107 (516)
T KOG0511|consen   83 DVVKLLLENGAICSRDTFDGDRCHY  107 (516)
T ss_pred             HHHHHHHHcCCcccccccCcchhhh
Confidence            6667666666554444444544433

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=97.85  E-value=2e-05  Score=80.25  Aligned_cols=249  Identities=15%  Similarity=0.147  Sum_probs=120.1

Q ss_pred             HHHHHHhHhhhhHHHHHHHHHHHHHhhCCCC----CCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc
Q psy1308         262 LEQRLKDRIVGQESAINIISAAIKRKENGWT----DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY  337 (607)
Q Consensus       262 L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~----~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~  337 (607)
                      |...+...+.|.+.....+.-.+-.......    .....+++|++|.+|+||+.+.+.+++...+.     +.......
T Consensus        18 l~~s~aP~i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~pr~-----v~~~g~~~   92 (331)
T PF00493_consen   18 LANSIAPSIYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAPRS-----VYTSGKGS   92 (331)
T ss_dssp             CHHHCSSTTTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-SSE-----EEEECCGS
T ss_pred             HHHHhCCcCcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhCCce-----EEECCCCc
Confidence            4444555677766655444322221111100    11234599999999999999999876554331     11111111


Q ss_pred             cccchhHhhhcCCCCCccCCCCch--hhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCC-cEE-ecCceE
Q psy1308         338 QEKHEVAKLIGAPPGYLGHDDGGQ--LTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKG-KTI-ECKDAI  413 (607)
Q Consensus       338 ~~~~~~~~llg~~~g~~g~~~~~~--l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g-~~~-~~~~~~  413 (607)
                      +..    .|........  ..+++  -.+.+-.+.+||.++||+++++.+....|+++||.++++-.++ ... -..++-
T Consensus        93 s~~----gLta~~~~d~--~~~~~~leaGalvlad~GiccIDe~dk~~~~~~~~l~eaMEqq~isi~kagi~~~l~ar~s  166 (331)
T PF00493_consen   93 SAA----GLTASVSRDP--VTGEWVLEAGALVLADGGICCIDEFDKMKEDDRDALHEAMEQQTISIAKAGIVTTLNARCS  166 (331)
T ss_dssp             TCC----CCCEEECCCG--GTSSECEEE-HHHHCTTSEEEECTTTT--CHHHHHHHHHHHCSCEEECTSSSEEEEE---E
T ss_pred             ccC----Cccceecccc--ccceeEEeCCchhcccCceeeecccccccchHHHHHHHHHHcCeeccchhhhcccccchhh
Confidence            100    0110000000  00111  2345667889999999999999999999999999999987654 322 235677


Q ss_pred             EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceee-ecc
Q psy1308         414 FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVY-FLP  492 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~-f~p  492 (607)
                      |++++|-........                   .            ...+.+       .+. +.|++|||-++. ..+
T Consensus       167 vlaa~NP~~g~~~~~-------------------~------------~~~~ni-------~l~-~~LLSRFDLif~l~D~  207 (331)
T PF00493_consen  167 VLAAANPKFGRYDPN-------------------K------------SLSENI-------NLP-PPLLSRFDLIFLLRDK  207 (331)
T ss_dssp             EEEEE--TT--S-TT-------------------S-------------CGCCT--------S--CCCHCC-SEEECC--T
T ss_pred             hHHHHhhhhhhcchh-------------------h------------hhHHhc-------ccc-hhhHhhcCEEEEeccc
Confidence            889988332211000                   0            000000       133 889999997644 455


Q ss_pred             CCHHHHHHHHHHHHHHHHHHH-----------------------h-hcCCcEEEeCHhHHHHHHccCC------------
Q psy1308         493 FSKSELHTLVCRELNFWAKKA-----------------------L-DKHNINIVWDIDVETILADGYD------------  536 (607)
Q Consensus       493 l~~~~~~~i~~~~l~~~~~~~-----------------------~-~~~~i~l~~~~~a~~~L~~~~~------------  536 (607)
                      .+.+.=..|+.+.+.......                       . .+..+..++++++.++|.+.|-            
T Consensus       208 ~d~~~D~~la~~il~~~~~~~~~~~~~~~~~~~~~~~~~lr~yI~yar~~~~P~ls~ea~~~I~~~Yv~lR~~~~~~~~~  287 (331)
T PF00493_consen  208 PDEEEDERLAEHILDSHRNGKKSKEKKIKKNDKPISEDLLRKYIAYARQNIHPVLSEEAKELIINYYVELRKESKSNNKS  287 (331)
T ss_dssp             TT-HHHHHHHHHHHTTT---S--------SSS-TT-HCCCHHHHHHHHHHC--EE-HHCHHHHHHHHCCCCHCHHCHSS-
T ss_pred             cccccccccceEEEeccccccccccccccccCCccCHHHHHHHHHHHHhhcccccCHHHHHHHHHHHHHhcccccccccc
Confidence            665544555554443221110                       0 0114677899999988874221            


Q ss_pred             CCCCccchhHHHHHHHHHHHHHHHHh
Q psy1308         537 VHYGARSIKHEVERQVVSQLAAAHEK  562 (607)
Q Consensus       537 ~~~GaR~L~~~i~~~i~~~l~~~~l~  562 (607)
                      .+..+|.|+..|+  +..+.|++.++
T Consensus       288 ~~iT~R~LeSLIR--LseA~AKl~lr  311 (331)
T PF00493_consen  288 IPITIRQLESLIR--LSEAHAKLRLR  311 (331)
T ss_dssp             B-SSCCCCCHHHH--HHHHHHHCTTS
T ss_pred             cccchhhHHHHHH--HHHHHHHHhcc
Confidence            2345777776664  44445544443

; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=97.85  E-value=0.00033  Score=67.21  Aligned_cols=76  Identities=26%  Similarity=0.360  Sum_probs=59.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .-.+.||+|+|||+.+|.+++.+..    .++.++|+...+...+.+++-               ++..  -++-++|||
T Consensus        34 ~~~~~GpagtGKtetik~La~~lG~----~~~vfnc~~~~~~~~l~ril~---------------G~~~--~GaW~cfde   92 (231)
T PF12774_consen   34 GGALSGPAGTGKTETIKDLARALGR----FVVVFNCSEQMDYQSLSRILK---------------GLAQ--SGAWLCFDE   92 (231)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHCTT------EEEEETTSSS-HHHHHHHHH---------------HHHH--HT-EEEEET
T ss_pred             CCCCcCCCCCCchhHHHHHHHHhCC----eEEEecccccccHHHHHHHHH---------------HHhh--cCchhhhhh
Confidence            4568999999999999999998854    499999999988888888772               2222  256889999


Q ss_pred             CCccCHHHHHHHHHhhc
Q psy1308         379 VDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       379 iek~~~~~~~~Ll~~~~  395 (607)
                      +++++.+++..+.+.+.
T Consensus        93 fnrl~~~vLS~i~~~i~  109 (231)
T PF12774_consen   93 FNRLSEEVLSVISQQIQ  109 (231)
T ss_dssp             CCCSSHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHHHHH
Confidence            99999998888776554

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=97.85  E-value=7.7e-05  Score=73.40  Aligned_cols=107  Identities=13%  Similarity=0.225  Sum_probs=65.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccc--ccccchhHhhhcCCCC-CccCCCCchhhHHHhhCC----C
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSE--YQEKHEVAKLIGAPPG-YLGHDDGGQLTKRLKKCP----N  371 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~--~~~~~~~~~llg~~~g-~~g~~~~~~l~~~~~~~~----~  371 (607)
                      .++|.||.|+||..+|..+++.+.-.. .+.   .|..  -..|.++..+.....+ .++-++-..+.+.+...|    +
T Consensus        21 AyLf~G~~G~Gk~~lA~~~A~~llC~~-~~~---~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~   96 (290)
T PRK05917         21 AIILHGQDLSNLSARAYELASLILKET-SPE---AAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPY   96 (290)
T ss_pred             eEeeECCCCCcHHHHHHHHHHHHhCCC-Ccc---HHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCc
Confidence            688999999999999999999986531 110   1100  0011111111110010 112222223333333333    5


Q ss_pred             eEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         372 AVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       372 ~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                      -|++||++|+++++.++.||+.+|+-           ..+++||+.|+.
T Consensus        97 kv~ii~~ad~mt~~AaNaLLK~LEEP-----------p~~~~fiL~~~~  134 (290)
T PRK05917         97 KIYIIHEADRMTLDAISAFLKVLEDP-----------PQHGVIILTSAK  134 (290)
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhcC-----------CCCeEEEEEeCC
Confidence            79999999999999999999999963           367788887774

>KOG0520|consensus

Probab=97.85  E-value=1.3e-05  Score=88.45  Aligned_cols=62  Identities=27%  Similarity=0.341  Sum_probs=32.5

Q ss_pred             CCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCC
Q psy1308          85 IKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN  147 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~  147 (607)
                      +|.-.+|. |..++.+..-+++...+..++.+|..||||||||+..|+..++..|++.|++.+
T Consensus       607 d~qgV~hf-ca~lg~ewA~ll~~~~~~ai~i~D~~G~tpL~wAa~~G~e~l~a~l~~lga~~~  668 (975)
T KOG0520|consen  607 DGQGVIHF-CAALGYEWAFLPISADGVAIDIRDRNGWTPLHWAAFRGREKLVASLIELGADPG  668 (975)
T ss_pred             cCCChhhH-hhhcCCceeEEEEeecccccccccCCCCcccchHhhcCHHHHHHHHHHhccccc
Confidence            33333444 334444444444443335566666666666666666666666666665555544

>KOG3609|consensus

Probab=97.83  E-value=6e-05  Score=81.70  Aligned_cols=125  Identities=13%  Similarity=0.089  Sum_probs=97.3

Q ss_pred             CCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhc
Q psy1308          29 FQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIEN  108 (607)
Q Consensus        29 ~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~  108 (607)
                      .+.--...||..|+.-.|+..++.... .                  ..+++..|.-|.++|+.|+.+.+.+++++|+++
T Consensus        24 ~~e~~fL~a~E~gd~~~V~k~l~~~~~-~------------------~lninc~d~lGr~al~iai~nenle~~eLLl~~   84 (822)
T KOG3609|consen   24 EGEKGFLLAHENGDVPLVAKALEYKAV-S------------------KLNINCRDPLGRLALHIAIDNENLELQELLLDT   84 (822)
T ss_pred             hhhHHHHHHHHcCChHHHHHHHHhccc-c------------------ccchhccChHhhhceecccccccHHHHHHHhcC
Confidence            344456789999999999888765433 1                  123467788999999999999999999999997


Q ss_pred             CCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCC------------CCCCCCchHHHHHHcCCccHHHHHHhcCCC
Q psy1308         109 SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP------------NLGDLFNTVHRTAAEKKMNPFEVLLKREDE  176 (607)
Q Consensus       109 ~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~------------~~~d~~~~l~~A~~~~~~~~~~~Ll~~g~~  176 (607)
                      + ...       ..+|.+|+..|..++|++++.+-...            ...-.-||+.+||..++.||+++|+.+|+.
T Consensus        85 ~-~~~-------gdALL~aI~~~~v~~VE~ll~~~~~~~~~~~~~d~~~~~ft~ditPliLAAh~NnyEil~~Ll~kg~~  156 (822)
T KOG3609|consen   85 S-SEE-------GDALLLAIAVGSVPLVELLLVHFVDAPYLERSGDANSPHFTPDITPLMLAAHLNNFEILQCLLTRGHC  156 (822)
T ss_pred             c-ccc-------chHHHHHHHHHHHHHHHHHHhcccccchhccccccCcccCCCCccHHHHHHHhcchHHHHHHHHcCCC
Confidence            6 433       34899999999999999999874332            112235799999999999999999999988


Q ss_pred             cccc
Q psy1308         177 FNDV  180 (607)
Q Consensus       177 ~~~~  180 (607)
                      +...
T Consensus       157 i~~P  160 (822)
T KOG3609|consen  157 IPIP  160 (822)
T ss_pred             CCCC
Confidence            7654

>KOG0480|consensus

Probab=97.83  E-value=0.00026  Score=74.65  Aligned_cols=133  Identities=17%  Similarity=0.185  Sum_probs=80.5

Q ss_pred             ccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCC----CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc
Q psy1308         260 YPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDH----PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS  335 (607)
Q Consensus       260 ~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~----p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a  335 (607)
                      ..|...+...+.|++....-+.-.+--.-...+....    .++++++|-||+||+-+.++....+++.   -++.-..+
T Consensus       337 ~~lv~Sl~PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR~---vYtsGkaS  413 (764)
T KOG0480|consen  337 KNLVNSLFPSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPRS---VYTSGKAS  413 (764)
T ss_pred             HHHHHhhCccccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCcc---eEecCccc
Confidence            3445555667888887776655444222111122222    3489999999999999999998887653   11111111


Q ss_pred             cccccchhHhhhc-CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCC
Q psy1308         336 EYQEKHEVAKLIG-APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGK  403 (607)
Q Consensus       336 ~~~~~~~~~~llg-~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~  403 (607)
                      .-.+  ..+.+.- ...| |+-      -.+++--+.+||=.|||+||++..-|-+|.+.||...+...+
T Consensus       414 SaAG--LTaaVvkD~esgdf~i------EAGALmLADnGICCIDEFDKMd~~dqvAihEAMEQQtISIaK  475 (764)
T KOG0480|consen  414 SAAG--LTAAVVKDEESGDFTI------EAGALMLADNGICCIDEFDKMDVKDQVAIHEAMEQQTISIAK  475 (764)
T ss_pred             cccc--ceEEEEecCCCCceee------ecCcEEEccCceEEechhcccChHhHHHHHHHHHhheehhee
Confidence            1110  0000100 0011 111      123455678899999999999999999999999988877654

>KOG0478|consensus

Probab=97.77  E-value=0.00017  Score=76.53  Aligned_cols=109  Identities=22%  Similarity=0.326  Sum_probs=67.7

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCC-CCch---hhHHHhhCCCeE
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHD-DGGQ---LTKRLKKCPNAV  373 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~-~~~~---l~~~~~~~~~~v  373 (607)
                      ..+|++|-||+||+.+.+.+++.+.+.-   ++     .=.+...+    |- ..|+-.+ +.++   -.+++-.+.+|+
T Consensus       463 INILL~GDPGtsKSqlLqyv~~l~pRg~---yT-----SGkGsSav----GL-TayVtrd~dtkqlVLesGALVLSD~Gi  529 (804)
T KOG0478|consen  463 INILLVGDPGTSKSQLLQYCHRLLPRGV---YT-----SGKGSSAV----GL-TAYVTKDPDTRQLVLESGALVLSDNGI  529 (804)
T ss_pred             ceEEEecCCCcCHHHHHHHHHHhCCcce---ee-----cCCccchh----cc-eeeEEecCccceeeeecCcEEEcCCce
Confidence            5899999999999999999999875520   00     00010000    00 0011111 1111   234555678899


Q ss_pred             EEEecCCccCHHHHHHHHHhhccceeecCCCcEEec--CceEEEEecC
Q psy1308         374 VLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIEC--KDAIFVMTSN  419 (607)
Q Consensus       374 l~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~--~~~~iI~tsn  419 (607)
                      =+|||+||++.+.++.|+++||..++...+.--+..  ..+=||++.|
T Consensus       530 CCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaAN  577 (804)
T KOG0478|consen  530 CCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAAN  577 (804)
T ss_pred             EEchhhhhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccceeeeeec
Confidence            999999999999999999999988877653222222  2223566656

>KOG2384|consensus

Probab=97.76  E-value=6.9e-05  Score=66.62  Aligned_cols=69  Identities=16%  Similarity=0.121  Sum_probs=63.9

Q ss_pred             chhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCC
Q psy1308          78 TLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP  146 (607)
Q Consensus        78 ~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~  146 (607)
                      .++..|..|||||++|+..|+.+.|.||+.+|-+++.++|..|.+++.+|=+.|+.++|+.|.+.-.+-
T Consensus         4 ~in~rD~fgWTalmcaa~eg~~eavsyllgrg~a~vgv~d~ssldaaqlaek~g~~~fvh~lfe~~~et   72 (223)
T KOG2384|consen    4 NINARDAFGWTALMCAAMEGSNEAVSYLLGRGVAFVGVTDESSLDAAQLAEKGGAQAFVHSLFENDRET   72 (223)
T ss_pred             CccchhhhcchHHHHHhhhcchhHHHHHhccCcccccccccccchHHHHHHhcChHHHHHHHHHHhccC
Confidence            467899999999999999999999999999998899999999999999999999999999999874443

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=97.74  E-value=0.00018  Score=69.60  Aligned_cols=187  Identities=18%  Similarity=0.276  Sum_probs=89.5

Q ss_pred             hhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhh----
Q psy1308         271 VGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKL----  346 (607)
Q Consensus       271 ~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~l----  346 (607)
                      +|...-++.+...+....        ...+++.||.|+|||.+.+.+.+.+...+.. .+-++............+    
T Consensus         2 ~gR~~el~~l~~~l~~~~--------~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~-~~y~~~~~~~~~~~~~~~~~~~   72 (234)
T PF01637_consen    2 FGREKELEKLKELLESGP--------SQHILLYGPRGSGKTSLLKEFINELKEKGYK-VVYIDFLEESNESSLRSFIEET   72 (234)
T ss_dssp             -S-HHHHHHHHHCHHH----------SSEEEEEESTTSSHHHHHHHHHHHCT--EEC-CCHHCCTTBSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhhc--------CcEEEEEcCCcCCHHHHHHHHHHHhhhcCCc-EEEEecccchhhhHHHHHHHHH
Confidence            455666666666555432        2368899999999999999999877332111 111111111111111111    


Q ss_pred             ---------hcC-CCCCcc--------C---CCCchhhHHHhhC-CCeEEEEecCCccC------HHHHHHHHHhhccce
Q psy1308         347 ---------IGA-PPGYLG--------H---DDGGQLTKRLKKC-PNAVVLFDEVDKAH------PDVLTVLLQLFDEGR  398 (607)
Q Consensus       347 ---------lg~-~~g~~g--------~---~~~~~l~~~~~~~-~~~vl~lDEiek~~------~~~~~~Ll~~~~~~~  398 (607)
                               ++. .++..+        .   ..-..+.+.+... ...+|+|||++.+.      +.....|.++++...
T Consensus        73 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~  152 (234)
T PF01637_consen   73 SLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLL  152 (234)
T ss_dssp             HHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhcc
Confidence                     211 111110        0   0011122333333 34899999999988      567777888777411


Q ss_pred             eecCCCcEEecCceE-EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCC
Q psy1308         399 LTDGKGKTIECKDAI-FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRR  477 (607)
Q Consensus       399 ~~~~~g~~~~~~~~~-iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~  477 (607)
                               ...+.. |+++|..   .+...                                          +...  .
T Consensus       153 ---------~~~~~~~v~~~S~~---~~~~~------------------------------------------~~~~--~  176 (234)
T PF01637_consen  153 ---------SQQNVSIVITGSSD---SLMEE------------------------------------------FLDD--K  176 (234)
T ss_dssp             -----------TTEEEEEEESSH---HHHHH------------------------------------------TT-T--T
T ss_pred             ---------ccCCceEEEECCch---HHHHH------------------------------------------hhcc--c
Confidence                     123344 4444441   11110                                          0011  1


Q ss_pred             hhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         478 DEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       478 ~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                      +.+++|... +...|++.++..+++.....+.         +.+.++++.++.+.
T Consensus       177 ~~~~~~~~~-~~l~~l~~~e~~~~~~~~~~~~---------~~~~~~~~~~~~i~  221 (234)
T PF01637_consen  177 SPLFGRFSH-IELKPLSKEEAREFLKELFKEL---------IKLPFSDEDIEEIY  221 (234)
T ss_dssp             STTTT---E-EEE----HHHHHHHHHHHHHCC---------------HHHHHHHH
T ss_pred             Cccccccce-EEEeeCCHHHHHHHHHHHHHHh---------hcccCCHHHHHHHH
Confidence            668889987 8899999999999887765432         22245777777664

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.72  E-value=0.00019  Score=72.67  Aligned_cols=110  Identities=21%  Similarity=0.317  Sum_probs=65.0

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      -.++|+|++|+|||.|+.+++..+... ......+.+..+-.     .+-..  .+............+..+  .+|+||
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~-g~~V~y~t~~~l~~-----~l~~~--~~~~~~~~~~~~~~l~~~--DLLIID  253 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDR-GKSVIYRTADELIE-----ILREI--RFNNDKELEEVYDLLINC--DLLIID  253 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHC-CCeEEEEEHHHHHH-----HHHHH--HhccchhHHHHHHHhccC--CEEEEe
Confidence            368999999999999999999987654 23333334333211     11100  000000000112333333  599999


Q ss_pred             cCC--ccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         378 EVD--KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       378 Eie--k~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +++  ..++..+..|+.+++...-          .+.-+|+|||...+++.+
T Consensus       254 DlG~e~~t~~~~~~Lf~iin~R~~----------~~k~tIiTSNl~~~el~~  295 (329)
T PRK06835        254 DLGTEKITEFSKSELFNLINKRLL----------RQKKMIISTNLSLEELLK  295 (329)
T ss_pred             ccCCCCCCHHHHHHHHHHHHHHHH----------CCCCEEEECCCCHHHHHH
Confidence            994  4567788889998874321          112389999988877643

>KOG1969|consensus

Probab=97.70  E-value=0.00039  Score=74.56  Aligned_cols=87  Identities=26%  Similarity=0.412  Sum_probs=56.0

Q ss_pred             CCCCc--eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh-cCCCC--CccCCCCchhhHHHhh
Q psy1308         294 DDHPL--VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI-GAPPG--YLGHDDGGQLTKRLKK  368 (607)
Q Consensus       294 ~~~p~--~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll-g~~~g--~~g~~~~~~l~~~~~~  368 (607)
                      ..+|-  .+|++||+|-|||.||..+|+...    ...+.++.|.-...+.+.+-+ +....  ..+          ...
T Consensus       321 s~RP~kKilLL~GppGlGKTTLAHViAkqaG----YsVvEINASDeRt~~~v~~kI~~avq~~s~l~----------ads  386 (877)
T KOG1969|consen  321 SKRPPKKILLLCGPPGLGKTTLAHVIAKQAG----YSVVEINASDERTAPMVKEKIENAVQNHSVLD----------ADS  386 (877)
T ss_pred             cCCCccceEEeecCCCCChhHHHHHHHHhcC----ceEEEecccccccHHHHHHHHHHHHhhccccc----------cCC
Confidence            33444  899999999999999999998642    235556655544433332222 11000  000          012


Q ss_pred             CCCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         369 CPNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       369 ~~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      .| .-|++||||-+++..++.|+.++.
T Consensus       387 rP-~CLViDEIDGa~~~~Vdvilslv~  412 (877)
T KOG1969|consen  387 RP-VCLVIDEIDGAPRAAVDVILSLVK  412 (877)
T ss_pred             Cc-ceEEEecccCCcHHHHHHHHHHHH
Confidence            23 357789999999999999999887

>PRK06526 transposase; Provisional

Probab=97.69  E-value=7.1e-05  Score=73.06  Aligned_cols=106  Identities=26%  Similarity=0.376  Sum_probs=63.6

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhh-CCCeEEEE
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK-CPNAVVLF  376 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~-~~~~vl~l  376 (607)
                      -.++++||+|+|||.++..++..+...+ ....-..++.+     +..+....       ..+.+...+.. ....+|+|
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~~~g-~~v~f~t~~~l-----~~~l~~~~-------~~~~~~~~l~~l~~~dlLII  165 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRACQAG-HRVLFATAAQW-----VARLAAAH-------HAGRLQAELVKLGRYPLLIV  165 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHCC-CchhhhhHHHH-----HHHHHHHH-------hcCcHHHHHHHhccCCEEEE
Confidence            4689999999999999999988765431 11111112111     11221110       01112222222 34579999


Q ss_pred             ecCCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         377 DEVDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       377 DEiek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ||++..+  +..++.|.++++...           .+.-+|+|||.......+
T Consensus       166 DD~g~~~~~~~~~~~L~~li~~r~-----------~~~s~IitSn~~~~~w~~  207 (254)
T PRK06526        166 DEVGYIPFEPEAANLFFQLVSSRY-----------ERASLIVTSNKPFGRWGE  207 (254)
T ss_pred             cccccCCCCHHHHHHHHHHHHHHH-----------hcCCEEEEcCCCHHHHHH
Confidence            9999764  777888999887321           112388999998887654

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.64  E-value=0.00031  Score=67.92  Aligned_cols=108  Identities=17%  Similarity=0.280  Sum_probs=65.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCC-CCchhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHD-DGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~-~~~~l~~~~~~~~~~vl~lD  377 (607)
                      .++|+|++|+|||.|+.+++..+... ......++.+.+.     ..+-..   |...+ ....+...+.  ...+|+||
T Consensus       101 ~~~l~G~~GtGKThLa~aia~~l~~~-g~~v~~it~~~l~-----~~l~~~---~~~~~~~~~~~l~~l~--~~dlLvID  169 (244)
T PRK07952        101 SFIFSGKPGTGKNHLAAAICNELLLR-GKSVLIITVADIM-----SAMKDT---FSNSETSEEQLLNDLS--NVDLLVID  169 (244)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEEEHHHHH-----HHHHHH---HhhccccHHHHHHHhc--cCCEEEEe
Confidence            68999999999999999999988654 3334444443321     111110   10000 1112223333  35699999


Q ss_pred             cCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         378 EVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       378 Eiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      |++.....  ....|.++++.. +.         .+.-.|+|||+..+++.+
T Consensus       170 Dig~~~~s~~~~~~l~~Ii~~R-y~---------~~~~tiitSNl~~~~l~~  211 (244)
T PRK07952        170 EIGVQTESRYEKVIINQIVDRR-SS---------SKRPTGMLTNSNMEEMTK  211 (244)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHH-Hh---------CCCCEEEeCCCCHHHHHH
Confidence            99876433  445677888742 11         123489999999888754

>PF05729 NACHT: NACHT domain

Probab=97.61  E-value=0.00066  Score=61.72  Aligned_cols=111  Identities=18%  Similarity=0.223  Sum_probs=62.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCc-----eEEeecccccccc---hhHhhhcCCCCCccCCCCchhhHHHhhCC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEA-----FIRLDMSEYQEKH---EVAKLIGAPPGYLGHDDGGQLTKRLKKCP  370 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~-----~~~l~~a~~~~~~---~~~~llg~~~g~~g~~~~~~l~~~~~~~~  370 (607)
                      .+++.|++|+|||.+++.++..+......+     ...+.+.......   .+..++..............+.......+
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   81 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNK   81 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCC
Confidence            478999999999999999998875532211     2233444444332   23334421111111011112345566778


Q ss_pred             CeEEEEecCCccCHHHH--------HHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         371 NAVVLFDEVDKAHPDVL--------TVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       371 ~~vl~lDEiek~~~~~~--------~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      ..+++||.+|.+.....        +.|.+++...          ...++.+|+||.
T Consensus        82 ~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~----------~~~~~~liit~r  128 (166)
T PF05729_consen   82 RVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQA----------LPPGVKLIITSR  128 (166)
T ss_pred             ceEEEEechHhcccchhhhHHHHHHHHHHHHhhhc----------cCCCCeEEEEEc
Confidence            89999999999877433        3455566531          123455666665

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=97.61  E-value=0.0014  Score=65.36  Aligned_cols=92  Identities=16%  Similarity=0.282  Sum_probs=60.2

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCc-------CCc--eEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHh--
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDK-------KEA--FIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLK--  367 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~-------~~~--~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~--  367 (607)
                      .++|.|+.|.||..+++.+++.+....       ..|  ++.++-.   +            +..+.   .++..+++  
T Consensus        20 aYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~---g------------~~i~v---d~Ir~l~~~~   81 (299)
T PRK07132         20 SFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIF---D------------KDLSK---SEFLSAINKL   81 (299)
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccC---C------------CcCCH---HHHHHHHHHh
Confidence            688999999999999999999873311       111  1112100   0            00000   11212111  


Q ss_pred             ------hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         368 ------KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       368 ------~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                            ..++-|+++|++|+++...++.||+.+|+-           ..+++||++|+
T Consensus        82 ~~~~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEP-----------p~~t~~il~~~  128 (299)
T PRK07132         82 YFSSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEP-----------PKDTYFLLTTK  128 (299)
T ss_pred             ccCCcccCCceEEEEecccccCHHHHHHHHHHhhCC-----------CCCeEEEEEeC
Confidence                  135679999999999999999999999963           36778888776

>KOG0741|consensus

Probab=97.60  E-value=0.00071  Score=69.90  Aligned_cols=69  Identities=26%  Similarity=0.481  Sum_probs=48.1

Q ss_pred             Cc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEee----cccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCC
Q psy1308         297 PL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD----MSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPN  371 (607)
Q Consensus       297 p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~----~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~  371 (607)
                      |+ ++++.||+|+|||.||..+|...    .-||+.+-    |..+++..-+.-+-             ...+-..+.+-
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S----~FPFvKiiSpe~miG~sEsaKc~~i~-------------k~F~DAYkS~l  599 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALSS----DFPFVKIISPEDMIGLSESAKCAHIK-------------KIFEDAYKSPL  599 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhhc----CCCeEEEeChHHccCccHHHHHHHHH-------------HHHHHhhcCcc
Confidence            55 89999999999999999999653    66788873    33443333222111             12334456788


Q ss_pred             eEEEEecCCcc
Q psy1308         372 AVVLFDEVDKA  382 (607)
Q Consensus       372 ~vl~lDEiek~  382 (607)
                      +++++|+||++
T Consensus       600 siivvDdiErL  610 (744)
T KOG0741|consen  600 SIIVVDDIERL  610 (744)
T ss_pred             eEEEEcchhhh
Confidence            99999999985

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.54  E-value=0.00016  Score=60.63  Aligned_cols=98  Identities=27%  Similarity=0.407  Sum_probs=58.9

Q ss_pred             eeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecC
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEV  379 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEi  379 (607)
                      +.+.|++|+|||.+++.|++.+...-..+.   ....|.. ....+++   .||.|               ..++++||+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~---~~~vy~~-~~~~~~w---~gY~~---------------q~vvi~DD~   58 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPT---KDSVYTR-NPGDKFW---DGYQG---------------QPVVIIDDF   58 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCC---CCcEEeC-CCccchh---hccCC---------------CcEEEEeec
Confidence            468999999999999999988754210000   0001110 0011111   22332               248999999


Q ss_pred             CccCHH----HHHHHHHhhccceeecC----CCcEEecCceEEEEecC
Q psy1308         380 DKAHPD----VLTVLLQLFDEGRLTDG----KGKTIECKDAIFVMTSN  419 (607)
Q Consensus       380 ek~~~~----~~~~Ll~~~~~~~~~~~----~g~~~~~~~~~iI~tsn  419 (607)
                      ......    ....|+++++...+...    ..+...|.-.+||+|||
T Consensus        59 ~~~~~~~~~~~~~~l~~l~s~~~~~~~~a~~~~K~~~~~s~~vi~tsN  106 (107)
T PF00910_consen   59 GQDNDGYNYSDESELIRLISSNPFQPNMADLEDKGTPFNSKLVIITSN  106 (107)
T ss_pred             CccccccchHHHHHHHHHHhcCCcccccccHhhCCCccCCCEEEEcCC
Confidence            988754    67778888886665542    12224556678899998

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=97.54  E-value=0.0004  Score=66.85  Aligned_cols=105  Identities=14%  Similarity=0.174  Sum_probs=66.5

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh-cCCCC---------CccCCCCchhhHHH
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI-GAPPG---------YLGHDDGGQLTKRL  366 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll-g~~~g---------~~g~~~~~~l~~~~  366 (607)
                      |-.++|.|+.|+||..+|..+++.+.-....+    .|..-   .....+. |..|.         .++-++-..+...+
T Consensus         7 ~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~----~Cg~C---~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l   79 (261)
T PRK05818          7 THPLLLIERKGSFLKPFLYEYLTSIVCTKANG----FCKTC---ESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKL   79 (261)
T ss_pred             CcceeeeCCCCCcHHHHHHHHHHHHcCCCCCC----CCCCC---HHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHH
Confidence            34789999999999999999999875432111    12111   1111111 11111         12222222333333


Q ss_pred             hh-----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         367 KK-----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       367 ~~-----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      ..     +++-|++++++|+++.+..+.||+.+|+.           ..+++||++|+
T Consensus        80 ~~~s~e~~~~KV~II~~ae~m~~~AaNaLLK~LEEP-----------p~~t~fiLit~  126 (261)
T PRK05818         80 NRPSVESNGKKIYIIYGIEKLNKQSANSLLKLIEEP-----------PKNTYGIFTTR  126 (261)
T ss_pred             ccCchhcCCCEEEEeccHhhhCHHHHHHHHHhhcCC-----------CCCeEEEEEEC
Confidence            22     23679999999999999999999999964           36788998887

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.53  E-value=0.00053  Score=67.02  Aligned_cols=109  Identities=21%  Similarity=0.300  Sum_probs=68.6

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHh-hCCCeEEE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLK-KCPNAVVL  375 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~-~~~~~vl~  375 (607)
                      +-.++|+|++|+|||.|+-+|+..+... .....-+.++.+     +.++-.+..      .+..-..+.+ -....+|+
T Consensus       105 ~~nl~l~G~~G~GKThLa~Ai~~~l~~~-g~sv~f~~~~el-----~~~Lk~~~~------~~~~~~~l~~~l~~~dlLI  172 (254)
T COG1484         105 GENLVLLGPPGVGKTHLAIAIGNELLKA-GISVLFITAPDL-----LSKLKAAFD------EGRLEEKLLRELKKVDLLI  172 (254)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHc-CCeEEEEEHHHH-----HHHHHHHHh------cCchHHHHHHHhhcCCEEE
Confidence            4579999999999999999999998732 444444555443     223322111      1111122233 34456999


Q ss_pred             EecCCcc--CHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHH
Q psy1308         376 FDEVDKA--HPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       376 lDEiek~--~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                      |||+...  +....+.+++++..-.-          +... |+|||....++.+.
T Consensus       173 iDDlG~~~~~~~~~~~~~q~I~~r~~----------~~~~-~~tsN~~~~~~~~~  216 (254)
T COG1484         173 IDDIGYEPFSQEEADLLFQLISRRYE----------SRSL-IITSNLSFGEWDEL  216 (254)
T ss_pred             EecccCccCCHHHHHHHHHHHHHHHh----------hccc-eeecCCChHHHHhh
Confidence            9999884  44466778887763221          1223 99999999887654

>PRK08181 transposase; Validated

Probab=97.51  E-value=0.00024  Score=69.80  Aligned_cols=106  Identities=18%  Similarity=0.222  Sum_probs=63.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .++|+||+|+|||.|+.+++..+... ......+.+..+     +..+-.....    .........+.  ...+|+|||
T Consensus       108 nlll~Gp~GtGKTHLa~Aia~~a~~~-g~~v~f~~~~~L-----~~~l~~a~~~----~~~~~~l~~l~--~~dLLIIDD  175 (269)
T PRK08181        108 NLLLFGPPGGGKSHLAAAIGLALIEN-GWRVLFTRTTDL-----VQKLQVARRE----LQLESAIAKLD--KFDLLILDD  175 (269)
T ss_pred             eEEEEecCCCcHHHHHHHHHHHHHHc-CCceeeeeHHHH-----HHHHHHHHhC----CcHHHHHHHHh--cCCEEEEec
Confidence            68999999999999999999877543 222333333222     1122110000    00011222222  346999999


Q ss_pred             CCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         379 VDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       379 iek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ++..+.  ..+..|+++++... .          +.-+|+|||....++.+
T Consensus       176 lg~~~~~~~~~~~Lf~lin~R~-~----------~~s~IiTSN~~~~~w~~  215 (269)
T PRK08181        176 LAYVTKDQAETSVLFELISARY-E----------RRSILITANQPFGEWNR  215 (269)
T ss_pred             cccccCCHHHHHHHHHHHHHHH-h----------CCCEEEEcCCCHHHHHH
Confidence            987644  45678999987321 1          11289999999888755

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.49  E-value=0.00084  Score=67.45  Aligned_cols=109  Identities=18%  Similarity=0.282  Sum_probs=65.5

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      ..++|+|++|+|||.|+.+++..+... ......+.+..+-..  +...++.       ..-......+.  .-.+|+||
T Consensus       157 ~gl~L~G~~G~GKThLa~Aia~~l~~~-g~~v~~~~~~~l~~~--lk~~~~~-------~~~~~~l~~l~--~~dlLiID  224 (306)
T PRK08939        157 KGLYLYGDFGVGKSYLLAAIANELAKK-GVSSTLLHFPEFIRE--LKNSISD-------GSVKEKIDAVK--EAPVLMLD  224 (306)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHc-CCCEEEEEHHHHHHH--HHHHHhc-------CcHHHHHHHhc--CCCEEEEe
Confidence            378999999999999999999998654 334444555433211  1222211       01112233333  34699999


Q ss_pred             cCCcc--CHHHHHHHHH-hhccceeecCCCcEEecCceEEEEecCcchHHHHHH
Q psy1308         378 EVDKA--HPDVLTVLLQ-LFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       378 Eiek~--~~~~~~~Ll~-~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                      |++.-  ++-+.+.++. +++. ++.         .+.-.|+|||+..+++.++
T Consensus       225 DiG~e~~s~~~~~~ll~~Il~~-R~~---------~~~~ti~TSNl~~~el~~~  268 (306)
T PRK08939        225 DIGAEQMSSWVRDEVLGVILQY-RMQ---------EELPTFFTSNFDFDELEHH  268 (306)
T ss_pred             cCCCccccHHHHHHHHHHHHHH-HHH---------CCCeEEEECCCCHHHHHHH
Confidence            99754  4445544555 4442 111         2234899999999988764

>KOG0990|consensus

Probab=97.49  E-value=0.00052  Score=66.81  Aligned_cols=121  Identities=18%  Similarity=0.146  Sum_probs=71.9

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .+++|++.+..+.+..       ..+.-| +.+|+||+|+|||......+..++..            +....-+.++..
T Consensus        42 dv~~~~ei~st~~~~~-------~~~~lP-h~L~YgPPGtGktsti~a~a~~ly~~------------~~~~~m~lelna  101 (360)
T KOG0990|consen   42 IVIKQEPIWSTENRYS-------GMPGLP-HLLFYGPPGTGKTSTILANARDFYSP------------HPTTSMLLELNA  101 (360)
T ss_pred             hHhcCCchhhHHHHhc-------cCCCCC-cccccCCCCCCCCCchhhhhhhhcCC------------CCchhHHHHhhc
Confidence            4667777776655441       112223 89999999999999999999888663            111111222221


Q ss_pred             CCCCCccCCCC-chhhHHHh-------hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         349 APPGYLGHDDG-GQLTKRLK-------KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       349 ~~~g~~g~~~~-~~l~~~~~-------~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                      +.+.-.+-... -.+....+       .+..-.+++||.|.+..+.|++|-+.++.-           ..|++|+..+|.
T Consensus       102 Sd~rgid~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~AQnALRRviek~-----------t~n~rF~ii~n~  170 (360)
T KOG0990|consen  102 SDDRGIDPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRDAQNALRRVIEKY-----------TANTRFATISNP  170 (360)
T ss_pred             cCccCCcchHHHHHHHHhhccceeccccCceeEEEecchhHhhHHHHHHHHHHHHHh-----------ccceEEEEeccC
Confidence            11110110000 01111111       124668999999999999999999977632           257788877773

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.48  E-value=0.00014  Score=67.12  Aligned_cols=107  Identities=23%  Similarity=0.330  Sum_probs=63.5

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      ..++|.|++|+|||.+|.+++..+... .....-++++.+     +.++-..   +. ......+...+...  .+|+||
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~~~~~-g~~v~f~~~~~L-----~~~l~~~---~~-~~~~~~~~~~l~~~--dlLilD  115 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANEAIRK-GYSVLFITASDL-----LDELKQS---RS-DGSYEELLKRLKRV--DLLILD  115 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEHHHH-----HHHHHCC---HC-CTTHCHHHHHHHTS--SCEEEE
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHHhccC-CcceeEeecCce-----ecccccc---cc-ccchhhhcCccccc--cEeccc
Confidence            479999999999999999999877554 333333443332     2222211   10 01112334444443  599999


Q ss_pred             cCCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         378 EVDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       378 Eiek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      |+...+  ....+.|.++++...           .+.-.|+|||...+++.+
T Consensus       116 DlG~~~~~~~~~~~l~~ii~~R~-----------~~~~tIiTSN~~~~~l~~  156 (178)
T PF01695_consen  116 DLGYEPLSEWEAELLFEIIDERY-----------ERKPTIITSNLSPSELEE  156 (178)
T ss_dssp             TCTSS---HHHHHCTHHHHHHHH-----------HT-EEEEEESS-HHHHHT
T ss_pred             ccceeeecccccccchhhhhHhh-----------cccCeEeeCCCchhhHhh
Confidence            997754  556677888887432           111367799999888755

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>KOG0735|consensus

Probab=97.45  E-value=0.0031  Score=67.60  Aligned_cols=183  Identities=16%  Similarity=0.156  Sum_probs=104.9

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh--HhhhcCCCCCccCCCCchhhHHHhhCCCeEE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV--AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVV  374 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~--~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl  374 (607)
                      +-.+++.||+|+|||.|++++..++..+..--+..++|+...+....  .+++           ...+...++.+ .+||
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk~l-----------~~vfse~~~~~-PSiI  498 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQKFL-----------NNVFSEALWYA-PSII  498 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHHHH-----------HHHHHHHHhhC-CcEE
Confidence            34799999999999999999999987554445667899988775421  2222           11233444444 4799


Q ss_pred             EEecCCccCH---------HHHH-----HHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccc
Q psy1308         375 LFDEVDKAHP---------DVLT-----VLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFS  440 (607)
Q Consensus       375 ~lDEiek~~~---------~~~~-----~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~  440 (607)
                      +||++|-+-.         .++.     +|-+++.. ..+       +-+.+.||+|++ ....++.             
T Consensus       499 vLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~-y~~-------~~~~ia~Iat~q-e~qtl~~-------------  556 (952)
T KOG0735|consen  499 VLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKI-YLK-------RNRKIAVIATGQ-ELQTLNP-------------  556 (952)
T ss_pred             EEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHH-HHc-------cCcEEEEEEech-hhhhcCh-------------
Confidence            9999887522         1222     22233321 001       112356777766 1111111             


Q ss_pred             cCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcE
Q psy1308         441 KRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNIN  520 (607)
Q Consensus       441 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~  520 (607)
                                                   .|   +. |-   +|+.++...++...+-.+|+...+......        
T Consensus       557 -----------------------------~L---~s-~~---~Fq~~~~L~ap~~~~R~~IL~~~~s~~~~~--------  592 (952)
T KOG0735|consen  557 -----------------------------LL---VS-PL---LFQIVIALPAPAVTRRKEILTTIFSKNLSD--------  592 (952)
T ss_pred             -----------------------------hh---cC-cc---ceEEEEecCCcchhHHHHHHHHHHHhhhhh--------
Confidence                                         01   11 22   567788888889999999987777543211        


Q ss_pred             EEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHH
Q psy1308         521 IVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAH  560 (607)
Q Consensus       521 l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~  560 (607)
                        ....-+++++. -...+-++-|.-.++|++...+.+.+
T Consensus       593 --~~~~dLd~ls~-~TEGy~~~DL~ifVeRai~~a~leri  629 (952)
T KOG0735|consen  593 --ITMDDLDFLSV-KTEGYLATDLVIFVERAIHEAFLERI  629 (952)
T ss_pred             --hhhHHHHHHHH-hcCCccchhHHHHHHHHHHHHHHHHh
Confidence              12334555642 11223345677777877777664443

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.42  E-value=0.00023  Score=62.10  Aligned_cols=97  Identities=21%  Similarity=0.346  Sum_probs=62.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccC----cCCceEEeecccccccchh----HhhhcCCCCC--ccCCCCchhhHHHhh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRD----KKEAFIRLDMSEYQEKHEV----AKLIGAPPGY--LGHDDGGQLTKRLKK  368 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~----~~~~~~~l~~a~~~~~~~~----~~llg~~~g~--~g~~~~~~l~~~~~~  368 (607)
                      .++++|++|+|||.+++.+++.+...    ...+++.+++.........    ...++.+...  ...+-...+...++.
T Consensus         6 ~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~~   85 (131)
T PF13401_consen    6 ILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALDR   85 (131)
T ss_dssp             -EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHHH
T ss_pred             ccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHh
Confidence            68899999999999999999886431    0334667777665533332    3333432221  000111235556666


Q ss_pred             CCCeEEEEecCCcc-CHHHHHHHHHhhc
Q psy1308         369 CPNAVVLFDEVDKA-HPDVLTVLLQLFD  395 (607)
Q Consensus       369 ~~~~vl~lDEiek~-~~~~~~~Ll~~~~  395 (607)
                      ....+|+|||++.+ +.++.+.|..+++
T Consensus        86 ~~~~~lviDe~~~l~~~~~l~~l~~l~~  113 (131)
T PF13401_consen   86 RRVVLLVIDEADHLFSDEFLEFLRSLLN  113 (131)
T ss_dssp             CTEEEEEEETTHHHHTHHHHHHHHHHTC
T ss_pred             cCCeEEEEeChHhcCCHHHHHHHHHHHh
Confidence            66679999999999 9999999988877

>KOG0730|consensus

Probab=97.40  E-value=0.0012  Score=70.40  Aligned_cols=102  Identities=24%  Similarity=0.321  Sum_probs=64.8

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCC-CeEEE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCP-NAVVL  375 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~-~~vl~  375 (607)
                      |..++++||+|+|||.+++++++.....    +..++..     .-++++.|....+.     ....+...... .+++|
T Consensus       218 prg~Ll~gppg~Gkt~l~~aVa~e~~a~----~~~i~~p-----eli~k~~gEte~~L-----R~~f~~a~k~~~psii~  283 (693)
T KOG0730|consen  218 PRGLLLYGPPGTGKTFLVRAVANEYGAF----LFLINGP-----ELISKFPGETESNL-----RKAFAEALKFQVPSIIF  283 (693)
T ss_pred             CCCccccCCCCCChHHHHHHHHHHhCce----eEecccH-----HHHHhcccchHHHH-----HHHHHHHhccCCCeeEe
Confidence            4478899999999999999999765321    4444433     22444544221110     11222233333 89999


Q ss_pred             EecCCccCH----------HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcc
Q psy1308         376 FDEVDKAHP----------DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLA  421 (607)
Q Consensus       376 lDEiek~~~----------~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~  421 (607)
                      +||++.+-|          .+...|+.+++.-.         .-.++++|.++|..
T Consensus       284 IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~---------~~~~vivl~atnrp  330 (693)
T KOG0730|consen  284 IDELDALCPKREGADDVESRVVSQLLTLLDGLK---------PDAKVIVLAATNRP  330 (693)
T ss_pred             HHhHhhhCCcccccchHHHHHHHHHHHHHhhCc---------CcCcEEEEEecCCc
Confidence            999998765          46778888887322         22577899998843

>PRK09183 transposase/IS protein; Provisional

Probab=97.38  E-value=0.00063  Score=66.84  Aligned_cols=106  Identities=23%  Similarity=0.309  Sum_probs=62.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHh--hCCCeEEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLK--KCPNAVVLF  376 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~--~~~~~vl~l  376 (607)
                      .++++||+|+|||.++..++...... ......+++..+.     ..+-..   +    ..+.+...+.  .....+++|
T Consensus       104 ~v~l~Gp~GtGKThLa~al~~~a~~~-G~~v~~~~~~~l~-----~~l~~a---~----~~~~~~~~~~~~~~~~dlLii  170 (259)
T PRK09183        104 NIVLLGPSGVGKTHLAIALGYEAVRA-GIKVRFTTAADLL-----LQLSTA---Q----RQGRYKTTLQRGVMAPRLLII  170 (259)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHc-CCeEEEEeHHHHH-----HHHHHH---H----HCCcHHHHHHHHhcCCCEEEE
Confidence            68899999999999999998765433 2222233322221     111100   0    0011112221  234569999


Q ss_pred             ecCCcc--CHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHH
Q psy1308         377 DEVDKA--HPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       377 DEiek~--~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                      ||++..  +...++.|+++++... .         .. -+|+|||.....+.+.
T Consensus       171 Ddlg~~~~~~~~~~~lf~li~~r~-~---------~~-s~iiTsn~~~~~w~~~  213 (259)
T PRK09183        171 DEIGYLPFSQEEANLFFQVIAKRY-E---------KG-SMILTSNLPFGQWDQT  213 (259)
T ss_pred             cccccCCCChHHHHHHHHHHHHHH-h---------cC-cEEEecCCCHHHHHHH
Confidence            999874  4556668899886421 0         11 2789999998887653

>KOG2505|consensus

Probab=97.38  E-value=0.0004  Score=70.64  Aligned_cols=75  Identities=25%  Similarity=0.423  Sum_probs=60.4

Q ss_pred             ccHHHHHHhcCCCccccCC-CCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHH
Q psy1308         164 MNPFEVLLKREDEFNDVLN-PNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQIL  238 (607)
Q Consensus       164 ~~~~~~Ll~~g~~~~~~~~-~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~  238 (607)
                      ...+++|.+++.+.|.... ...++.-.|+||||+..|..++|.+||+.||||..+|..|+||..++.......+.
T Consensus       404 p~~ie~lken~lsgnf~~~pe~~~~ltsT~LH~aa~qg~~k~v~~~Leeg~Dp~~kd~~Grtpy~ls~nkdVk~~F  479 (591)
T KOG2505|consen  404 PDSIEALKENLLSGNFDVTPEANDYLTSTFLHYAAAQGARKCVKYFLEEGCDPSTKDGAGRTPYSLSANKDVKSIF  479 (591)
T ss_pred             hhHHHHHHhcCCcccccccccccccccchHHHHHHhcchHHHHHHHHHhcCCchhcccCCCCcccccccHHHHHHH
Confidence            5678888888887765432 22355578999999999999999999999999999999999999998855444433

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.36  E-value=0.0014  Score=75.81  Aligned_cols=149  Identities=25%  Similarity=0.393  Sum_probs=99.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchh----hHHHhhC-CCeE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQL----TKRLKKC-PNAV  373 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l----~~~~~~~-~~~v  373 (607)
                      ++++-|.||+|||.+..++|+....+    +++++.+..++   ...|||+...   .+++|.+    ...+++. .++-
T Consensus      1545 pilLEGsPGVGKTSlItaLAr~tG~k----liRINLSeQTd---L~DLfGsd~P---ve~~Gef~w~dapfL~amr~G~W 1614 (4600)
T COG5271        1545 PILLEGSPGVGKTSLITALARKTGKK----LIRINLSEQTD---LCDLFGSDLP---VEEGGEFRWMDAPFLHAMRDGGW 1614 (4600)
T ss_pred             ceeecCCCCccHHHHHHHHHHHhcCc----eEEeeccccch---HHHHhCCCCC---cccCceeEecccHHHHHhhcCCE
Confidence            58899999999999999999887444    99999998764   7788987322   1233332    2333333 4789


Q ss_pred             EEEecCCccCHHHHHHHHHhhccce--eecCCCcEEec-CceEEEEecCcchHHHHHHHhhhhhcccccccCCCCccccc
Q psy1308         374 VLFDEVDKAHPDVLTVLLQLFDEGR--LTDGKGKTIEC-KDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQ  450 (607)
Q Consensus       374 l~lDEiek~~~~~~~~Ll~~~~~~~--~~~~~g~~~~~-~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~  450 (607)
                      |++||+.-++.+|+.-|=..++...  +...-..+.++ -|.++.++-|-. .+         ..|              
T Consensus      1615 VlLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq-~q---------ggG-------------- 1670 (4600)
T COG5271        1615 VLLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQ-DQ---------GGG-------------- 1670 (4600)
T ss_pred             EEeehhhhhHHHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCch-hc---------CCC--------------
Confidence            9999999999999999888887432  11122334444 355566666611 10         000              


Q ss_pred             CCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHH
Q psy1308         451 GSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCR  504 (607)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~  504 (607)
                                           .+.+ +..|++||+. |.-.-|+.+|+..|+..
T Consensus      1671 ---------------------RKgL-PkSF~nRFsv-V~~d~lt~dDi~~Ia~~ 1701 (4600)
T COG5271        1671 ---------------------RKGL-PKSFLNRFSV-VKMDGLTTDDITHIANK 1701 (4600)
T ss_pred             ---------------------cccC-CHHHhhhhhe-EEecccccchHHHHHHh
Confidence                                 0112 3779999954 45567888888888765

>KOG1514|consensus

Probab=97.27  E-value=0.0039  Score=66.95  Aligned_cols=186  Identities=18%  Similarity=0.228  Sum_probs=113.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccC----c--CCceEEeecccccccchhHhhhcCCCCCccCCCCch-----hhHHH-
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRD----K--KEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQ-----LTKRL-  366 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~----~--~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~-----l~~~~-  366 (607)
                      .+.+.|-+|+|||..+..+-+.+...    .  .-.++.+|.-.+....++-..+.  ..+.|......     +...+ 
T Consensus       424 ~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~--~~lsg~~~~~~~al~~L~~~f~  501 (767)
T KOG1514|consen  424 CMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIW--EALSGERVTWDAALEALNFRFT  501 (767)
T ss_pred             eEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHH--HhcccCcccHHHHHHHHHHhhc
Confidence            67889999999999998888866421    1  34566666666555555433221  11222222111     11111 


Q ss_pred             ---hhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCC
Q psy1308         367 ---KKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRT  443 (607)
Q Consensus       367 ---~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~  443 (607)
                         ...+.+||++||.|-+=..-|+.|..+++  +.+..      -++.+||+.+|.-.-  -                 
T Consensus       502 ~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fd--Wpt~~------~sKLvvi~IaNTmdl--P-----------------  554 (767)
T KOG1514|consen  502 VPKPKRSTTVVLIDELDILVTRSQDVLYNIFD--WPTLK------NSKLVVIAIANTMDL--P-----------------  554 (767)
T ss_pred             cCCCCCCCEEEEeccHHHHhcccHHHHHHHhc--CCcCC------CCceEEEEecccccC--H-----------------
Confidence               23447899999999998888999999997  22222      256677777772110  0                 


Q ss_pred             CCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccc-eeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEE
Q psy1308         444 PSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE-IVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIV  522 (607)
Q Consensus       444 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~-iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~  522 (607)
                                          +++        +. +---+|+.- -+.|.|++..++.+|+..-|..+           -.
T Consensus       555 --------------------Er~--------l~-nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~-----------~~  594 (767)
T KOG1514|consen  555 --------------------ERL--------LM-NRVSSRLGLTRICFQPYTHEQLQEIISARLKGL-----------DA  594 (767)
T ss_pred             --------------------HHH--------hc-cchhhhccceeeecCCCCHHHHHHHHHHhhcch-----------hh
Confidence                                000        11 223344543 47999999999999988777543           23


Q ss_pred             eCHhHHHHHHc-cCCCCCCccchhHHHHHHHH
Q psy1308         523 WDIDVETILAD-GYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       523 ~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~  553 (607)
                      ++..|+++.++ --...+.+|.-..+++++++
T Consensus       595 f~~~aielvarkVAavSGDaRraldic~RA~E  626 (767)
T KOG1514|consen  595 FENKAIELVARKVAAVSGDARRALDICRRAAE  626 (767)
T ss_pred             cchhHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            47778888775 34456777777667766554

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=97.19  E-value=0.023  Score=58.02  Aligned_cols=45  Identities=31%  Similarity=0.475  Sum_probs=33.2

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccCc--CCceEEeecccccc
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDK--KEAFIRLDMSEYQE  339 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~~--~~~~~~l~~a~~~~  339 (607)
                      ..|.++.+.|+-|+|||.+.+.+-+.+....  ...++.+|.-.+.+
T Consensus        18 ~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~   64 (325)
T PF07693_consen   18 DDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDG   64 (325)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCC
Confidence            4477999999999999999999999886641  33455555544544

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=97.16  E-value=0.0052  Score=61.62  Aligned_cols=147  Identities=24%  Similarity=0.314  Sum_probs=92.0

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc------
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH------  341 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~------  341 (607)
                      ..+.|.+..+..+...++....+....  ...++|+||+|+|||++++.|.+.+..-   ++..+.-+...++.      
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~--krIl~L~GPvg~GKSsl~~~Lk~~le~y---~~Y~l~~~Pm~e~PL~L~P~  135 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEER--KRILLLLGPVGGGKSSLAELLKRGLEEY---PIYTLKGCPMHEEPLHLFPK  135 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCcc--ceEEEEECCCCCCHHHHHHHHHHHhheE---EEEEecCCccccChhhhCCH
Confidence            468999999999999988887775432  2378999999999999999999876331   12221111111100      


Q ss_pred             ---------------------hhHhh---hcC-----------------------CCCCccCCCCchh------------
Q psy1308         342 ---------------------EVAKL---IGA-----------------------PPGYLGHDDGGQL------------  362 (607)
Q Consensus       342 ---------------------~~~~l---lg~-----------------------~~g~~g~~~~~~l------------  362 (607)
                                           ...+|   ++.                       .|+.....+...+            
T Consensus       136 ~~r~~~~~~~~~~i~g~l~p~~~~~L~~~y~Gd~~~~~V~r~~~S~~~r~GI~~f~P~D~~~qd~s~LtG~vd~~kl~~~  215 (358)
T PF08298_consen  136 ELRREFEDELGIRIEGELCPWCRKRLLEEYGGDIEKFRVERLYFSERDRVGIGTFEPGDEKNQDISDLTGSVDIRKLAEY  215 (358)
T ss_pred             hHHHHHHHHhCcccCCCcCHHHHHHHHHHhCCCccEEEEEEEccceecceeEEEECCCCCCCcchhhhhhHHHHHHHhhh
Confidence                                 00001   000                       1111111111111            


Q ss_pred             ----------hHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         363 ----------TKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       363 ----------~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                                .+.+..+++|++=|-|+-|.+.+.+..||.+.++|.+.-.++.....-+.+||..||
T Consensus       216 s~~dp~af~~~G~l~~aNrGi~ef~E~~K~~~~~L~~LL~~tqEg~ik~~~~~~~i~~D~liiAhsN  282 (358)
T PF08298_consen  216 SESDPRAFSYSGELNRANRGIMEFVEMLKAPIEFLHPLLTATQEGNIKVDEDFGMIPFDELIIAHSN  282 (358)
T ss_pred             ccCCCeeEeeccHHHHhhchhHHHHHHhcCcHHHHHHHhcchhcCceecCCcccccccceeEEecCC
Confidence                      123444567888888999999999999999999999887433322345678999999

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK06921 hypothetical protein; Provisional

Probab=97.13  E-value=0.0012  Score=65.04  Aligned_cols=107  Identities=21%  Similarity=0.241  Sum_probs=60.6

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      -.++|+|++|+|||.|+.+++..+..........+.....     ...+-.   .+   +........+.  .-.+|+||
T Consensus       118 ~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l-----~~~l~~---~~---~~~~~~~~~~~--~~dlLiID  184 (266)
T PRK06921        118 NSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEG-----FGDLKD---DF---DLLEAKLNRMK--KVEVLFID  184 (266)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHH-----HHHHHH---HH---HHHHHHHHHhc--CCCEEEEe
Confidence            3689999999999999999999875431122222222111     111100   00   00001112222  34699999


Q ss_pred             cCCc-------cCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         378 EVDK-------AHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       378 Eiek-------~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      |++.       ...-.+..|..+++... .         .+.-+|+|||....++..
T Consensus       185 Dl~~~~~g~e~~t~~~~~~lf~iin~R~-~---------~~k~tIitsn~~~~el~~  231 (266)
T PRK06921        185 DLFKPVNGKPRATEWQIEQMYSVLNYRY-L---------NHKPILISSELTIDELLD  231 (266)
T ss_pred             ccccccCCCccCCHHHHHHHHHHHHHHH-H---------CCCCEEEECCCCHHHHhh
Confidence            9943       44555677888886321 1         111268899998887753

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.01  E-value=0.0075  Score=70.27  Aligned_cols=109  Identities=29%  Similarity=0.460  Sum_probs=77.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCC------chhhHHHhhCCCe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDG------GQLTKRLKKCPNA  372 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~------~~l~~~~~~~~~~  372 (607)
                      ++++.||+.+|||.+...+|+....+    |++++--+   |.+..+++|.   |+..+.|      |.+.+++++.  -
T Consensus       890 P~LiQGpTSSGKTSMI~yla~~tghk----fVRINNHE---HTdlqeYiGT---yvTdd~G~lsFkEGvLVeAlR~G--y  957 (4600)
T COG5271         890 PLLIQGPTSSGKTSMILYLARETGHK----FVRINNHE---HTDLQEYIGT---YVTDDDGSLSFKEGVLVEALRRG--Y  957 (4600)
T ss_pred             cEEEecCCCCCcchHHHHHHHHhCcc----EEEecCcc---cchHHHHhhc---eeecCCCceeeehhHHHHHHhcC--c
Confidence            78999999999999999999987554    99998644   4457788874   3333333      4567777654  4


Q ss_pred             EEEEecCCccCHHHHHHHHHhhccce-eecCCC-cEEe-cCceEEEEecC
Q psy1308         373 VVLFDEVDKAHPDVLTVLLQLFDEGR-LTDGKG-KTIE-CKDAIFVMTSN  419 (607)
Q Consensus       373 vl~lDEiek~~~~~~~~Ll~~~~~~~-~~~~~g-~~~~-~~~~~iI~tsn  419 (607)
                      -|++||..-+|.+|+.+|=+++++.+ +..+.. ..+. --+.++.+|-|
T Consensus       958 WIVLDELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQN 1007 (4600)
T COG5271         958 WIVLDELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQN 1007 (4600)
T ss_pred             EEEeeccccCcHHHHHHHHHhhccccceecCCcceeeccCCCeeEEeecC
Confidence            78999999999999999999998654 333322 2232 34455555655

>smart00248 ANK ankyrin repeats

Probab=97.01  E-value=0.0012  Score=39.69  Aligned_cols=28  Identities=54%  Similarity=0.870  Sum_probs=20.6

Q ss_pred             CCcHHHHHHHcCCHHHHHHHHHcCCCCC
Q psy1308         120 GWTPLHVAAINGKVDNVRVLLEAGANPN  147 (607)
Q Consensus       120 g~tpLh~A~~~g~~~~v~~Ll~~ga~~~  147 (607)
                      |.||||+|+..++.+++++|++.|.+++
T Consensus         2 ~~~~l~~~~~~~~~~~~~~ll~~~~~~~   29 (30)
T smart00248        2 GRTPLHLAAENGNLEVVKLLLDKGADIN   29 (30)
T ss_pred             CCCHHHHHHHcCCHHHHHHHHHcCCCCC
Confidence            6677777777777777777777776654

Ankyrin repeats are about 33 amino acids long and occur in at least four consecutive copies. They are involved in protein-protein interactions. The core of the repeat seems to be an helix-loop-helix structure.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.88  E-value=0.033  Score=60.08  Aligned_cols=52  Identities=21%  Similarity=0.255  Sum_probs=38.7

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .++.+..-++.+...+.....+.   .....+++.||+|+|||..++.|++.+..
T Consensus        20 eLavhkkKv~eV~~wl~~~~~~~---~~~~iLlLtGP~G~GKtttv~~La~elg~   71 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFSGS---SPKRILLLTGPSGCGKTTTVKVLAKELGF   71 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhccC---CCcceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35566777888888777654332   12237899999999999999999999744

>PHA01747 putative ATP-dependent protease

Probab=96.86  E-value=0.0099  Score=59.43  Aligned_cols=106  Identities=21%  Similarity=0.225  Sum_probs=71.8

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCC-CccCCCCchhhHHHhhCCCeEE
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPG-YLGHDDGGQLTKRLKKCPNAVV  374 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g-~~g~~~~~~l~~~~~~~~~~vl  374 (607)
                      ++.+++=.||.|||||.+-+.+.+..+.      ..     ..+...+++||..... ..|         ++  ....+|
T Consensus       189 ~NyNliELgPRGTGKS~~f~eis~fsp~------~i-----SGG~~TvA~LFyN~~t~~~G---------LV--g~~D~V  246 (425)
T PHA01747        189 RPVHIIELSNRGTGKTTTFVILQELFNF------RY-----YTEPPTYANLVYDAKTNALG---------LV--FLSNGL  246 (425)
T ss_pred             CCeeEEEecCCCCChhhHHHHhhhcCCc------ee-----eCCCCchHHheEecCCCcee---------EE--eeccEE
Confidence            4668899999999999999988653221      11     3345556777743211 111         11  124589


Q ss_pred             EEecCCccC----HHHHHHHHHhhccceeecCCCcEE----ecCceEEEEecCcchH
Q psy1308         375 LFDEVDKAH----PDVLTVLLQLFDEGRLTDGKGKTI----ECKDAIFVMTSNLASN  423 (607)
Q Consensus       375 ~lDEiek~~----~~~~~~Ll~~~~~~~~~~~~g~~~----~~~~~~iI~tsn~~~~  423 (607)
                      .||||....    .++...|...|++|.++++.+...    -..++=+||..|....
T Consensus       247 aFDEVa~i~f~~~kdiv~IMKdYMesG~FsRG~~~~ss~~sI~a~asiVf~GNin~~  303 (425)
T PHA01747        247 IFDEIQTWKDSNMRAINSTLSTGMENCVWTRGAGTESDAATIVRCIPIIFAGNPDSS  303 (425)
T ss_pred             EEEccccccCCCHHHHHHHHHHHhhcceeecCCCCcccchhhccceeEEEecCCCCc
Confidence            999999864    578899999999999999875322    1236678999997643

>smart00248 ANK ankyrin repeats

Probab=96.83  E-value=0.0016  Score=39.13  Aligned_cols=28  Identities=50%  Similarity=0.697  Sum_probs=25.0

Q ss_pred             CcchhhHHHhcCCHHHHHHHHhcCCCCC
Q psy1308         189 GFSALHYGVVAGNTEVVELLLKSGADPT  216 (607)
Q Consensus       189 g~TpLh~A~~~g~~~~v~~Ll~~gad~~  216 (607)
                      |.||+|+|+..++.+++++|+++|.+++
T Consensus         2 ~~~~l~~~~~~~~~~~~~~ll~~~~~~~   29 (30)
T smart00248        2 GRTPLHLAAENGNLEVVKLLLDKGADIN   29 (30)
T ss_pred             CCCHHHHHHHcCCHHHHHHHHHcCCCCC
Confidence            7899999999999999999999988764

Ankyrin repeats are about 33 amino acids long and occur in at least four consecutive copies. They are involved in protein-protein interactions. The core of the repeat seems to be an helix-loop-helix structure.

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=96.72  E-value=0.011  Score=59.27  Aligned_cols=125  Identities=21%  Similarity=0.288  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccch----hHhhhcC
Q psy1308         275 SAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHE----VAKLIGA  349 (607)
Q Consensus       275 ~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~----~~~llg~  349 (607)
                      ..++.+...+....      .....+.++|++|+|||.+|+.+++...... -+..+-++.+.......    +...++.
T Consensus         3 ~~~~~l~~~L~~~~------~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~   76 (287)
T PF00931_consen    3 KEIEKLKDWLLDNS------NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGE   76 (287)
T ss_dssp             HHHHHHHHHHHTTT------TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhhCCC------CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccc
Confidence            34555555555432      1234899999999999999999887632211 22333344443332222    2333443


Q ss_pred             CCCCc-cCCCC----chhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         350 PPGYL-GHDDG----GQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       350 ~~g~~-g~~~~----~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      ...-. .....    ..+.+.+... ..+++||+++...  .++.|...+...           -.++.||+||.
T Consensus        77 ~~~~~~~~~~~~~~~~~l~~~L~~~-~~LlVlDdv~~~~--~~~~l~~~~~~~-----------~~~~kilvTTR  137 (287)
T PF00931_consen   77 PDSSISDPKDIEELQDQLRELLKDK-RCLLVLDDVWDEE--DLEELREPLPSF-----------SSGSKILVTTR  137 (287)
T ss_dssp             C-STSSCCSSHHHHHHHHHHHHCCT-SEEEEEEEE-SHH--HH-------HCH-----------HSS-EEEEEES
T ss_pred             cccccccccccccccccchhhhccc-cceeeeeeecccc--cccccccccccc-----------ccccccccccc
Confidence            32111 11111    1233334333 8999999988554  333333333211           12556888887

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=96.71  E-value=0.0079  Score=61.92  Aligned_cols=100  Identities=28%  Similarity=0.362  Sum_probs=65.2

Q ss_pred             ceeeeeccCCCChhHHHHHHHHH-hccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFY-IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~-l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      ..+++.||+|||||.++..+..+ ....  .+|+           ..++|+..-..        ...+.  -....+|+|
T Consensus       210 ~Nli~lGp~GTGKThla~~l~~~~a~~s--G~f~-----------T~a~Lf~~L~~--------~~lg~--v~~~DlLI~  266 (449)
T TIGR02688       210 YNLIELGPKGTGKSYIYNNLSPYVILIS--GGTI-----------TVAKLFYNIST--------RQIGL--VGRWDVVAF  266 (449)
T ss_pred             CcEEEECCCCCCHHHHHHHHhHHHHHHc--CCcC-----------cHHHHHHHHHH--------HHHhh--hccCCEEEE
Confidence            36889999999999999998866 2222  1121           13333321000        11111  123569999


Q ss_pred             ecCCccC----HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcch
Q psy1308         377 DEVDKAH----PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLAS  422 (607)
Q Consensus       377 DEiek~~----~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~  422 (607)
                      ||+..++    .+.+..|...|++|.++.+..  .-..++=++|..|+..
T Consensus       267 DEvgylp~~~~~~~v~imK~yMesg~fsRG~~--~~~a~as~vfvGNi~~  314 (449)
T TIGR02688       267 DEVATLKFAKPKELIGILKNYMESGSFTRGDE--TKSSDASFVFLGNVPL  314 (449)
T ss_pred             EcCCCCcCCchHHHHHHHHHHHHhCceeccce--eeeeeeEEEEEcccCC
Confidence            9999854    347788888999999998543  3346788999999764

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>PRK10536 hypothetical protein; Provisional

Probab=96.70  E-value=0.01  Score=57.29  Aligned_cols=93  Identities=19%  Similarity=0.237  Sum_probs=53.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCch----------------h
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQ----------------L  362 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~----------------l  362 (607)
                      .+++.|++|||||.++.+++......+.  +..+-++.-  .....+.+|.-||.....-...                +
T Consensus        76 lV~i~G~aGTGKT~La~a~a~~~l~~~~--~~kIiI~RP--~v~~ge~LGfLPG~~~eK~~p~~~pi~D~L~~~~~~~~~  151 (262)
T PRK10536         76 LIFATGEAGCGKTWISAAKAAEALIHKD--VDRIIVTRP--VLQADEDLGFLPGDIAEKFAPYFRPVYDVLVRRLGASFM  151 (262)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCC--eeEEEEeCC--CCCchhhhCcCCCCHHHHHHHHHHHHHHHHHHHhChHHH
Confidence            5778999999999999999875321112  332222211  1112344454444221110000                0


Q ss_pred             ---------------hHHHhhC--CCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         363 ---------------TKRLKKC--PNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       363 ---------------~~~~~~~--~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                                     ...++..  +.++|++||+..+++.....++.-+.
T Consensus       152 ~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~ltR~g  201 (262)
T PRK10536        152 QYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLTRLG  201 (262)
T ss_pred             HHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHhhcC
Confidence                           0112222  25899999999999998888887765

>KOG0477|consensus

Probab=96.66  E-value=0.0054  Score=64.74  Aligned_cols=140  Identities=19%  Similarity=0.200  Sum_probs=84.2

Q ss_pred             HhHhhhhHHHHHHHHHHHHHhhCCCCCCC----CCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEEeecccccc
Q psy1308         267 KDRIVGQESAINIISAAIKRKENGWTDDD----HPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIRLDMSEYQE  339 (607)
Q Consensus       267 ~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~----~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~l~~a~~~~  339 (607)
                      ...+.|.......+..++-..........    .-..+|++|-||+||+.+.|.+++..++.-   ..+-..+-...+..
T Consensus       448 aPsIyGh~~VK~AvAlaLfGGv~kn~~~khkvRGDinvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~  527 (854)
T KOG0477|consen  448 APSIYGHEDVKRAVALALFGGVPKNPGGKHKVRGDINVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVR  527 (854)
T ss_pred             CchhhchHHHHHHHHHHHhcCCccCCCCCceeccceeEEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEe
Confidence            34567777777766666543332222221    234899999999999999999998765420   11111222222211


Q ss_pred             cchhH-hhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCC-Cc-EEecCceEEEE
Q psy1308         340 KHEVA-KLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGK-GK-TIECKDAIFVM  416 (607)
Q Consensus       340 ~~~~~-~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~-g~-~~~~~~~~iI~  416 (607)
                      .+-+. ++.             .-.+++--+..||-+|||+||+...=...+-..|+...+...+ |- +.--..+.+|+
T Consensus       528 KdPvtrEWT-------------LEaGALVLADkGvClIDEFDKMndqDRtSIHEAMEQQSISISKAGIVtsLqArctvIA  594 (854)
T KOG0477|consen  528 KDPVTREWT-------------LEAGALVLADKGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARCTVIA  594 (854)
T ss_pred             eCCccceee-------------eccCeEEEccCceEEeehhhhhcccccchHHHHHHhcchhhhhhhHHHHHHhhhhhhe
Confidence            11111 010             0113344577899999999999988778888899988877653 22 22224566888


Q ss_pred             ecC
Q psy1308         417 TSN  419 (607)
Q Consensus       417 tsn  419 (607)
                      ++|
T Consensus       595 Aan  597 (854)
T KOG0477|consen  595 AAN  597 (854)
T ss_pred             ecC
Confidence            888

>KOG0479|consensus

Probab=96.65  E-value=0.0087  Score=62.79  Aligned_cols=141  Identities=14%  Similarity=0.152  Sum_probs=86.8

Q ss_pred             HHHHHHhHhhhhHHHHHHHHHHHHHhh-CCCCC---CCCCceeeeeccCCCChhHHHHHHHHHhcc--------CcCCce
Q psy1308         262 LEQRLKDRIVGQESAINIISAAIKRKE-NGWTD---DDHPLVFLFLGSSGIGKTELAKQLAFYIHR--------DKKEAF  329 (607)
Q Consensus       262 L~~~l~~~i~Gq~~ai~~l~~~i~~~~-~~~~~---~~~p~~~ll~G~~G~GKt~la~~la~~l~~--------~~~~~~  329 (607)
                      |...|...+.|.+...+.+..++.-.. ..+.+   -...+.+|+.|-|.+.|+.|.|.+......        ++.-++
T Consensus       295 La~SLAPSI~GH~~vKkAillLLlGGvEk~L~NGshlRGDINiLlvGDPSvAKSQLLRyVLntAplAI~TTGRGSSGVGL  374 (818)
T KOG0479|consen  295 LARSLAPSIYGHDYVKKAILLLLLGGVEKNLENGSHLRGDINILLVGDPSVAKSQLLRYVLNTAPLAIATTGRGSSGVGL  374 (818)
T ss_pred             HhhccCcccccHHHHHHHHHHHHhccceeccCCCceeccceeEEEecCchHHHHHHHHHHHhcccccccccCCCCCCccc
Confidence            344456678898888887766654321 11222   223458999999999999999988765322        111122


Q ss_pred             EEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCC-CcEEe
Q psy1308         330 IRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGK-GKTIE  408 (607)
Q Consensus       330 ~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~-g~~~~  408 (607)
                      ++-   .-.+..            +|  +...-.+++--+.+|||+|||+||++.-=.-++-++||.++++..+ |-...
T Consensus       375 TAA---VTtD~e------------TG--ERRLEAGAMVLADRGVVCIDEFDKMsDiDRvAIHEVMEQqtVTIaKAGIHas  437 (818)
T KOG0479|consen  375 TAA---VTTDQE------------TG--ERRLEAGAMVLADRGVVCIDEFDKMSDIDRVAIHEVMEQQTVTIAKAGIHAS  437 (818)
T ss_pred             eeE---Eeeccc------------cc--hhhhhcCceEEccCceEEehhcccccchhHHHHHHHHhcceEEeEeccchhh
Confidence            211   111000            01  1111233445577999999999999998888899999999998753 43222


Q ss_pred             c-CceEEEEecC
Q psy1308         409 C-KDAIFVMTSN  419 (607)
Q Consensus       409 ~-~~~~iI~tsn  419 (607)
                      . ..|-++++.|
T Consensus       438 LNARCSVlAAAN  449 (818)
T KOG0479|consen  438 LNARCSVLAAAN  449 (818)
T ss_pred             hccceeeeeecC
Confidence            1 3455788877

>KOG0482|consensus

Probab=96.64  E-value=0.01  Score=61.28  Aligned_cols=128  Identities=15%  Similarity=0.177  Sum_probs=78.7

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCC-C---CCCCceeeeeccCCCChhHHHHHHHHHhccCc-----CCceEE
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIKRKENGWT-D---DDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-----KEAFIR  331 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~-~---~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-----~~~~~~  331 (607)
                      .|...+...+.|..+..+.+.-++.-...... +   -..-+.++++|-||+.|+.|.+.+.+...+.-     ..+=+-
T Consensus       335 kLa~SiAPEIyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlapRgvYTTGrGSSGVG  414 (721)
T KOG0482|consen  335 KLAASIAPEIYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAPRGVYTTGRGSSGVG  414 (721)
T ss_pred             HHHHhhchhhccchHHHHHHHHHhhCCCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCcccceecCCCCCccc
Confidence            35555667789999888887766643322111 1   12235899999999999999999998764420     000001


Q ss_pred             eecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecC
Q psy1308         332 LDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDG  402 (607)
Q Consensus       332 l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~  402 (607)
                      +..+...+.-            +|  +.-.-.+++--+.+||-+|||+||+...-...+-++||..++...
T Consensus       415 LTAAVmkDpv------------Tg--EM~LEGGALVLAD~GICCIDEfDKM~e~DRtAIHEVMEQQTISIa  471 (721)
T KOG0482|consen  415 LTAAVMKDPV------------TG--EMVLEGGALVLADGGICCIDEFDKMDESDRTAIHEVMEQQTISIA  471 (721)
T ss_pred             cchhhhcCCC------------CC--eeEeccceEEEccCceEeehhhhhhhhhhhHHHHHHHHhhhhhhh
Confidence            1111111100            00  000011234457789999999999999988999999998876654

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=96.58  E-value=0.0039  Score=57.79  Aligned_cols=62  Identities=24%  Similarity=0.374  Sum_probs=38.1

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY  337 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~  337 (607)
                      ++|.+..++.+...+. ..    ....+..++++|++|+|||.+.+.+...+... ..-+..+++...
T Consensus         2 fvgR~~e~~~l~~~l~-~~----~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~-~~~~~~~~~~~~   63 (185)
T PF13191_consen    2 FVGREEEIERLRDLLD-AA----QSGSPRNLLLTGESGSGKTSLLRALLDRLAER-GGYVISINCDDS   63 (185)
T ss_dssp             -TT-HHHHHHHHHTTG-GT----SS-----EEE-B-TTSSHHHHHHHHHHHHHHH-T--EEEEEEETT
T ss_pred             CCCHHHHHHHHHHHHH-HH----HcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc-CCEEEEEEEecc
Confidence            5678888888877775 21    12224579999999999999999888887654 222666666655

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.41  E-value=0.0083  Score=52.77  Aligned_cols=101  Identities=18%  Similarity=0.279  Sum_probs=56.6

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCc----------------CCceEEeecccccccchhHhhhcC-CCC-CccCCC
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDK----------------KEAFIRLDMSEYQEKHEVAKLIGA-PPG-YLGHDD  358 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~----------------~~~~~~l~~a~~~~~~~~~~llg~-~~g-~~g~~~  358 (607)
                      ++.+.++|+||+|||++++.+++.+...+                ..+|..+|.+.-........-+|. .-| |.-.-+
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~V~v~   84 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYGVNVE   84 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEEeeHH
Confidence            45789999999999999999998874421                235566666533221111111111 001 111000


Q ss_pred             C--chhhHHHhhCC--CeEEEEecCCcc---CHHHHHHHHHhhccc
Q psy1308         359 G--GQLTKRLKKCP--NAVVLFDEVDKA---HPDVLTVLLQLFDEG  397 (607)
Q Consensus       359 ~--~~l~~~~~~~~--~~vl~lDEiek~---~~~~~~~Ll~~~~~~  397 (607)
                      .  ......++++-  -.++++|||.++   ++.+.+.+-++++.+
T Consensus        85 ~le~i~~~al~rA~~~aDvIIIDEIGpMElks~~f~~~ve~vl~~~  130 (179)
T COG1618          85 GLEEIAIPALRRALEEADVIIIDEIGPMELKSKKFREAVEEVLKSG  130 (179)
T ss_pred             HHHHHhHHHHHHHhhcCCEEEEecccchhhccHHHHHHHHHHhcCC
Confidence            0  01223444432  369999999987   456666777777643

>PRK14974 cell division protein FtsY; Provisional

Probab=96.38  E-value=0.13  Score=52.33  Aligned_cols=120  Identities=22%  Similarity=0.347  Sum_probs=65.5

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc-----hhHhhhcCC--CCCccCCCCchhhHH--
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH-----EVAKLIGAP--PGYLGHDDGGQLTKR--  365 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~-----~~~~llg~~--~g~~g~~~~~~l~~~--  365 (607)
                      .+|..++|.|++|+|||.++..++..+... .....-+++..|....     ...+.+|.+  +++.|.+........  
T Consensus       138 ~~~~vi~~~G~~GvGKTTtiakLA~~l~~~-g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~  216 (336)
T PRK14974        138 GKPVVIVFVGVNGTGKTTTIAKLAYYLKKN-GFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIE  216 (336)
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHH
Confidence            357799999999999999999999876443 2222233433332211     122333321  112221111111222  


Q ss_pred             -HhhCCCeEEEEecCCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHH
Q psy1308         366 -LKKCPNAVVLFDEVDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEI  425 (607)
Q Consensus       366 -~~~~~~~vl~lDEiek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i  425 (607)
                       .+.....+|++|....++  ......|-.+.+.          +....+++++.+..|.+.+
T Consensus       217 ~~~~~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~----------~~pd~~iLVl~a~~g~d~~  269 (336)
T PRK14974        217 HAKARGIDVVLIDTAGRMHTDANLMDELKKIVRV----------TKPDLVIFVGDALAGNDAV  269 (336)
T ss_pred             HHHhCCCCEEEEECCCccCCcHHHHHHHHHHHHh----------hCCceEEEeeccccchhHH
Confidence             233456799999999996  4455566555431          1123456777776665544

>KOG2680|consensus

Probab=96.38  E-value=0.021  Score=55.21  Aligned_cols=100  Identities=15%  Similarity=0.320  Sum_probs=72.7

Q ss_pred             CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCccccc
Q psy1308         371 NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQ  450 (607)
Q Consensus       371 ~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~  450 (607)
                      .||+|+||++.++-+...+|=+.+++-           + -.++|++||.|-..+..                   ++..
T Consensus       289 pGVLFIDEvHMLDIEcFsFlNrAlE~d-----------~-~PiiimaTNrgit~iRG-------------------Tn~~  337 (454)
T KOG2680|consen  289 PGVLFIDEVHMLDIECFSFLNRALEND-----------M-APIIIMATNRGITRIRG-------------------TNYR  337 (454)
T ss_pred             cceEEEeeehhhhhHHHHHHHHHhhhc-----------c-CcEEEEEcCCceEEeec-------------------CCCC
Confidence            589999999999999999999999842           2 34788899966543311                   1111


Q ss_pred             CCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHH
Q psy1308         451 GSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETI  530 (607)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~  530 (607)
                      .+                    ... +-+|+.|+ -++...|++.+|+.+|+..-..       +.   .+.++++|+++
T Consensus       338 Sp--------------------hGi-P~D~lDR~-lII~t~py~~~d~~~IL~iRc~-------EE---dv~m~~~A~d~  385 (454)
T KOG2680|consen  338 SP--------------------HGI-PIDLLDRM-LIISTQPYTEEDIKKILRIRCQ-------EE---DVEMNPDALDL  385 (454)
T ss_pred             CC--------------------CCC-cHHHhhhh-heeecccCcHHHHHHHHHhhhh-------hh---ccccCHHHHHH
Confidence            10                    012 37888888 6788899999999999765442       22   67889999999


Q ss_pred             HHc
Q psy1308         531 LAD  533 (607)
Q Consensus       531 L~~  533 (607)
                      |..
T Consensus       386 Lt~  388 (454)
T KOG2680|consen  386 LTK  388 (454)
T ss_pred             HHH
Confidence            985

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=96.33  E-value=0.018  Score=59.28  Aligned_cols=112  Identities=21%  Similarity=0.287  Sum_probs=64.0

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc--cchhHhhhcCCCCCccCCCCchhhHHHhhCCCeE
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE--KHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAV  373 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~--~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~v  373 (607)
                      .|.-+.++|+.|+|||.|.-.....+....   -.+++.-.+..  +..+.++-|..      +.-..+...+ .....+
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~---k~R~HFh~Fm~~vh~~l~~~~~~~------~~l~~va~~l-~~~~~l  130 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKR---KRRVHFHEFMLDVHSRLHQLRGQD------DPLPQVADEL-AKESRL  130 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCccc---cccccccHHHHHHHHHHHHHhCCC------ccHHHHHHHH-HhcCCE
Confidence            455899999999999999999888876531   22333322221  11222222110      0011111222 223449


Q ss_pred             EEEecCCccCHH---HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHh
Q psy1308         374 VLFDEVDKAHPD---VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHAL  430 (607)
Q Consensus       374 l~lDEiek~~~~---~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~  430 (607)
                      |+|||++=-++.   ++..|++.+=             -..+++|+|||...+.+-+.++
T Consensus       131 LcfDEF~V~DiaDAmil~rLf~~l~-------------~~gvvlVaTSN~~P~~Ly~~gl  177 (362)
T PF03969_consen  131 LCFDEFQVTDIADAMILKRLFEALF-------------KRGVVLVATSNRPPEDLYKNGL  177 (362)
T ss_pred             EEEeeeeccchhHHHHHHHHHHHHH-------------HCCCEEEecCCCChHHHcCCcc
Confidence            999998755443   4444554331             1457899999999988865443

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>PRK04296 thymidine kinase; Provisional

Probab=96.31  E-value=0.013  Score=54.70  Aligned_cols=95  Identities=14%  Similarity=0.145  Sum_probs=47.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec--ccccccchhHhhhcCCCCCccCCCCchhhHHHh--hCCCeEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM--SEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLK--KCPNAVV  374 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~--a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~--~~~~~vl  374 (607)
                      ..+++||+|+|||.++..++..+... ......+.-  ....+...+..-+|.............+...+.  .....+|
T Consensus         4 i~litG~~GsGKTT~~l~~~~~~~~~-g~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~dvv   82 (190)
T PRK04296          4 LEFIYGAMNSGKSTELLQRAYNYEER-GMKVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEEEGEKIDCV   82 (190)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHc-CCeEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHhhCCCCCEE
Confidence            46789999999998887777665433 222222211  111111112222221111000011122222332  2346799


Q ss_pred             EEecCCccCHHHHHHHHHhh
Q psy1308         375 LFDEVDKAHPDVLTVLLQLF  394 (607)
Q Consensus       375 ~lDEiek~~~~~~~~Ll~~~  394 (607)
                      ++||+.-++.+.+..|++.+
T Consensus        83 iIDEaq~l~~~~v~~l~~~l  102 (190)
T PRK04296         83 LIDEAQFLDKEQVVQLAEVL  102 (190)
T ss_pred             EEEccccCCHHHHHHHHHHH
Confidence            99999998877444455553

>KOG0736|consensus

Probab=96.30  E-value=0.027  Score=61.30  Aligned_cols=99  Identities=23%  Similarity=0.404  Sum_probs=63.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch---hHhhhcCCCCCccCCCCchhhHHHhhCCCeEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE---VAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVL  375 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~---~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~  375 (607)
                      +++++|++|+||+.+++..+.++...    +..+||.++..+..   ..++             .......+..+.+|||
T Consensus       433 ~vLLhG~~g~GK~t~V~~vas~lg~h----~~evdc~el~~~s~~~~etkl-------------~~~f~~a~~~~pavif  495 (953)
T KOG0736|consen  433 SVLLHGPPGSGKTTVVRAVASELGLH----LLEVDCYELVAESASHTETKL-------------QAIFSRARRCSPAVLF  495 (953)
T ss_pred             EEEEeCCCCCChHHHHHHHHHHhCCc----eEeccHHHHhhcccchhHHHH-------------HHHHHHHhhcCceEEE
Confidence            79999999999999999999998654    88888876543221   1121             1234556677788999


Q ss_pred             EecCCccC--------HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         376 FDEVDKAH--------PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       376 lDEiek~~--------~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                      |-..|-+.        ..++..+-..+.+      +-.+.++..++||+|++.
T Consensus       496 l~~~dvl~id~dgged~rl~~~i~~~ls~------e~~~~~~~~~ivv~t~~s  542 (953)
T KOG0736|consen  496 LRNLDVLGIDQDGGEDARLLKVIRHLLSN------EDFKFSCPPVIVVATTSS  542 (953)
T ss_pred             EeccceeeecCCCchhHHHHHHHHHHHhc------ccccCCCCceEEEEeccc
Confidence            88766542        1233333333331      111235667889998774

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=96.20  E-value=0.019  Score=53.82  Aligned_cols=121  Identities=24%  Similarity=0.359  Sum_probs=71.2

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccC-cCCceEEeecccccccch---hHhhhcCCCC--CccCCCCchhhHHH---h
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRD-KKEAFIRLDMSEYQEKHE---VAKLIGAPPG--YLGHDDGGQLTKRL---K  367 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~-~~~~~~~l~~a~~~~~~~---~~~llg~~~g--~~g~~~~~~l~~~~---~  367 (607)
                      |.+++|.||+|+|||..+-.||..+... .+-.++..|.-......+   .++.+|.+--  +...+....+...+   +
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~   80 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFR   80 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHh
Confidence            5578999999999999998888776433 234556666544333322   3555553211  11111111222233   3


Q ss_pred             hCCCeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         368 KCPNAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       368 ~~~~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      .....+||+|-..+.+.+  ....|.++++.-          ...++++++.++.+.+.+..
T Consensus        81 ~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~----------~~~~~~LVlsa~~~~~~~~~  132 (196)
T PF00448_consen   81 KKGYDLVLIDTAGRSPRDEELLEELKKLLEAL----------NPDEVHLVLSATMGQEDLEQ  132 (196)
T ss_dssp             HTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHH----------SSSEEEEEEEGGGGGHHHHH
T ss_pred             hcCCCEEEEecCCcchhhHHHHHHHHHHhhhc----------CCccceEEEecccChHHHHH
Confidence            445689999999988744  445555555421          23467899999988887653

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=96.17  E-value=0.48  Score=49.40  Aligned_cols=80  Identities=14%  Similarity=0.127  Sum_probs=50.6

Q ss_pred             hhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccch---hHHHHHHHHH
Q psy1308         478 DEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSI---KHEVERQVVS  554 (607)
Q Consensus       478 ~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L---~~~i~~~i~~  554 (607)
                      +.|.+....+|...||+.+++..+..+...=    +...++..-.++++.+..+++......|+..-   |.+|... ++
T Consensus       318 ~~~~n~~~pvIrL~~l~~eel~~l~~klr~i----~a~~~~~~~~v~d~~l~~~~~~~~~r~G~~~~~tPR~~ik~f-v~  392 (416)
T PF10923_consen  318 DGFDNLRAPVIRLQPLTPEELLELLEKLRDI----YAEAYGYESRVDDEELKAFAQHVAGRLGGDVFVTPREFIKDF-VD  392 (416)
T ss_pred             ccccCccCceecCCCCCHHHHHHHHHHHHHH----HHhhCCCCCCCCHHHHHHHHHHHHhccCcccccCHHHHHHHH-HH
Confidence            5666666778899999999999775544432    23335666788998888877534444444322   6666554 46


Q ss_pred             HHHHHHHh
Q psy1308         555 QLAAAHEK  562 (607)
Q Consensus       555 ~l~~~~l~  562 (607)
                      -|...-..
T Consensus       393 ~Ld~~~q~  400 (416)
T PF10923_consen  393 VLDILEQN  400 (416)
T ss_pred             HHHHHHHC
Confidence            66544433

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.16  E-value=0.069  Score=55.36  Aligned_cols=125  Identities=18%  Similarity=0.257  Sum_probs=71.0

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccC-----cCCceEEeecccccccch---hHhhhcCCCCCccCCCCchhhHHH
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRD-----KKEAFIRLDMSEYQEKHE---VAKLIGAPPGYLGHDDGGQLTKRL  366 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~-----~~~~~~~l~~a~~~~~~~---~~~llg~~~g~~g~~~~~~l~~~~  366 (607)
                      .+|..++|.||+|+|||..+..+|..+...     .+-.++..|+-.......   ..+.+|.+- ... .....+...+
T Consensus       172 ~~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv-~~~-~~~~~l~~~L  249 (388)
T PRK12723        172 LKKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPV-KAI-ESFKDLKEEI  249 (388)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcce-Eee-CcHHHHHHHH
Confidence            446689999999999999999998765421     122344444321111111   133333321 111 1112333333


Q ss_pred             h-hCCCeEEEEecCCccCHHHH--HHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHh
Q psy1308         367 K-KCPNAVVLFDEVDKAHPDVL--TVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHAL  430 (607)
Q Consensus       367 ~-~~~~~vl~lDEiek~~~~~~--~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~  430 (607)
                      . .....+|++|++++.+.+..  ..+.++++...         ....+++++.++.+...+.+..-
T Consensus       250 ~~~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~---------~~~e~~LVlsat~~~~~~~~~~~  307 (388)
T PRK12723        250 TQSKDFDLVLVDTIGKSPKDFMKLAEMKELLNACG---------RDAEFHLAVSSTTKTSDVKEIFH  307 (388)
T ss_pred             HHhCCCCEEEEcCCCCCccCHHHHHHHHHHHHhcC---------CCCeEEEEEcCCCCHHHHHHHHH
Confidence            2 34578999999999986543  45555555321         01256788888888877765443

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=96.04  E-value=0.038  Score=57.32  Aligned_cols=134  Identities=19%  Similarity=0.314  Sum_probs=76.2

Q ss_pred             hHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec---c--cccccchhHhhh
Q psy1308         273 QESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM---S--EYQEKHEVAKLI  347 (607)
Q Consensus       273 q~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~---a--~~~~~~~~~~ll  347 (607)
                      |..+.+.+..++..        ..|..+.+.|+.|||||.+.+.|...+... .......-.   |  .+.+...+.++|
T Consensus         6 Q~~~~~~v~~~~~~--------~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~-~~~~~~~a~tg~AA~~i~~G~T~hs~f   76 (364)
T PF05970_consen    6 QRRVFDTVIEAIEN--------EEGLNFFVTGPAGTGKSFLIKAIIDYLRSR-GKKVLVTAPTGIAAFNIPGGRTIHSFF   76 (364)
T ss_pred             HHHHHHHHHHHHHc--------cCCcEEEEEcCCCCChhHHHHHHHHHhccc-cceEEEecchHHHHHhccCCcchHHhc
Confidence            56666666666543        235678899999999999999999887553 222221111   1  121333445555


Q ss_pred             cCCCCCccCCCC-----chhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         348 GAPPGYLGHDDG-----GQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       348 g~~~g~~g~~~~-----~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      +-+.+.......     ......++.  -.+|++|||-.++..+.+.+-+.+..-.-.  ......|....+|+...
T Consensus        77 ~i~~~~~~~~~~~~~~~~~~~~~l~~--~~~lIiDEism~~~~~l~~i~~~lr~i~~~--~~~~~pFGG~~vil~GD  149 (364)
T PF05970_consen   77 GIPINNNEKSQCKISKNSRLRERLRK--ADVLIIDEISMVSADMLDAIDRRLRDIRKS--KDSDKPFGGKQVILFGD  149 (364)
T ss_pred             Cccccccccccccccccchhhhhhhh--heeeecccccchhHHHHHHHHHhhhhhhcc--cchhhhcCcceEEeehh
Confidence            543332211111     112222222  359999999999999888776666522111  00134566667777655

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.92  E-value=0.16  Score=52.19  Aligned_cols=122  Identities=16%  Similarity=0.251  Sum_probs=69.0

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc--ccchh---HhhhcCCCCCccCCCCchhhHHHhhC
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ--EKHEV---AKLIGAPPGYLGHDDGGQLTKRLKKC  369 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~--~~~~~---~~llg~~~g~~g~~~~~~l~~~~~~~  369 (607)
                      .+|..++|.||+|+|||.++..|+..+... ......+++..+.  .-...   .+..|.+ -++. .....+...++..
T Consensus       239 ~~~~vI~LVGptGvGKTTTiaKLA~~L~~~-GkkVglI~aDt~RiaAvEQLk~yae~lgip-v~v~-~d~~~L~~aL~~l  315 (436)
T PRK11889        239 KEVQTIALIGPTGVGKTTTLAKMAWQFHGK-KKTVGFITTDHSRIGTVQQLQDYVKTIGFE-VIAV-RDEAAMTRALTYF  315 (436)
T ss_pred             cCCcEEEEECCCCCcHHHHHHHHHHHHHHc-CCcEEEEecCCcchHHHHHHHHHhhhcCCc-EEec-CCHHHHHHHHHHH
Confidence            345689999999999999999999877543 2223334443332  11111   1222211 1112 2233444445332


Q ss_pred             ----CCeEEEEecCCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHH
Q psy1308         370 ----PNAVVLFDEVDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHA  429 (607)
Q Consensus       370 ----~~~vl~lDEiek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~  429 (607)
                          ...+||+|-....+.  .....|.++++..          ....+++++.++.+...+.+..
T Consensus       316 k~~~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~----------~PdevlLVLsATtk~~d~~~i~  371 (436)
T PRK11889        316 KEEARVDYILIDTAGKNYRASETVEEMIETMGQV----------EPDYICLTLSASMKSKDMIEII  371 (436)
T ss_pred             HhccCCCEEEEeCccccCcCHHHHHHHHHHHhhc----------CCCeEEEEECCccChHHHHHHH
Confidence                468999999998874  4456666666522          1234566676666665554443

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=95.92  E-value=0.059  Score=51.19  Aligned_cols=100  Identities=10%  Similarity=0.198  Sum_probs=62.8

Q ss_pred             eeeeeccCC-CChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCC------CCccCCCCchhhHHHhhC--
Q psy1308         299 VFLFLGSSG-IGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPP------GYLGHDDGGQLTKRLKKC--  369 (607)
Q Consensus       299 ~~ll~G~~G-~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~------g~~g~~~~~~l~~~~~~~--  369 (607)
                      .++|.|..+ ++|..++..++..+...+      +....   +.++ .++...+      ..++-++-..+...+...  
T Consensus        17 AYLfeG~n~~~~~~~~~~f~~~~l~~~~------i~~~~---HPD~-~~I~pe~~~~~~~~~I~IdqIReL~~~l~~~p~   86 (263)
T PRK06581         17 SWLIEAENIEQALKDLEKFIYIKLFKNS------IPLEN---NPDY-HFIARETSATSNAKNISIEQIRKLQDFLSKTSA   86 (263)
T ss_pred             eeeEeCCChhhHHHHHHHHHHHHHhccC------cccCC---CCCE-EEEeccccccccCCcccHHHHHHHHHHHhhCcc
Confidence            689999987 999999998888775431      11111   1111 1111110      122222222333334333  


Q ss_pred             --CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         370 --PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       370 --~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                        +.-|++++++|+++++..+.||+.+|+..           .+++||++|.
T Consensus        87 ~g~~KViII~~ae~mt~~AANALLKtLEEPP-----------~~t~fILit~  127 (263)
T PRK06581         87 ISGYKVAIIYSAELMNLNAANSCLKILEDAP-----------KNSYIFLITS  127 (263)
T ss_pred             cCCcEEEEEechHHhCHHHHHHHHHhhcCCC-----------CCeEEEEEeC
Confidence              36799999999999999999999999742           5778888666

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=95.86  E-value=0.049  Score=51.03  Aligned_cols=25  Identities=28%  Similarity=0.543  Sum_probs=18.9

Q ss_pred             CeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         371 NAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       371 ~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      .++|++||+..+.+.....++.-+.
T Consensus       120 ~~~iIvDEaQN~t~~~~k~ilTR~g  144 (205)
T PF02562_consen  120 NAFIIVDEAQNLTPEELKMILTRIG  144 (205)
T ss_dssp             SEEEEE-SGGG--HHHHHHHHTTB-
T ss_pred             ceEEEEecccCCCHHHHHHHHcccC
Confidence            6899999999999999988887765

; GO: 0005524 ATP binding; PDB: 3B85_A.

>COG1485 Predicted ATPase [General function prediction only]

Probab=95.82  E-value=0.05  Score=54.30  Aligned_cols=110  Identities=24%  Similarity=0.327  Sum_probs=64.2

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccc--ccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEE
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSE--YQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVL  375 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~--~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~  375 (607)
                      .-+.++|+.|+|||.|.-..-+.+.... .  .+++.-.  ..-+.....+-|..      +....+... -.++.-||+
T Consensus        66 ~GlYl~GgVGrGKT~LMD~Fy~~lp~~~-k--~R~HFh~FM~~vH~~l~~l~g~~------dpl~~iA~~-~~~~~~vLC  135 (367)
T COG1485          66 RGLYLWGGVGRGKTMLMDLFYESLPGER-K--RRLHFHRFMARVHQRLHTLQGQT------DPLPPIADE-LAAETRVLC  135 (367)
T ss_pred             ceEEEECCCCccHHHHHHHHHhhCCccc-c--ccccHHHHHHHHHHHHHHHcCCC------CccHHHHHH-HHhcCCEEE
Confidence            3799999999999999988777765531 1  1222111  11122333443321      111222222 234567999


Q ss_pred             EecCCccCH---HHHHHHHHh-hccceeecCCCcEEecCceEEEEecCcchHHHHHHHhh
Q psy1308         376 FDEVDKAHP---DVLTVLLQL-FDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQ  431 (607)
Q Consensus       376 lDEiek~~~---~~~~~Ll~~-~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~  431 (607)
                      |||++=-+.   -++..|+.. +.              ..+.+++|||...+++-..+++
T Consensus       136 fDEF~VtDI~DAMiL~rL~~~Lf~--------------~GV~lvaTSN~~P~~LY~dGlq  181 (367)
T COG1485         136 FDEFEVTDIADAMILGRLLEALFA--------------RGVVLVATSNTAPDNLYKDGLQ  181 (367)
T ss_pred             eeeeeecChHHHHHHHHHHHHHHH--------------CCcEEEEeCCCChHHhcccchh
Confidence            999875444   355555543 33              3567999999999887655443

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=95.78  E-value=0.083  Score=52.12  Aligned_cols=126  Identities=16%  Similarity=0.198  Sum_probs=74.0

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-----CCceEEeecccccccch
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-----KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-----~~~~~~l~~a~~~~~~~  342 (607)
                      ..++|-..+.+.+...-.-..  .+...++-.++++|+++.|||.+++...+......     .-|.+.+.+....+...
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~--~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~  111 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLE--YPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERR  111 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHh--CCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHH
Confidence            456777666665544332221  23344455899999999999999998887643211     23566667655544333


Q ss_pred             h----HhhhcCCCCCcc--CCCCchhhHHHhhCCCeEEEEecCCcc---CHHHHHHHHHhhc
Q psy1308         343 V----AKLIGAPPGYLG--HDDGGQLTKRLKKCPNAVVLFDEVDKA---HPDVLTVLLQLFD  395 (607)
Q Consensus       343 ~----~~llg~~~g~~g--~~~~~~l~~~~~~~~~~vl~lDEiek~---~~~~~~~Ll~~~~  395 (607)
                      .    -..+|.+-....  ..........++...--+|+|||++.+   +..-|..++.++.
T Consensus       112 ~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK  173 (302)
T PF05621_consen  112 FYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALK  173 (302)
T ss_pred             HHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHH
Confidence            2    233354322111  111122346778888889999999884   4445666666554

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>KOG2505|consensus

Probab=95.73  E-value=0.012  Score=60.21  Aligned_cols=42  Identities=31%  Similarity=0.390  Sum_probs=24.9

Q ss_pred             CCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHH
Q psy1308          86 KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAA  128 (607)
Q Consensus        86 g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~  128 (607)
                      -.|+||+|+..|...+|.+||+.+ +|+..+|..|+||..++.
T Consensus       430 tsT~LH~aa~qg~~k~v~~~Leeg-~Dp~~kd~~Grtpy~ls~  471 (591)
T KOG2505|consen  430 TSTFLHYAAAQGARKCVKYFLEEG-CDPSTKDGAGRTPYSLSA  471 (591)
T ss_pred             cchHHHHHHhcchHHHHHHHHHhc-CCchhcccCCCCcccccc
Confidence            455566666666666666666665 666666666666655544

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=95.71  E-value=0.037  Score=50.39  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=20.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .++++|++|+|||++.+.+.+.+
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHHh
Confidence            37899999999999999999887

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>KOG0481|consensus

Probab=95.71  E-value=0.021  Score=59.14  Aligned_cols=137  Identities=18%  Similarity=0.225  Sum_probs=79.0

Q ss_pred             HHhHhhhhHHHHHHHHHHHHHh-hCCCCCC---CCCceeeeeccCCCChhHHHHHHHHHhcc----Cc----CCceEEee
Q psy1308         266 LKDRIVGQESAINIISAAIKRK-ENGWTDD---DHPLVFLFLGSSGIGKTELAKQLAFYIHR----DK----KEAFIRLD  333 (607)
Q Consensus       266 l~~~i~Gq~~ai~~l~~~i~~~-~~~~~~~---~~p~~~ll~G~~G~GKt~la~~la~~l~~----~~----~~~~~~l~  333 (607)
                      +...+.|..+..+.+...+--. +..+++.   ...+.+|+.|-||+.|+.+.|.+-+....    ++    .-++++  
T Consensus       329 IAPSIfG~~DiKkAiaClLFgGsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkvsPIaVYTSGKGSSAAGLTA--  406 (729)
T KOG0481|consen  329 IAPSIFGHEDIKKAIACLLFGGSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKVSPIAVYTSGKGSSAAGLTA--  406 (729)
T ss_pred             cCchhcCchhHHHHHHHHhhcCccccCCCcceeccceeEEEecCCchhHHHHHHHHHhcCceEEEecCCCccccccee--
Confidence            4456888888877776555221 1112221   22358999999999999999988765322    10    111111  


Q ss_pred             cccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecC-CCcEEe-cCc
Q psy1308         334 MSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDG-KGKTIE-CKD  411 (607)
Q Consensus       334 ~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~-~g~~~~-~~~  411 (607)
                       |...+ ....++.         -+|    +++--+.+||+++||+||+.++-.-++-+.||..++... .|-+.. -+.
T Consensus       407 -SV~RD-~~tReFy---------lEG----GAMVLADgGVvCIDEFDKMre~DRVAIHEAMEQQTISIAKAGITT~LNSR  471 (729)
T KOG0481|consen  407 -SVIRD-PSTREFY---------LEG----GAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSR  471 (729)
T ss_pred             -eEEec-CCcceEE---------Eec----ceEEEecCCEEEeehhhccCchhhhHHHHHHHhhhHHHhhhcceeeecch
Confidence             11110 0011111         112    234457899999999999999988888899998877764 343321 233


Q ss_pred             eEEEEecC
Q psy1308         412 AIFVMTSN  419 (607)
Q Consensus       412 ~~iI~tsn  419 (607)
                      +-+.++.|
T Consensus       472 tSVLAAAN  479 (729)
T KOG0481|consen  472 TSVLAAAN  479 (729)
T ss_pred             hhhhhhcC
Confidence            34555555

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.53  E-value=0.024  Score=51.07  Aligned_cols=34  Identities=38%  Similarity=0.571  Sum_probs=25.0

Q ss_pred             eeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      +++.|++|+|||.+++.++...... ..+...+++
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~-~~~v~~~~~   35 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATK-GGKVVYVDI   35 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhc-CCEEEEEEC
Confidence            6789999999999999998887543 333444443

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.53  E-value=0.068  Score=50.27  Aligned_cols=93  Identities=22%  Similarity=0.391  Sum_probs=48.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc-cccccchhHhhhcCCCCCccCCC---CchhhHHHhhCCCeEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS-EYQEKHEVAKLIGAPPGYLGHDD---GGQLTKRLKKCPNAVV  374 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a-~~~~~~~~~~llg~~~g~~g~~~---~~~l~~~~~~~~~~vl  374 (607)
                      .+++.||+|+|||.+.+.+...+........+.+.-. ++.... ...++-..  -+|.+.   ...+...++.. ..++
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~~~~~-~~~~i~q~--~vg~~~~~~~~~i~~aLr~~-pd~i   78 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFVHES-KRSLINQR--EVGLDTLSFENALKAALRQD-PDVI   78 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCccccccC-ccceeeec--ccCCCccCHHHHHHHHhcCC-cCEE
Confidence            4789999999999999998888754312222222211 111100 00011000  011111   11223334443 5699


Q ss_pred             EEecCCccCHHHHHHHHHhhccc
Q psy1308         375 LFDEVDKAHPDVLTVLLQLFDEG  397 (607)
Q Consensus       375 ~lDEiek~~~~~~~~Ll~~~~~~  397 (607)
                      ++||+-  +++....+++....|
T Consensus        79 i~gEir--d~e~~~~~l~~a~~G   99 (198)
T cd01131          79 LVGEMR--DLETIRLALTAAETG   99 (198)
T ss_pred             EEcCCC--CHHHHHHHHHHHHcC
Confidence            999995  566667777776644

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.50  E-value=0.66  Score=49.05  Aligned_cols=120  Identities=23%  Similarity=0.330  Sum_probs=69.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc-cCcCCceEEeeccccccc-----chhHhhhcCCCCCccCCCCchhhHHHhh-CCC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH-RDKKEAFIRLDMSEYQEK-----HEVAKLIGAPPGYLGHDDGGQLTKRLKK-CPN  371 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~-~~~~~~~~~l~~a~~~~~-----~~~~~llg~~~g~~g~~~~~~l~~~~~~-~~~  371 (607)
                      .++|.||+|+|||.++..|+..+. .........+++..+...     ....+.+|.+- +... ....+...++. ...
T Consensus       223 ~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~-~~~~-~~~~l~~~l~~~~~~  300 (424)
T PRK05703        223 VVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPV-EVVY-DPKELAKALEQLRDC  300 (424)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCce-EccC-CHHhHHHHHHHhCCC
Confidence            788999999999999988887664 221333444555444211     11123333221 2221 22334444443 357


Q ss_pred             eEEEEecCCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHH
Q psy1308         372 AVVLFDEVDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHA  429 (607)
Q Consensus       372 ~vl~lDEiek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~  429 (607)
                      .+|++|-....+.  .....|.++++..      +   ...+++++++++.+...+.+..
T Consensus       301 DlVlIDt~G~~~~d~~~~~~L~~ll~~~------~---~~~~~~LVl~a~~~~~~l~~~~  351 (424)
T PRK05703        301 DVILIDTAGRSQRDKRLIEELKALIEFS------G---EPIDVYLVLSATTKYEDLKDIY  351 (424)
T ss_pred             CEEEEeCCCCCCCCHHHHHHHHHHHhcc------C---CCCeEEEEEECCCCHHHHHHHH
Confidence            8999998877654  3445666676621      0   1235678888888887776543

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=95.46  E-value=0.05  Score=51.04  Aligned_cols=90  Identities=26%  Similarity=0.305  Sum_probs=51.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc----------cccchhHhhhcCCCCCccCCCCchhhHHHhh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY----------QEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK  368 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~----------~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~  368 (607)
                      ..++.|++|+|||.+.+.+.+.+... ...++.+-.+..          .....+.+++...+....  .+     ....
T Consensus        20 ~~~l~G~aGtGKT~~l~~~~~~~~~~-g~~v~~~apT~~Aa~~L~~~~~~~a~Ti~~~l~~~~~~~~--~~-----~~~~   91 (196)
T PF13604_consen   20 VSVLQGPAGTGKTTLLKALAEALEAA-GKRVIGLAPTNKAAKELREKTGIEAQTIHSFLYRIPNGDD--EG-----RPEL   91 (196)
T ss_dssp             EEEEEESTTSTHHHHHHHHHHHHHHT-T--EEEEESSHHHHHHHHHHHTS-EEEHHHHTTEECCEEC--CS-----SCC-
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHhC-CCeEEEECCcHHHHHHHHHhhCcchhhHHHHHhcCCcccc--cc-----cccC
Confidence            57789999999999999999887654 233333322211          111223333322111000  00     0002


Q ss_pred             CCCeEEEEecCCccCHHHHHHHHHhhcc
Q psy1308         369 CPNAVVLFDEVDKAHPDVLTVLLQLFDE  396 (607)
Q Consensus       369 ~~~~vl~lDEiek~~~~~~~~Ll~~~~~  396 (607)
                      .+..+|++||+..++......|+..+..
T Consensus        92 ~~~~vliVDEasmv~~~~~~~ll~~~~~  119 (196)
T PF13604_consen   92 PKKDVLIVDEASMVDSRQLARLLRLAKK  119 (196)
T ss_dssp             TSTSEEEESSGGG-BHHHHHHHHHHS-T
T ss_pred             CcccEEEEecccccCHHHHHHHHHHHHh
Confidence            3456999999999999999999998864

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.45  E-value=0.068  Score=52.66  Aligned_cols=93  Identities=19%  Similarity=0.295  Sum_probs=52.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec---ccccccchhHhhhcCCCC-CccC--------CCCchhhHHH
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM---SEYQEKHEVAKLIGAPPG-YLGH--------DDGGQLTKRL  366 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~---a~~~~~~~~~~llg~~~g-~~g~--------~~~~~l~~~~  366 (607)
                      .+++.||+|+|||.+.+.++..+...  .+-+.++-   .......++...++..+. .+|.        .....+..++
T Consensus       113 ~~~i~g~~g~GKttl~~~l~~~~~~~--~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~v~~~~~k~~~~~~~i  190 (270)
T TIGR02858       113 NTLIISPPQCGKTTLLRDLARILSTG--ISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTDVLDGCPKAEGMMMLI  190 (270)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCccCCC--CceEEECCEEeecchhHHHHHHHhcccccccccccccccccchHHHHHHHHH
Confidence            68999999999999999999877432  22222221   111112233322222222 1221        1111245567


Q ss_pred             hhCCCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         367 KKCPNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       367 ~~~~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      +.....++++||+..  .+....+++.+.
T Consensus       191 ~~~~P~villDE~~~--~e~~~~l~~~~~  217 (270)
T TIGR02858       191 RSMSPDVIVVDEIGR--EEDVEALLEALH  217 (270)
T ss_pred             HhCCCCEEEEeCCCc--HHHHHHHHHHHh
Confidence            777889999999863  444555555553

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.45  E-value=0.023  Score=51.64  Aligned_cols=94  Identities=19%  Similarity=0.193  Sum_probs=52.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc---chhHhhhcCCCCCccCCCCc-hhhHHHhhCCCeEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK---HEVAKLIGAPPGYLGHDDGG-QLTKRLKKCPNAVV  374 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~---~~~~~llg~~~g~~g~~~~~-~l~~~~~~~~~~vl  374 (607)
                      .+.+.|++|+|||.+.+.|+.....  ..+-+.++-......   ....+-++..+.+.|.+... .+...+ ..+..++
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~~~--~~G~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~laral-~~~p~il  104 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLYKP--DSGEILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVEIARAL-ARNARLL  104 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC--CCeEEEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHHHHHHH-hcCCCEE
Confidence            6889999999999999999876543  334444443222111   00111122111111111111 122222 2346799


Q ss_pred             EEecCC-ccCHHHHHHHHHhhc
Q psy1308         375 LFDEVD-KAHPDVLTVLLQLFD  395 (607)
Q Consensus       375 ~lDEie-k~~~~~~~~Ll~~~~  395 (607)
                      ++||-- .+++.....+.+++.
T Consensus       105 llDEP~~~LD~~~~~~l~~~l~  126 (163)
T cd03216         105 ILDEPTAALTPAEVERLFKVIR  126 (163)
T ss_pred             EEECCCcCCCHHHHHHHHHHHH
Confidence            999965 578888888888886

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.36  E-value=0.73  Score=48.05  Aligned_cols=126  Identities=16%  Similarity=0.239  Sum_probs=69.0

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc--hhH---hhhcCCCCCccCCCCchhhHHHhhCC
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH--EVA---KLIGAPPGYLGHDDGGQLTKRLKKCP  370 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~--~~~---~llg~~~g~~g~~~~~~l~~~~~~~~  370 (607)
                      ++..+++.||+|+|||.++..++............-+++-.+....  ...   +.+|.+  .........+...++...
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp--~~~~~~~~~l~~~l~~~~  299 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMP--FYPVKDIKKFKETLARDG  299 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCC--eeehHHHHHHHHHHHhCC
Confidence            3457889999999999999999875422112222233333322211  111   222211  111111223344555556


Q ss_pred             CeEEEEecCCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHh
Q psy1308         371 NAVVLFDEVDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHAL  430 (607)
Q Consensus       371 ~~vl~lDEiek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~  430 (607)
                      ..+|++|=....+  ......|.++++....       .+...+++++.++.+...+.+...
T Consensus       300 ~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~-------~~~~e~~LVLsAt~~~~~~~~~~~  354 (432)
T PRK12724        300 SELILIDTAGYSHRNLEQLERMQSFYSCFGE-------KDSVENLLVLSSTSSYHHTLTVLK  354 (432)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHHHhhcC-------CCCCeEEEEEeCCCCHHHHHHHHH
Confidence            7899999766654  3455566666542110       113467888988888877766543

>PF03158 DUF249: Multigene family 530 protein; InterPro: IPR004858 This entry represents multigene family 530 proteins from African swine fever virus (ASFV) viruses

Probab=95.32  E-value=0.064  Score=48.18  Aligned_cols=141  Identities=21%  Similarity=0.219  Sum_probs=97.9

Q ss_pred             CHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccH
Q psy1308          87 DLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNP  166 (607)
Q Consensus        87 ~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~  166 (607)
                      +-.|..|+..+.+.++++.-+... + +  -...++..-.||+..+.|+|++.   |-+....+-.+-+-.|....+.++
T Consensus        47 ~CLl~HAVk~nmL~ILqkyke~L~-~-~--~~~~q~LFElAC~~qkydiV~WI---~qnL~i~~~~~iFdIA~~~kDlsL  119 (192)
T PF03158_consen   47 WCLLYHAVKYNMLSILQKYKEDLE-N-E--RYLNQELFELACEEQKYDIVKWI---GQNLHIYNPEDIFDIAFAKKDLSL  119 (192)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHhh-c-c--hhHHHHHHHHHHHHccccHHHHH---hhccCCCCchhhhhhhhhccchhH
Confidence            345788999999999998877541 1 1  13456778899999999999999   444444444455667777777665


Q ss_pred             H----HHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHH
Q psy1308         167 F----EVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYA  242 (607)
Q Consensus       167 ~----~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll  242 (607)
                      .    .+++++.....   +...+.--..-|.+|+..|-...+.-.+++|.+++.      +.|..|+..++..++.+++
T Consensus       120 yslGY~l~~~~~~~~~---~~d~~~ll~~hl~~a~~kgll~F~letlkygg~~~~------~vls~Av~ynhRkIL~yfi  190 (192)
T PF03158_consen  120 YSLGYKLLFNRMMSEH---NEDPTSLLTQHLEKAAAKGLLPFVLETLKYGGNVDI------IVLSQAVKYNHRKILDYFI  190 (192)
T ss_pred             HHHHHHHHHhhccccc---ccCHHHHHHHHHHHHHHCCCHHHHHHHHHcCCcccH------HHHHHHHHhhHHHHHHHhh
Confidence            3    23334322210   000001112257899999999999999999988764      7899999999999999886


Q ss_pred             H
Q psy1308         243 E  243 (607)
Q Consensus       243 ~  243 (607)
                      .
T Consensus       191 ~  191 (192)
T PF03158_consen  191 R  191 (192)
T ss_pred             c
Confidence            4

These proteins may be involved in promoting survival of infected macrophages [].

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=95.28  E-value=0.17  Score=48.38  Aligned_cols=191  Identities=17%  Similarity=0.218  Sum_probs=106.4

Q ss_pred             hhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh---
Q psy1308         271 VGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI---  347 (607)
Q Consensus       271 ~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll---  347 (607)
                      .-...++..+...+....         ..+.++|+.|+|||.+.|++.+.++.+ ....+.++-...........++   
T Consensus        34 a~h~e~l~~l~~~i~d~q---------g~~~vtGevGsGKTv~~Ral~~s~~~d-~~~~v~i~~~~~s~~~~~~ai~~~l  103 (269)
T COG3267          34 ADHNEALLMLHAAIADGQ---------GILAVTGEVGSGKTVLRRALLASLNED-QVAVVVIDKPTLSDATLLEAIVADL  103 (269)
T ss_pred             hhhhHHHHHHHHHHhcCC---------ceEEEEecCCCchhHHHHHHHHhcCCC-ceEEEEecCcchhHHHHHHHHHHHh
Confidence            334556666555554332         257899999999999999777777653 3333455544444433332222   


Q ss_pred             cCCCC-Ccc---CCCCchhhHHHhhCCC-eEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcch
Q psy1308         348 GAPPG-YLG---HDDGGQLTKRLKKCPN-AVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLAS  422 (607)
Q Consensus       348 g~~~g-~~g---~~~~~~l~~~~~~~~~-~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~  422 (607)
                      +..|. .+.   ......+..++.+..+ -+++.||.+.+..++...|.-+.+ .. .+..+      ..-+++...   
T Consensus       104 ~~~p~~~~~~~~e~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~n-l~-~~~~~------~l~ivL~Gq---  172 (269)
T COG3267         104 ESQPKVNVNAVLEQIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTN-LE-EDSSK------LLSIVLIGQ---  172 (269)
T ss_pred             ccCccchhHHHHHHHHHHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHh-hc-ccccC------ceeeeecCC---
Confidence            22221 110   0011123444555555 789999999999998887766554 11 01110      111333322   


Q ss_pred             HHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHH
Q psy1308         423 NEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLV  502 (607)
Q Consensus       423 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~  502 (607)
                      ..+..                                     +...    ..+  .+|-.|++.-+...|++.++...-+
T Consensus       173 p~L~~-------------------------------------~lr~----~~l--~e~~~R~~ir~~l~P~~~~~t~~yl  209 (269)
T COG3267         173 PKLRP-------------------------------------RLRL----PVL--RELEQRIDIRIELPPLTEAETGLYL  209 (269)
T ss_pred             cccch-------------------------------------hhch----HHH--HhhhheEEEEEecCCcChHHHHHHH
Confidence            11111                                     0000    112  5788899765888999999888877


Q ss_pred             HHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         503 CRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       503 ~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                      +..|+.-       ..-.--++++++.++.
T Consensus       210 ~~~Le~a-------~~~~~l~~~~a~~~i~  232 (269)
T COG3267         210 RHRLEGA-------GLPEPLFSDDALLLIH  232 (269)
T ss_pred             HHHHhcc-------CCCcccCChhHHHHHH
Confidence            7776532       1223346888888885

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.10  E-value=0.61  Score=48.07  Aligned_cols=125  Identities=19%  Similarity=0.305  Sum_probs=66.5

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccC-c--CCceEEeecccccccch---hHhhhcCCCCCccCCCCchhhHHHh-hC
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRD-K--KEAFIRLDMSEYQEKHE---VAKLIGAPPGYLGHDDGGQLTKRLK-KC  369 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~-~--~~~~~~l~~a~~~~~~~---~~~llg~~~g~~g~~~~~~l~~~~~-~~  369 (607)
                      .-+++|+||+|+|||.++..|+..+... +  .-.++..|.-.......   ..+++|.+-.  .....+.+...+. ..
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~--~~~~~~~l~~~l~~l~  214 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH--AVKDGGDLQLALAELR  214 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE--ecCCcccHHHHHHHhc
Confidence            3478899999999999999999764221 1  22344433322211111   2334443221  1122233333333 34


Q ss_pred             CCeEEEEecCCccCHH-HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhh
Q psy1308         370 PNAVVLFDEVDKAHPD-VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQL  432 (607)
Q Consensus       370 ~~~vl~lDEiek~~~~-~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~  432 (607)
                      ...+|+||.....+.+ .+...+..+...         ......++++..+.+.+.+.+....+
T Consensus       215 ~~DlVLIDTaG~~~~d~~l~e~La~L~~~---------~~~~~~lLVLsAts~~~~l~evi~~f  269 (374)
T PRK14722        215 NKHMVLIDTIGMSQRDRTVSDQIAMLHGA---------DTPVQRLLLLNATSHGDTLNEVVQAY  269 (374)
T ss_pred             CCCEEEEcCCCCCcccHHHHHHHHHHhcc---------CCCCeEEEEecCccChHHHHHHHHHH
Confidence            5689999999987643 222333333211         01124567777777777766554333

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=94.87  E-value=0.095  Score=53.87  Aligned_cols=95  Identities=22%  Similarity=0.334  Sum_probs=49.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEe-ecccccccchhHhhh-cCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRL-DMSEYQEKHEVAKLI-GAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l-~~a~~~~~~~~~~ll-g~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      .+++.||+|+|||.+.+.+...+........+.+ |--++.... ...++ ....|+....-...+...++ ....++++
T Consensus       124 ~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~~-~~~~i~q~evg~~~~~~~~~l~~~lr-~~pd~i~v  201 (343)
T TIGR01420       124 LILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHRN-KRSLINQREVGLDTLSFANALRAALR-EDPDVILI  201 (343)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhccC-ccceEEccccCCCCcCHHHHHHHhhc-cCCCEEEE
Confidence            6899999999999999999987754312223332 111111100 00011 00111111001112223343 34579999


Q ss_pred             ecCCccCHHHHHHHHHhhccc
Q psy1308         377 DEVDKAHPDVLTVLLQLFDEG  397 (607)
Q Consensus       377 DEiek~~~~~~~~Ll~~~~~~  397 (607)
                      ||+-  +++.....++....|
T Consensus       202 gEir--d~~~~~~~l~aa~tG  220 (343)
T TIGR01420       202 GEMR--DLETVELALTAAETG  220 (343)
T ss_pred             eCCC--CHHHHHHHHHHHHcC
Confidence            9996  666666666666544

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=94.86  E-value=0.34  Score=51.19  Aligned_cols=119  Identities=18%  Similarity=0.331  Sum_probs=64.8

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc--h---hHhhhcCCCCCccCCCCc---hhhHHH
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH--E---VAKLIGAPPGYLGHDDGG---QLTKRL  366 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~--~---~~~llg~~~g~~g~~~~~---~l~~~~  366 (607)
                      .+|..++++|++|+|||+++..+|..+... .....-+++..+....  .   ..+-+|.+ -|.......   .+...+
T Consensus        93 ~~p~vI~lvG~~GsGKTTtaakLA~~L~~~-g~kV~lV~~D~~R~aa~eQL~~la~~~gvp-~~~~~~~~d~~~i~~~al  170 (437)
T PRK00771         93 LKPQTIMLVGLQGSGKTTTAAKLARYFKKK-GLKVGLVAADTYRPAAYDQLKQLAEKIGVP-FYGDPDNKDAVEIAKEGL  170 (437)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHHc-CCeEEEecCCCCCHHHHHHHHHHHHHcCCc-EEecCCccCHHHHHHHHH
Confidence            457789999999999999999999887643 3334445655553311  1   11222221 121111111   122333


Q ss_pred             hh-CCCeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHH
Q psy1308         367 KK-CPNAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEI  425 (607)
Q Consensus       367 ~~-~~~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i  425 (607)
                      +. ....+|++|.....+.+  ....|..+..-          +....+++++.+..+.+.+
T Consensus       171 ~~~~~~DvVIIDTAGr~~~d~~lm~El~~l~~~----------~~pdevlLVvda~~gq~av  222 (437)
T PRK00771        171 EKFKKADVIIVDTAGRHALEEDLIEEMKEIKEA----------VKPDEVLLVIDATIGQQAK  222 (437)
T ss_pred             HHhhcCCEEEEECCCcccchHHHHHHHHHHHHH----------hcccceeEEEeccccHHHH
Confidence            33 23589999999877643  33333333220          1223566777776665544

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.83  E-value=0.73  Score=49.18  Aligned_cols=123  Identities=15%  Similarity=0.232  Sum_probs=66.6

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccC-cCCceEEeecccc-----cccchhHhhhcCCCCCccCCCCchhhHHHhhCC
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRD-KKEAFIRLDMSEY-----QEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCP  370 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~-~~~~~~~l~~a~~-----~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~  370 (607)
                      +-+++|+||+|+|||+++..|+..+... +.....-+++..|     ..-....+++|.+. +.................
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv-~~~~~~~Dl~~aL~~L~d  334 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPV-HAVKDAADLRLALSELRN  334 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCe-eccCCchhHHHHHHhccC
Confidence            4589999999999999999999876322 1112223333333     11111234444321 222222223334444456


Q ss_pred             CeEEEEecCCccCHHH-HHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHH
Q psy1308         371 NAVVLFDEVDKAHPDV-LTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHA  429 (607)
Q Consensus       371 ~~vl~lDEiek~~~~~-~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~  429 (607)
                      ...+++|.....+.+- +..++..+.+..         .....++++..+.+...+.+..
T Consensus       335 ~d~VLIDTaGr~~~d~~~~e~~~~l~~~~---------~p~e~~LVLdAt~~~~~l~~i~  385 (484)
T PRK06995        335 KHIVLIDTIGMSQRDRMVSEQIAMLHGAG---------APVKRLLLLNATSHGDTLNEVV  385 (484)
T ss_pred             CCeEEeCCCCcChhhHHHHHHHHHHhccC---------CCCeeEEEEeCCCcHHHHHHHH
Confidence            6799999998776542 223333333211         0123567777777777766543

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=94.80  E-value=0.5  Score=49.56  Aligned_cols=119  Identities=19%  Similarity=0.335  Sum_probs=67.6

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhh--hcCCCC---CccCCCCch---h---h
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKL--IGAPPG---YLGHDDGGQ---L---T  363 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~l--lg~~~g---~~g~~~~~~---l---~  363 (607)
                      .+|.+++|+|++|+|||+++..||..+... .....-+++..|.. ..+..+  ++...+   |........   .   .
T Consensus        98 ~~~~vi~lvG~~GvGKTTtaaKLA~~l~~~-G~kV~lV~~D~~R~-aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l  175 (429)
T TIGR01425        98 GKQNVIMFVGLQGSGKTTTCTKLAYYYQRK-GFKPCLVCADTFRA-GAFDQLKQNATKARIPFYGSYTESDPVKIASEGV  175 (429)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHC-CCCEEEEcCcccch-hHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHH
Confidence            346789999999999999999999887543 22344455544442 111111  222111   111111111   1   1


Q ss_pred             HHHhhCCCeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHH
Q psy1308         364 KRLKKCPNAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEI  425 (607)
Q Consensus       364 ~~~~~~~~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i  425 (607)
                      ..++...+.+||+|=..+.+.+  ....|.++.+.          +....+++++.+..|.+.+
T Consensus       176 ~~~~~~~~DvViIDTaGr~~~d~~lm~El~~i~~~----------~~p~e~lLVlda~~Gq~a~  229 (429)
T TIGR01425       176 EKFKKENFDIIIVDTSGRHKQEDSLFEEMLQVAEA----------IQPDNIIFVMDGSIGQAAE  229 (429)
T ss_pred             HHHHhCCCCEEEEECCCCCcchHHHHHHHHHHhhh----------cCCcEEEEEeccccChhHH
Confidence            1223346789999999887764  44445544431          2335678888887776554

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PHA02774 E1; Provisional

Probab=94.80  E-value=0.26  Score=53.05  Aligned_cols=97  Identities=14%  Similarity=0.220  Sum_probs=55.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .++|+||+|+|||.++..|.+.+.+.   .+.-++.   ..+-                   .+..+.   .--+++|||
T Consensus       436 civ~~GPP~TGKS~fa~sL~~~L~G~---vi~fvN~---~s~F-------------------wLqpl~---d~ki~vlDD  487 (613)
T PHA02774        436 CLVIYGPPDTGKSMFCMSLIKFLKGK---VISFVNS---KSHF-------------------WLQPLA---DAKIALLDD  487 (613)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCC---EEEEEEC---cccc-------------------ccchhc---cCCEEEEec
Confidence            78999999999999999999998543   1111222   1000                   111111   123899999


Q ss_pred             CCcc-CHHHHHHHHHhhccceeec--CCCcEEecCceEEEEecCcchH
Q psy1308         379 VDKA-HPDVLTVLLQLFDEGRLTD--GKGKTIECKDAIFVMTSNLASN  423 (607)
Q Consensus       379 iek~-~~~~~~~Ll~~~~~~~~~~--~~g~~~~~~~~~iI~tsn~~~~  423 (607)
                      +-.. ..-+...|..+++...+..  ..-..+..+..-+|+|||++..
T Consensus       488 ~t~~~w~y~d~~Lrn~LdG~~v~lD~Khk~~~q~k~pPlIITSN~d~~  535 (613)
T PHA02774        488 ATHPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVK  535 (613)
T ss_pred             CcchHHHHHHHHHHHHcCCCcceeeecccCcccccCCCEEEecCCCcc
Confidence            8322 1233446677776442221  1222334445568999996654

>KOG3347|consensus

Probab=94.77  E-value=0.074  Score=46.18  Aligned_cols=90  Identities=28%  Similarity=0.432  Sum_probs=54.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .++++|.||+|||.++..+|+...      +.-++++.+....   .+      |-|+++.           +--.+|||
T Consensus         9 NILvtGTPG~GKstl~~~lae~~~------~~~i~isd~vkEn---~l------~~gyDE~-----------y~c~i~DE   62 (176)
T KOG3347|consen    9 NILVTGTPGTGKSTLAERLAEKTG------LEYIEISDLVKEN---NL------YEGYDEE-----------YKCHILDE   62 (176)
T ss_pred             CEEEeCCCCCCchhHHHHHHHHhC------CceEehhhHHhhh---cc------hhccccc-----------ccCccccH
Confidence            588999999999999999997653      4456666553321   11      2232222           11335665


Q ss_pred             CCccCHHHHHHHHHhh-ccceeecCCCcEE---ecCceEEEEecC
Q psy1308         379 VDKAHPDVLTVLLQLF-DEGRLTDGKGKTI---ECKDAIFVMTSN  419 (607)
Q Consensus       379 iek~~~~~~~~Ll~~~-~~~~~~~~~g~~~---~~~~~~iI~tsn  419 (607)
                           ..+.+.|-..| +.|.++|-+|-..   ..-+.+|++++-
T Consensus        63 -----dkv~D~Le~~m~~Gg~IVDyHgCd~FperwfdlVvVLr~~  102 (176)
T KOG3347|consen   63 -----DKVLDELEPLMIEGGNIVDYHGCDFFPERWFDLVVVLRTP  102 (176)
T ss_pred             -----HHHHHHHHHHHhcCCcEEeecccCccchhheeEEEEEecC
Confidence                 45666666544 3566777655322   234667888766

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=94.69  E-value=0.19  Score=47.03  Aligned_cols=93  Identities=22%  Similarity=0.348  Sum_probs=59.4

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      .+++|.|+.|+|||...+.|....+.. .       .....+                    .+....+..  .-++.+|
T Consensus        53 ~~lvl~G~QG~GKStf~~~L~~~~~~d-~-------~~~~~~--------------------kd~~~~l~~--~~iveld  102 (198)
T PF05272_consen   53 TVLVLVGKQGIGKSTFFRKLGPEYFSD-S-------INDFDD--------------------KDFLEQLQG--KWIVELD  102 (198)
T ss_pred             eeeeEecCCcccHHHHHHHHhHHhccC-c-------cccCCC--------------------cHHHHHHHH--hHheeHH
Confidence            478899999999999999986543322 0       111111                    111122222  2488999


Q ss_pred             cCCccCHHHHHHHHHhhccceee--cCCCc--EEecCceEEEEecCc
Q psy1308         378 EVDKAHPDVLTVLLQLFDEGRLT--DGKGK--TIECKDAIFVMTSNL  420 (607)
Q Consensus       378 Eiek~~~~~~~~Ll~~~~~~~~~--~~~g~--~~~~~~~~iI~tsn~  420 (607)
                      |++.+...-++.|-.++-....+  ..-|+  ..-.+.++||.|||-
T Consensus       103 El~~~~k~~~~~lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~  149 (198)
T PF05272_consen  103 ELDGLSKKDVEALKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTND  149 (198)
T ss_pred             HHhhcchhhHHHHHHHhcccceeeecCCcCcceeeceeEEEEeccCC
Confidence            99999888888888887655433  22232  334578899999993

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=94.58  E-value=0.31  Score=51.10  Aligned_cols=80  Identities=24%  Similarity=0.406  Sum_probs=47.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc-cccchhHhhhcCCCCCccCCCCchhhHHHhhC--CCeEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY-QEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKC--PNAVVL  375 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~-~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~--~~~vl~  375 (607)
                      ..++.||..+|||.+.+.+.+.+...    .+-++.... .........               +.......  ....+|
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~----~iy~~~~d~~~~~~~l~d~---------------~~~~~~~~~~~~~yif   99 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEE----IIYINFDDLRLDRIELLDL---------------LRAYIELKEREKSYIF   99 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcc----eEEEEecchhcchhhHHHH---------------HHHHHHhhccCCceEE
Confidence            68899999999999998888765332    222222221 111111111               11111111  347999


Q ss_pred             EecCCccCHHHHHHHHHhhccce
Q psy1308         376 FDEVDKAHPDVLTVLLQLFDEGR  398 (607)
Q Consensus       376 lDEiek~~~~~~~~Ll~~~~~~~  398 (607)
                      ||||...+. .+..|-.+.+.+.
T Consensus       100 LDEIq~v~~-W~~~lk~l~d~~~  121 (398)
T COG1373         100 LDEIQNVPD-WERALKYLYDRGN  121 (398)
T ss_pred             EecccCchh-HHHHHHHHHcccc
Confidence            999997754 6777777777554

>PF05609 LAP1C: Lamina-associated polypeptide 1C (LAP1C); InterPro: IPR008662 This entry contains Rattus norvegicus LAP1C proteins and several uncharacterised highly related sequences from both Mus sp

Probab=94.48  E-value=0.44  Score=49.91  Aligned_cols=141  Identities=18%  Similarity=0.244  Sum_probs=84.9

Q ss_pred             HHHHHhHhhhhHHH-HHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhH--HHHHHHHHhccCcCCceEEeecccccc
Q psy1308         263 EQRLKDRIVGQESA-INIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTE--LAKQLAFYIHRDKKEAFIRLDMSEYQE  339 (607)
Q Consensus       263 ~~~l~~~i~Gq~~a-i~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~--la~~la~~l~~~~~~~~~~l~~a~~~~  339 (607)
                      ...|+..+-+|+.. .+.....+..+........+|.+++|.+..+.-+|.  |+..||..+........+.+|-+.+..
T Consensus       254 ~~~Lk~~fp~Q~~~lW~~~~~~l~~hln~~~pr~qPavlll~a~~~a~~tl~cLa~~lA~ays~~~~~~~~~Idg~~~~~  333 (465)
T PF05609_consen  254 IEQLKDKFPSQDEELWKRSRTFLEKHLNASHPRTQPAVLLLTAAQDAERTLRCLAEQLADAYSSFRDVSAIRIDGADKAH  333 (465)
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHHHhcCCCCCCCeEEEEecCCCcchHHHHHHHHHHHHHhhhcCCceEEecCccccc
Confidence            34566677777744 455555555554443333788999998888766662  445555544321234466677555443


Q ss_pred             cch-hHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEec
Q psy1308         340 KHE-VAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTS  418 (607)
Q Consensus       340 ~~~-~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~ts  418 (607)
                      ..+ .+++.-          -..|...++.... +.++-.+|++||..--.|.++.|+-.        .-|+++.+|||-
T Consensus       334 ~dsd~vK~~v----------D~~l~~~f~~~~~-aavv~~~e~lpp~stlify~YCD~en--------A~fK~~alilTv  394 (465)
T PF05609_consen  334 QDSDQVKLEV----------DNELSSGFENGQK-AAVVHRFESLPPGSTLIFYKYCDHEN--------AAFKDVALILTV  394 (465)
T ss_pred             cChHHHHHHH----------HHHHHHHhhCCCe-eEEeehhhhCCCchhHHHHHhccCCC--------ccccceEEEEEE
Confidence            322 122210          1123344444343 45558999999999999999998643        568999999997


Q ss_pred             Ccch
Q psy1308         419 NLAS  422 (607)
Q Consensus       419 n~~~  422 (607)
                      -+..
T Consensus       395 ~l~~  398 (465)
T PF05609_consen  395 LLEE  398 (465)
T ss_pred             Eecc
Confidence            6543

and humans. Lamina-associated polypeptide 1s (LAP1s), also known as Torsin-1A-interacting protein 1, are type 2 integral membrane proteins with a single membrane-spanning region of the inner nuclear membrane []. LAP1s bind to both A- and B-type lamins and have a putative role in the membrane attachment and assembly of the nuclear lamina [].

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=94.38  E-value=0.038  Score=47.20  Aligned_cols=23  Identities=43%  Similarity=0.642  Sum_probs=21.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.|++|+|||++++.|++.+
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            36899999999999999999876

...

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=94.29  E-value=0.044  Score=52.02  Aligned_cols=22  Identities=41%  Similarity=0.691  Sum_probs=19.9

Q ss_pred             CceeeeeccCCCChhHHHHHHH
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLA  318 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la  318 (607)
                      |..++++|++|+|||.+|+.++
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~   33 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLP   33 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcC
Confidence            5679999999999999999875

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=94.26  E-value=0.11  Score=45.95  Aligned_cols=86  Identities=22%  Similarity=0.235  Sum_probs=50.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCC-chhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDG-GQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~-~~l~~~~~~~~~~vl~lD  377 (607)
                      .+.+.|++|+|||.+.+.++.....  ..+-+.++-.     .    -++..+.+.+.+.. -.+...+- .+..++++|
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~~~--~~G~i~~~~~-----~----~i~~~~~lS~G~~~rv~laral~-~~p~illlD   95 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGELEP--DEGIVTWGST-----V----KIGYFEQLSGGEKMRLALAKLLL-ENPNLLLLD   95 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCC--CceEEEECCe-----E----EEEEEccCCHHHHHHHHHHHHHh-cCCCEEEEe
Confidence            6789999999999999999876533  2333433321     0    01100111111111 11222332 345799999


Q ss_pred             cCC-ccCHHHHHHHHHhhcc
Q psy1308         378 EVD-KAHPDVLTVLLQLFDE  396 (607)
Q Consensus       378 Eie-k~~~~~~~~Ll~~~~~  396 (607)
                      |-. .+++.....|.+++.+
T Consensus        96 EP~~~LD~~~~~~l~~~l~~  115 (144)
T cd03221          96 EPTNHLDLESIEALEEALKE  115 (144)
T ss_pred             CCccCCCHHHHHHHHHHHHH
Confidence            964 6788888888888863

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=94.16  E-value=0.22  Score=54.83  Aligned_cols=92  Identities=18%  Similarity=0.309  Sum_probs=53.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCC-ceEEeecccccc------------------------------cchhHhhh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKE-AFIRLDMSEYQE------------------------------KHEVAKLI  347 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~-~~~~l~~a~~~~------------------------------~~~~~~ll  347 (607)
                      .+++.|++|||||.++..+...+...... +-.++-++..++                              ...+.+++
T Consensus       162 ~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l~~~~~~~~~~~~~a~TiHrlL  241 (586)
T TIGR01447       162 FSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNLAAAEALIAALPSEAVTIHRLL  241 (586)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcccccchhhhhccccccchhhhhh
Confidence            57889999999999998887765332111 001122222211                              23344555


Q ss_pred             cCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      |..++...+.     ...-...+..+|++||+-.++......|++.+.
T Consensus       242 g~~~~~~~~~-----~~~~~~l~~dvlIiDEaSMvd~~l~~~ll~al~  284 (586)
T TIGR01447       242 GIKPDTKRFR-----HHERNPLPLDVLVVDEASMVDLPLMAKLLKALP  284 (586)
T ss_pred             cccCCcchhh-----hcccCCCcccEEEEcccccCCHHHHHHHHHhcC
Confidence            5433211000     000011246799999999999999999998876

This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.

>PRK06696 uridine kinase; Validated

Probab=94.15  E-value=0.17  Score=48.59  Aligned_cols=59  Identities=24%  Similarity=0.325  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc
Q psy1308         276 AINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK  340 (607)
Q Consensus       276 ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~  340 (607)
                      .++.+...+....     ..+|..+.+.|++|+|||++|+.|++.+... ..+.+.+.+..|...
T Consensus         6 ~~~~la~~~~~~~-----~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~-g~~v~~~~~Ddf~~~   64 (223)
T PRK06696          6 LIKELAEHILTLN-----LTRPLRVAIDGITASGKTTFADELAEEIKKR-GRPVIRASIDDFHNP   64 (223)
T ss_pred             HHHHHHHHHHHhC-----CCCceEEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEeccccccCC
Confidence            4444544444322     3357899999999999999999999998643 234555556666443

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=94.07  E-value=0.078  Score=47.30  Aligned_cols=41  Identities=29%  Similarity=0.314  Sum_probs=32.6

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY  337 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~  337 (607)
                      +|.+++|+|.+|+|||.+|+.+.+.+... ..+...+|...+
T Consensus         1 ~g~vIwltGlsGsGKtTlA~~L~~~L~~~-g~~~~~LDgD~l   41 (156)
T PF01583_consen    1 KGFVIWLTGLSGSGKTTLARALERRLFAR-GIKVYLLDGDNL   41 (156)
T ss_dssp             S-EEEEEESSTTSSHHHHHHHHHHHHHHT-TS-EEEEEHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHc-CCcEEEecCcch
Confidence            36789999999999999999999999876 566777776544

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>KOG2543|consensus

Probab=93.99  E-value=0.49  Score=47.80  Aligned_cols=118  Identities=19%  Similarity=0.288  Sum_probs=64.1

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc-cccccchhHhhh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS-EYQEKHEVAKLI  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a-~~~~~~~~~~ll  347 (607)
                      .+.+.+..+..+...+.....     .-|..+.+.|.+|+|||.+.|++.+..+.    +.+-+++- +|+.......++
T Consensus         7 ~v~~Re~qi~~L~~Llg~~~~-----~~PS~~~iyG~sgTGKT~~~r~~l~~~n~----~~vw~n~~ecft~~~lle~IL   77 (438)
T KOG2543|consen    7 NVPCRESQIRRLKSLLGNNSC-----TIPSIVHIYGHSGTGKTYLVRQLLRKLNL----ENVWLNCVECFTYAILLEKIL   77 (438)
T ss_pred             CccchHHHHHHHHHHhCCCCc-----ccceeEEEeccCCCchhHHHHHHHhhcCC----cceeeehHHhccHHHHHHHHH
Confidence            355666777777666543322     23667799999999999999999988744    24444432 333333333333


Q ss_pred             cCC--CCCccCCCCc------hhhHHHhh------C-CCeEEEEecCCcc---CHHHHHHHHHhhc
Q psy1308         348 GAP--PGYLGHDDGG------QLTKRLKK------C-PNAVVLFDEVDKA---HPDVLTVLLQLFD  395 (607)
Q Consensus       348 g~~--~g~~g~~~~~------~l~~~~~~------~-~~~vl~lDEiek~---~~~~~~~Ll~~~~  395 (607)
                      -..  ..+-|....+      .+...+++      . ..-.+++|.+|.+   ++.+...|+++-+
T Consensus        78 ~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~e  143 (438)
T KOG2543|consen   78 NKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYE  143 (438)
T ss_pred             HHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHH
Confidence            211  1122222222      12222222      1 2457888998875   4555666655443

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=93.98  E-value=0.18  Score=46.63  Aligned_cols=95  Identities=26%  Similarity=0.351  Sum_probs=52.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc--cchh----------HhhhcC------CCC-CccCCCC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE--KHEV----------AKLIGA------PPG-YLGHDDG  359 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~--~~~~----------~~llg~------~~g-~~g~~~~  359 (607)
                      .+.+.|++|+|||.+.+.++.....  ..+-+.++-.....  ....          .+.+|-      .+. +.|.+..
T Consensus        27 ~~~l~G~nGsGKStLl~~i~G~~~~--~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~~q  104 (180)
T cd03214          27 IVGILGPNGAGKSTLLKTLAGLLKP--SSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGGERQ  104 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC--CCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHHHH
Confidence            6889999999999999999876533  34445544322111  0000          111121      111 1111111


Q ss_pred             c-hhhHHHhhCCCeEEEEecCC-ccCHHHHHHHHHhhcc
Q psy1308         360 G-QLTKRLKKCPNAVVLFDEVD-KAHPDVLTVLLQLFDE  396 (607)
Q Consensus       360 ~-~l~~~~~~~~~~vl~lDEie-k~~~~~~~~Ll~~~~~  396 (607)
                      . .+...+ ..+..++++||-- .+++.....+.+++.+
T Consensus       105 rl~laral-~~~p~llllDEP~~~LD~~~~~~~~~~l~~  142 (180)
T cd03214         105 RVLLARAL-AQEPPILLLDEPTSHLDIAHQIELLELLRR  142 (180)
T ss_pred             HHHHHHHH-hcCCCEEEEeCCccCCCHHHHHHHHHHHHH
Confidence            0 122222 2356799999954 6788888888888863

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=93.98  E-value=0.3  Score=55.38  Aligned_cols=120  Identities=23%  Similarity=0.299  Sum_probs=65.5

Q ss_pred             eeeeeccCCCChhHHHHHH-HHHhccCcCCceEEee----cccccccchhHhhhcCCCC-CccCC---------------
Q psy1308         299 VFLFLGSSGIGKTELAKQL-AFYIHRDKKEAFIRLD----MSEYQEKHEVAKLIGAPPG-YLGHD---------------  357 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~l-a~~l~~~~~~~~~~l~----~a~~~~~~~~~~llg~~~g-~~g~~---------------  357 (607)
                      ++++.|++|+|||+-.-.. .+....  ..+.+.+-    .+..+-..-+++-+|...| .+||.               
T Consensus        67 vvii~getGsGKTTqlP~~lle~g~~--~~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VGY~iRfe~~~s~~Trik~  144 (845)
T COG1643          67 VVIIVGETGSGKTTQLPQFLLEEGLG--IAGKIGCTQPRRLAARSVAERVAEELGEKLGETVGYSIRFESKVSPRTRIKV  144 (845)
T ss_pred             EEEEeCCCCCChHHHHHHHHHhhhcc--cCCeEEecCchHHHHHHHHHHHHHHhCCCcCceeeEEEEeeccCCCCceeEE
Confidence            6889999999999877443 333321  22222221    2222223345666666544 55552               


Q ss_pred             -CCchhhHHHhh----CCCeEEEEecCCc--cCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHH
Q psy1308         358 -DGGQLTKRLKK----CPNAVVLFDEVDK--AHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHA  429 (607)
Q Consensus       358 -~~~~l~~~~~~----~~~~vl~lDEiek--~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~  429 (607)
                       ..|.+...+..    ..+++|+|||++.  ++.++.-.|+.-+.... .      -|++  +|||+.+++.+.+.++.
T Consensus       145 mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~r-r------~DLK--iIimSATld~~rfs~~f  214 (845)
T COG1643         145 MTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARR-R------DDLK--LIIMSATLDAERFSAYF  214 (845)
T ss_pred             eccHHHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhc-C------CCce--EEEEecccCHHHHHHHc
Confidence             12334444543    3489999999876  33333333332221111 1      1122  68888899988887764

>PRK10867 signal recognition particle protein; Provisional

Probab=93.95  E-value=1.5  Score=46.31  Aligned_cols=120  Identities=21%  Similarity=0.390  Sum_probs=64.6

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc--hh---HhhhcCCCCCccC--CCCchhh-HH-
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH--EV---AKLIGAPPGYLGH--DDGGQLT-KR-  365 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~--~~---~~llg~~~g~~g~--~~~~~l~-~~-  365 (607)
                      ..|.+++++|++|+|||+++..+|..+.........-+++-.|....  ..   .+..|.+ =|...  .....+. .. 
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~-v~~~~~~~dp~~i~~~a~  176 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVP-VFPSGDGQDPVDIAKAAL  176 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCe-EEecCCCCCHHHHHHHHH
Confidence            34678999999999999999999887644312223445554443321  11   1222211 01110  0111121 22 


Q ss_pred             --HhhCCCeEEEEecCCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHH
Q psy1308         366 --LKKCPNAVVLFDEVDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEI  425 (607)
Q Consensus       366 --~~~~~~~vl~lDEiek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i  425 (607)
                        .+...+.+|++|=...++  ......|..+.+.          +....+++++.+..+.+.+
T Consensus       177 ~~a~~~~~DvVIIDTaGrl~~d~~lm~eL~~i~~~----------v~p~evllVlda~~gq~av  230 (433)
T PRK10867        177 EEAKENGYDVVIVDTAGRLHIDEELMDELKAIKAA----------VNPDEILLVVDAMTGQDAV  230 (433)
T ss_pred             HHHHhcCCCEEEEeCCCCcccCHHHHHHHHHHHHh----------hCCCeEEEEEecccHHHHH
Confidence              233457899999988875  3445555544431          1234567777776664443

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=93.94  E-value=0.38  Score=52.19  Aligned_cols=110  Identities=24%  Similarity=0.291  Sum_probs=62.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCc-------CCceEEeecccccccchhHhhhcCCCCC--ccCCCC---------c
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDK-------KEAFIRLDMSEYQEKHEVAKLIGAPPGY--LGHDDG---------G  360 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~-------~~~~~~l~~a~~~~~~~~~~llg~~~g~--~g~~~~---------~  360 (607)
                      ++++.|++|+|||.+.|+|+..-+-..       .....-+--..|-......+.+.+|..-  .+.++-         +
T Consensus       421 ~llI~G~SG~GKTsLlRaiaGLWP~g~G~I~~P~~~~~lflpQ~PY~p~GtLre~l~YP~~~~~~~d~~l~~vL~~vgL~  500 (604)
T COG4178         421 RLLITGESGAGKTSLLRALAGLWPWGSGRISMPADSALLFLPQRPYLPQGTLREALCYPNAAPDFSDAELVAVLHKVGLG  500 (604)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCccCCCceecCCCCceEEecCCCCCCCccHHHHHhCCCCCCCCChHHHHHHHHHcCcH
Confidence            799999999999999999998743211       1111111112233333344444443321  111000         0


Q ss_pred             h------------------------hhHHHhhCCCeEEEEecCC-ccCHHHHHHHHHhhccceeecCCCcEEecCceEEE
Q psy1308         361 Q------------------------LTKRLKKCPNAVVLFDEVD-KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFV  415 (607)
Q Consensus       361 ~------------------------l~~~~~~~~~~vl~lDEie-k~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI  415 (607)
                      .                        +..++- ..+..+||||.- .++++.++.|++.+++           .+.++.||
T Consensus       501 ~L~~rl~~~~~W~~vLS~GEqQRlafARilL-~kP~~v~LDEATsALDe~~e~~l~q~l~~-----------~lp~~tvI  568 (604)
T COG4178         501 DLAERLDEEDRWDRVLSGGEQQRLAFARLLL-HKPKWVFLDEATSALDEETEDRLYQLLKE-----------ELPDATVI  568 (604)
T ss_pred             HHHHHHhccCcHhhhcChhHHHHHHHHHHHH-cCCCEEEEecchhccChHHHHHHHHHHHh-----------hCCCCEEE
Confidence            0                        111111 235699999974 4789999999999984           23456677


Q ss_pred             EecCc
Q psy1308         416 MTSNL  420 (607)
Q Consensus       416 ~tsn~  420 (607)
                      ..+..
T Consensus       569 SV~Hr  573 (604)
T COG4178         569 SVGHR  573 (604)
T ss_pred             Eeccc
Confidence            77763

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=93.86  E-value=0.13  Score=49.67  Aligned_cols=26  Identities=27%  Similarity=0.373  Sum_probs=21.2

Q ss_pred             CCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         370 PNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       370 ~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      ....++|||+..+|+.....|+....
T Consensus        62 ~~~~liiDE~~~~~~g~l~~l~~~~~   87 (234)
T PF01443_consen   62 SYDTLIIDEAQLLPPGYLLLLLSLSP   87 (234)
T ss_pred             cCCEEEEeccccCChHHHHHHHhhcc
Confidence            46799999999999988887666544

Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=93.85  E-value=0.14  Score=52.96  Aligned_cols=23  Identities=48%  Similarity=0.592  Sum_probs=21.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      ++++.|.+|||||.++-.++..+
T Consensus         3 v~~I~G~aGTGKTvla~~l~~~l   25 (352)
T PF09848_consen    3 VILITGGAGTGKTVLALNLAKEL   25 (352)
T ss_pred             EEEEEecCCcCHHHHHHHHHHHh
Confidence            57899999999999999999888

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=93.83  E-value=0.12  Score=48.42  Aligned_cols=96  Identities=21%  Similarity=0.371  Sum_probs=55.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHh-hhcCCCCCccCC--------CCchhhHHHhhC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAK-LIGAPPGYLGHD--------DGGQLTKRLKKC  369 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~-llg~~~g~~g~~--------~~~~l~~~~~~~  369 (607)
                      ..++.|||++|||.+.|.||+.+... .++|.+.-..-..+.++++- +.|.+.--.|..        +......+++..
T Consensus       139 ntLiigpP~~GKTTlLRdiaR~~s~g-~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~cpk~~gmmmaIrsm  217 (308)
T COG3854         139 NTLIIGPPQVGKTTLLRDIARLLSDG-INQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDPCPKAEGMMMAIRSM  217 (308)
T ss_pred             eeEEecCCCCChHHHHHHHHHHhhcc-ccccCCceEEEEeccchhhccccCCchhhhhhhhhhcccchHHHHHHHHHHhc
Confidence            57899999999999999999987442 23344333322222222321 112211111100        001134567777


Q ss_pred             CCeEEEEecCCccCHHHHHHHHHhhccc
Q psy1308         370 PNAVVLFDEVDKAHPDVLTVLLQLFDEG  397 (607)
Q Consensus       370 ~~~vl~lDEiek~~~~~~~~Ll~~~~~~  397 (607)
                      ...|+++|||.....  ..+++..++.|
T Consensus       218 ~PEViIvDEIGt~~d--~~A~~ta~~~G  243 (308)
T COG3854         218 SPEVIIVDEIGTEED--ALAILTALHAG  243 (308)
T ss_pred             CCcEEEEeccccHHH--HHHHHHHHhcC
Confidence            788999999986543  34566777644

>KOG2228|consensus

Probab=93.78  E-value=1  Score=44.84  Aligned_cols=45  Identities=29%  Similarity=0.339  Sum_probs=27.7

Q ss_pred             EEEEecCCc-cCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHH
Q psy1308         373 VVLFDEVDK-AHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNE  424 (607)
Q Consensus       373 vl~lDEiek-~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~  424 (607)
                      +.++||+|- +++.-|..|..++|-..-.       ..--++|-+||.++--+
T Consensus       140 iFIldEfDlf~~h~rQtllYnlfDisqs~-------r~Piciig~Ttrld~lE  185 (408)
T KOG2228|consen  140 IFILDEFDLFAPHSRQTLLYNLFDISQSA-------RAPICIIGVTTRLDILE  185 (408)
T ss_pred             EEEeehhhccccchhhHHHHHHHHHHhhc-------CCCeEEEEeeccccHHH
Confidence            555678987 5677788888898732210       11235666787765443

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=93.73  E-value=0.13  Score=46.35  Aligned_cols=94  Identities=23%  Similarity=0.350  Sum_probs=53.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc--chhHhhhcCCCCCccCCCCc-hhhHHHhhCCCeEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK--HEVAKLIGAPPGYLGHDDGG-QLTKRLKKCPNAVVL  375 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~--~~~~~llg~~~g~~g~~~~~-~l~~~~~~~~~~vl~  375 (607)
                      .+.+.|++|+|||.+.+.|+..+..  ..+-+.++-......  ......++..+.+.+.+... .+...+- .+..+++
T Consensus        27 ~~~i~G~nGsGKStll~~l~g~~~~--~~G~i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~~r~~l~~~l~-~~~~i~i  103 (157)
T cd00267          27 IVALVGPNGSGKSTLLRAIAGLLKP--TSGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQRQRVALARALL-LNPDLLL  103 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC--CccEEEECCEEcccCCHHHHHhceEEEeeCCHHHHHHHHHHHHHh-cCCCEEE
Confidence            6889999999999999999876643  334445543222110  01111111111111111111 1222222 3468999


Q ss_pred             EecCC-ccCHHHHHHHHHhhc
Q psy1308         376 FDEVD-KAHPDVLTVLLQLFD  395 (607)
Q Consensus       376 lDEie-k~~~~~~~~Ll~~~~  395 (607)
                      +||.. .+++.....|.+++.
T Consensus       104 lDEp~~~lD~~~~~~l~~~l~  124 (157)
T cd00267         104 LDEPTSGLDPASRERLLELLR  124 (157)
T ss_pred             EeCCCcCCCHHHHHHHHHHHH
Confidence            99976 577888888888776

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.73  E-value=1.4  Score=46.18  Aligned_cols=123  Identities=18%  Similarity=0.191  Sum_probs=67.7

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh-c--cCcCCceEEeeccccccc---chhHhhhcCCCCCccCCCCchhhHHHhhCC
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI-H--RDKKEAFIRLDMSEYQEK---HEVAKLIGAPPGYLGHDDGGQLTKRLKKCP  370 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l-~--~~~~~~~~~l~~a~~~~~---~~~~~llg~~~g~~g~~~~~~l~~~~~~~~  370 (607)
                      +-.+.|+||+|+|||.+.+.|+... .  .....+++..|.-.....   ....+++|-+- +.................
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~-~~v~~~~dl~~al~~l~~  269 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSV-RSIKDIADLQLMLHELRG  269 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCce-ecCCCHHHHHHHHHHhcC
Confidence            3489999999999999999888653 1  112334555554333222   12345555322 222222222222333445


Q ss_pred             CeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHh
Q psy1308         371 NAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHAL  430 (607)
Q Consensus       371 ~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~  430 (607)
                      ..++++|.....+.+  ....|-.+...+          ...+.++++.++.+...+.+...
T Consensus       270 ~d~VLIDTaGrsqrd~~~~~~l~~l~~~~----------~~~~~~LVl~at~~~~~~~~~~~  321 (420)
T PRK14721        270 KHMVLIDTVGMSQRDQMLAEQIAMLSQCG----------TQVKHLLLLNATSSGDTLDEVIS  321 (420)
T ss_pred             CCEEEecCCCCCcchHHHHHHHHHHhccC----------CCceEEEEEcCCCCHHHHHHHHH
Confidence            789999998877643  333333332211          12356677877777777766443

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.63  E-value=3.4  Score=44.47  Aligned_cols=120  Identities=18%  Similarity=0.214  Sum_probs=60.8

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeeccccccc-chhHhhhcCCCC--CccCCCCchhhHHHhh-CCCe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEK-HEVAKLIGAPPG--YLGHDDGGQLTKRLKK-CPNA  372 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~-~~~~~llg~~~g--~~g~~~~~~l~~~~~~-~~~~  372 (607)
                      -.+.|+|++|+|||.++..|+..+.... .....-+++..|.-. .+....++...+  +........+...++. ..+.
T Consensus       351 ~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~~~D  430 (559)
T PRK12727        351 GVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLRDYK  430 (559)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhccCC
Confidence            3788999999999999988887653321 122333333333211 111111121111  1111222344455544 3478


Q ss_pred             EEEEecCCccCHHH--HHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHH
Q psy1308         373 VVLFDEVDKAHPDV--LTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       373 vl~lDEiek~~~~~--~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                      +||+|.....+.+.  ...|. .+....          ....++|+.++.+...+.+.
T Consensus       431 LVLIDTaG~s~~D~~l~eeL~-~L~aa~----------~~a~lLVLpAtss~~Dl~ei  477 (559)
T PRK12727        431 LVLIDTAGMGQRDRALAAQLN-WLRAAR----------QVTSLLVLPANAHFSDLDEV  477 (559)
T ss_pred             EEEecCCCcchhhHHHHHHHH-HHHHhh----------cCCcEEEEECCCChhHHHHH
Confidence            99999998776542  22222 222110          12346777777666555443

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=93.57  E-value=0.56  Score=46.19  Aligned_cols=107  Identities=21%  Similarity=0.308  Sum_probs=60.1

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      ++--+++++.+.+..+.-..       |- +.++.|..|+||..++|..+-....    .+..+.++.-   -...++  
T Consensus        10 lVlf~~ai~hi~ri~RvL~~-------~~Gh~LLvG~~GsGr~sl~rLaa~i~~~----~~~~i~~~~~---y~~~~f--   73 (268)
T PF12780_consen   10 LVLFDEAIEHIARISRVLSQ-------PRGHALLVGVGGSGRQSLARLAAFICGY----EVFQIEITKG---YSIKDF--   73 (268)
T ss_dssp             ----HHHHHHHHHHHHHHCS-------TTEEEEEECTTTSCHHHHHHHHHHHTTE----EEE-TTTSTT---THHHHH--
T ss_pred             eeeHHHHHHHHHHHHHHHcC-------CCCCeEEecCCCccHHHHHHHHHHHhcc----ceEEEEeeCC---cCHHHH--
Confidence            44455667766655544432       33 8999999999999999976654322    1333333211   111111  


Q ss_pred             CCCCCccCCCCchhhHHHh----hCCCeEEEEecCCccCHHHHHHHHHhhccceeecC
Q psy1308         349 APPGYLGHDDGGQLTKRLK----KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDG  402 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~----~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~  402 (607)
                                ..++..++.    .....+++|++-+-.++.....+-.++..|.+.+.
T Consensus        74 ----------~~dLk~~~~~ag~~~~~~vfll~d~qi~~~~fLe~in~LL~sGeip~L  121 (268)
T PF12780_consen   74 ----------KEDLKKALQKAGIKGKPTVFLLTDSQIVDESFLEDINSLLSSGEIPNL  121 (268)
T ss_dssp             ----------HHHHHHHHHHHHCS-S-EEEEEECCCSSSCHHHHHHHHHHHCSS-TTT
T ss_pred             ----------HHHHHHHHHHHhccCCCeEEEecCcccchHhHHHHHHHHHhCCCCCCC
Confidence                      112222222    23467888888777778888888888888887654

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PTZ00293 thymidine kinase; Provisional

Probab=93.46  E-value=0.16  Score=47.71  Aligned_cols=95  Identities=13%  Similarity=0.142  Sum_probs=46.7

Q ss_pred             eeeeeccCCCChhH-HHHHHHHHhccCcCCceEEeecc---cccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEE
Q psy1308         299 VFLFLGSSGIGKTE-LAKQLAFYIHRDKKEAFIRLDMS---EYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVV  374 (607)
Q Consensus       299 ~~ll~G~~G~GKt~-la~~la~~l~~~~~~~~~~l~~a---~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl  374 (607)
                      .-+++||.++|||. |.+.+.++....  .....+-.+   .|.+...+..-.|.....+-......+...+  .+..+|
T Consensus         6 i~vi~GpMfSGKTteLLr~i~~y~~ag--~kv~~~kp~~DtR~~~~~~I~Sh~g~~~~a~~v~~~~e~~~~~--~~~dvI   81 (211)
T PTZ00293          6 ISVIIGPMFSGKTTELMRLVKRFTYSE--KKCVVIKYSKDTRYSDEQNISSHDKQMLKAIKVSKLKEVLETA--KNYDVI   81 (211)
T ss_pred             EEEEECCCCChHHHHHHHHHHHHHHcC--CceEEEEecccccCCCCCcEEecCCCcceeEEcCCHHHHHHhc--cCCCEE
Confidence            34679999999998 999888876542  222223221   1101111111111100000001111222222  346899


Q ss_pred             EEecCCccCHHHHHHHHHhhccce
Q psy1308         375 LFDEVDKAHPDVLTVLLQLFDEGR  398 (607)
Q Consensus       375 ~lDEiek~~~~~~~~Ll~~~~~~~  398 (607)
                      ++||+.=++ ++......+.+.|.
T Consensus        82 ~IDEaQFf~-~i~~~~~~l~~~g~  104 (211)
T PTZ00293         82 AIDEGQFFP-DLVEFSEAAANLGK  104 (211)
T ss_pred             EEEchHhhH-hHHHHHHHHHHCCC
Confidence            999999884 55555544444443

>PF06128 Shigella_OspC: Shigella flexneri OspC protein; InterPro: IPR010366 This family consists of the Shigella flexneri specific protein OspC

Probab=93.42  E-value=0.4  Score=44.48  Aligned_cols=96  Identities=21%  Similarity=0.147  Sum_probs=60.6

Q ss_pred             CchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHH--cCCHHHHHHHHh
Q psy1308          30 QSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAAR--YGSAKELKTFIE  107 (607)
Q Consensus        30 g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~--~g~~~~v~~Ll~  107 (607)
                      -.+++-+|+.++..+++-+|+..-......-         +.+           ..+-.-+-++..  ..+..+++++|+
T Consensus       179 A~~Am~~si~~~K~dva~~lls~f~ft~~dv---------~~~-----------~~~~ydieY~LS~h~a~~kvL~~Fi~  238 (284)
T PF06128_consen  179 AHQAMWLSIGNAKEDVALYLLSKFNFTKQDV---------ASM-----------EKELYDIEYLLSEHSASYKVLEYFIN  238 (284)
T ss_pred             HHHHHHHHhcccHHHHHHHHHhhcceecchh---------hhc-----------CcchhhHHHHHhhcCCcHHHHHHHHh
Confidence            3466777777777777777765432221110         000           011122333332  346778888888


Q ss_pred             cCCCCCccC---CCCCCcHHHHHHHcCCHHHHHHHHHcCCC
Q psy1308         108 NSKLDVNMR---HPLGWTPLHVAAINGKVDNVRVLLEAGAN  145 (607)
Q Consensus       108 ~~~~~~~~~---d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~  145 (607)
                      +|-+++|.+   -+.|.|-|--|...++.+++.+||++||-
T Consensus       239 ~Glv~vN~~F~~~NSGdtMLDNA~Ky~~~emi~~Llk~GA~  279 (284)
T PF06128_consen  239 RGLVDVNKKFQKVNSGDTMLDNAMKYKNSEMIAFLLKYGAI  279 (284)
T ss_pred             ccccccchhhhccCCcchHHHhHHhcCcHHHHHHHHHcCcc
Confidence            887777754   45688888888888888888888888873

The function of this family is unknown but it is thought that Osp proteins may be involved in postinvasion events related to virulence. Since bacterial pathogens adapt to multiple environments during the course of infecting a host, it has been proposed that Shigella evolved a mechanism to take advantage of a unique intracellular cue, which is mediated through MxiE, to express proteins when the organism reaches the eukaryotic cytosol [].

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=93.37  E-value=0.2  Score=47.67  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             ceeeeeccCCCChhHHHHHHHHH
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFY  320 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~  320 (607)
                      -.++++||.|+|||.+.|.++..
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~~   52 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVALI   52 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHHH
Confidence            46889999999999999999853

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=93.34  E-value=0.4  Score=47.80  Aligned_cols=27  Identities=30%  Similarity=0.402  Sum_probs=23.4

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ++..++|+||+|+|||.++..++..+.
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~  219 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFV  219 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            355899999999999999999998764

>PF13337 Lon_2: Putative ATP-dependent Lon protease

Probab=93.31  E-value=0.058  Score=56.03  Aligned_cols=100  Identities=26%  Similarity=0.293  Sum_probs=66.4

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      ..++=.||.|||||.+-+.+..+.         .+-.   .+...+++||.....    .+.    +++  ....+|.||
T Consensus       209 ~NliELgPrGTGKS~vy~eiSp~~---------~liS---GG~~T~A~LFyn~~~----~~~----GlV--~~~D~VafD  266 (457)
T PF13337_consen  209 YNLIELGPRGTGKSYVYKEISPYG---------ILIS---GGQVTVAKLFYNMST----GQI----GLV--GRWDVVAFD  266 (457)
T ss_pred             cceEEEcCCCCCceeehhhcCccc---------EEEE---CCCcchHHheeeccC----Ccc----eee--eeccEEEEE
Confidence            468889999999999977665331         1111   122345677743211    011    111  224699999


Q ss_pred             cCCccC---HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcc
Q psy1308         378 EVDKAH---PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLA  421 (607)
Q Consensus       378 Eiek~~---~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~  421 (607)
                      ||....   ++.+..|-..|++|.++.++.  .-..++=++|..|..
T Consensus       267 Ev~~i~f~d~d~i~imK~YMesG~fsRG~~--~i~a~as~vf~GNi~  311 (457)
T PF13337_consen  267 EVAGIKFKDKDEIQIMKDYMESGSFSRGKE--EINADASMVFVGNIN  311 (457)
T ss_pred             eccCcccCChHHHHHHHHHHhccceeeccc--ccccceeEEEEcCcC
Confidence            998875   777789999999999998763  234667799999966

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=93.31  E-value=0.22  Score=45.66  Aligned_cols=95  Identities=20%  Similarity=0.275  Sum_probs=51.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc--cchhHhhhcC---CCCC----------ccCCCC-chh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE--KHEVAKLIGA---PPGY----------LGHDDG-GQL  362 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~--~~~~~~llg~---~~g~----------~g~~~~-~~l  362 (607)
                      .+.+.|++|+|||.|.+.|+.....  ..+-+.++-.....  ......-++.   .+.+          .|.+.. -.+
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~~~--~~G~i~~~g~~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~lLS~G~~qrv~l  107 (173)
T cd03246          30 SLAIIGPSGSGKSTLARLILGLLRP--TSGRVRLDGADISQWDPNELGDHVGYLPQDDELFSGSIAENILSGGQRQRLGL  107 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccCC--CCCeEEECCEEcccCCHHHHHhheEEECCCCccccCcHHHHCcCHHHHHHHHH
Confidence            6789999999999999999987543  23333343211110  0001111111   1110          000000 011


Q ss_pred             hHHHhhCCCeEEEEecCC-ccCHHHHHHHHHhhcc
Q psy1308         363 TKRLKKCPNAVVLFDEVD-KAHPDVLTVLLQLFDE  396 (607)
Q Consensus       363 ~~~~~~~~~~vl~lDEie-k~~~~~~~~Ll~~~~~  396 (607)
                      ...+ ..+..++++||-- .+++.....+++++.+
T Consensus       108 a~al-~~~p~~lllDEPt~~LD~~~~~~l~~~l~~  141 (173)
T cd03246         108 ARAL-YGNPRILVLDEPNSHLDVEGERALNQAIAA  141 (173)
T ss_pred             HHHH-hcCCCEEEEECCccccCHHHHHHHHHHHHH
Confidence            1222 2356799999964 5788888888888863

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=93.30  E-value=0.27  Score=55.74  Aligned_cols=91  Identities=15%  Similarity=0.164  Sum_probs=53.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcC-CceEEeecc--------cc--cccchhHhhhcCCCCCccCCCCchhhHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKK-EAFIRLDMS--------EY--QEKHEVAKLIGAPPGYLGHDDGGQLTKRLK  367 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~-~~~~~l~~a--------~~--~~~~~~~~llg~~~g~~g~~~~~~l~~~~~  367 (607)
                      .+++.|++|||||.+++.+.+.+...+. .+...+--+        ..  .....+.++++..++...      ....-.
T Consensus       340 ~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g~~a~Tih~lL~~~~~~~~------~~~~~~  413 (720)
T TIGR01448       340 VVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLTASTIHRLLGYGPDTFR------HNHLED  413 (720)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcCCccccHHHHhhccCCccc------hhhhhc
Confidence            5789999999999999999888754311 111111100        00  012234455543222100      000001


Q ss_pred             hCCCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         368 KCPNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       368 ~~~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      ..+..+|++||+..++......|++.+.
T Consensus       414 ~~~~~llIvDEaSMvd~~~~~~Ll~~~~  441 (720)
T TIGR01448       414 PIDCDLLIVDESSMMDTWLALSLLAALP  441 (720)
T ss_pred             cccCCEEEEeccccCCHHHHHHHHHhCC
Confidence            1346799999999999999988888765

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.26  E-value=3.5  Score=42.48  Aligned_cols=120  Identities=13%  Similarity=0.210  Sum_probs=64.9

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc--chh---HhhhcCCCCCccCCCCchhhHHHhhC-
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK--HEV---AKLIGAPPGYLGHDDGGQLTKRLKKC-  369 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~--~~~---~~llg~~~g~~g~~~~~~l~~~~~~~-  369 (607)
                      ++-.++++||+|+|||.++..++..+... ......+++..|...  ...   .+.++. +-++. .....+...++.. 
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~-g~~V~lItaDtyR~gAveQLk~yae~lgv-pv~~~-~dp~dL~~al~~l~  281 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQ-NRTVGFITTDTFRSGAVEQFQGYADKLDV-ELIVA-TSPAELEEAVQYMT  281 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEEeCCccCccHHHHHHHHhhcCCC-CEEec-CCHHHHHHHHHHHH
Confidence            34588999999999999999998776443 222333444444321  111   222221 11222 2333444444432 


Q ss_pred             ---CCeEEEEecCCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHH
Q psy1308         370 ---PNAVVLFDEVDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       370 ---~~~vl~lDEiek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                         ...+||+|=....+.  +....|..+.+..          ....+++++.++.....+.+.
T Consensus       282 ~~~~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~----------~p~~~~LVLsag~~~~d~~~i  335 (407)
T PRK12726        282 YVNCVDHILIDTVGRNYLAEESVSEISAYTDVV----------HPDLTCFTFSSGMKSADVMTI  335 (407)
T ss_pred             hcCCCCEEEEECCCCCccCHHHHHHHHHHhhcc----------CCceEEEECCCcccHHHHHHH
Confidence               468999999988763  3444454444321          112235566665565555443

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=93.18  E-value=0.31  Score=46.23  Aligned_cols=23  Identities=39%  Similarity=0.456  Sum_probs=20.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+-+.|++|+|||+++|.++-..
T Consensus        35 ~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          35 TLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             EEEEEcCCCCCHHHHHHHHhccc
Confidence            68899999999999999999764

>PRK00131 aroK shikimate kinase; Reviewed

Probab=93.11  E-value=0.11  Score=47.37  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=23.4

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +..+++.|++|+|||.+++.+++.+.
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            45789999999999999999999873

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=93.09  E-value=0.14  Score=49.12  Aligned_cols=84  Identities=17%  Similarity=0.267  Sum_probs=43.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCC----CCccC-CCCchhhHHHh-hCCCe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPP----GYLGH-DDGGQLTKRLK-KCPNA  372 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~----g~~g~-~~~~~l~~~~~-~~~~~  372 (607)
                      .+++.||+|+|||.+.+.++.........-+++.+.+....-..+-..+|...    ++..+ .+...+...++ ..+.+
T Consensus        32 ~~~l~G~n~~GKstll~~i~~~~~la~~g~~vpa~~~~~~~~~~il~~~~l~d~~~~~lS~~~~e~~~~a~il~~~~~~s  111 (222)
T cd03285          32 FLIITGPNMGGKSTYIRQIGVIVLMAQIGCFVPCDSADIPIVDCILARVGASDSQLKGVSTFMAEMLETAAILKSATENS  111 (222)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHHHHhCCCcCcccEEEeccceeEeeeccccchhcCcChHHHHHHHHHHHHHhCCCCe
Confidence            68899999999999999988653222111244444333322111112222111    11111 11122334443 34689


Q ss_pred             EEEEecCCcc
Q psy1308         373 VVLFDEVDKA  382 (607)
Q Consensus       373 vl~lDEiek~  382 (607)
                      ++++||..+.
T Consensus       112 LvLLDEp~~g  121 (222)
T cd03285         112 LIIIDELGRG  121 (222)
T ss_pred             EEEEecCcCC
Confidence            9999999664

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PLN03210 Resistant to P

Probab=93.05  E-value=1.8  Score=52.30  Aligned_cols=49  Identities=33%  Similarity=0.435  Sum_probs=35.9

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .++|.+..++.+...+...      ....-.+.++|+.|+|||++|+.++..+..
T Consensus       185 ~~vG~~~~l~~l~~lL~l~------~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~  233 (1153)
T PLN03210        185 DFVGIEDHIAKMSSLLHLE------SEEVRMVGIWGSSGIGKTTIARALFSRLSR  233 (1153)
T ss_pred             cccchHHHHHHHHHHHccc------cCceEEEEEEcCCCCchHHHHHHHHHHHhh
Confidence            4778888888777665321      112337889999999999999999876543

syringae 6; Provisional

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=92.93  E-value=0.44  Score=43.32  Aligned_cols=95  Identities=20%  Similarity=0.174  Sum_probs=52.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec----ccccc-----cchhHhhhc--CCCCCccCCCCc-hhhHHH
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM----SEYQE-----KHEVAKLIG--APPGYLGHDDGG-QLTKRL  366 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~----a~~~~-----~~~~~~llg--~~~g~~g~~~~~-~l~~~~  366 (607)
                      .+.+.|++|+|||.+.+.++..+...  .+-+.++-    +....     ...+.+.+-  ......|.+... .+...+
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~~~~--~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~~~~~LS~G~~~rv~laral  106 (166)
T cd03223          29 RLLITGPSGTGKSSLFRALAGLWPWG--SGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYPWDDVLSGGEQQRLAFARLL  106 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC--CceEEECCCceEEEECCCCccccccHHHHhhccCCCCCCHHHHHHHHHHHHH
Confidence            68899999999999999999875432  22222221    10000     111222221  111122211111 122222


Q ss_pred             hhCCCeEEEEecCC-ccCHHHHHHHHHhhcc
Q psy1308         367 KKCPNAVVLFDEVD-KAHPDVLTVLLQLFDE  396 (607)
Q Consensus       367 ~~~~~~vl~lDEie-k~~~~~~~~Ll~~~~~  396 (607)
                       ..+..++++||-. .+++..+..+.+++.+
T Consensus       107 -~~~p~~lllDEPt~~LD~~~~~~l~~~l~~  136 (166)
T cd03223         107 -LHKPKFVFLDEATSALDEESEDRLYQLLKE  136 (166)
T ss_pred             -HcCCCEEEEECCccccCHHHHHHHHHHHHH
Confidence             2356799999965 5788899999998874

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=92.90  E-value=0.36  Score=53.35  Aligned_cols=93  Identities=18%  Similarity=0.238  Sum_probs=53.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc------------------------------ccchhHhhhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ------------------------------EKHEVAKLIG  348 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~------------------------------~~~~~~~llg  348 (607)
                      ..++.|++|||||.+++.+...+......+..++-+..-+                              ....+.+++|
T Consensus       169 ~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiHrlLg  248 (615)
T PRK10875        169 ISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLHRLLG  248 (615)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHHHHhC
Confidence            5789999999999999887766532111111111111111                              1233455666


Q ss_pred             CCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhcc
Q psy1308         349 APPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDE  396 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~  396 (607)
                      ..++-..+.     ...-..-+..+|++||+..++-.....|++.+..
T Consensus       249 ~~~~~~~~~-----~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~al~~  291 (615)
T PRK10875        249 AQPGSQRLR-----YHAGNPLHLDVLVVDEASMVDLPMMARLIDALPP  291 (615)
T ss_pred             cCCCccchh-----hccccCCCCCeEEEChHhcccHHHHHHHHHhccc
Confidence            543311000     0000112347999999999999999999998763

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=92.90  E-value=1.9  Score=44.38  Aligned_cols=124  Identities=23%  Similarity=0.364  Sum_probs=71.6

Q ss_pred             CceeeeeccCCCChhH-HHHHHHHHh--ccCcCCceEEeecccccccch---hHhhhcCCCCCccCCCCchhhHHHhh-C
Q psy1308         297 PLVFLFLGSSGIGKTE-LAKQLAFYI--HRDKKEAFIRLDMSEYQEKHE---VAKLIGAPPGYLGHDDGGQLTKRLKK-C  369 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~-la~~la~~l--~~~~~~~~~~l~~a~~~~~~~---~~~llg~~~g~~g~~~~~~l~~~~~~-~  369 (607)
                      +-.+.|.||+|+|||. +||+-|.+.  ..+.+-++++.|.=......+   ..+++|.|---+  .....+...+.. .
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv--~~~~el~~ai~~l~  280 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVV--YSPKELAEAIEALR  280 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEe--cCHHHHHHHHHHhh
Confidence            3489999999999986 455555555  344466788888644333222   245555433211  112233333322 2


Q ss_pred             CCeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhh
Q psy1308         370 PNAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQL  432 (607)
Q Consensus       370 ~~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~  432 (607)
                      ...+||+|=+++-+.+  ....|-.+++.+       .   --++.++++++...+.+.+..-+|
T Consensus       281 ~~d~ILVDTaGrs~~D~~~i~el~~~~~~~-------~---~i~~~Lvlsat~K~~dlkei~~~f  335 (407)
T COG1419         281 DCDVILVDTAGRSQYDKEKIEELKELIDVS-------H---SIEVYLVLSATTKYEDLKEIIKQF  335 (407)
T ss_pred             cCCEEEEeCCCCCccCHHHHHHHHHHHhcc-------c---cceEEEEEecCcchHHHHHHHHHh
Confidence            3579999999987655  445566666633       1   124557777776666665544333

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=92.90  E-value=0.087  Score=46.41  Aligned_cols=23  Identities=39%  Similarity=0.648  Sum_probs=20.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .++++|++|+|||++++.+++.+
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            36899999999999999999765

...

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=92.89  E-value=1  Score=45.70  Aligned_cols=127  Identities=18%  Similarity=0.277  Sum_probs=64.3

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc-----chhHhhhcCC--CCCccCCCCchhhHH---
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK-----HEVAKLIGAP--PGYLGHDDGGQLTKR---  365 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~-----~~~~~llg~~--~g~~g~~~~~~l~~~---  365 (607)
                      +|..++++||+|+|||.++..++..+... .....-+++..+...     .......+.+  +...+.+........   
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~-g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~  191 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQ-GKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQA  191 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc-CCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999887543 222333444333211     0011122210  001111111111121   


Q ss_pred             HhhCCCeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         366 LKKCPNAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       366 ~~~~~~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      .....+.+|++|=...++.+  ..+.|-.+.+--.....    .....+++++.++.+...+.+
T Consensus       192 ~~~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~----~~p~~~~LVl~a~~g~~~~~~  251 (318)
T PRK10416        192 AKARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADP----DAPHEVLLVLDATTGQNALSQ  251 (318)
T ss_pred             HHhCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcC----CCCceEEEEEECCCChHHHHH
Confidence            23456789999998887633  22333333221000000    112456788877777776654

>TIGR00959 ffh signal recognition particle protein

Probab=92.87  E-value=1.3  Score=46.77  Aligned_cols=121  Identities=19%  Similarity=0.398  Sum_probs=64.9

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc--h---hHhhhcCCCCCccCCCCc-hh-hHHH-
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH--E---VAKLIGAPPGYLGHDDGG-QL-TKRL-  366 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~--~---~~~llg~~~g~~g~~~~~-~l-~~~~-  366 (607)
                      .+|..+++.|++|+|||+++..+|..+..........+++-.+....  .   ..+..|.+--..+..... .+ ...+ 
T Consensus        97 ~~p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~  176 (428)
T TIGR00959        97 KPPTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALE  176 (428)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHH
Confidence            45779999999999999999999988642213345556665554321  1   122222211111111111 11 1222 


Q ss_pred             --hhCCCeEEEEecCCccC--HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHH
Q psy1308         367 --KKCPNAVVLFDEVDKAH--PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEI  425 (607)
Q Consensus       367 --~~~~~~vl~lDEiek~~--~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i  425 (607)
                        ....+.+|++|=....+  ......|-++.+.          +....+++++-++.+.+.+
T Consensus       177 ~~~~~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~----------~~p~e~lLVvda~tgq~~~  229 (428)
T TIGR00959       177 YAKENGFDVVIVDTAGRLQIDEELMEELAAIKEI----------LNPDEILLVVDAMTGQDAV  229 (428)
T ss_pred             HHHhcCCCEEEEeCCCccccCHHHHHHHHHHHHh----------hCCceEEEEEeccchHHHH
Confidence              23456799999888775  3344444444331          1234567777666665443

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK08118 topology modulation protein; Reviewed

Probab=92.87  E-value=0.1  Score=47.54  Aligned_cols=25  Identities=36%  Similarity=0.587  Sum_probs=22.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .++++|++|+|||++++.|++.+..
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~   27 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNI   27 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4788999999999999999988744

>KOG0922|consensus

Probab=92.83  E-value=0.6  Score=50.44  Aligned_cols=121  Identities=24%  Similarity=0.341  Sum_probs=63.7

Q ss_pred             eeeeeccCCCChhHHH-HHHHHHhccCcCCceEEee----cccccccchhHhhhcCCCC-CccC----------------
Q psy1308         299 VFLFLGSSGIGKTELA-KQLAFYIHRDKKEAFIRLD----MSEYQEKHEVAKLIGAPPG-YLGH----------------  356 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la-~~la~~l~~~~~~~~~~l~----~a~~~~~~~~~~llg~~~g-~~g~----------------  356 (607)
                      ++++.|++|+|||.=. +.+++..+..  .+.+.+.    .|..+=...++.-.|..-| -+||                
T Consensus        68 vlIviGeTGsGKSTQipQyL~eaG~~~--~g~I~~TQPRRVAavslA~RVAeE~~~~lG~~VGY~IRFed~ts~~Triky  145 (674)
T KOG0922|consen   68 VLIVIGETGSGKSTQIPQYLAEAGFAS--SGKIACTQPRRVAAVSLAKRVAEEMGCQLGEEVGYTIRFEDSTSKDTRIKY  145 (674)
T ss_pred             EEEEEcCCCCCccccHhHHHHhccccc--CCcEEeecCchHHHHHHHHHHHHHhCCCcCceeeeEEEecccCCCceeEEE
Confidence            6889999999998644 5555554442  2222221    1111112223332332222 2332                


Q ss_pred             -CCCchhhHHHhh---CCCeEEEEecCCc--cCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHh
Q psy1308         357 -DDGGQLTKRLKK---CPNAVVLFDEVDK--AHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHAL  430 (607)
Q Consensus       357 -~~~~~l~~~~~~---~~~~vl~lDEiek--~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~  430 (607)
                       .+|-.+.+.+..   ..+++|++||++.  ++.+++=-||+-+-..+        .++  -+||++..++++...++..
T Consensus       146 mTDG~LLRE~l~Dp~LskYsvIIlDEAHERsl~TDiLlGlLKki~~~R--------~~L--klIimSATlda~kfS~yF~  215 (674)
T KOG0922|consen  146 MTDGMLLREILKDPLLSKYSVIILDEAHERSLHTDILLGLLKKILKKR--------PDL--KLIIMSATLDAEKFSEYFN  215 (674)
T ss_pred             ecchHHHHHHhcCCccccccEEEEechhhhhhHHHHHHHHHHHHHhcC--------CCc--eEEEEeeeecHHHHHHHhc
Confidence             112223333322   2389999999986  56676665555443221        112  2678888888888877654


Q ss_pred             h
Q psy1308         431 Q  431 (607)
Q Consensus       431 ~  431 (607)
                      +
T Consensus       216 ~  216 (674)
T KOG0922|consen  216 N  216 (674)
T ss_pred             C
Confidence            3

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=92.81  E-value=0.18  Score=46.38  Aligned_cols=87  Identities=18%  Similarity=0.042  Sum_probs=49.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCC-chhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDG-GQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~-~~l~~~~~~~~~~vl~lD  377 (607)
                      .+.+.||+|+|||.|.+.++..+..  ..+-+.++-....       +.-......|.+.. -.+...+ ..+..++++|
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~~p--~~G~i~~~g~~i~-------~~~q~~~LSgGq~qrv~laral-~~~p~lllLD   96 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQLIP--NGDNDEWDGITPV-------YKPQYIDLSGGELQRVAIAAAL-LRNATFYLFD   96 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCC--CCcEEEECCEEEE-------EEcccCCCCHHHHHHHHHHHHH-hcCCCEEEEE
Confidence            6889999999999999999976543  3344444321100       00000001111111 1122222 2345799999


Q ss_pred             cCC-ccCHHHHHHHHHhhc
Q psy1308         378 EVD-KAHPDVLTVLLQLFD  395 (607)
Q Consensus       378 Eie-k~~~~~~~~Ll~~~~  395 (607)
                      |-- .+++..+..+++++.
T Consensus        97 EPts~LD~~~~~~l~~~l~  115 (177)
T cd03222          97 EPSAYLDIEQRLNAARAIR  115 (177)
T ss_pred             CCcccCCHHHHHHHHHHHH
Confidence            965 578888887777775

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK13695 putative NTPase; Provisional

Probab=92.59  E-value=1.1  Score=41.04  Aligned_cols=24  Identities=29%  Similarity=0.447  Sum_probs=20.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+++.|++|+|||.+++.++..+.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~   25 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLK   25 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            367899999999999999887653

>KOG1808|consensus

Probab=92.57  E-value=0.54  Score=57.20  Aligned_cols=98  Identities=28%  Similarity=0.441  Sum_probs=67.0

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcC----CCCCccCCCCchhhHHHhhCCCeE
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGA----PPGYLGHDDGGQLTKRLKKCPNAV  373 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~----~~g~~g~~~~~~l~~~~~~~~~~v  373 (607)
                      .+++|.||+++|||.+++.+++.....    +++++--+   +.+..+++|.    ..|-.-+.. +.+..+++  .+..
T Consensus       441 ~pillqG~tssGKtsii~~la~~~g~~----~vrinnhe---htd~qeyig~y~~~~~g~l~fre-g~LV~Alr--~G~~  510 (1856)
T KOG1808|consen  441 FPILLQGPTSSGKTSIIKELARATGKN----IVRINNHE---HTDLQEYIGTYVADDNGDLVFRE-GVLVQALR--NGDW  510 (1856)
T ss_pred             CCeEEecCcCcCchhHHHHHHHHhccC----ceehhccc---cchHHHHHHhhhcCCCCCeeeeh-hHHHHHHH--hCCE
Confidence            479999999999999999999987443    55554432   3446677761    222222221 22333332  4679


Q ss_pred             EEEecCCccCHHHHHHHHHhhcc-ceeecCCCc
Q psy1308         374 VLFDEVDKAHPDVLTVLLQLFDE-GRLTDGKGK  405 (607)
Q Consensus       374 l~lDEiek~~~~~~~~Ll~~~~~-~~~~~~~g~  405 (607)
                      ++|||+.-++.+++..|.+++++ ..+....+.
T Consensus       511 ~vlD~lnla~~dvL~aLnrllddnRel~ipe~~  543 (1856)
T KOG1808|consen  511 IVLDELNLAPHDVLEALNRLLDDNRELFIPETQ  543 (1856)
T ss_pred             EEeccccccchHHHHHHHhhhhhhccccccccc
Confidence            99999999999999999999997 555544443

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=92.52  E-value=0.2  Score=45.09  Aligned_cols=39  Identities=28%  Similarity=0.297  Sum_probs=31.4

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS  335 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a  335 (607)
                      +|.+++|+|.+|+|||.+|.++.+.|+.. ......||-.
T Consensus        22 ~~~viW~TGLSGsGKSTiA~ale~~L~~~-G~~~y~LDGD   60 (197)
T COG0529          22 KGAVIWFTGLSGSGKSTIANALEEKLFAK-GYHVYLLDGD   60 (197)
T ss_pred             CCeEEEeecCCCCCHHHHHHHHHHHHHHc-CCeEEEecCh
Confidence            46789999999999999999999999876 4445555543

>PF06128 Shigella_OspC: Shigella flexneri OspC protein; InterPro: IPR010366 This family consists of the Shigella flexneri specific protein OspC

Probab=92.48  E-value=0.46  Score=44.15  Aligned_cols=115  Identities=19%  Similarity=0.211  Sum_probs=62.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC------CCchHHHHHH-
Q psy1308          88 LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD------LFNTVHRTAA-  160 (607)
Q Consensus        88 t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d------~~~~l~~A~~-  160 (607)
                      -.|--|+...+.+.+.-++...        ..-.++|-+|..++..+++-+|+.+= +...+|      +.--+-++.. 
T Consensus       155 isledAV~AsN~~~i~~~VtdK--------kdA~~Am~~si~~~K~dva~~lls~f-~ft~~dv~~~~~~~ydieY~LS~  225 (284)
T PF06128_consen  155 ISLEDAVKASNYEEISNLVTDK--------KDAHQAMWLSIGNAKEDVALYLLSKF-NFTKQDVASMEKELYDIEYLLSE  225 (284)
T ss_pred             ccHHHHHhhcCHHHHHHHhcch--------HHHHHHHHHHhcccHHHHHHHHHhhc-ceecchhhhcCcchhhHHHHHhh
Confidence            3467788888887777666543        12357888888888888888888641 111111      1001222221 


Q ss_pred             -cCCccHHHHHHhcCC-CccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCC
Q psy1308         161 -EKKMNPFEVLLKRED-EFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGA  213 (607)
Q Consensus       161 -~~~~~~~~~Ll~~g~-~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~ga  213 (607)
                       .-+..++++++++|- ++|..-..  -..|.|-|--|..+++.+++.+||++||
T Consensus       226 h~a~~kvL~~Fi~~Glv~vN~~F~~--~NSGdtMLDNA~Ky~~~emi~~Llk~GA  278 (284)
T PF06128_consen  226 HSASYKVLEYFINRGLVDVNKKFQK--VNSGDTMLDNAMKYKNSEMIAFLLKYGA  278 (284)
T ss_pred             cCCcHHHHHHHHhccccccchhhhc--cCCcchHHHhHHhcCcHHHHHHHHHcCc
Confidence             223345555565552 33322111  1226666666666666666666666665

The function of this family is unknown but it is thought that Osp proteins may be involved in postinvasion events related to virulence. Since bacterial pathogens adapt to multiple environments during the course of infecting a host, it has been proposed that Shigella evolved a mechanism to take advantage of a unique intracellular cue, which is mediated through MxiE, to express proteins when the organism reaches the eukaryotic cytosol [].

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=92.43  E-value=0.21  Score=47.06  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=20.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.||+|+|||.+.+.++...
T Consensus        31 ~~~l~G~n~~GKstll~~i~~~~   53 (204)
T cd03282          31 FHIITGPNMSGKSTYLKQIALLA   53 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999987553

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=92.32  E-value=0.98  Score=41.26  Aligned_cols=38  Identities=32%  Similarity=0.642  Sum_probs=28.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY  337 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~  337 (607)
                      .+++.|++|+|||.+++.++..+... ......+++..+
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~-g~~v~~i~~D~~   39 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK-GKKVLLVAADTY   39 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCC
Confidence            46789999999999999999877543 334556666554

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=92.25  E-value=0.21  Score=45.89  Aligned_cols=37  Identities=32%  Similarity=0.365  Sum_probs=28.6

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      +|..++|.|++|+|||.+++.+++.+... ..+...++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~-~~~~~~~~   42 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLK-YSNVIYLD   42 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHc-CCcEEEEe
Confidence            45689999999999999999999988643 33344444

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=92.23  E-value=0.38  Score=44.25  Aligned_cols=95  Identities=28%  Similarity=0.354  Sum_probs=51.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc-cchhHhhhcC---CCCCc---------cCCCCch----
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE-KHEVAKLIGA---PPGYL---------GHDDGGQ----  361 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~-~~~~~~llg~---~~g~~---------g~~~~~~----  361 (607)
                      .+.+.|++|+|||.+.+.++.....  ..+-+.++-..... .....+-++.   .+.+.         ..-.+|.    
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~~~--~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~G~~qrv  107 (178)
T cd03247          30 KIALLGRSGSGKSTLLQLLTGDLKP--QQGEITLDGVPVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFSGGERQRL  107 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCC--CCCEEEECCEEHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCCHHHHHHH
Confidence            6889999999999999999987543  23333333211100 0001111111   00000         0000111    


Q ss_pred             -hhHHHhhCCCeEEEEecCC-ccCHHHHHHHHHhhcc
Q psy1308         362 -LTKRLKKCPNAVVLFDEVD-KAHPDVLTVLLQLFDE  396 (607)
Q Consensus       362 -l~~~~~~~~~~vl~lDEie-k~~~~~~~~Ll~~~~~  396 (607)
                       +...+- .+..++++||-- .+++.....+++++.+
T Consensus       108 ~laral~-~~p~~lllDEP~~~LD~~~~~~l~~~l~~  143 (178)
T cd03247         108 ALARILL-QDAPIVLLDEPTVGLDPITERQLLSLIFE  143 (178)
T ss_pred             HHHHHHh-cCCCEEEEECCcccCCHHHHHHHHHHHHH
Confidence             122222 346799999964 5788888888888864

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PRK06547 hypothetical protein; Provisional

Probab=92.11  E-value=0.18  Score=46.08  Aligned_cols=27  Identities=41%  Similarity=0.404  Sum_probs=23.5

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .++..+.+.|++|+|||.+++.+++.+
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            346688899999999999999999875

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=92.07  E-value=0.47  Score=43.36  Aligned_cols=95  Identities=22%  Similarity=0.353  Sum_probs=50.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc--cchhHhhhcC---CCCCccC---C---CCch-----h
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE--KHEVAKLIGA---PPGYLGH---D---DGGQ-----L  362 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~--~~~~~~llg~---~~g~~g~---~---~~~~-----l  362 (607)
                      .+.+.||+|+|||.+.+.++..+..  ..+-+.++-.....  .......++.   .+.+...   +   .+|.     +
T Consensus        30 ~~~l~G~nGsGKstLl~~i~G~~~~--~~G~i~~~g~~~~~~~~~~~~~~i~~~~~~~~~~~~t~~e~lLS~G~~~rl~l  107 (171)
T cd03228          30 KVAIVGPSGSGKSTLLKLLLRLYDP--TSGEILIDGVDLRDLDLESLRKNIAYVPQDPFLFSGTIRENILSGGQRQRIAI  107 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCC--CCCEEEECCEEhhhcCHHHHHhhEEEEcCCchhccchHHHHhhCHHHHHHHHH
Confidence            6889999999999999999987643  23333333211110  0000111111   0110000   0   0011     2


Q ss_pred             hHHHhhCCCeEEEEecCC-ccCHHHHHHHHHhhcc
Q psy1308         363 TKRLKKCPNAVVLFDEVD-KAHPDVLTVLLQLFDE  396 (607)
Q Consensus       363 ~~~~~~~~~~vl~lDEie-k~~~~~~~~Ll~~~~~  396 (607)
                      ...+- .+..++++||-. .+++.....|.+++.+
T Consensus       108 a~al~-~~p~llllDEP~~gLD~~~~~~l~~~l~~  141 (171)
T cd03228         108 ARALL-RDPPILILDEATSALDPETEALILEALRA  141 (171)
T ss_pred             HHHHh-cCCCEEEEECCCcCCCHHHHHHHHHHHHH
Confidence            22222 345799999954 5788888888888863

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=92.07  E-value=0.28  Score=45.46  Aligned_cols=24  Identities=33%  Similarity=0.404  Sum_probs=20.1

Q ss_pred             eeeeccCCCChhHHHHHHHHHhcc
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      +++.|+||+|||.++..++.....
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~   25 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLA   25 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            678999999999999888766543

A related protein is found in archaea.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=92.07  E-value=0.13  Score=44.13  Aligned_cols=22  Identities=41%  Similarity=0.475  Sum_probs=20.1

Q ss_pred             eeeeccCCCChhHHHHHHHHHh
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +++.|++|+|||++++.|++.+
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999886

...

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=92.01  E-value=2.3  Score=40.94  Aligned_cols=27  Identities=41%  Similarity=0.827  Sum_probs=23.0

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      |..+.+.|++|+|||.+.+.+...+..
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~~~~   39 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYYLRH   39 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhhcc
Confidence            557889999999999999999877644

This is thought to be an ATPase involved in viral DNA packaging [].

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=91.94  E-value=0.16  Score=38.53  Aligned_cols=22  Identities=41%  Similarity=0.564  Sum_probs=20.2

Q ss_pred             eeeeccCCCChhHHHHHHHHHh
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +.+.|++|+|||.+++.+++.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5688999999999999999887

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>KOG2383|consensus

Probab=91.93  E-value=0.22  Score=50.55  Aligned_cols=120  Identities=27%  Similarity=0.366  Sum_probs=62.5

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCc---eEEeecccccccchhHhhhcC-CCCCccC---CCCchhhHHHhhC
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEA---FIRLDMSEYQEKHEVAKLIGA-PPGYLGH---DDGGQLTKRLKKC  369 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~---~~~l~~a~~~~~~~~~~llg~-~~g~~g~---~~~~~l~~~~~~~  369 (607)
                      |--+.++|..|+|||.|.-..-..+..-....   |..+++..-...|....-.|. .+||.-.   +.-..+...+ ..
T Consensus       114 PkGlYlYG~VGcGKTmLMDlFy~~~~~i~rkqRvHFh~fM~~VH~r~H~~k~~~~~~~~~~a~~~~~Dpl~~vA~eI-a~  192 (467)
T KOG2383|consen  114 PKGLYLYGSVGCGKTMLMDLFYDALPPIWRKQRVHFHGFMLSVHKRMHELKQEQGAEKPGYAKSWEIDPLPVVADEI-AE  192 (467)
T ss_pred             CceEEEecccCcchhHHHHHHhhcCCchhhhhhhhHHHHHHHHHHHHHHHHHhccccCccccccccCCccHHHHHHH-hh
Confidence            55899999999999999866543322110111   222222222222222222222 2332211   1111222222 22


Q ss_pred             CCeEEEEecCCcc---CHHHHHHHHH-hhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhh
Q psy1308         370 PNAVVLFDEVDKA---HPDVLTVLLQ-LFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQ  431 (607)
Q Consensus       370 ~~~vl~lDEiek~---~~~~~~~Ll~-~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~  431 (607)
                      ...+|+|||+.--   +.-+++.|+. ++.+              .+++++|||...+.+.+.++|
T Consensus       193 ea~lLCFDEfQVTDVADAmiL~rLf~~Lf~~--------------GvVlvATSNR~P~dLYknGlQ  244 (467)
T KOG2383|consen  193 EAILLCFDEFQVTDVADAMILKRLFEHLFKN--------------GVVLVATSNRAPEDLYKNGLQ  244 (467)
T ss_pred             hceeeeechhhhhhHHHHHHHHHHHHHHHhC--------------CeEEEEeCCCChHHHhhcchh
Confidence            3579999998643   3334444443 3332              357899999999998876665

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=91.83  E-value=2.1  Score=43.27  Aligned_cols=45  Identities=20%  Similarity=0.318  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         276 AINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       276 ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .++.+.+.+.....+.  ......+++.|+.|+||+.+.+.+...+.
T Consensus        57 ~~~~l~~~lg~~L~~~--~~~~~~~~l~G~g~nGKStl~~~l~~l~G  101 (304)
T TIGR01613        57 LIEYLQRVIGYSLTGN--YTEQKLFFLYGNGGNGKSTFQNLLSNLLG  101 (304)
T ss_pred             HHHHHHHHHhHHhcCC--CCceEEEEEECCCCCcHHHHHHHHHHHhC
Confidence            4444444444443331  11234788999999999999998876664

This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus.

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA

Probab=91.79  E-value=1.1  Score=53.45  Aligned_cols=118  Identities=20%  Similarity=0.367  Sum_probs=59.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEe----ecccccccchhHhhhcCCCC-CccCC----------------
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRL----DMSEYQEKHEVAKLIGAPPG-YLGHD----------------  357 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l----~~a~~~~~~~~~~llg~~~g-~~g~~----------------  357 (607)
                      ++++.|++|+|||+..-.+.-..... ..+.+.+    -.+...-...+++.+|.+.| .+||.                
T Consensus        84 vvii~g~TGSGKTTqlPq~lle~~~~-~~~~I~~tQPRRlAA~svA~RvA~elg~~lG~~VGY~vR~~~~~s~~T~I~~~  162 (1283)
T TIGR01967        84 VVIIAGETGSGKTTQLPKICLELGRG-SHGLIGHTQPRRLAARTVAQRIAEELGTPLGEKVGYKVRFHDQVSSNTLVKLM  162 (1283)
T ss_pred             eEEEeCCCCCCcHHHHHHHHHHcCCC-CCceEecCCccHHHHHHHHHHHHHHhCCCcceEEeeEEcCCcccCCCceeeec
Confidence            68899999999999775444332211 2222211    11222222334455555443 34431                


Q ss_pred             CCchhhHHHhh----CCCeEEEEecCCc--cCHHHHHH-HHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHH
Q psy1308         358 DGGQLTKRLKK----CPNAVVLFDEVDK--AHPDVLTV-LLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       358 ~~~~l~~~~~~----~~~~vl~lDEiek--~~~~~~~~-Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                      ..|.+...+..    ...++|+|||++.  ++.++.-. |.+++...    .     +  --+|+|+.+++.+.+.++
T Consensus       163 TdGiLLr~l~~d~~L~~~~~IIIDEaHERsL~~D~LL~lLk~il~~r----p-----d--LKlIlmSATld~~~fa~~  229 (1283)
T TIGR01967       163 TDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRR----P-----D--LKIIITSATIDPERFSRH  229 (1283)
T ss_pred             cccHHHHHhhhCcccccCcEEEEcCcchhhccchhHHHHHHHHHhhC----C-----C--CeEEEEeCCcCHHHHHHH
Confidence            12233333433    2378999999994  44444432 33343211    0     1  125777777776665554

This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=91.76  E-value=0.32  Score=48.29  Aligned_cols=29  Identities=31%  Similarity=0.553  Sum_probs=25.7

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      ..|+.+++.|++|+|||.+|+.|++.+..
T Consensus        90 ~~p~iIlI~G~sgsGKStlA~~La~~l~~  118 (301)
T PRK04220         90 KEPIIILIGGASGVGTSTIAFELASRLGI  118 (301)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35889999999999999999999998843

>PF03158 DUF249: Multigene family 530 protein; InterPro: IPR004858 This entry represents multigene family 530 proteins from African swine fever virus (ASFV) viruses

Probab=91.76  E-value=0.59  Score=42.18  Aligned_cols=137  Identities=9%  Similarity=0.014  Sum_probs=91.8

Q ss_pred             chHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCC
Q psy1308          31 SSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSK  110 (607)
Q Consensus        31 ~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~  110 (607)
                      .-.|..|+.++-..+++.+-......                          -...++.+-.||+..+.++|+++-+.  
T Consensus        47 ~CLl~HAVk~nmL~ILqkyke~L~~~--------------------------~~~~q~LFElAC~~qkydiV~WI~qn--   98 (192)
T PF03158_consen   47 WCLLYHAVKYNMLSILQKYKEDLENE--------------------------RYLNQELFELACEEQKYDIVKWIGQN--   98 (192)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHhhcc--------------------------hhHHHHHHHHHHHHccccHHHHHhhc--
Confidence            34578899999999988886653211                          12345678889999999999998432  


Q ss_pred             CCCccCCCCCCcHHHHHHHcCCHHHH----HHHHHcCCCCCCCCCC---c-hHHHHHHcCCccHHHHHHhcCCCccccCC
Q psy1308         111 LDVNMRHPLGWTPLHVAAINGKVDNV----RVLLEAGANPNLGDLF---N-TVHRTAAEKKMNPFEVLLKREDEFNDVLN  182 (607)
Q Consensus       111 ~~~~~~d~~g~tpLh~A~~~g~~~~v----~~Ll~~ga~~~~~d~~---~-~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~  182 (607)
                        +...  +-.+-.-.|....+.++.    +++.++...-.-.|..   + -|..|+..|-..-+...+++|.+++.   
T Consensus        99 --L~i~--~~~~iFdIA~~~kDlsLyslGY~l~~~~~~~~~~~d~~~ll~~hl~~a~~kgll~F~letlkygg~~~~---  171 (192)
T PF03158_consen   99 --LHIY--NPEDIFDIAFAKKDLSLYSLGYKLLFNRMMSEHNEDPTSLLTQHLEKAAAKGLLPFVLETLKYGGNVDI---  171 (192)
T ss_pred             --cCCC--CchhhhhhhhhccchhHHHHHHHHHHhhcccccccCHHHHHHHHHHHHHHCCCHHHHHHHHHcCCcccH---
Confidence              2221  123455677777766552    2333443222112211   1 47789999999988888999988874   


Q ss_pred             CCcCcCCcchhhHHHhcCCHHHHHHHHh
Q psy1308         183 PNMTFLGFSALHYGVVAGNTEVVELLLK  210 (607)
Q Consensus       183 ~~~d~~g~TpLh~A~~~g~~~~v~~Ll~  210 (607)
                              +.|..|+.+++..++.+++.
T Consensus       172 --------~vls~Av~ynhRkIL~yfi~  191 (192)
T PF03158_consen  172 --------IVLSQAVKYNHRKILDYFIR  191 (192)
T ss_pred             --------HHHHHHHHhhHHHHHHHhhc
Confidence                    38899999999999988864

These proteins may be involved in promoting survival of infected macrophages [].

>PRK07667 uridine kinase; Provisional

Probab=91.74  E-value=0.46  Score=44.40  Aligned_cols=41  Identities=20%  Similarity=0.293  Sum_probs=31.8

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ  338 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~  338 (607)
                      +..+.+.|++|+|||.+++.|++.+... ..+...+++..|.
T Consensus        17 ~~iIgI~G~~gsGKStla~~L~~~l~~~-~~~~~~i~~Dd~~   57 (193)
T PRK07667         17 RFILGIDGLSRSGKTTFVANLKENMKQE-GIPFHIFHIDDYI   57 (193)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhC-CCcEEEEEcCccc
Confidence            4688999999999999999999998653 3355566665553

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=91.67  E-value=0.34  Score=44.43  Aligned_cols=52  Identities=25%  Similarity=0.297  Sum_probs=37.2

Q ss_pred             CCCC-ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHh
Q psy1308         294 DDHP-LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAK  345 (607)
Q Consensus       294 ~~~p-~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~  345 (607)
                      .++| +.+-+.||+|+|||.|...+.+.+..+-+-..+..|+-...+...+.+
T Consensus         9 ~~~~~~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~~Di~t~~Da~~l~~   61 (202)
T COG0378           9 KNRPMLRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITGDIYTKEDADRLRK   61 (202)
T ss_pred             hcCceEEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEEeceeechhhHHHHHh
Confidence            4557 588899999999999999888887554455566677766544444433

>PRK06762 hypothetical protein; Provisional

Probab=91.61  E-value=0.17  Score=45.96  Aligned_cols=25  Identities=40%  Similarity=0.559  Sum_probs=22.6

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      |..+++.|++|+|||++++.+++.+
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999999887

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=91.56  E-value=0.65  Score=41.98  Aligned_cols=26  Identities=15%  Similarity=0.377  Sum_probs=21.8

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      -..++.||.|+|||.+.+++.-.+..
T Consensus        22 ~~~~i~G~NgsGKS~~l~~i~~~~~~   47 (162)
T cd03227          22 SLTIITGPNGSGKSTILDAIGLALGG   47 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            46789999999999999998766544

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=91.55  E-value=1.9  Score=42.64  Aligned_cols=127  Identities=20%  Similarity=0.294  Sum_probs=62.2

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc--chh---HhhhcCC--CCCccCCCCchhhHH--
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK--HEV---AKLIGAP--PGYLGHDDGGQLTKR--  365 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~--~~~---~~llg~~--~g~~g~~~~~~l~~~--  365 (607)
                      .+|..++|+|++|+|||.++..+|..+... .....-+++..|...  .+.   .+..|.+  ....+.+........  
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~~~-g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~  148 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLKKQ-GKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQ  148 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhc-CCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHH
Confidence            345588888999999999999999877443 233334454443221  111   1222211  000011111111111  


Q ss_pred             -HhhCCCeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHH
Q psy1308         366 -LKKCPNAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA  426 (607)
Q Consensus       366 -~~~~~~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~  426 (607)
                       .....+.+|++|=....+.+  .++.|-++.+-......    .....+++++.++.+.+.+.
T Consensus       149 ~~~~~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~----~~~~~~~LVl~a~~~~~~~~  208 (272)
T TIGR00064       149 KAKARNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDK----DAPDEVLLVLDATTGQNALE  208 (272)
T ss_pred             HHHHCCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccC----CCCceEEEEEECCCCHHHHH
Confidence             22355788999988777643  23334443321110000    01235667777776665553

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=91.55  E-value=0.42  Score=44.17  Aligned_cols=24  Identities=33%  Similarity=0.286  Sum_probs=21.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.|++|+|||.|.+.|+....
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~   51 (182)
T cd03215          28 IVGIAGLVGNGQTELAEALFGLRP   51 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            688999999999999999997754

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=91.46  E-value=0.24  Score=46.70  Aligned_cols=22  Identities=18%  Similarity=0.356  Sum_probs=20.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHH
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFY  320 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~  320 (607)
                      .++++||.|+|||.+.+.++..
T Consensus        31 ~~~l~G~Ng~GKStll~~i~~~   52 (202)
T cd03243          31 LLLITGPNMGGKSTYLRSIGLA   52 (202)
T ss_pred             EEEEECCCCCccHHHHHHHHHH
Confidence            6889999999999999999954

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=91.44  E-value=0.46  Score=43.35  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=20.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.|++|+|||.+|..++..+
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc
Confidence            47899999999999999998765

>PRK08485 DNA polymerase III subunit delta'; Validated

Probab=91.41  E-value=0.64  Score=42.99  Aligned_cols=38  Identities=13%  Similarity=0.242  Sum_probs=31.1

Q ss_pred             eEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         372 AVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       372 ~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                      +.++++++++++...++.||+.+|+.           ..+++||+.|..
T Consensus        56 ~k~iI~~a~~l~~~A~NaLLK~LEEP-----------p~~~~fiL~t~~   93 (206)
T PRK08485         56 EKIIVIAAPSYGIEAQNALLKILEEP-----------PKNICFIIVAKS   93 (206)
T ss_pred             cEEEEEchHhhCHHHHHHHHHHhcCC-----------CCCeEEEEEeCC
Confidence            44568899999999999999999963           367788887773

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=91.41  E-value=0.88  Score=46.23  Aligned_cols=41  Identities=24%  Similarity=0.376  Sum_probs=30.9

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeeccc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSE  336 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~  336 (607)
                      +|..+-+.|++|+|||.++..+...+...+ .-..+.+|.+.
T Consensus        55 ~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~Dp~s   96 (332)
T PRK09435         55 NALRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAVDPSS   96 (332)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeCCCc
Confidence            467899999999999999999988876432 33455556544

>PRK07261 topology modulation protein; Provisional

Probab=91.26  E-value=0.22  Score=45.59  Aligned_cols=24  Identities=33%  Similarity=0.504  Sum_probs=20.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .++++|++|+|||++++.|++.+.
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~   25 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYN   25 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhC
Confidence            367899999999999999987653

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=91.25  E-value=0.36  Score=44.78  Aligned_cols=21  Identities=19%  Similarity=0.343  Sum_probs=18.8

Q ss_pred             eeeeccCCCChhHHHHHHHHH
Q psy1308         300 FLFLGSSGIGKTELAKQLAFY  320 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~  320 (607)
                      ++++||.+.|||.+.|.++-.
T Consensus         2 ~~ltG~N~~GKst~l~~i~~~   22 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVGLI   22 (185)
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            579999999999999999854

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=91.25  E-value=1.1  Score=44.49  Aligned_cols=30  Identities=23%  Similarity=0.402  Sum_probs=25.9

Q ss_pred             CCCCCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         293 DDDHPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       293 ~~~~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ...+|..+.+.|++|+|||++++.|...+.
T Consensus        58 ~~~~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        58 GAKIPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            345688999999999999999999988775

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=91.19  E-value=1  Score=45.87  Aligned_cols=93  Identities=16%  Similarity=0.231  Sum_probs=50.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEe-ecccccc--cchhHhhhcCCCC--CccCCCCchhhHHHhhCCCeE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRL-DMSEYQE--KHEVAKLIGAPPG--YLGHDDGGQLTKRLKKCPNAV  373 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l-~~a~~~~--~~~~~~llg~~~g--~~g~~~~~~l~~~~~~~~~~v  373 (607)
                      .++++|++|+|||++.+++...+...  ...+.+ |..++.-  +.....++-...+  -........+...++. ....
T Consensus       162 nili~G~tgSGKTTll~aL~~~ip~~--~ri~tiEd~~El~l~~~~n~~~~~~~~~~~~~~~~~~~~ll~~~LR~-~PD~  238 (332)
T PRK13900        162 NIIISGGTSTGKTTFTNAALREIPAI--ERLITVEDAREIVLSNHPNRVHLLASKGGQGRAKVTTQDLIEACLRL-RPDR  238 (332)
T ss_pred             cEEEECCCCCCHHHHHHHHHhhCCCC--CeEEEecCCCccccccCCCEEEEEecCCCCCcCcCcHHHHHHHHhcc-CCCe
Confidence            58999999999999999999887653  334443 2222221  1111222211111  0000111123333433 3568


Q ss_pred             EEEecCCccCHHHHHHHHHhhccc
Q psy1308         374 VLFDEVDKAHPDVLTVLLQLFDEG  397 (607)
Q Consensus       374 l~lDEiek~~~~~~~~Ll~~~~~~  397 (607)
                      +++.|+-.  ++... +++.+..|
T Consensus       239 IivGEiR~--~ea~~-~l~a~~tG  259 (332)
T PRK13900        239 IIVGELRG--AEAFS-FLRAINTG  259 (332)
T ss_pred             EEEEecCC--HHHHH-HHHHHHcC
Confidence            89999984  45554 57777655

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=91.10  E-value=0.67  Score=44.66  Aligned_cols=31  Identities=26%  Similarity=0.415  Sum_probs=26.6

Q ss_pred             CCCCceeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         294 DDHPLVFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       294 ~~~p~~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      ..+|..+.+.|++|+|||.+++.|+..+...
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            3457789999999999999999999988654

>PRK03846 adenylylsulfate kinase; Provisional

Probab=91.04  E-value=0.35  Score=45.39  Aligned_cols=38  Identities=32%  Similarity=0.336  Sum_probs=29.6

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      +|..+.++|++|+|||.+++.|+..+... ..+.+.++.
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~~~l~~~-~~~~~~ld~   60 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALEEALHEL-GVSTYLLDG   60 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhC-CCCEEEEcC
Confidence            46689999999999999999999987653 334555554

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=91.01  E-value=0.76  Score=45.26  Aligned_cols=92  Identities=17%  Similarity=0.208  Sum_probs=50.2

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEee-cccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD-MSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~-~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      .+++.|++|+|||.+.+.+...+... ....+.+. -.++.-.....--+.   ...+..-...+...++ ....+++++
T Consensus        82 lilisG~tGSGKTT~l~all~~i~~~-~~~iitiEdp~E~~~~~~~q~~v~---~~~~~~~~~~l~~~lR-~~PD~i~vg  156 (264)
T cd01129          82 IILVTGPTGSGKTTTLYSALSELNTP-EKNIITVEDPVEYQIPGINQVQVN---EKAGLTFARGLRAILR-QDPDIIMVG  156 (264)
T ss_pred             EEEEECCCCCcHHHHHHHHHhhhCCC-CCeEEEECCCceecCCCceEEEeC---CcCCcCHHHHHHHHhc-cCCCEEEec
Confidence            58999999999999999988777542 23344442 112211100000000   0111111223344444 345799999


Q ss_pred             cCCccCHHHHHHHHHhhccc
Q psy1308         378 EVDKAHPDVLTVLLQLFDEG  397 (607)
Q Consensus       378 Eiek~~~~~~~~Ll~~~~~~  397 (607)
                      ||-.  ++....+++....|
T Consensus       157 EiR~--~e~a~~~~~aa~tG  174 (264)
T cd01129         157 EIRD--AETAEIAVQAALTG  174 (264)
T ss_pred             cCCC--HHHHHHHHHHHHcC
Confidence            9973  45556667777655

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=90.95  E-value=4.7  Score=45.53  Aligned_cols=121  Identities=18%  Similarity=0.263  Sum_probs=64.9

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc-cCcCCceEEeeccccc--ccc---hhHhhhcCCCCCccCCCCchhhHHHhhC-
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH-RDKKEAFIRLDMSEYQ--EKH---EVAKLIGAPPGYLGHDDGGQLTKRLKKC-  369 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~-~~~~~~~~~l~~a~~~--~~~---~~~~llg~~~g~~g~~~~~~l~~~~~~~-  369 (607)
                      +.+++|+||+|+|||+.+..|+..+. ..+.....-+.+..|.  ...   ...+++|.+- ++.. +...+...++.. 
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv-~~~~-~~~~l~~al~~~~  262 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPV-HAVK-DAADLRFALAALG  262 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCc-cccC-CHHHHHHHHHHhc
Confidence            45899999999999999988887652 2211122222222232  111   1234444322 2322 233344545443 


Q ss_pred             CCeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHH
Q psy1308         370 PNAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHA  429 (607)
Q Consensus       370 ~~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~  429 (607)
                      ...+||+|=....+.+  +...+..+.+.          ....++++++.++.+.+.+.+..
T Consensus       263 ~~D~VLIDTAGRs~~d~~l~eel~~l~~~----------~~p~e~~LVLsAt~~~~~l~~i~  314 (767)
T PRK14723        263 DKHLVLIDTVGMSQRDRNVSEQIAMLCGV----------GRPVRRLLLLNAASHGDTLNEVV  314 (767)
T ss_pred             CCCEEEEeCCCCCccCHHHHHHHHHHhcc----------CCCCeEEEEECCCCcHHHHHHHH
Confidence            4679999999877643  33333333321          12235677777776766665543

>PRK05439 pantothenate kinase; Provisional

Probab=90.93  E-value=0.82  Score=45.89  Aligned_cols=45  Identities=18%  Similarity=0.291  Sum_probs=31.6

Q ss_pred             CCCCCceeeeeccCCCChhHHHHHHHHHhccC-cCCceEEeecccc
Q psy1308         293 DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRD-KKEAFIRLDMSEY  337 (607)
Q Consensus       293 ~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~-~~~~~~~l~~a~~  337 (607)
                      ...+|..+.+.|++|+|||++++.|...+... .......+.+..|
T Consensus        82 ~~~~~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdF  127 (311)
T PRK05439         82 GQKVPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGF  127 (311)
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEecccc
Confidence            34467899999999999999999999877432 1122344555444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	607
1qvr_A	854	Crystal Structure Analysis Of Clpb Length = 854		4e-56
4fct_A	308	Crystal Structure Of The C-Terminal Domain Of Clpb		3e-55
4fcv_A	311	Crystal Structure Of The C-Terminal Domain Of Clpb		7e-53
3pxi_A	758	Structure Of Meca108:clpc Length = 758		1e-37
1ksf_X	758	Crystal Structure Of Clpa, An Hsp100 Chaperone And		5e-37
2xee_A	157	Structural Determinants For Improved Thermal Stabil		7e-17
2xeh_A	157	Structural Determinants For Improved Thermal Stabil		2e-16
1mj0_A	166	Sank E3_5: An Artificial Ankyrin Repeat Protein Len		4e-15
3noc_D	169	Designed Ankyrin Repeat Protein (Darpin) Binders To		8e-15
4f6r_D	169	Tubulin:stathmin-Like Domain Complex Length = 169		9e-15
2p2c_P	169	Inhibition Of Caspase-2 By A Designed Ankyrin Repea		1e-14
3nog_D	169	Designed Ankyrin Repeat Protein (Darpin) Binders To		2e-14
2qyj_A	166	Crystal Structure Of A Designed Full Consensus Anky		2e-14
2y1l_E	169	Caspase-8 In Complex With Darpin-8.4 Length = 169		3e-14
4drx_E	169	Gtp-Tubulin In Complex With A Darpin Length = 169		5e-14
2v5q_C	167	Crystal Structure Of Wild-type Plk-1 Kinase Domain		6e-14
4dui_A	169	Darpin D1 Binding To Tubulin Beta Chain (not In Com		9e-14
1svx_A	169	Crystal Structure Of A Designed Selected Ankyrin Re		1e-13
2j8s_D	169	Drug Export Pathway Of Multidrug Exporter Acrb Reve		1e-13
2bkk_B	169	Crystal Structure Of Aminoglycoside Phosphotransfer		2e-13
4hb5_A	169	Crystal Structure Of Engineered Protein. Northeast		1e-12
3q9u_C	158	In Silico And In Vitro Co-Evolution Of A High Affin		1e-12
4gmr_A	169	Crystal Structure Of Engineered Protein. Northeast		2e-12
3zu7_B	169	Crystal Structure Of A Designed Selected Ankyrin Re		4e-12
2bkg_A	166	Crystal Structure Of E3_19 An Designed Ankyrin Repe		1e-11
4atz_D	154	Ad5 Knob In Complex With A Designed Ankyrin Repeat		7e-11
4hqd_A	169	Crystal Structure Of Engineered Protein. Northeast		8e-11
4hqd_A	169	Crystal Structure Of Engineered Protein. Northeast		3e-04
4gpm_A	169	Crystal Structure Of Engineered Protein. Northeast		5e-10
1n11_A	437	D34 Region Of Human Ankyrin-R And Linker Length = 4		9e-09
1n0r_A	126	4ank: A Designed Ankyrin Repeat Protein With Four I		9e-09
3hg0_D	136	Crystal Structure Of A Darpin In Complex With Orf49		1e-08
3zuv_B	136	Crystal Structure Of A Designed Selected Ankyrin Re		1e-08
2kbx_A	171	Solution Structure Of Ilk-Pinch Complex Length = 17		3e-08
3f6q_A	179	Crystal Structure Of Integrin-Linked Kinase Ankyrin		3e-08
2xzd_G	136	Caspase-3 In Complex With An Inhibitory Darpin-3.4		4e-08
3utm_A	351	Crystal Structure Of A Mouse Tankyrase-Axin Complex		6e-08
1awc_B	153	Mouse Gabp AlphaBETA DOMAIN BOUND TO DNA Length = 1		7e-08
2y0b_G	136	Caspase-3 In Complex With An Inhibitory Darpin-3.4_		8e-08
2xzt_G	136	Caspase-3 In Complex With Darpin-3.4_i78s Length =		1e-07
2jab_A	136	A Designed Ankyrin Repeat Protein Evolved To Picomo		1e-07
3v2o_A	183	Crystal Structure Of The Peptide Bound Complex Of T		3e-07
3twr_A	165	Crystal Structure Of Arc4 From Human Tankyrase 2 In		4e-07
3twq_A	175	Crystal Structure Of Arc4 From Human Tankyrase 2 (A		4e-07
3v30_A	172	Crystal Structure Of The Peptide Bound Complex Of T		4e-07
4grg_A	135	Crystal Structure Of Ige Complexed With E2_79, An A		5e-07
3twu_A	167	Crystal Structure Of Arc4 From Human Tankyrase 2 In		5e-07
3uxg_A	172	Crystal Structure Of Rfxank Length = 172		6e-07
3c5r_A	137	Crystal Structure Of The Bard1 Ankyrin Repeat Domai		1e-06
3v2x_A	167	Crystal Structure Of The Peptide Bound Complex Of T		1e-06
3so8_A	162	Crystal Structure Of Ankra Length = 162		1e-06
3b7b_A	237	Euhmt1 (Glp) Ankyrin Repeat Domain (Structure 1) Le		1e-06
2xen_A	91	Structural Determinants For Improved Thermal Stabil		2e-06
2v4h_C	136	Nemo Cc2-Lz Domain - 1d5 Darpin Complex Length = 13		2e-06
4b93_B	269	Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyri		3e-06
2zgg_A	92	Asn-Hydroxylation Stabilises The Ankyrin Repeat Dom		5e-06
2dvw_A	231	Structure Of The Oncoprotein Gankyrin In Complex Wi		6e-06
1n0q_A	93	3ank: A Designed Ankyrin Repeat Protein With Three		6e-06
3hra_A	201	Crystal Structure Of Ef0377 An Ankyrin Repeat Prote		1e-05
3aji_A	231	Structure Of Gankyrin-S6atpase Photo-Cross-Linked S		1e-05
1qym_A	227	X-Ray Structure Of Human Gankyrin Length = 227		2e-05
1uoh_A	226	Human Gankyrin Length = 226		2e-05
2zgd_A	110	Asn-Hydroxylation Stabilises The Ankyrin Repeat Dom		4e-05
1oy3_D	282	Crystal Structure Of An IkbbetaNF-Kb P65 Homodimer		8e-05
1k3z_D	282	X-Ray Crystal Structure Of The IkbbNF-Kb P65 Homodi		8e-05
2rfa_A	232	Crystal Structure Of The Mouse Trpv6 Ankyrin Repeat		1e-04
1ikn_D	236	IkappabalphaNF-Kappab Complex Length = 236		1e-04
3ljn_A	364	Ankyrin Repeat Protein From Leishmania Major Length		1e-04
2l6b_A	115	Nrc Consensus Ankyrin Repeat Protein Solution Struc		2e-04
3eu9_A	240	The Ankyrin Repeat Domain Of Huntingtin Interacting		2e-04
1s70_B	299	Complex Between Protein Ser/thr Phosphatase-1 (delt		5e-04
1bi7_B	156	Mechanism Of G1 Cyclin Dependent Kinase Inhibition		5e-04
4a63_B	239	Crystal Structure Of The P73-Aspp2 Complex At 2.6a		8e-04

>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb Length = 854

Iteration: 1
 Score =  216 bits (549), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 116/291 (39%), Positives = 187/291 (64%), Gaps = 30/291 (10%)
Query: 269 RIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKE 327
           R+VGQ+ AI  ++ AI+R   G  D + P+  FLFLG +G+GKTELAK LA  +  D +E
Sbjct: 559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF-DTEE 617
Query: 328 AFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVL 387
           A IR+DM+EY EKH V++LIGAPPGY+G+++GGQLT+ +++ P +V+LFDE++KAHPDV 
Sbjct: 618 AMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVF 677
Query: 388 TVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSIS 447
            +LLQ+ D+GRLTD  G+T++ ++ + ++TSNL S  I    L+  ++G  + +      
Sbjct: 678 NILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLI----LEGLQKGWPYER------ 727
Query: 448 KSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELN 507
                          +D V + +L++HF R EFL R++EIV F P +K ++  +V  +L+
Sbjct: 728 --------------IRDEVFK-VLQQHF-RPEFLNRLDEIVVFRPLTKEQIRQIVEIQLS 771
Query: 508 FWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLA 557
           +   +  +K  I++      +  LA+ GYD  +GAR ++  ++R++ + LA
Sbjct: 772 YLRARLAEKR-ISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLA 821

>pdb|4FCT|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb Length = 308

Iteration: 1
 Score =  213 bits (541), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 115/291 (39%), Positives = 186/291 (63%), Gaps = 30/291 (10%)
Query: 269 RIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKE 327
           R+VGQ+ AI  ++ AI+R   G  D + P+  FLFLG +G+GKTELAK LA  +  D +E
Sbjct: 15  RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF-DTEE 73
Query: 328 AFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVL 387
           A IR+DM+EY EKH V++LIGAPPGY+G+++GGQLT+ +++ P +V+LFD ++KAHPDV 
Sbjct: 74  AMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVF 133
Query: 388 TVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSIS 447
            +LLQ+ D+GRLTD  G+T++ ++ + ++TSNL S  I    L+  ++G  + +      
Sbjct: 134 NILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLI----LEGLQKGWPYER------ 183
Query: 448 KSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELN 507
                          +D V + +L++HF R EFL R++EIV F P +K ++  +V  +L+
Sbjct: 184 --------------IRDEVFK-VLQQHF-RPEFLNRLDEIVVFRPLTKEQIRQIVEIQLS 227
Query: 508 FWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLA 557
           +   +  +K  I++      +  LA+ GYD  +GAR ++  ++R++ + LA
Sbjct: 228 YLRARLAEKR-ISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLA 277

>pdb|4FCV|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb Length = 311

Iteration: 1
 Score =  205 bits (521), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 113/291 (38%), Positives = 182/291 (62%), Gaps = 30/291 (10%)
Query: 269 RIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKE 327
           R+VGQ+ AI  ++ AI+R   G  D + P+  FLFLG +G+GKTELAK LA  +  D +E
Sbjct: 18  RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF-DTEE 76
Query: 328 AFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVL 387
           A IR+D +EY EKH V++LIGAPPGY+G+++GGQLT+ +++ P +V+LFD ++KAHPDV 
Sbjct: 77  AXIRIDXTEYXEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVF 136
Query: 388 TVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSIS 447
            +LLQ  D+GRLTD  G+T++ ++ + + TSNL S  I    L+  ++G  + +      
Sbjct: 137 NILLQXLDDGRLTDSHGRTVDFRNTVIIXTSNLGSPLI----LEGLQKGWPYER------ 186
Query: 448 KSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELN 507
                          +D V + +L++HF R EFL R++EIV F P +K ++  +V  + +
Sbjct: 187 --------------IRDEVFK-VLQQHF-RPEFLNRLDEIVVFRPLTKEQIRQIVEIQXS 230
Query: 508 FWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLA 557
           +   +  +K  I++      +  LA+ GYD  +GAR ++  ++R++ + LA
Sbjct: 231 YLRARLAEKR-ISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLA 280

>pdb|3PXI|A Chain A, Structure Of Meca108:clpc Length = 758

Iteration: 1
 Score =  154 bits (390), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 105/317 (33%), Positives = 169/317 (53%), Gaps = 58/317 (18%)
Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFY 320
           +E  L  R++GQ+ A+  ++ A++R   G  D   P+  F+FLG +G+GKTELA+ LA  
Sbjct: 485 MENILHSRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAES 544
Query: 321 IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVD 380
           I  D+ E+ IR+DMSEY EKH  +              GGQLT+++++ P +VVL D ++
Sbjct: 545 IFGDE-ESMIRIDMSEYMEKHSTS--------------GGQLTEKVRRKPYSVVLLDAIE 589
Query: 381 KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFS 440
           KAHPDV  +LLQ+ ++GRLTD KG+T++ ++ I +MTSN+ ++E                
Sbjct: 590 KAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASE---------------- 633
Query: 441 KRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT 500
                                 KD V+   LKR F R EF+ RI+EI+ F    K  L  
Sbjct: 634 ----------------------KDKVMGE-LKRAF-RPEFINRIDEIIVFHSLEKKHLTE 669
Query: 501 LVCRELNFWAKKALDKHNINI-VWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAA 559
           +V   ++    K L + +++I + D     +  +G D+ YGAR ++  +++ V  +L+  
Sbjct: 670 IVSL-MSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGARPLRRAIQKHVEDRLSEE 728
Query: 560 HEKSVIGKGSFVRLYVQ 576
             +  I KG  + L V+
Sbjct: 729 LLRGNIHKGQHIVLDVE 745

>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And Regulator Of Clpap Protease: Structural Basis Of Differences In Function Of The Two Aaa+ Atpase Domains Length = 758

Iteration: 1
 Score =  152 bits (384), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 98/298 (32%), Positives = 154/298 (51%), Gaps = 34/298 (11%)
Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFY 320
           L  RLK  + GQ+ AI  ++ AIK    G   +  P+  FLF G +G+GKTE+  QL+  
Sbjct: 452 LGDRLKMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA 511
Query: 321 IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVD 380
           +  +     +R DMSEY E+H V++LIGAPPGY+G D GG LT  + K P+AV+L DE++
Sbjct: 512 LGIE----LLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIE 567
Query: 381 KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFS 440
           KAHPDV  +LLQ+ D G LTD  G+  + ++ + VMT+N    E  + ++ L        
Sbjct: 568 KAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGL-------- 619
Query: 441 KRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT 500
                I +   ++    I + F                EF  R++ I++F   S   +H 
Sbjct: 620 -----IHQDNSTDAMEEIKKIFT--------------PEFRNRLDNIIWFDHLSTDVIHQ 660
Query: 501 LVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLA 557
           +V + +    +  LD+  +++    +    LA+ GYD   GAR +   ++  +   LA
Sbjct: 661 VVDKFI-VELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNLKKPLA 717

>pdb|2XEE|A Chain A, Structural Determinants For Improved Thermal Stability Of Designed Ankyrin Repeat Proteins With A Redesigned C- Capping Module. Length = 157

Iteration: 1
 Score = 85.5 bits (210), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 60/158 (37%), Positives = 84/158 (53%), Gaps = 11/158 (6%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN +   G+TPLH+AA  G ++ V VLL+AGA+ N  
Sbjct: 6   LLEAARAGQDDEVRILMANGA-DVNAKDKDGYTPLHLAAREGHLEIVEVLLKAGADVNAK 64
Query: 150 DL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D   +  +H  A E  +   EVLLK   + N          G++ LH     G+ E+VE+
Sbjct: 65  DKDGYTPLHLAAREGHLEIVEVLLKAGADVN-----AKDKDGYTPLHLAAREGHLEIVEV 119
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQKYA 242
           LLK+GAD   +D  G  P D A D    +I ++LQK A
Sbjct: 120 LLKAGADVNAQDKFGKTPFDLAIDNGNEDIAEVLQKAA 157

>pdb|2XEH|A Chain A, Structural Determinants For Improved Thermal Stability Of Designed Ankyrin Repeat Proteins With A Redesigned C- Capping Module. Length = 157

Iteration: 1
 Score = 84.0 bits (206), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 61/160 (38%), Positives = 84/160 (52%), Gaps = 15/160 (9%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN +   G+TPLH+AA  G ++ V VLL+AGA+ N  
Sbjct: 6   LLEAARAGQDDEVRILMANGA-DVNAKDKDGYTPLHLAAREGHLEIVEVLLKAGADVNAK 64
Query: 150 DL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D   +  +H  A E  +   EVLLK   + N          G++ LH     G+ E+VE+
Sbjct: 65  DKDGYTPLHLAAREGHLEIVEVLLKAGADVN-----AKDKDGYTPLHLAAREGHLEIVEV 119
Query: 208 LLKSGADPTVKDNSGHIPSDYA-----EDANIKQILQKYA 242
           LLK+GAD   +D  G  P D A     ED  I ++LQK A
Sbjct: 120 LLKAGADVNAQDKFGKTPFDLAIREGHED--IAEVLQKAA 157

>pdb|1MJ0|A Chain A, Sank E3_5: An Artificial Ankyrin Repeat Protein Length = 166

Iteration: 1
 Score = 79.7 bits (195), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 58/155 (37%), Positives = 79/155 (50%), Gaps = 11/155 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     G+TPLH+AA NG ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNATDNDGYTPLHLAASNGHLEIVEVLLKNGADVNAS 76
Query: 150 DL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           DL     +H  AA   +   EVLLK   + N   N      G + LH     G+ E+VE+
Sbjct: 77  DLTGITPLHLAAATGHLEIVEVLLKHGADVNAYDND-----GHTPLHLAAKYGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQ 239
           LLK GAD   +D  G    D + D    ++ +ILQ
Sbjct: 132 LLKHGADVNAQDKFGKTAFDISIDNGNEDLAEILQ 166

>pdb|3NOC|D Chain D, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb: Plasticity Of The Interface Length = 169

Iteration: 1
 Score = 79.0 bits (193), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 58/156 (37%), Positives = 79/156 (50%), Gaps = 11/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN R   GWTPLH+AA  G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNARDFTGWTPLHLAAHFGHLEIVEVLLKNGADVNAK 76
Query: 150 DLFNT--VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D      +H  A    +   EVLLK   + N          GF+ LH     G+ E+VE+
Sbjct: 77  DSLGVTPLHLAARRGHLEIVEVLLKNGADVN-----ASDSHGFTPLHLAAKRGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           LLK+GAD   +D  G    D + D    ++ +ILQK
Sbjct: 132 LLKNGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 167

>pdb|4F6R|D Chain D, Tubulin:stathmin-Like Domain Complex Length = 169

Iteration: 1
 Score = 78.6 bits (192), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 59/156 (37%), Positives = 81/156 (51%), Gaps = 11/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     G TPLH+AAI G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNAEDDSGKTPLHLAAIKGHLEIVEVLLKHGADVNAA 76
Query: 150 DLFNT--VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D      +H  A    +   EVLLK   +    +N   T+ GF+ LH    AG+ E+VE+
Sbjct: 77  DKMGDTPLHLAALYGHLEIVEVLLKNGAD----VNATDTY-GFTPLHLAADAGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           LLK GAD   +D  G    D + D    ++ +ILQK
Sbjct: 132 LLKYGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 167

>pdb|2P2C|P Chain P, Inhibition Of Caspase-2 By A Designed Ankyrin Repeat Protein (Darpin) Length = 169

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 57/156 (36%), Positives = 79/156 (50%), Gaps = 11/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN    LG TPLH+AA  G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNATDWLGHTPLHLAAKTGHLEIVEVLLKYGADVNAW 76
Query: 150 DLFNT--VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D +    +H  A    +   EVLLK   + N        + GF+ LH     G+ E+VE+
Sbjct: 77  DNYGATPLHLAADNGHLEIVEVLLKHGADVN-----AKDYEGFTPLHLAAYDGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           LLK GAD   +D  G    D + D    ++ +ILQK
Sbjct: 132 LLKYGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 167

>pdb|3NOG|D Chain D, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb: Plasticity Of The Interface Length = 169

Iteration: 1
 Score = 77.8 bits (190), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 57/156 (36%), Positives = 78/156 (50%), Gaps = 11/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN    +GWTPLH+AA  G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNASDHVGWTPLHLAAYFGHLEIVEVLLKNGADVNAD 76
Query: 150 DLFNT--VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D      +H  A    +   EVLLK   + N          GF+ LH     G+ E+VE+
Sbjct: 77  DSLGVTPLHLAADRGHLEVVEVLLKNGADVN-----ANDHNGFTPLHLAANIGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           LLK GAD   +D  G    D + D    ++ +ILQK
Sbjct: 132 LLKHGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 167

>pdb|2QYJ|A Chain A, Crystal Structure Of A Designed Full Consensus Ankyrin Length = 166

Iteration: 1
 Score = 77.4 bits (189), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 56/155 (36%), Positives = 81/155 (52%), Gaps = 11/155 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN +   G+TPLH+AA  G ++ V VLL+AGA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNAKDKDGYTPLHLAAREGHLEIVEVLLKAGADVNAK 76
Query: 150 DL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D   +  +H  A E  +   EVLLK   + N          G++ LH     G+ E+VE+
Sbjct: 77  DKDGYTPLHLAAREGHLEIVEVLLKAGADVN-----AKDKDGYTPLHLAAREGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQ 239
           LLK+GAD   +D  G    D + D    ++ +ILQ
Sbjct: 132 LLKAGADVNAQDKFGKTAFDISIDNGNEDLAEILQ 166

>pdb|2Y1L|E Chain E, Caspase-8 In Complex With Darpin-8.4 Length = 169

Iteration: 1
 Score = 76.6 bits (187), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 56/156 (35%), Positives = 78/156 (50%), Gaps = 11/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     GWTPLH+AA NG ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGRDDEVRILMANGA-DVNAEDASGWTPLHLAAFNGHLEIVEVLLKNGADVNAV 76
Query: 150 DL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D      +   A    +   EVLLK   + N          G + LH   + G+ E+VE+
Sbjct: 77  DHAGMTPLRLAALFGHLEIVEVLLKNGADVN-----ANDMEGHTPLHLAAMFGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           LLK+GAD   +D  G    D + D    ++ +ILQK
Sbjct: 132 LLKNGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 167

>pdb|4DRX|E Chain E, Gtp-Tubulin In Complex With A Darpin Length = 169

Iteration: 1
 Score = 76.3 bits (186), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 56/156 (35%), Positives = 79/156 (50%), Gaps = 11/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     G TPLH+AA  G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNATDASGLTPLHLAATYGHLEIVEVLLKHGADVNAI 76
Query: 150 DLFNT--VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D+  +  +H  A    +   EVLLK   + N V        G + LH   + G+ E+VE+
Sbjct: 77  DIMGSTPLHLAALIGHLEIVEVLLKHGADVNAV-----DTWGDTPLHLAAIMGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           LLK GAD   +D  G    D + D    ++ +ILQK
Sbjct: 132 LLKHGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 167

>pdb|2V5Q|C Chain C, Crystal Structure Of Wild-type Plk-1 Kinase Domain In Complex With A Selective Darpin Length = 167

Iteration: 1
 Score = 75.9 bits (185), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 54/144 (37%), Positives = 75/144 (52%), Gaps = 8/144 (5%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  I N   DVN     G TPLH+AA++G ++ V VLL+ GA+ +  
Sbjct: 18  LLEAARAGQDDEVRILIANGA-DVNAVDNTGLTPLHLAAVSGHLEIVEVLLKHGADVDAA 76
Query: 150 DL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D+  F  +H  A    +   EVLLK   + N     +MT  G + LH     G+ E+VE+
Sbjct: 77  DVYGFTPLHLAAMTGHLEIVEVLLKYGADVNAF---DMT--GSTPLHLAADEGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED 231
           LLK GAD   +D  G    D + D
Sbjct: 132 LLKYGADVNAQDKFGKTAFDISID 155

>pdb|4DUI|A Chain A, Darpin D1 Binding To Tubulin Beta Chain (not In Complex) Length = 169

Iteration: 1
 Score = 75.5 bits (184), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 56/156 (35%), Positives = 79/156 (50%), Gaps = 11/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     G TPLH+AA  G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNATDASGLTPLHLAATYGHLEIVEVLLKHGADVNAI 76
Query: 150 DLFNT--VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D+  +  +H  A    +   EVLLK   + N V        G + LH   + G+ E+VE+
Sbjct: 77  DIXGSTPLHLAALIGHLEIVEVLLKHGADVNAV-----DTWGDTPLHLAAIMGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           LLK GAD   +D  G    D + D    ++ +ILQK
Sbjct: 132 LLKHGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 167

>pdb|1SVX|A Chain A, Crystal Structure Of A Designed Selected Ankyrin Repeat Protein In Complex With The Maltose Binding Protein Length = 169

Iteration: 1
 Score = 75.1 bits (183), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 56/156 (35%), Positives = 79/156 (50%), Gaps = 11/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     G TPLH+AA +G ++ V VLL+ GA+ +  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNAADNTGTTPLHLAAYSGHLEIVEVLLKHGADVDAS 76
Query: 150 DLF--NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D+F    +H  A    +   EVLLK   + N + +  MT      LH     G  E+VE+
Sbjct: 77  DVFGYTPLHLAAYWGHLEIVEVLLKNGADVNAMDSDGMT-----PLHLAAKWGYLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           LLK GAD   +D  G    D + D    ++ +ILQK
Sbjct: 132 LLKHGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 167

>pdb|2J8S|D Chain D, Drug Export Pathway Of Multidrug Exporter Acrb Revealed By Darpin Inhibitors Length = 169

Iteration: 1
 Score = 75.1 bits (183), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 56/156 (35%), Positives = 80/156 (51%), Gaps = 11/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN    +GWTPLH+AA  G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGRDDEVRILMANGA-DVNAADVVGWTPLHLAAYWGHLEIVEVLLKNGADVNAY 76
Query: 150 DLFNT--VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D   +  +H  A    +   EVLLK   + N   + N    G + LH     G+ E+VE+
Sbjct: 77  DTLGSTPLHLAAHFGHLEIVEVLLKNGADVN-AKDDN----GITPLHLAANRGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYA---EDANIKQILQK 240
           LLK GAD   +D  G    D +    + ++ +ILQK
Sbjct: 132 LLKYGADVNAQDKFGKTAFDISINNGNEDLAEILQK 167

>pdb|2BKK|B Chain B, Crystal Structure Of Aminoglycoside Phosphotransferase Aph (3')-Iiia In Complex With The Inhibitor Ar_3a Length = 169

Iteration: 1
 Score = 73.9 bits (180), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 53/156 (33%), Positives = 77/156 (49%), Gaps = 11/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     G TPLH+   NG ++ + VLL+  A+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNANDWFGITPLHLVVNNGHLEIIEVLLKYAADVNAS 76
Query: 150 DL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D   +  +H  A    +   EVLLK   + N      M + G++ LH     G+ E+VE+
Sbjct: 77  DKSGWTPLHLAAYRGHLEIVEVLLKYGADVN-----AMDYQGYTPLHLAAEDGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           LLK GAD   +D  G    D + D    ++ +ILQK
Sbjct: 132 LLKYGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 167

>pdb|4HB5|A Chain A, Crystal Structure Of Engineered Protein. Northeast Structural Genomics Consortium Target Or267. Length = 169

Iteration: 1
 Score = 71.6 bits (174), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 52/153 (33%), Positives = 74/153 (48%), Gaps = 10/153 (6%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL- 148
           L  AA  G+   +K  +EN   D N     G TPLH AA NG  + V++LL  GA+PN  
Sbjct: 8   LIEAAENGNKDRVKDLLENG-ADPNASDSDGRTPLHYAAENGHKEIVKLLLSKGADPNAK 66
Query: 149 -GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFL-GFSALHYGVVAGNTEVVE 206
             D    +H  A        ++LL +        +PN     G + LHY    G+ E+V+
Sbjct: 67  DSDGRTPLHYAAENGHKEIVKLLLSK------GADPNAKDSDGRTPLHYAAENGHKEIVK 120
Query: 207 LLLKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
           LLL  GADP   D+ G  P D A +   ++I++
Sbjct: 121 LLLSKGADPNTSDSDGRTPLDLAREHGNEEIVK 153

>pdb|3Q9U|C Chain C, In Silico And In Vitro Co-Evolution Of A High Affinity Complementary Protein-Protein Interface Length = 158

Iteration: 1
 Score = 71.6 bits (174), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 55/156 (35%), Positives = 77/156 (49%), Gaps = 12/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA  G   E++  + N   DVN     G TPLH+AA NG+++ V VLL+ GA+ N  
Sbjct: 10  LLEAAAAGQDDEVRILMANGA-DVNATDDNGLTPLHLAAANGQLEIVEVLLKNGADVNAS 68
Query: 150 DL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D      +H  A +  +   EVLLK   + N          G++ LH   ++G  E+VE+
Sbjct: 69  DSAGITPLHLAAYDGHLEIVEVLLKHGADVN-----AYDRAGWTPLHLAALSGQLEIVEV 123
Query: 208 LLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAE 243
           LLK GAD   +D  G      A D +I Q  +  AE
Sbjct: 124 LLKHGADVNAQDALGLT----AFDISINQGQEDLAE 155

>pdb|4GMR|A Chain A, Crystal Structure Of Engineered Protein. Northeast Structural Genomics Consortium Target Or266. Length = 169

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 52/153 (33%), Positives = 75/153 (49%), Gaps = 10/153 (6%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL- 148
           L  AA  G+   +K  +EN   DVN     G TPLH+AA NG  + V++LL  GA+PN  
Sbjct: 8   LIEAAENGNKDRVKDLLENGA-DVNASDSDGKTPLHLAAENGHKEVVKLLLSQGADPNAK 66
Query: 149 -GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNM-TFLGFSALHYGVVAGNTEVVE 206
             D    +H  A        ++LL +        +PN     G + LH     G+ EVV+
Sbjct: 67  DSDGKTPLHLAAENGHKEVVKLLLSQ------GADPNAKDSDGKTPLHLAAENGHKEVVK 120
Query: 207 LLLKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
           LLL  GADP   D+ G  P D A +   +++++
Sbjct: 121 LLLSQGADPNTSDSDGRTPLDLAREHGNEEVVK 153

>pdb|3ZU7|B Chain B, Crystal Structure Of A Designed Selected Ankyrin Repeat Protein In Complex With The Map Kinase Erk2 Length = 169

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-12,   Method: Composition-based stats.
 Identities = 55/156 (35%), Positives = 75/156 (48%), Gaps = 11/156 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     G TPLH+AA  G  + V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNAHDDQGSTPLHLAAWIGHPEIVEVLLKHGADVNAR 76
Query: 150 DL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D   +  +H  A    +   EVLLK   + N          G + LH     G+ E+VE+
Sbjct: 77  DTDGWTPLHLAADNGHLEIVEVLLKYGADVN-----AQDAYGLTPLHLAADRGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           LLK GAD   +D  G    D + D    ++ +ILQK
Sbjct: 132 LLKHGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 167

>pdb|2BKG|A Chain A, Crystal Structure Of E3_19 An Designed Ankyrin Repeat Protein Length = 166

Iteration: 1
 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 55/155 (35%), Positives = 79/155 (50%), Gaps = 11/155 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     G TPLH+AA  G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNAEDTYGDTPLHLAARVGHLEIVEVLLKNGADVNAL 76
Query: 150 DLFNT--VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D   +  +H  A    +   EVLLK    +   +N + T +G + LH     G+ E+VE+
Sbjct: 77  DFSGSTPLHLAAKRGHLEIVEVLLK----YGADVNADDT-IGSTPLHLAADTGHLEIVEV 131
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQ 239
           LLK GAD   +D  G    D + D    ++ +ILQ
Sbjct: 132 LLKYGADVNAQDKFGKTAFDISIDNGNEDLAEILQ 166

>pdb|4ATZ|D Chain D, Ad5 Knob In Complex With A Designed Ankyrin Repeat Protein Length = 154

Iteration: 1
 Score = 65.9 bits (159), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 53/155 (34%), Positives = 74/155 (47%), Gaps = 11/155 (7%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   D N     G TPLH+AA  G ++ V VLL  GA+ N  
Sbjct: 6   LLEAARAGQDDEVRILMANGA-DANAYDHYGRTPLHMAAAVGHLEIVEVLLRNGADVNAV 64
Query: 150 DLFNT--VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D   T  +H  A+   +   EVLLK   + N          G + L+     G+ E+VE+
Sbjct: 65  DTNGTTPLHLAASLGHLEIVEVLLKYGADVN-----AKDATGITPLYLAAYWGHLEIVEV 119
Query: 208 LLKSGADPTVKDNSGHIPSDYAED---ANIKQILQ 239
           LLK GAD   +D  G    D + D    ++ +ILQ
Sbjct: 120 LLKHGADVNAQDKFGKTAFDISIDIGNEDLAEILQ 154

>pdb|4HQD|A Chain A, Crystal Structure Of Engineered Protein. Northeast Structural Genomics Consortium Target Or265. Length = 169

Iteration: 1
 Score = 65.5 bits (158), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 48/152 (31%), Positives = 72/152 (47%), Gaps = 8/152 (5%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL- 148
           L  AA  G+   +K  IEN   DVN     G TPLH AA  G  + V++L+  GA+ N  
Sbjct: 8   LIEAAENGNKDRVKDLIENG-ADVNASDSDGRTPLHYAAKEGHKEIVKLLISKGADVNAK 66
Query: 149 -GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
             D    +H  A E      ++L+ +  + N          G + LHY    G+ E+V+L
Sbjct: 67  DSDGRTPLHYAAKEGHKEIVKLLISKGADVN-----AKDSDGRTPLHYAAKEGHKEIVKL 121
Query: 208 LLKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
           L+  GAD    D+ G  P D A +   ++I++
Sbjct: 122 LISKGADVNTSDSDGRTPLDLAREHGNEEIVK 153

>pdb|4HQD|A Chain A, Crystal Structure Of Engineered Protein. Northeast Structural Genomics Consortium Target Or265. Length = 169

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 33/61 (54%)
Query: 189 GFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADL 248
           G + LHY    G+ E+V+LL+  GAD   KD+ G  P  YA     K+I++    K AD+
Sbjct: 37  GRTPLHYAAKEGHKEIVKLLISKGADVNAKDSDGRTPLHYAAKEGHKEIVKLLISKGADV 96
Query: 249 Q 249
Sbjct: 97  N 97

>pdb|4GPM|A Chain A, Crystal Structure Of Engineered Protein. Northeast Structural Genomics Consortium Target Or264. Length = 169

Iteration: 1
 Score = 63.2 bits (152), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 47/152 (30%), Positives = 72/152 (47%), Gaps = 8/152 (5%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL- 148
           L  AA  G+   +K  IEN   DVN     G TPLH AA NG  + V++L+  GA+ N  
Sbjct: 8   LIEAAENGNKDRVKDLIENG-ADVNASDSDGRTPLHHAAENGHKEVVKLLISKGADVNAK 66
Query: 149 -GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
             D    +H  A        ++L+ +  + N          G + LH+    G+ EVV+L
Sbjct: 67  DSDGRTPLHHAAENGHKEVVKLLISKGADVN-----AKDSDGRTPLHHAAENGHKEVVKL 121
Query: 208 LLKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
           L+  GAD    D+ G  P D A +   +++++
Sbjct: 122 LISKGADVNTSDSDGRTPLDLAREHGNEEVVK 153

>pdb|1N11|A Chain A, D34 Region Of Human Ankyrin-R And Linker Length = 437

Iteration: 1
 Score = 58.5 bits (140), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 48/138 (34%), Positives = 62/138 (44%), Gaps = 8/138 (5%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G  +  K  ++N K  VN +     TPLH AA  G  + V++LLE  ANPNL 
Sbjct: 51  LHMAARAGHTEVAKYLLQN-KAKVNAKAKDDQTPLHCAARIGHTNMVKLLLENNANPNLA 109
Query: 150 DL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
                  +H  A E  +     LL++E          MT  GF+ LH     G   V EL
Sbjct: 110 TTAGHTPLHIAAREGHVETVLALLEKEAS-----QACMTKKGFTPLHVAAKYGKVRVAEL 164
Query: 208 LLKSGADPTVKDNSGHIP 225
           LL+  A P     +G  P
Sbjct: 165 LLERDAHPNAAGKNGLTP 182

>pdb|1N0R|A Chain A, 4ank: A Designed Ankyrin Repeat Protein With Four Identical Consensus Repeats Length = 126

Iteration: 1
 Score = 58.5 bits (140), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 41/108 (37%), Positives = 60/108 (55%), Gaps = 7/108 (6%)
Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEF 177
           G TPLH+AA NG ++ V++LLEAGA+ N  D      +H  A    +   ++LL+   + 
Sbjct: 2   GRTPLHLAARNGHLEVVKLLLEAGADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGADV 61
Query: 178 NDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
           N   + N    G + LH     G+ EVV+LLL++GAD   KD +G  P
Sbjct: 62  N-AKDKN----GRTPLHLAARNGHLEVVKLLLEAGADVNAKDKNGRTP 104

>pdb|3HG0|D Chain D, Crystal Structure Of A Darpin In Complex With Orf49 From Lactococcal Phage Tp901-1 Length = 136

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 47/154 (30%), Positives = 68/154 (44%), Gaps = 40/154 (25%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN    +G TPLH+AA+N  ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNAEDKVGLTPLHLAAMNDHLEIVEVLLKNGADVNAI 76
Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                     +G + LH   + G+ E+VE+LL
Sbjct: 77  DA------------------------------------IGETPLHLVAMYGHLEIVEVLL 100
Query: 210 KSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           K GAD   +D  G    D + D    ++ +ILQK
Sbjct: 101 KHGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 134

>pdb|3ZUV|B Chain B, Crystal Structure Of A Designed Selected Ankyrin Repeat Protein In Complex With The Phosphorylated Map Kinase Erk2 Length = 136

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 67/154 (43%), Gaps = 40/154 (25%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     G TPLH+AA  G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNALDEDGLTPLHLAAQLGHLEIVEVLLKYGADVN-- 74
Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                   ED F           G + LH   + G+ E+VE+LL
Sbjct: 75  -----------------------AEDNF-----------GITPLHLAAIRGHLEIVEVLL 100
Query: 210 KSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           K GAD   +D  G    D + D    ++ +ILQK
Sbjct: 101 KHGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 134

>pdb|2KBX|A Chain A, Solution Structure Of Ilk-Pinch Complex Length = 171

Iteration: 1
 Score = 57.4 bits (137), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 82/160 (51%), Gaps = 10/160 (6%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL- 148
           +F   R G+A  ++ +++N++ D+N     G++PLH A   G+   V +L+  GA  N+ 
Sbjct: 4   IFTQCREGNAVAVRLWLDNTENDLNQGDDHGFSPLHWACREGRSAVVEMLIMRGARINVM 63
Query: 149 --GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVE 206
             GD    +H  A+    +  + LL+ + + N V        G   LHY    G  +V E
Sbjct: 64  NRGD-DTPLHLAASHGHRDIVQKLLQYKADINAV-----NEHGNVPLHYACFWGQDQVAE 117
Query: 207 LLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYA 246
            L+ +GA  ++ +  G +P D A+ A ++++L++ AEK  
Sbjct: 118 DLVANGALVSICNKYGEMPVDKAK-APLRELLRERAEKMG 156

>pdb|3F6Q|A Chain A, Crystal Structure Of Integrin-Linked Kinase Ankyrin Repeat Domain In Complex With Pinch1 Lim1 Domain Length = 179

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 82/160 (51%), Gaps = 10/160 (6%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL- 148
           +F   R G+A  ++ +++N++ D+N     G++PLH A   G+   V +L+  GA  N+ 
Sbjct: 9   IFTQCREGNAVAVRLWLDNTENDLNQGDDHGFSPLHWACREGRSAVVEMLIMRGARINVM 68
Query: 149 --GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVE 206
             GD    +H  A+    +  + LL+ + + N V        G   LHY    G  +V E
Sbjct: 69  NRGD-DTPLHLAASHGHRDIVQKLLQYKADINAV-----NEHGNVPLHYACFWGQDQVAE 122
Query: 207 LLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYA 246
            L+ +GA  ++ +  G +P D A+ A ++++L++ AEK  
Sbjct: 123 DLVANGALVSICNKYGEMPVDKAK-APLRELLRERAEKMG 161

>pdb|2XZD|G Chain G, Caspase-3 In Complex With An Inhibitory Darpin-3.4 Length = 136

Iteration: 1
 Score = 56.6 bits (135), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 45/154 (29%), Positives = 65/154 (42%), Gaps = 40/154 (25%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A R G   E++  + N   DVN     G TPLH+AA  G ++ V VLL+ GA+ N  
Sbjct: 18  LLEATRAGQDDEVRILMANGA-DVNAMDDAGVTPLHLAAKRGHLEIVEVLLKHGADVNAS 76
Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D++                                    G + LH     G+ E+VE+LL
Sbjct: 77  DIW------------------------------------GRTPLHLAATVGHLEIVEVLL 100
Query: 210 KSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           + GAD   +D  G    D + D    ++ +ILQK
Sbjct: 101 EYGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 134

>pdb|3UTM|A Chain A, Crystal Structure Of A Mouse Tankyrase-Axin Complex Length = 351

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 52/170 (30%), Positives = 78/170 (45%), Gaps = 11/170 (6%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLG--WTPLHVAAINGKVDNVRVLLEAGANPN 147
           L  AAR G+ ++L   +  + L+VN     G   TPLH+AA   +V  V++LL+ GA+ +
Sbjct: 28  LLEAARSGNEEKLMALL--TPLNVNCHASDGRKSTPLHLAAGYNRVRIVQLLLQHGADVH 85
Query: 148 LGDLFNTV--HRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV 205
             D    V  H   +       E+LLK     N      M    F+ LH        EV 
Sbjct: 86  AKDKGGLVPLHNACSYGHYEVTELLLKHGACVN-----AMDLWQFTPLHEAASKNRVEVC 140
Query: 206 ELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAE 255
            LLL  GADPT+ +  G    D A    +++ L    + ++ LQ  +EA+
Sbjct: 141 SLLLSHGADPTLVNCHGKSAVDMAPTPELRERLTYEFKGHSLLQAAREAD 190

>pdb|1AWC|B Chain B, Mouse Gabp AlphaBETA DOMAIN BOUND TO DNA Length = 153

Iteration: 1
 Score = 55.8 bits (133), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 45/132 (34%), Positives = 60/132 (45%), Gaps = 19/132 (14%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHP-----LGWTPLHVAAINGKVDNVRVLLEAGA 144
           L  AAR G   E++  + N         P     LG +PLH+AA  G      VLL AG 
Sbjct: 6   LLEAARAGQDDEVRILMANGA-------PFTTDWLGTSPLHLAAQYGHFSTTEVLLRAGV 58
Query: 145 NPNLGDLFN--TVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNT 202
           + +     +   +H  A+E   N  EVLLK   + N         L  +ALH+     + 
Sbjct: 59  SRDARTKVDRTPLHMAASEGHANIVEVLLKHGADVN-----AKDMLKMTALHWATEHNHQ 113
Query: 203 EVVELLLKSGAD 214
           EVVELL+K GAD
Sbjct: 114 EVVELLIKYGAD 125

>pdb|2Y0B|G Chain G, Caspase-3 In Complex With An Inhibitory Darpin-3.4_s76r Length = 136

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 45/154 (29%), Positives = 65/154 (42%), Gaps = 40/154 (25%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A R G   E++  + N   DVN     G TPLH+AA  G ++ V VLL+ GA+ N  
Sbjct: 18  LLEATRAGQDDEVRILMANGA-DVNAMDDAGVTPLHLAAKRGHLEIVEVLLKHGADVNAR 76
Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D++                                    G + LH     G+ E+VE+LL
Sbjct: 77  DIW------------------------------------GRTPLHLAATVGHLEIVEVLL 100
Query: 210 KSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           + GAD   +D  G    D + D    ++ +ILQK
Sbjct: 101 EYGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 134

>pdb|2XZT|G Chain G, Caspase-3 In Complex With Darpin-3.4_i78s Length = 136

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 45/154 (29%), Positives = 64/154 (41%), Gaps = 40/154 (25%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A R G   E++  + N   DVN     G TPLH+AA  G ++ V VLL+ GA+ N  
Sbjct: 18  LLEATRAGQDDEVRILMANGA-DVNAMDDAGVTPLHLAAKRGHLEIVEVLLKHGADVNAS 76
Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D +                                    G + LH     G+ E+VE+LL
Sbjct: 77  DSW------------------------------------GRTPLHLAATVGHLEIVEVLL 100
Query: 210 KSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           + GAD   +D  G    D + D    ++ +ILQK
Sbjct: 101 EYGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 134

>pdb|2JAB|A Chain A, A Designed Ankyrin Repeat Protein Evolved To Picomolar Affinity To Her2 Length = 136

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 44/154 (28%), Positives = 66/154 (42%), Gaps = 40/154 (25%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN +   G TPL++A  +G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNAKDEYGLTPLYLATAHGHLEIVEVLLKNGADVNAV 76
Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                     +GF+ LH     G+ E+ E+LL
Sbjct: 77  DA------------------------------------IGFTPLHLAAFIGHLEIAEVLL 100
Query: 210 KSGADPTVKDNSGHIPSDYA---EDANIKQILQK 240
           K GAD   +D  G    D +    + ++ +ILQK
Sbjct: 101 KHGADVNAQDKFGKTAFDISIGNGNEDLAEILQK 134

>pdb|3V2O|A Chain A, Crystal Structure Of The Peptide Bound Complex Of The Ankyrin Repeat Domains Of Human Ankra2 Length = 183

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 73/149 (48%), Gaps = 8/149 (5%)
Query: 83  QSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEA 142
           Q    L++ + A  G    L T IE   + +N     G+TPL  AA +G++  V  LL+ 
Sbjct: 16  QGANSLSVHQLAAQGEMLYLATRIEQENV-INHTDEEGFTPLMWAAAHGQIAVVEFLLQN 74
Query: 143 GANPNL-GDLFNTVHRTAAEKKMNPF-EVLLKREDEFNDVLNPNMTFLGFSALHYGVVAG 200
           GA+P L G    +    A  K      ++LL    + N+       + G + L Y V   
Sbjct: 75  GADPQLLGKGRESALSLACSKGYTDIVKMLLDCGVDVNEY-----DWNGGTPLLYAVHGN 129
Query: 201 NTEVVELLLKSGADPTVKDNSGHIPSDYA 229
           + + V++LL+SGADPT++ +SG+   D A
Sbjct: 130 HVKCVKMLLESGADPTIETDSGYNSMDLA 158

>pdb|3TWR|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 In Complex With Peptide From Human 3bp2 Length = 165

Iteration: 1
 Score = 53.1 bits (126), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 67/154 (43%), Gaps = 11/154 (7%)
Query: 84  SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLG--WTPLHVAAINGKVDNVRVLLE 141
           S  D  L  AA+ G  + +K     +   VN R   G   TPLH AA   +V  V  LL+
Sbjct: 6   SEADRQLLEAAKAGDVETVKKLC--TVQSVNCRDIEGRQSTPLHFAAGYNRVSVVEYLLQ 63
Query: 142 AGANPNLGDLFNTV--HRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA 199
            GA+ +  D    V  H   +       E+L+K     N           F+ LH     
Sbjct: 64  HGADVHAKDKGGLVPLHNACSYGHYEVAELLVKHGAVVN-----VADLWKFTPLHEAAAK 118
Query: 200 GNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN 233
           G  E+ +LLL+ GADPT K+  G+ P D  +D +
Sbjct: 119 GKYEICKLLLQHGADPTKKNRDGNTPLDLVKDGD 152

>pdb|3TWQ|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 (Apo Form) Length = 175

Iteration: 1
 Score = 53.1 bits (126), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 67/154 (43%), Gaps = 11/154 (7%)
Query: 84  SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLG--WTPLHVAAINGKVDNVRVLLE 141
           S  D  L  AA+ G  + +K     +   VN R   G   TPLH AA   +V  V  LL+
Sbjct: 10  SEADRQLLEAAKAGDVETVKKLC--TVQSVNCRDIEGRQSTPLHFAAGYNRVSVVEYLLQ 67
Query: 142 AGANPNLGDLFNTV--HRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA 199
            GA+ +  D    V  H   +       E+L+K     N           F+ LH     
Sbjct: 68  HGADVHAKDKGGLVPLHNACSYGHYEVAELLVKHGAVVN-----VADLWKFTPLHEAAAK 122
Query: 200 GNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN 233
           G  E+ +LLL+ GADPT K+  G+ P D  +D +
Sbjct: 123 GKYEICKLLLQHGADPTKKNRDGNTPLDLVKDGD 156

>pdb|3V30|A Chain A, Crystal Structure Of The Peptide Bound Complex Of The Ankyrin Repeat Domains Of Human Rfxank Length = 172

Iteration: 1
 Score = 53.1 bits (126), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 44/154 (28%), Positives = 77/154 (50%), Gaps = 7/154 (4%)
Query: 88  LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN 147
           L++ + A  G   +LK  +      VN     G+TPL  A+  G+++ VR LLE GA+P+
Sbjct: 4   LSIHQLAAQGELDQLKEHLRKGDNLVNKPDERGFTPLIWASAFGEIETVRFLLEWGADPH 63
Query: 148 L--GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV 205
           +   +  + +   +     +   +LL+R+ + N + + N    G + L Y V   + + V
Sbjct: 64  ILAKERESALSLASTGGYTDIVGLLLERDVDIN-IYDWN----GGTPLLYAVRGNHVKCV 118
Query: 206 ELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
           E LL  GAD T + +SG+ P D A     +++ Q
Sbjct: 119 EALLARGADLTTEADSGYTPMDLAVALGYRKVQQ 152

>pdb|4GRG|A Chain A, Crystal Structure Of Ige Complexed With E2_79, An Anti-Ige Inhibitor Length = 135

Iteration: 1
 Score = 53.1 bits (126), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 48/154 (31%), Positives = 65/154 (42%), Gaps = 40/154 (25%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++    N   DVN     G TPLH+AA+ G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILTANGA-DVNANDYWGHTPLHLAAMLGHLEIVEVLLKNGADVNAT 76
Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
              NT                                  G + LH    A + E+VE+LL
Sbjct: 77  G--NT----------------------------------GRTPLHLAAWADHLEIVEVLL 100
Query: 210 KSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           K GAD   +D  G    D + D    ++ +ILQK
Sbjct: 101 KHGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 134

>pdb|3TWU|A Chain A, Crystal Structure Of Arc4 From Human Tankyrase 2 In Complex With Peptide From Human Mcl1 Length = 167

Iteration: 1
 Score = 53.1 bits (126), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 67/154 (43%), Gaps = 11/154 (7%)
Query: 84  SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLG--WTPLHVAAINGKVDNVRVLLE 141
           S  D  L  AA+ G  + +K     +   VN R   G   TPLH AA   +V  V  LL+
Sbjct: 8   SEADRQLLEAAKAGDVETVKKLC--TVQSVNCRDIEGRQSTPLHFAAGYNRVSVVEYLLQ 65
Query: 142 AGANPNLGDLFNTV--HRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA 199
            GA+ +  D    V  H   +       E+L+K     N           F+ LH     
Sbjct: 66  HGADVHAKDKGGLVPLHNACSYGHYEVAELLVKHGAVVN-----VADLWKFTPLHEAAAK 120
Query: 200 GNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN 233
           G  E+ +LLL+ GADPT K+  G+ P D  +D +
Sbjct: 121 GKYEICKLLLQHGADPTKKNRDGNTPLDLVKDGD 154

>pdb|3UXG|A Chain A, Crystal Structure Of Rfxank Length = 172

Iteration: 1
 Score = 52.8 bits (125), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 44/154 (28%), Positives = 77/154 (50%), Gaps = 7/154 (4%)
Query: 88  LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN 147
           L++ + A  G   +LK  +      VN     G+TPL  A+  G+++ VR LLE GA+P+
Sbjct: 4   LSIHQLAAQGELDQLKEHLRKGDNLVNKPDERGFTPLIWASAFGEIETVRFLLEWGADPH 63
Query: 148 L--GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV 205
           +   +  + +   +     +   +LL+R+ + N + + N    G + L Y V   + + V
Sbjct: 64  ILAKERESALSLASTGGYTDIVGLLLERDVDIN-IYDWN----GGTPLLYAVHGNHVKCV 118
Query: 206 ELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
           E LL  GAD T + +SG+ P D A     +++ Q
Sbjct: 119 EALLARGADLTTEADSGYTPMDLAVALGYRKVQQ 152

>pdb|3C5R|A Chain A, Crystal Structure Of The Bard1 Ankyrin Repeat Domain And Its Functional Consequences Length = 137

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 36/121 (29%), Positives = 60/121 (49%), Gaps = 7/121 (5%)
Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEF 177
           G T LH+A+I G + +V  LL+ G++PN+ D   +  +H       +   E+LL+ +   
Sbjct: 10  GETLLHIASIKGDIPSVEYLLQNGSDPNVKDHAGWTPLHEACNHGHLKVVELLLQHKALV 69
Query: 178 NDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQI 237
           N        +   S LH     G+ ++V+LLL  GA     +  G  P DY +D ++K +
Sbjct: 70  N-----TTGYQNDSPLHDAAKNGHVDIVKLLLSYGASRNAVNIFGLRPVDYTDDESMKSL 124
Query: 238 L 238
           L
Sbjct: 125 L 125

>pdb|3V2X|A Chain A, Crystal Structure Of The Peptide Bound Complex Of The Ankyrin Repeat Domains Of Human Ankra2 Length = 167

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 45/144 (31%), Positives = 72/144 (50%), Gaps = 8/144 (5%)
Query: 88  LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN 147
           L++ + A  G    L T IE   + +N     G+TPL  AA +G++  V  LL+ GA+P 
Sbjct: 5   LSVHQLAAQGEMLYLATRIEQENV-INHTDEEGFTPLMWAAAHGQIAVVEFLLQNGADPQ 63
Query: 148 L-GDLFNTVHRTAAEKKMNPF-EVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV 205
           L G    +    A  K      ++LL    + N+       + G + L Y V   + + V
Sbjct: 64  LLGKGRESALSLACSKGYTDIVKMLLDCGVDVNE-----YDWNGGTPLLYAVHGNHVKCV 118
Query: 206 ELLLKSGADPTVKDNSGHIPSDYA 229
           ++LL+SGADPT++ +SG+   D A
Sbjct: 119 KMLLESGADPTIETDSGYNSMDLA 142

>pdb|3SO8|A Chain A, Crystal Structure Of Ankra Length = 162

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 45/144 (31%), Positives = 72/144 (50%), Gaps = 8/144 (5%)
Query: 88  LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN 147
           L++ + A  G    L T IE   + +N     G+TPL  AA +G++  V  LL+ GA+P 
Sbjct: 3   LSVHQLAAQGEMLYLATRIEQENV-INHTDEEGFTPLMWAAAHGQIAVVEFLLQNGADPQ 61
Query: 148 L-GDLFNTVHRTAAEKKMNPF-EVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV 205
           L G    +    A  K      ++LL    + N+       + G + L Y V   + + V
Sbjct: 62  LLGKGRESALSLACSKGYTDIVKMLLDCGVDVNE-----YDWNGGTPLLYAVHGNHVKCV 116
Query: 206 ELLLKSGADPTVKDNSGHIPSDYA 229
           ++LL+SGADPT++ +SG+   D A
Sbjct: 117 KMLLESGADPTIETDSGYNSMDLA 140

>pdb|3B7B|A Chain A, Euhmt1 (Glp) Ankyrin Repeat Domain (Structure 1) Length = 237

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 39/139 (28%), Positives = 64/139 (46%), Gaps = 7/139 (5%)
Query: 89  TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
            L  AA+ G  + ++  + N ++DVN +   GWTP+  A     VD V++LL  G++ N+
Sbjct: 80  CLHLAAKKGHYEVVQYLLSNGQMDVNCQDDGGWTPMIWATEYKHVDLVKLLLSKGSDINI 139
Query: 149 GDLFNTV--HRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVE 206
            D    +  H  A    ++  E+LL  + + + V        G S LH        + V 
Sbjct: 140 RDNEENICLHWAAFSGCVDIAEILLAAKCDLHAV-----NIHGDSPLHIAARENRYDCVV 194
Query: 207 LLLKSGADPTVKDNSGHIP 225
           L L   +D T+K+  G  P
Sbjct: 195 LFLSRDSDVTLKNKEGETP 213

>pdb|2XEN|A Chain A, Structural Determinants For Improved Thermal Stability Of Designed Ankyrin Repeat Proteins With A Redesigned C- Capping Module Length = 91

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/63 (44%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN +   G+TPLH+AA  G ++ V VLL+AGA+ N  
Sbjct: 6   LLEAARAGQDDEVRILMANGA-DVNAKDKDGYTPLHLAAREGHLEIVEVLLKAGADVNAQ 64
Query: 150 DLF 152
           D F
Sbjct: 65  DKF 67

>pdb|2V4H|C Chain C, Nemo Cc2-Lz Domain - 1d5 Darpin Complex Length = 136

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 66/154 (42%), Gaps = 40/154 (25%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     G TPLH+AA    ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMANGA-DVNANDRKGNTPLHLAADYDHLEIVEVLLKHGADVNAH 76
Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                           ND         G + LH   + G+ E+VE+LL
Sbjct: 77  D---------------------------ND---------GSTPLHLAALFGHLEIVEVLL 100
Query: 210 KSGADPTVKDNSGHIPSDYAED---ANIKQILQK 240
           K GAD   +D  G    D + D    ++ +ILQK
Sbjct: 101 KHGADVNAQDKFGKTAFDISIDNGNEDLAEILQK 134

>pdb|4B93|B Chain B, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin Repeat Domain Of Varp Length = 269

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 40/136 (29%), Positives = 62/136 (45%), Gaps = 9/136 (6%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL- 148
           L +  +   A++    +  S L VN+    G +PLHVAA++G+ D + +LL+ GAN    
Sbjct: 56  LCQCPKCAPAQKRLAKVPASGLGVNVTSQDGSSPLHVAALHGRADLIPLLLKHGANAGAR 115
Query: 149 -GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFL-GFSALHYGVVAGNTEVVE 206
             D    +H    +      + LL    +      PN   L G + L Y    G+ E+V 
Sbjct: 116 NADQAVPLHLACQQGHFQVVKCLLDSNAK------PNKKDLSGNTPLIYACSGGHHELVA 169
Query: 207 LLLKSGADPTVKDNSG 222
           LLL+ GA     +N G
Sbjct: 170 LLLQHGASINASNNKG 185

>pdb|2ZGG|A Chain A, Asn-Hydroxylation Stabilises The Ankyrin Repeat Domain Fold Length = 92

Iteration: 1
 Score = 49.7 bits (117), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 28/63 (44%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DV  +   G TPLH+AA NG ++ V++LLEAGA+ N  
Sbjct: 10  LLEAARAGQDDEVRILMANGA-DVAAKDKNGSTPLHLAARNGHLEVVKLLLEAGADVNAQ 68
Query: 150 DLF 152
           D F
Sbjct: 69  DKF 71

>pdb|2DVW|A Chain A, Structure Of The Oncoprotein Gankyrin In Complex With S6 Atpase Of The 26s Proteasome Length = 231

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 50/183 (27%), Positives = 82/183 (44%), Gaps = 11/183 (6%)
Query: 101 ELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN-LGDLFNTVHRTA 159
           E+  F+    + VN +   GW+PLH+AA  G+ + V+ LL  GA+ N +     T    A
Sbjct: 54  EIVEFLLQLGVPVNDKDDAGWSPLHIAASAGRDEIVKALLVKGAHVNAVNQNGCTPLHYA 113
Query: 160 AEKKMNPFEVLLKREDEFNDVLNPNMT-FLGFSALHYGVVAGNTEVVELLLKSGADPTVK 218
           A K  +   V+L          NP+       +A+H     GN ++V +LL   A   ++
Sbjct: 114 ASKNRHEIAVML-----LEGGANPDAKDHYDATAMHRAAAKGNLKMVHILLFYKASTNIQ 168
Query: 219 DNSGHIPSDYAED----ANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQE 274
           D  G+ P   A D       K ++ + A  Y + + EK   +  K  L   LK    G+E
Sbjct: 169 DTEGNTPLHLACDEERVEEAKFLVTQGASIYIENKEEKTPLQVAKGGLGLILKRLAEGEE 228
Query: 275 SAI 277
           +++
Sbjct: 229 ASM 231

>pdb|1N0Q|A Chain A, 3ank: A Designed Ankyrin Repeat Protein With Three Identical Consensus Repeats Length = 93

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 36/106 (33%), Positives = 49/106 (46%), Gaps = 36/106 (33%)
Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G TPLH+AA NG ++ V++LLEAGA+ N           A +K                 
Sbjct: 2   GRTPLHLAARNGHLEVVKLLLEAGADVN-----------AKDKN---------------- 34
Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                    G + LH     G+ EVV+LLL++GAD   KD +G  P
Sbjct: 35  ---------GRTPLHLAARNGHLEVVKLLLEAGADVNAKDKNGRTP 71

>pdb|3HRA|A Chain A, Crystal Structure Of Ef0377 An Ankyrin Repeat Protein Length = 201

Iteration: 1
 Score = 48.5 bits (114), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 50/168 (29%), Positives = 74/168 (44%), Gaps = 47/168 (27%)
Query: 84  SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG 143
           SI D     A   G  + L   ++++  D+N  +  G   L  AA  G +DNV++LLE G
Sbjct: 70  SISDSPYLYAGAQGRTEILAYMLKHATPDLNKHNRYGGNALIPAAEKGHIDNVKLLLEDG 129
Query: 144 ANPNLGDLFNTVHRTAAEKKMNPFEVLLKRED-EF-NDVLNPNMTFLGFSAL--HYGVVA 199
                                        RED +F ND         G++AL    G+  
Sbjct: 130 -----------------------------REDIDFQND--------FGYTALIEAVGLRE 152
Query: 200 GNT---EVVELLLKSGADPTVKDNSGHIPSDYAED---ANIKQILQKY 241
           GN    ++V+LL+++GAD ++KDNSG    DYA       I +IL +Y
Sbjct: 153 GNQLYQDIVKLLMENGADQSIKDNSGRTAMDYANQKGYTEISKILAQY 200

>pdb|3AJI|A Chain A, Structure Of Gankyrin-S6atpase Photo-Cross-Linked Site-Specifically, And Incoporated By Genetic Code Expansion Length = 231

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 50/183 (27%), Positives = 81/183 (44%), Gaps = 11/183 (6%)
Query: 101 ELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN-LGDLFNTVHRTA 159
           E+  F+    + VN +   GW+PLH+AA  G  + V+ LL  GA+ N +     T    A
Sbjct: 54  EIVEFLLQLGVPVNDKDDAGWSPLHIAASAGXDEIVKALLVKGAHVNAVNQNGCTPLHYA 113
Query: 160 AEKKMNPFEVLLKREDEFNDVLNPNMT-FLGFSALHYGVVAGNTEVVELLLKSGADPTVK 218
           A K  +   V+L          NP+       +A+H     GN ++V +LL   A   ++
Sbjct: 114 ASKNRHEIAVML-----LEGGANPDAKDHYDATAMHRAAAKGNLKMVHILLFYKASTNIQ 168
Query: 219 DNSGHIPSDYAED----ANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQE 274
           D  G+ P   A D       K ++ + A  Y + + EK   +  K  L   LK    G+E
Sbjct: 169 DTEGNTPLHLACDEERVEEAKFLVTQGASIYIENKEEKTPLQVAKGGLGLILKRLAEGEE 228
Query: 275 SAI 277
           +++
Sbjct: 229 ASM 231

>pdb|1QYM|A Chain A, X-Ray Structure Of Human Gankyrin Length = 227

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 48/178 (26%), Positives = 77/178 (43%), Gaps = 11/178 (6%)
Query: 101 ELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN-LGDLFNTVHRTA 159
           E+  F+    + VN +   GW+PLH+AA  G+ + V+ LL  GA  N +     T    A
Sbjct: 55  EIVEFLLQLGVPVNDKDDAGWSPLHIAASAGRDEIVKALLGKGAQVNAVNQNGCTPLHYA 114
Query: 160 AEKKMNPFEVLLKREDEFNDVLNPNMT-FLGFSALHYGVVAGNTEVVELLLKSGADPTVK 218
           A K  +   V+L          NP+       +A+H     GN +++ +LL   A   ++
Sbjct: 115 ASKNRHEIAVML-----LEGGANPDAKDHYEATAMHRAAAKGNLKMIHILLYYKASTNIQ 169
Query: 219 DNSGHIPSDYAED----ANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVG 272
           D  G+ P   A D       K ++ + A  Y + + EK   +  K  L   LK  + G
Sbjct: 170 DTEGNTPLHLACDEERVEEAKLLVSQGASIYIENKEEKTPLQVAKGGLGLILKRMVEG 227

>pdb|1UOH|A Chain A, Human Gankyrin Length = 226

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 48/178 (26%), Positives = 77/178 (43%), Gaps = 11/178 (6%)
Query: 101 ELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN-LGDLFNTVHRTA 159
           E+  F+    + VN +   GW+PLH+AA  G+ + V+ LL  GA  N +     T    A
Sbjct: 54  EIVEFLLQLGVPVNDKDDAGWSPLHIAASAGRDEIVKALLGKGAQVNAVNQNGCTPLHYA 113
Query: 160 AEKKMNPFEVLLKREDEFNDVLNPNMT-FLGFSALHYGVVAGNTEVVELLLKSGADPTVK 218
           A K  +   V+L          NP+       +A+H     GN +++ +LL   A   ++
Sbjct: 114 ASKNRHEIAVML-----LEGGANPDAKDHYEATAMHRAAAKGNLKMIHILLYYKASTNIQ 168
Query: 219 DNSGHIPSDYAED----ANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVG 272
           D  G+ P   A D       K ++ + A  Y + + EK   +  K  L   LK  + G
Sbjct: 169 DTEGNTPLHLACDEERVEEAKLLVSQGASIYIENKEEKTPLQVAKGGLGLILKRMVEG 226

>pdb|2ZGD|A Chain A, Asn-Hydroxylation Stabilises The Ankyrin Repeat Domain Fold Length = 110

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DV  +   G TPLH+AA NG ++ V++LLEAGA+    
Sbjct: 28  LLEAARAGQDDEVRILMANGA-DVAAKDKNGSTPLHLAARNGHLEVVKLLLEAGADVXAQ 86
Query: 150 DLFN 153
           D F 
Sbjct: 87  DKFG 90

>pdb|1OY3|D Chain D, Crystal Structure Of An IkbbetaNF-Kb P65 Homodimer Complex Length = 282

Iteration: 1
 Score = 45.8 bits (107), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 34/106 (32%), Positives = 43/106 (40%), Gaps = 35/106 (33%)
Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G TPLHVA I+   + VR+L +AGA+                                  
Sbjct: 158 GHTPLHVAVIHKDAEMVRLLRDAGAD---------------------------------- 183
Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
            LN      G + LH  V A    V+ELLLK+GADPT +   G  P
Sbjct: 184 -LNKPEPTCGRTPLHLAVEAQAASVLELLLKAGADPTARMYGGRTP 228

>pdb|1K3Z|D Chain D, X-Ray Crystal Structure Of The IkbbNF-Kb P65 Homodimer Complex Length = 282

Iteration: 1
 Score = 45.8 bits (107), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 34/106 (32%), Positives = 43/106 (40%), Gaps = 35/106 (33%)
Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G TPLHVA I+   + VR+L +AGA+                                  
Sbjct: 158 GHTPLHVAVIHKDAEMVRLLRDAGAD---------------------------------- 183
Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
            LN      G + LH  V A    V+ELLLK+GADPT +   G  P
Sbjct: 184 -LNKPEPTCGRTPLHLAVEAQAASVLELLLKAGADPTARMYGGRTP 228

>pdb|2RFA|A Chain A, Crystal Structure Of The Mouse Trpv6 Ankyrin Repeat Domain Length = 232

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 36/148 (24%), Positives = 63/148 (42%), Gaps = 15/148 (10%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGA----N 145
           L  AA+    + L   ++    +V+ R  +G T LH+AA+   ++   VL+EA       
Sbjct: 7   LLLAAKENDVQALSKLLKFEGCEVHQRGAMGETALHIAALYDNLEAAMVLMEAAPELVFE 66
Query: 146 PNLGDLF---NTVHRTAAEKKMNPFEVLLKREDEFNDVLNP--------NMTFLGFSALH 194
           P   +L+     +H     + +N    LL R    +             N+ + G   L 
Sbjct: 67  PMTSELYEGQTALHIAVINQNVNLVRALLARGASVSARATGSVFHYRPHNLIYYGEHPLS 126
Query: 195 YGVVAGNTEVVELLLKSGADPTVKDNSG 222
           +    G+ E+V LL++ GAD   +D+ G
Sbjct: 127 FAACVGSEEIVRLLIEHGADIRAQDSLG 154

>pdb|1IKN|D Chain D, IkappabalphaNF-Kappab Complex Length = 236

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 46/189 (24%), Positives = 75/189 (39%), Gaps = 13/189 (6%)
Query: 89  TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
           T    A   +  E+   +  +  D  +R   G TPLH+A   G + +V VL ++   P+L
Sbjct: 47  TPLHLAVITNQPEIAEALLGAGCDPELRDFRGNTPLHLACEQGCLASVGVLTQSCTTPHL 106
Query: 149 GDLF--------NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAG 200
             +           +H  +    +   E+L+    + N     N    G +ALH  V   
Sbjct: 107 HSILKATNYNGHTCLHLASIHGYLGIVELLVSLGADVNAQEPCN----GRTALHLAVDLQ 162
Query: 201 NTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAE-KYADLQREKEAEERRK 259
           N ++V LLLK GAD       G+ P          +I Q+  +    +LQ   E+E+   
Sbjct: 163 NPDLVSLLLKCGADVNRVTYQGYSPYQLTWGRPSTRIQQQLGQLTLENLQMLPESEDEES 222
Query: 260 YPLEQRLKD 268
           Y  E    +
Sbjct: 223 YDTESEFTE 231

>pdb|3LJN|A Chain A, Ankyrin Repeat Protein From Leishmania Major Length = 364

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 44/152 (28%), Positives = 65/152 (42%), Gaps = 21/152 (13%)
Query: 93  AARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG--------- 143
           AAR G   E++  IE   +   +++  G T LH+A   G VD  + L   G         
Sbjct: 27  AARKGQTDEVRRLIETG-VSPTIQNRFGCTALHLACKFGCVDTAKYLASVGEVHSLWHGQ 85
Query: 144 ------ANPNLGDLFNTVHRTAAEKKMNPFEVLLKR--EDEFNDVLNPNMTFLGFSALHY 195
                    N  DL   +   A E+   P E LL    E E N++ +      G +ALH+
Sbjct: 86  KPIHLAVXANKTDLVVALVEGAKERGQXP-ESLLNECDEREVNEIGSHVKHCKGQTALHW 144
Query: 196 GVVAGNT--EVVELLLKSGADPTVKDNSGHIP 225
            V  G    E +++L++ GA PT KD +   P
Sbjct: 145 CVGLGPEYLEXIKILVQLGASPTAKDKADETP 176

>pdb|2L6B|A Chain A, Nrc Consensus Ankyrin Repeat Protein Solution Structure Length = 115

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/58 (44%), Positives = 35/58 (60%), Gaps = 1/58 (1%)
Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN 147
           L  AA+ G A+E+K  +     DVN R   G TPLH+AA NG  + V++LL  GA+ N
Sbjct: 13  LHNAAKNGHAEEVKKLLSKGA-DVNARSKDGNTPLHLAAKNGHAEIVKLLLAKGADVN 69

>pdb|3EU9|A Chain A, The Ankyrin Repeat Domain Of Huntingtin Interacting Protein 14 Length = 240

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 45/178 (25%), Positives = 74/178 (41%), Gaps = 33/178 (18%)
Query: 86  KDLTLFRAARYGSAKEL-KTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGA 144
           +++TL   A   +  +L K +I    +   +   L  TPLH A   G +  V  L++ GA
Sbjct: 41  ENVTLLHWAAINNRIDLVKYYISKGAIVDQLGGDLNSTPLHWATRQGHLSMVVQLMKYGA 100
Query: 145 NPNL--GDLFNTVHRTAA---------------------EKKMNPFEVLLKREDE----- 176
           +P+L  G+  + +H  A                      +  M P      R        
Sbjct: 101 DPSLIDGEGCSCIHLAAQFGHTSIVAYLIAKGQDVDMMDQNGMTPLMWAAYRTHSVDPTR 160
Query: 177 ----FNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAE 230
               FN  +N    +   +ALH+ V+AGNT V+ LLL++GA+   ++  G    D A+
Sbjct: 161 LLLTFNVSVNLGDKYHKNTALHWAVLAGNTTVISLLLEAGANVDAQNIKGESALDLAK 218

>pdb|1S70|B Chain B, Complex Between Protein Ser/thr Phosphatase-1 (delta) And The Myosin Phosphatase Targeting Subunit 1 (mypt1) Length = 299

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 30/73 (41%), Positives = 41/73 (56%), Gaps = 8/73 (10%)
Query: 89  TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
            L  AA  G  + LK  I+ ++ DVN++   GWTPLH AA  GK +  R+L+E     NL
Sbjct: 202 ALHVAAAKGYTEVLKLLIQ-ARYDVNIKDYDGWTPLHAAAHWGKEEACRILVE-----NL 255
Query: 149 GDL--FNTVHRTA 159
            D+   N V +TA
Sbjct: 256 CDMEAVNKVGQTA 268

>pdb|1BI7|B Chain B, Mechanism Of G1 Cyclin Dependent Kinase Inhibition From The Structure Of The Cdk6-P16ink4a Tumor Suppressor Complex Length = 156

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 37/112 (33%), Positives = 52/112 (46%), Gaps = 11/112 (9%)
Query: 124 LHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKM----NPFEVLLKREDEFND 179
           L  AA  G+V+ VR LLEAGANPN     N+  R   +  M       E+LL    E N 
Sbjct: 16  LATAAARGRVEEVRALLEAGANPNAP---NSYGRRPIQVMMMGSARVAELLLLHGAEPNC 72
Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAED 231
                +T      +H     G  + + +L ++GA   V+D  G +P D AE+
Sbjct: 73  ADPATLT----RPVHDAAREGFLDTLVVLHRAGARLDVRDAWGRLPVDLAEE 120

>pdb|4A63|B Chain B, Crystal Structure Of The P73-Aspp2 Complex At 2.6a Resolution Length = 239

Iteration: 1
 Score = 42.4 bits (98), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 32/105 (30%), Positives = 51/105 (48%), Gaps = 18/105 (17%)
Query: 163 KMNPFEVLLKR--EDEFN-------DVLNPNMTF-LGFSALHYGVVAGNTEVVELLLKSG 212
           K NP  +LL    E EF+       +V +P++    G +ALH  V AG+TE+V+ L++ G
Sbjct: 34  KFNPLALLLDSSLEGEFDLVQRIIYEVDDPSLPNDEGITALHNAVCAGHTEIVKFLVQFG 93
Query: 213 ADPTVKDNSGHIPSDYAEDANIKQILQ--------KYAEKYADLQ 249
            +    D+ G  P   A   N  Q+ +         +A  Y+D+Q
Sbjct: 94  VNVNAADSDGWTPLHCAASCNNVQVCKFLVESGAAVFAMTYSDMQ 138

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	607
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	3e-89
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	3e-86
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	8e-83
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	3e-70
3c5r_A	137	BARD-1, BRCA1-associated ring domain protein 1; an	2e-22
3c5r_A	137	BARD-1, BRCA1-associated ring domain protein 1; an	7e-16
3c5r_A	137	BARD-1, BRCA1-associated ring domain protein 1; an	2e-13
3c5r_A	137	BARD-1, BRCA1-associated ring domain protein 1; an	3e-07
3aaa_C	123	Myotrophin, protein V-1; actin capping protein, ba	6e-22
3aaa_C	123	Myotrophin, protein V-1; actin capping protein, ba	3e-15
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	2e-20
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	2e-17
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	1e-12
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	5e-20
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	6e-17
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	3e-15
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	8e-14
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	3e-11
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	4e-11
3ehr_A	222	Osteoclast-stimulating factor 1; beta barrel, heli	1e-19
3ehr_A	222	Osteoclast-stimulating factor 1; beta barrel, heli	6e-19
3ehr_A	222	Osteoclast-stimulating factor 1; beta barrel, heli	1e-14
3ehr_A	222	Osteoclast-stimulating factor 1; beta barrel, heli	1e-12
3deo_A	183	Signal recognition particle 43 kDa protein; chloro	1e-19
3deo_A	183	Signal recognition particle 43 kDa protein; chloro	2e-13
3deo_A	183	Signal recognition particle 43 kDa protein; chloro	1e-09
3v30_A	172	DNA-binding protein rfxank; structural genomics co	1e-19
3v30_A	172	DNA-binding protein rfxank; structural genomics co	4e-18
3v30_A	172	DNA-binding protein rfxank; structural genomics co	4e-18
3v30_A	172	DNA-binding protein rfxank; structural genomics co	6e-13
3v31_A	167	Ankyrin repeat family A protein 2; structural geno	2e-19
3v31_A	167	Ankyrin repeat family A protein 2; structural geno	3e-17
3v31_A	167	Ankyrin repeat family A protein 2; structural geno	1e-16
3v31_A	167	Ankyrin repeat family A protein 2; structural geno	3e-15
3f6q_A	179	Integrin-linked protein kinase; ILK, integrin-link	2e-19
3f6q_A	179	Integrin-linked protein kinase; ILK, integrin-link	2e-14
3f6q_A	179	Integrin-linked protein kinase; ILK, integrin-link	2e-13
3ui2_A	244	Signal recognition particle 43 kDa protein, chlor;	5e-19
3ui2_A	244	Signal recognition particle 43 kDa protein, chlor;	3e-17
3ui2_A	244	Signal recognition particle 43 kDa protein, chlor;	1e-12
3ui2_A	244	Signal recognition particle 43 kDa protein, chlor;	8e-09
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	1e-18
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	4e-18
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	3e-13
1bd8_A	156	P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyr	1e-18
1bd8_A	156	P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyr	3e-12
2xai_A	261	ASB-9, ankyrin repeat and SOCS box protein 9; tran	3e-18
2xai_A	261	ASB-9, ankyrin repeat and SOCS box protein 9; tran	6e-16
2xai_A	261	ASB-9, ankyrin repeat and SOCS box protein 9; tran	1e-15
2xai_A	261	ASB-9, ankyrin repeat and SOCS box protein 9; tran	1e-14
2xai_A	261	ASB-9, ankyrin repeat and SOCS box protein 9; tran	2e-05
3aji_A	231	26S proteasome non-ATPase regulatory subunit 10; g	4e-18
3aji_A	231	26S proteasome non-ATPase regulatory subunit 10; g	7e-12
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	5e-18
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	7e-17
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	9e-17
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	1e-16
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	8e-15
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	2e-14
2f8y_A	223	Notch homolog 1, translocation-associated (drosoph	1e-17
2f8y_A	223	Notch homolog 1, translocation-associated (drosoph	2e-12
2f8y_A	223	Notch homolog 1, translocation-associated (drosoph	3e-12
2f8y_A	223	Notch homolog 1, translocation-associated (drosoph	1e-05
1awc_B	153	Protein (GA binding protein beta 1); complex (tran	1e-17
1awc_B	153	Protein (GA binding protein beta 1); complex (tran	2e-15
1awc_B	153	Protein (GA binding protein beta 1); complex (tran	2e-12
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	1e-17
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	5e-17
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	4e-15
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	4e-12
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	7e-12
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	1e-04
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	1e-17
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	1e-12
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	4e-12
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	4e-11
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	2e-07
3utm_A	351	Tankyrase-1; tankyrase, TNKS, ankryin repeat clust	2e-17
3utm_A	351	Tankyrase-1; tankyrase, TNKS, ankryin repeat clust	4e-17
3utm_A	351	Tankyrase-1; tankyrase, TNKS, ankryin repeat clust	4e-13
3utm_A	351	Tankyrase-1; tankyrase, TNKS, ankryin repeat clust	2e-10
3twr_A	165	Tankyrase-2; ankyrin repeat, protein-protein inter	2e-17
3twr_A	165	Tankyrase-2; ankyrin repeat, protein-protein inter	2e-11
3twr_A	165	Tankyrase-2; ankyrin repeat, protein-protein inter	1e-10
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	2e-17
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	5e-16
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	4e-15
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	5e-14
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	3e-11
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	2e-17
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	5e-16
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	2e-13
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	2e-10
1ycs_B	239	53BP2, P53BP2; ankyrin repeats, SH3, tumor suppres	3e-17
1ycs_B	239	53BP2, P53BP2; ankyrin repeats, SH3, tumor suppres	1e-15
1ycs_B	239	53BP2, P53BP2; ankyrin repeats, SH3, tumor suppres	2e-15
1ycs_B	239	53BP2, P53BP2; ankyrin repeats, SH3, tumor suppres	6e-13
1bi7_B	156	P16INK4A, MTS1, multiple tumor suppressor; cyclin	3e-17
1bi7_B	156	P16INK4A, MTS1, multiple tumor suppressor; cyclin	7e-15
1bi7_B	156	P16INK4A, MTS1, multiple tumor suppressor; cyclin	3e-14
1bi7_B	156	P16INK4A, MTS1, multiple tumor suppressor; cyclin	2e-09
2l6b_A	115	NR1C; ankyrin, consensus, repeat protein, ising mo	4e-17
2l6b_A	115	NR1C; ankyrin, consensus, repeat protein, ising mo	1e-14
3ljn_A	364	Hypothetical protein; ankyrin, structural genomics	4e-17
3ljn_A	364	Hypothetical protein; ankyrin, structural genomics	4e-15
3ljn_A	364	Hypothetical protein; ankyrin, structural genomics	9e-15
3ljn_A	364	Hypothetical protein; ankyrin, structural genomics	2e-13
3ljn_A	364	Hypothetical protein; ankyrin, structural genomics	9e-08
3b7b_A	237	Euchromatic histone-lysine N-methyltransferase 1;	4e-17
3b7b_A	237	Euchromatic histone-lysine N-methyltransferase 1;	4e-14
2y1l_E	169	Darpin-8.4; hydrolase-inhibitor complex, DEVD darp	4e-17
2y1l_E	169	Darpin-8.4; hydrolase-inhibitor complex, DEVD darp	1e-15
2y1l_E	169	Darpin-8.4; hydrolase-inhibitor complex, DEVD darp	2e-13
2y1l_E	169	Darpin-8.4; hydrolase-inhibitor complex, DEVD darp	8e-11
2jab_A	136	H10-2-G3; HER2, darpin, ankyrin repeat protein, me	5e-17
2jab_A	136	H10-2-G3; HER2, darpin, ankyrin repeat protein, me	1e-12
2jab_A	136	H10-2-G3; HER2, darpin, ankyrin repeat protein, me	1e-10
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	6e-17
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	5e-14
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	5e-12
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	2e-11
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	2e-06
2zgd_A	110	3 repeat synthetic ankyrin; ankyrin repeat, hydrox	7e-17
2zgd_A	110	3 repeat synthetic ankyrin; ankyrin repeat, hydrox	4e-09
2rfa_A	232	Transient receptor potential cation channel subfa	1e-16
2rfa_A	232	Transient receptor potential cation channel subfa	9e-13
1n0r_A	126	4ANK, 4 ankyrin repeats; structural protein; 1.50A	1e-16
1n0r_A	126	4ANK, 4 ankyrin repeats; structural protein; 1.50A	3e-15
1n0r_A	126	4ANK, 4 ankyrin repeats; structural protein; 1.50A	3e-12
1d9s_A	136	Cyclin-dependent kinase 4 inhibitor B; helix-turn-	2e-16
1d9s_A	136	Cyclin-dependent kinase 4 inhibitor B; helix-turn-	5e-13
1d9s_A	136	Cyclin-dependent kinase 4 inhibitor B; helix-turn-	2e-08
2dzn_A	228	Probable 26S proteasome regulatory subunit P28; an	2e-16
2dzn_A	228	Probable 26S proteasome regulatory subunit P28; an	6e-16
2dzn_A	228	Probable 26S proteasome regulatory subunit P28; an	5e-10
2dzn_A	228	Probable 26S proteasome regulatory subunit P28; an	1e-09
2vge_A	229	RELA-associated inhibitor; iaspp, nucleus, apoptos	2e-16
2vge_A	229	RELA-associated inhibitor; iaspp, nucleus, apoptos	4e-13
2vge_A	229	RELA-associated inhibitor; iaspp, nucleus, apoptos	4e-12
2vge_A	229	RELA-associated inhibitor; iaspp, nucleus, apoptos	8e-06
2vge_A	229	RELA-associated inhibitor; iaspp, nucleus, apoptos	2e-05
2pnn_A	273	Transient receptor potential cation channel subfa	7e-16
2pnn_A	273	Transient receptor potential cation channel subfa	1e-12
2pnn_A	273	Transient receptor potential cation channel subfa	9e-09
2pnn_A	273	Transient receptor potential cation channel subfa	2e-06
2pnn_A	273	Transient receptor potential cation channel subfa	1e-05
1ihb_A	162	P18-INK4C(INK6), cyclin-dependent kinase 6 inhibit	1e-15
1ihb_A	162	P18-INK4C(INK6), cyclin-dependent kinase 6 inhibit	1e-14
1ihb_A	162	P18-INK4C(INK6), cyclin-dependent kinase 6 inhibit	2e-13
1ihb_A	162	P18-INK4C(INK6), cyclin-dependent kinase 6 inhibit	2e-07
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	2e-15
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	3e-15
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	4e-14
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	3e-13
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	3e-12
3hra_A	201	Ankyrin repeat family protein; structural protein;	2e-15
3hra_A	201	Ankyrin repeat family protein; structural protein;	4e-15
3hra_A	201	Ankyrin repeat family protein; structural protein;	8e-12
3hra_A	201	Ankyrin repeat family protein; structural protein;	3e-11
3hra_A	201	Ankyrin repeat family protein; structural protein;	2e-10
1n0q_A	93	3ANK, 3 ankyrin repeats; structural protein; 1.26A	2e-15
1n0q_A	93	3ANK, 3 ankyrin repeats; structural protein; 1.26A	2e-13
2rfm_A	192	Putative ankyrin repeat protein TV1425; ANK repeat	3e-15
2rfm_A	192	Putative ankyrin repeat protein TV1425; ANK repeat	3e-15
2rfm_A	192	Putative ankyrin repeat protein TV1425; ANK repeat	3e-14
2rfm_A	192	Putative ankyrin repeat protein TV1425; ANK repeat	2e-09
2rfm_A	192	Putative ankyrin repeat protein TV1425; ANK repeat	3e-05
2etb_A	256	Transient receptor potential cation channel subfam	5e-15
2etb_A	256	Transient receptor potential cation channel subfam	2e-12
2etb_A	256	Transient receptor potential cation channel subfam	1e-11
2etb_A	256	Transient receptor potential cation channel subfam	6e-08
2etb_A	256	Transient receptor potential cation channel subfam	8e-07
3jxi_A	260	Vanilloid receptor-related osmotically activated p	8e-15
3jxi_A	260	Vanilloid receptor-related osmotically activated p	1e-12
3jxi_A	260	Vanilloid receptor-related osmotically activated p	5e-12
1sw6_A	327	Regulatory protein SWI6; transcription regulation,	1e-14
1sw6_A	327	Regulatory protein SWI6; transcription regulation,	2e-12
3t8k_A	186	Uncharacterized protein; structural genomics, PSI-	1e-13
3t8k_A	186	Uncharacterized protein; structural genomics, PSI-	4e-13
3t8k_A	186	Uncharacterized protein; structural genomics, PSI-	3e-11
2fo1_E	373	LIN-12 protein; beta-barrel, protein-DNA complex,	2e-13
2fo1_E	373	LIN-12 protein; beta-barrel, protein-DNA complex,	6e-13
2fo1_E	373	LIN-12 protein; beta-barrel, protein-DNA complex,	1e-12
2fo1_E	373	LIN-12 protein; beta-barrel, protein-DNA complex,	2e-12
2fo1_E	373	LIN-12 protein; beta-barrel, protein-DNA complex,	6e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-04
2aja_A	376	Ankyrin repeat family protein; NESG, Q5ZSV0, struc	2e-10
2aja_A	376	Ankyrin repeat family protein; NESG, Q5ZSV0, struc	2e-06
1dcq_A	278	PYK2-associated protein beta; zinc-binding module,	6e-10
1dcq_A	278	PYK2-associated protein beta; zinc-binding module,	1e-05
3jue_A	368	Arfgap with coiled-coil, ANK repeat and PH domain	7e-09
3jue_A	368	Arfgap with coiled-coil, ANK repeat and PH domain	6e-04
2b0o_E	301	UPLC1; arfgap, structural genomics, structural gen	8e-09
2b0o_E	301	UPLC1; arfgap, structural genomics, structural gen	6e-06
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	3e-06
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	5e-04
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	9e-06
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	2e-05
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	1e-04
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	5e-04

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A* Length = 311

 Score =  277 bits (712), Expect = 3e-89
 Identities = 124/324 (38%), Positives = 200/324 (61%), Gaps = 31/324 (9%)

Query: 256 ERRKY-PLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTEL 313
           ER K   LE+ L  R+VGQ+ AI  ++ AI+R   G  D + P+  FLFLG +G+GKTEL
Sbjct: 4   EREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTEL 63

Query: 314 AKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAV 373
           AK LA  +  D +EA IR+DM+EY EKH V++LIGAPPGY+G+++GGQLT+ +++ P +V
Sbjct: 64  AKTLAATLF-DTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSV 122

Query: 374 VLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLR 433
           +LFD ++KAHPDV  +LLQ+ D+GRLTD  G+T++ ++ + +MTSNL S  I    L+  
Sbjct: 123 ILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMTSNLGSPLI----LEGL 178

Query: 434 KEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF 493
           ++G  + +                     +D V + +L++HF R EFL R++EIV F P 
Sbjct: 179 QKGWPYERI--------------------RDEVFK-VLQQHF-RPEFLNRLDEIVVFRPL 216

Query: 494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQV 552
           +K ++  +V  ++++   + L +  I++      +  LA+ GYD  +GAR ++  ++R++
Sbjct: 217 TKEQIRQIVEIQMSYLRAR-LAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQREL 275

Query: 553 VSQLAAAHEKSVIGKGSFVRLYVQ 576
            + LA       + +G  V++ V 
Sbjct: 276 ETPLAQKILAGEVKEGDRVQVDVG 299

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X* Length = 758

 Score =  283 bits (727), Expect = 3e-86
 Identities = 97/312 (31%), Positives = 155/312 (49%), Gaps = 34/312 (10%)

Query: 248 LQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSS 306
            +   +++      L  RLK  + GQ+ AI  ++ AIK    G   +  P+  FLF G +
Sbjct: 438 EKSVSQSDRDTLKNLGDRLKMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPT 497

Query: 307 GIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRL 366
           G+GKTE+  QL+  +        +R DMSEY E+H V++LIGAPPGY+G D GG LT  +
Sbjct: 498 GVGKTEVTVQLSKALG----IELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAV 553

Query: 367 KKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA 426
            K P+AV+L DE++KAHPDV  +LLQ+ D G LTD  G+  + ++ + VMT+N    E  
Sbjct: 554 IKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETE 613

Query: 427 QHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE 486
           + ++ L  +                                   +K+ F   EF  R++ 
Sbjct: 614 RKSIGLIHQDNS--------------------------TDAMEEIKKIF-TPEFRNRLDN 646

Query: 487 IVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIK 545
           I++F   S   +H +V + +     + LD+  +++    +    LA+ GYD   GAR + 
Sbjct: 647 IIWFDHLSTDVIHQVVDKFIVELQVQ-LDQKGVSLEVSQEARNWLAEKGYDRAMGARPMA 705

Query: 546 HEVERQVVSQLA 557
             ++  +   LA
Sbjct: 706 RVIQDNLKKPLA 717

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 Length = 854

 Score =  276 bits (708), Expect = 8e-83
 Identities = 122/305 (40%), Positives = 194/305 (63%), Gaps = 31/305 (10%)

Query: 256 ERRKY-PLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTEL 313
           ER K   LE+ L  R+VGQ+ AI  ++ AI+R   G  D + P+  FLFLG +G+GKTEL
Sbjct: 545 EREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTEL 604

Query: 314 AKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAV 373
           AK LA  +  D +EA IR+DM+EY EKH V++LIGAPPGY+G+++GGQLT+ +++ P +V
Sbjct: 605 AKTLAATLF-DTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSV 663

Query: 374 VLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLR 433
           +LFDE++KAHPDV  +LLQ+ D+GRLTD  G+T++ ++ + ++TSNL S  I    L+  
Sbjct: 664 ILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLI----LEGL 719

Query: 434 KEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPF 493
           ++G  + +                     +D V + +L++HF R EFL R++EIV F P 
Sbjct: 720 QKGWPYERI--------------------RDEVFK-VLQQHF-RPEFLNRLDEIVVFRPL 757

Query: 494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQV 552
           +K ++  +V  +L++   + L +  I++      +  LA+ GYD  +GAR ++  ++R++
Sbjct: 758 TKEQIRQIVEIQLSYLRAR-LAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQREL 816

Query: 553 VSQLA 557
            + LA
Sbjct: 817 ETPLA 821

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis} Length = 758

 Score =  240 bits (614), Expect = 3e-70
 Identities = 105/353 (29%), Positives = 174/353 (49%), Gaps = 69/353 (19%)

Query: 248 LQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSS 306
           + +  + E  +   +E  L  R++GQ+ A+  ++ A++R   G  D   P+  F+FLG +
Sbjct: 471 VSKIAQTETDKLLNMENILHSRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPT 530

Query: 307 GIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRL 366
           G+GKTELA+ LA  I    +E+ IR+DMSEY EKH  +              GGQLT+++
Sbjct: 531 GVGKTELARALAESIF-GDEESMIRIDMSEYMEKHSTS--------------GGQLTEKV 575

Query: 367 KKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA 426
           ++ P +VVL D ++KAHPDV  +LLQ+ ++GRLTD KG+T++ ++ I +MTSN+ ++E  
Sbjct: 576 RRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKD 635

Query: 427 QHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE 486
           +                                       V   LKR F R EF+ RI+E
Sbjct: 636 K---------------------------------------VMGELKRAF-RPEFINRIDE 655

Query: 487 IVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIK 545
           I+ F    K  L  +V    +   K+ L + +++I      +  +A+ G D+ YGAR ++
Sbjct: 656 IIVFHSLEKKHLTEIVSLMSDQLTKR-LKEQDLSIELTDAAKAKVAEEGVDLEYGARPLR 714

Query: 546 HEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVSEDSAKGGIIKLKVKKK 598
             +++ V  +L+    +  I KG  + L             + G   +K   K
Sbjct: 715 RAIQKHVEDRLSEELLRGNIHKGQHIVL-----------DVEDGEFVVKTTAK 756

>3c5r_A BARD-1, BRCA1-associated ring domain protein 1; ankyrin repeat, helix, extended loop, four repeat, PR ANK repeat, disease mutation, metal-binding; 2.00A {Homo sapiens} SCOP: k.37.1.1 Length = 137

 Score = 92.5 bits (231), Expect = 2e-22
 Identities = 38/158 (24%), Positives = 58/158 (36%), Gaps = 38/158 (24%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A+  G    ++  ++N   D N++   GWTPLH A  +G +  V +LL+  A  N  
Sbjct: 14  LHIASIKGDIPSVEYLLQN-GSDPNVKDHAGWTPLHEACNHGHLKVVELLLQHKALVNTT 72

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                                    S LH     G+ ++V+LLL
Sbjct: 73  G---------------------------YQ---------NDSPLHDAAKNGHVDIVKLLL 96

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYAD 247
             GA     +  G  P DY +D ++K +L    EK   
Sbjct: 97  SYGASRNAVNIFGLRPVDYTDDESMKSLL-LLPEKNES 133

>3c5r_A BARD-1, BRCA1-associated ring domain protein 1; ankyrin repeat, helix, extended loop, four repeat, PR ANK repeat, disease mutation, metal-binding; 2.00A {Homo sapiens} SCOP: k.37.1.1 Length = 137

 Score = 73.6 bits (182), Expect = 7e-16
 Identities = 26/106 (24%), Positives = 40/106 (37%), Gaps = 36/106 (33%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G T LH+A+I G + +V  LL+ G++PN+ D                           + 
Sbjct: 10  GETLLHIASIKGDIPSVEYLLQNGSDPNVKD---------------------------HA 42

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                    G++ LH     G+ +VVELLL+  A           P
Sbjct: 43  ---------GWTPLHEACNHGHLKVVELLLQHKALVNTTGYQNDSP 79

>3c5r_A BARD-1, BRCA1-associated ring domain protein 1; ankyrin repeat, helix, extended loop, four repeat, PR ANK repeat, disease mutation, metal-binding; 2.00A {Homo sapiens} SCOP: k.37.1.1 Length = 137

 Score = 66.7 bits (164), Expect = 2e-13
 Identities = 26/125 (20%), Positives = 42/125 (33%), Gaps = 37/125 (29%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A  +G  K ++  +++ K  VN       +PLH AA NG VD V++LL  GA+ N  
Sbjct: 47  LHEACNHGHLKVVELLLQH-KALVNTTGYQNDSPLHDAAKNGHVDIVKLLLSYGASRNAV 105

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           +                                      G   + Y        ++ L  
Sbjct: 106 N---------------------------IF---------GLRPVDYTDDESMKSLLLLPE 129

Query: 210 KSGAD 214
           K+ + 
Sbjct: 130 KNESS 134

>3c5r_A BARD-1, BRCA1-associated ring domain protein 1; ankyrin repeat, helix, extended loop, four repeat, PR ANK repeat, disease mutation, metal-binding; 2.00A {Homo sapiens} SCOP: k.37.1.1 Length = 137

 Score = 48.6 bits (117), Expect = 3e-07
 Identities = 17/44 (38%), Positives = 26/44 (59%)

Query: 182 NPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
           +P     G + LH   + G+   VE LL++G+DP VKD++G  P
Sbjct: 3   DPFTNHRGETLLHIASIKGDIPSVEYLLQNGSDPNVKDHAGWTP 46

>3aaa_C Myotrophin, protein V-1; actin capping protein, barbed END capping, inhibition, prote binding, actin capping, actin-binding, cytoskeleton, ANK RE; 2.20A {Homo sapiens} PDB: 1myo_A 2kxp_C 2myo_A Length = 123

 Score = 90.5 bits (226), Expect = 6e-22
 Identities = 38/150 (25%), Positives = 54/150 (36%), Gaps = 37/150 (24%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
              A + G   E+K ++     DVN     G  PLH AA  G+++ +  LL  GA+ N  
Sbjct: 11  FMWALKNGDLDEVKDYVAK-GEDVNRTLEGGRKPLHYAADCGQLEILEFLLLKGADINAP 69

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                        + L   V  G+   V+LLL
Sbjct: 70  D---------------------------KH---------HITPLLSAVYEGHVSCVKLLL 93

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
             GAD TVK   G    +  ++  IK +LQ
Sbjct: 94  SKGADKTVKGPDGLTAFEATDNQAIKALLQ 123

>3aaa_C Myotrophin, protein V-1; actin capping protein, barbed END capping, inhibition, prote binding, actin capping, actin-binding, cytoskeleton, ANK RE; 2.20A {Homo sapiens} PDB: 1myo_A 2kxp_C 2myo_A Length = 123

 Score = 71.3 bits (176), Expect = 3e-15
 Identities = 21/106 (19%), Positives = 27/106 (25%), Gaps = 36/106 (33%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
                  A  NG +D V+  +  G + N                                
Sbjct: 7   CDKEFMWALKNGDLDEVKDYVAKGEDVNRTL---------------------------EG 39

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                    G   LHY    G  E++E LL  GAD    D     P
Sbjct: 40  ---------GRKPLHYAADCGQLEILEFLLLKGADINAPDKHHITP 76

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E Length = 236

 Score = 89.5 bits (223), Expect = 2e-20
 Identities = 33/134 (24%), Positives = 52/134 (38%), Gaps = 6/134 (4%)

Query: 93  AARYGSAKELKTFIE---NSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           A  +         I         +N ++ L  TPLH+A I  + +    LL AG +P L 
Sbjct: 15  AIIHEEKALTMEVIRQVKGDLAFLNFQNNLQQTPLHLAVITNQPEIAEALLGAGCDPELR 74

Query: 150 DLF-NTV-HRTAAEKKMNPFEVLLKREDEFNDVLNPNM-TFLGFSALHYGVVAGNTEVVE 206
           D   NT  H    +  +    VL +     +         + G + LH   + G   +VE
Sbjct: 75  DFRGNTPLHLACEQGCLASVGVLTQSCTTPHLHSILKATNYNGHTCLHLASIHGYLGIVE 134

Query: 207 LLLKSGADPTVKDN 220
           LL+  GAD   ++ 
Sbjct: 135 LLVSLGADVNAQEP 148

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E Length = 236

 Score = 81.1 bits (201), Expect = 2e-17
 Identities = 33/153 (21%), Positives = 51/153 (33%), Gaps = 40/153 (26%)

Query: 90  LFRAARYGSAKELKTFIEN-----SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGA 144
           L  A   G    +    ++         +   +  G T LH+A+I+G +  V +L+  GA
Sbjct: 82  LHLACEQGCLASVGVLTQSCTTPHLHSILKATNYNGHTCLHLASIHGYLGIVELLVSLGA 141

Query: 145 NPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEV 204
           + N  +  N                                   G +ALH  V   N ++
Sbjct: 142 DVNAQEPCN-----------------------------------GRTALHLAVDLQNPDL 166

Query: 205 VELLLKSGADPTVKDNSGHIPSDYAEDANIKQI 237
           V LLLK GAD       G+ P          +I
Sbjct: 167 VSLLLKCGADVNRVTYQGYSPYQLTWGRPSTRI 199

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E Length = 236

 Score = 66.4 bits (163), Expect = 1e-12
 Identities = 23/145 (15%), Positives = 41/145 (28%), Gaps = 40/145 (27%)

Query: 120 GWTPLHVAAINGKVDN----VRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKRED 175
           G + LH+A I+ +       +R +    A  N  +                         
Sbjct: 8   GDSFLHLAIIHEEKALTMEVIRQVKGDLAFLNFQN------------------------- 42

Query: 176 EFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIK 235
             N            + LH  V+    E+ E LL +G DP ++D  G+ P   A +    
Sbjct: 43  --NL---------QQTPLHLAVITNQPEIAEALLGAGCDPELRDFRGNTPLHLACEQGCL 91

Query: 236 QILQKYAEKYADLQREKEAEERRKY 260
             +    +           +     
Sbjct: 92  ASVGVLTQSCTTPHLHSILKATNYN 116

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 89.9 bits (224), Expect = 5e-20
 Identities = 38/151 (25%), Positives = 58/151 (38%), Gaps = 37/151 (24%)

Query: 89  TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
               A   G  +E+   +E    D+N  +  G T LH A I+  VD V+ L+E GAN N 
Sbjct: 43  VFLAACSSGDTEEVLRLLER-GADINYANVDGLTALHQACIDDNVDMVKFLVENGANINQ 101

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
            D                           N+         G+  LH     G  ++ E L
Sbjct: 102 PD---------------------------NE---------GWIPLHAAASCGYLDIAEYL 125

Query: 209 LKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
           +  GA     ++ G  P D AE+  ++++LQ
Sbjct: 126 ISQGAHVGAVNSEGDTPLDIAEEEAMEELLQ 156

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 81.0 bits (201), Expect = 6e-17
 Identities = 24/149 (16%), Positives = 51/149 (34%), Gaps = 37/149 (24%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
                R    ++ + ++ +  ++       G T LHVAA  G  + +++L++A  + N+ 
Sbjct: 170 RKEEERIML-RDARQWLNSGHINDVRHAKSGGTALHVAAAKGYTEVLKLLIQARYDVNIK 228

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                            D         G++ LH     G  E   +L+
Sbjct: 229 D---------------------------YD---------GWTPLHAAAHWGKEEACRILV 252

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQIL 238
           ++  D    +  G    D A++  +  + 
Sbjct: 253 ENLCDMEAVNKVGQTAFDVADEDILGYLE 281

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 75.6 bits (187), Expect = 3e-15
 Identities = 28/138 (20%), Positives = 47/138 (34%), Gaps = 14/138 (10%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L +A    +   +K  +EN   ++N     GW PLH AA  G +D    L+  GA+    
Sbjct: 77  LHQACIDDNVDMVKFLVEN-GANINQPDNEGWIPLHAAASCGYLDIAEYLISQGAHVGAV 135

Query: 150 DLF-NTVHRTAAEKKMNPF-EVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           +   +T    A E+ M    +  + R+    D           +A          +  + 
Sbjct: 136 NSEGDTPLDIAEEEAMEELLQNEVNRQG--VD---------IEAARKEEERIMLRDARQW 184

Query: 208 LLKSGADPTVKDNSGHIP 225
           L     +      SG   
Sbjct: 185 LNSGHINDVRHAKSGGTA 202

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 71.4 bits (176), Expect = 8e-14
 Identities = 30/133 (22%), Positives = 48/133 (36%), Gaps = 38/133 (28%)

Query: 93  AARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF 152
               GS  +L+  +   K    ++   G   L  A  +G  + V  LLE GA+ N  +  
Sbjct: 15  KRWIGSETDLEPPVVKRK-KTKVKFDDGAVFLA-ACSSGDTEEVLRLLERGADINYAN-- 70

Query: 153 NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG 212
                                     D         G +ALH   +  N ++V+ L+++G
Sbjct: 71  -------------------------VD---------GLTALHQACIDDNVDMVKFLVENG 96

Query: 213 ADPTVKDNSGHIP 225
           A+    DN G IP
Sbjct: 97  ANINQPDNEGWIP 109

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 63.7 bits (156), Expect = 3e-11
 Identities = 29/131 (22%), Positives = 42/131 (32%), Gaps = 37/131 (28%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA  G  + LK  I+  + DVN++   GWTPLH AA  GK +  R+L+E   +    
Sbjct: 203 LHVAAAKGYTEVLKLLIQA-RYDVNIKDYDGWTPLHAAAHWGKEEACRILVENLCDMEAV 261

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           +                                      G +A           + EL  
Sbjct: 262 N---------------------------KV---------GQTAFDVADEDILGYLEELQK 285

Query: 210 KSGADPTVKDN 220
           K     + K  
Sbjct: 286 KQNLLHSEKRE 296

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1 Length = 299

 Score = 63.3 bits (155), Expect = 4e-11
 Identities = 30/138 (21%), Positives = 48/138 (34%), Gaps = 14/138 (10%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA  G     +  I      V   +  G TPL +A      + ++  +         
Sbjct: 110 LHAAASCGYLDIAEYLISQ-GAHVGAVNSEGDTPLDIAEEEAMEELLQNEVNRQGV---- 164

Query: 150 DLFNTVHRTAAEKKMNP--FEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           D+     +   E+ M     + L                  G +ALH     G TEV++L
Sbjct: 165 DI-EAARK-EEERIMLRDARQWLNSGHINDVRHAK-----SGGTALHVAAAKGYTEVLKL 217

Query: 208 LLKSGADPTVKDNSGHIP 225
           L+++  D  +KD  G  P
Sbjct: 218 LIQARYDVNIKDYDGWTP 235

>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix, SH3, ankyrin repeat, signaling protein, ANK repeat, cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB: 3ehq_A Length = 222

 Score = 87.3 bits (217), Expect = 1e-19
 Identities = 34/159 (21%), Positives = 56/159 (35%), Gaps = 38/159 (23%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLL-EAGANPNL 148
           L  AA+ G+   L+  ++N ++ VN     G T L+ A   G  D V +L  +     N 
Sbjct: 77  LHEAAKRGNLSWLRECLDN-RVGVNGLDKAGSTALYWACHGGHKDIVEMLFTQPNIELNQ 135

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
            +                                      G +ALH     G  ++V+LL
Sbjct: 136 QN---------------------------KL---------GDTALHAAAWKGYADIVQLL 159

Query: 209 LKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYAD 247
           L  GA   +++    +  D A +A    +L+K     A 
Sbjct: 160 LAKGARTDLRNIEKKLAFDMATNAACASLLKKKQGTDAV 198

>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix, SH3, ankyrin repeat, signaling protein, ANK repeat, cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB: 3ehq_A Length = 222

 Score = 85.0 bits (211), Expect = 6e-19
 Identities = 25/146 (17%), Positives = 50/146 (34%), Gaps = 39/146 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L+ A   G    ++       +++N ++ LG T LH AA  G  D V++LL  GA  +L 
Sbjct: 110 LYWACHGGHKDIVEMLFTQPNIELNQQNKLGDTALHAAAWKGYADIVQLLLAKGARTDLR 169

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           +                            +            A      A    +++   
Sbjct: 170 N---------------------------IE---------KKLAFDMATNAACASLLKKKQ 193

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIK 235
            + A  T+ +   ++     ED++++
Sbjct: 194 GTDAVRTLSNAEDYLD---DEDSDLE 216

>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix, SH3, ankyrin repeat, signaling protein, ANK repeat, cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB: 3ehq_A Length = 222

 Score = 72.3 bits (178), Expect = 1e-14
 Identities = 12/107 (11%), Positives = 22/107 (20%), Gaps = 10/107 (9%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF-NTVHRTAAEKKMNPFEVLLKREDEFN 178
           G   +  A    +      L     +        +T       K      ++        
Sbjct: 12  GQVKVFRALYTFEPRTPDELYIEEGDIIYITDMSDTNWWKGTSK--GRTGLIPSNYVAEQ 69

Query: 179 DVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                       + LH     GN   +   L +       D +G   
Sbjct: 70  AES-------IDNPLHEAAKRGNLSWLRECLDNRVGVNGLDKAGSTA 109

>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix, SH3, ankyrin repeat, signaling protein, ANK repeat, cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB: 3ehq_A Length = 222

 Score = 66.5 bits (163), Expect = 1e-12
 Identities = 19/137 (13%), Positives = 39/137 (28%), Gaps = 43/137 (31%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
            ++    G    + +     +   +        PLH AA  G +  +R  L+     N  
Sbjct: 49  WWKGTSKGRTGLIPSNYVAEQ-AES-----IDNPLHEAAKRGNLSWLRECLDNRVGVNGL 102

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      G +AL++    G+ ++VE+L 
Sbjct: 103 D---------------------------KA---------GSTALYWACHGGHKDIVEMLF 126

Query: 210 -KSGADPTVKDNSGHIP 225
            +   +   ++  G   
Sbjct: 127 TQPNIELNQQNKLGDTA 143

>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system, signal sequence, ankyrin repeat, chromodomain, type I turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2 k.37.1.1 PDB: 3dep_A 1x32_A Length = 183

 Score = 85.6 bits (213), Expect = 1e-19
 Identities = 36/148 (24%), Positives = 51/148 (34%), Gaps = 37/148 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
            + AAR    + L   +E+   DV+     G T L   A  G    VR+L EAGA+ +  
Sbjct: 48  WWTAARKADEQALSQLLEDR--DVDAVDENGRTALLFVAGLGSDKCVRLLAEAGADLDHR 105

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D+                                     G +ALH        EVVE L+
Sbjct: 106 DMRG-----------------------------------GLTALHMAAGYVRPEVVEALV 130

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQI 237
           + GAD  V+D  G    + A +      
Sbjct: 131 ELGADIEVEDERGLTALELAREILKTTP 158

>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system, signal sequence, ankyrin repeat, chromodomain, type I turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2 k.37.1.1 PDB: 3dep_A 1x32_A Length = 183

 Score = 67.9 bits (167), Expect = 2e-13
 Identities = 22/131 (16%), Positives = 36/131 (27%), Gaps = 41/131 (31%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
                + G +         +  DV        TP   AA       +  LLE   + +  
Sbjct: 18  YLIEWKDGHSPSWVPSSYIAA-DVVSE---YETPWWTAARKADEQALSQLLE-DRDVDAV 72

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                            +         G +AL +    G+ + V LL 
Sbjct: 73  D---------------------------EN---------GRTALLFVAGLGSDKCVRLLA 96

Query: 210 KSGADPTVKDN 220
           ++GAD   +D 
Sbjct: 97  EAGADLDHRDM 107

>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system, signal sequence, ankyrin repeat, chromodomain, type I turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2 k.37.1.1 PDB: 3dep_A 1x32_A Length = 183

 Score = 57.1 bits (139), Expect = 1e-09
 Identities = 8/106 (7%), Positives = 20/106 (18%), Gaps = 40/106 (37%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G     +   +G   +        A+                                ++
Sbjct: 14  GAMEYLIEWKDGHSPSWVPSSYIAADVV------------------------------SE 43

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                      +         + + +  LL+   D    D +G   
Sbjct: 44  ---------YETPWWTAARKADEQALSQLLE-DRDVDAVDENGRTA 79

>3v30_A DNA-binding protein rfxank; structural genomics consortium, SGC, rfxank, ANK repeat, Pro binding; 1.57A {Homo sapiens} PDB: 3uxg_A Length = 172

 Score = 85.2 bits (212), Expect = 1e-19
 Identities = 33/136 (24%), Positives = 51/136 (37%), Gaps = 36/136 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           + + A  G   +LK  +      VN     G+TPL  A+  G+++ VR LLE GA+P++ 
Sbjct: 6   IHQLAAQGELDQLKEHLRKGDNLVNKPDERGFTPLIWASAFGEIETVRFLLEWGADPHIL 65

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                        +           SAL      G T++V LLL
Sbjct: 66  A---------------------------KE---------RESALSLASTGGYTDIVGLLL 89

Query: 210 KSGADPTVKDNSGHIP 225
           +   D  + D +G  P
Sbjct: 90  ERDVDINIYDWNGGTP 105

>3v30_A DNA-binding protein rfxank; structural genomics consortium, SGC, rfxank, ANK repeat, Pro binding; 1.57A {Homo sapiens} PDB: 3uxg_A Length = 172

 Score = 81.3 bits (202), Expect = 4e-18
 Identities = 32/140 (22%), Positives = 53/140 (37%), Gaps = 37/140 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A+ +G  + ++  +E    D ++      + L +A+  G  D V +LLE   + N+ 
Sbjct: 40  LIWASAFGEIETVRFLLEW-GADPHILAKERESALSLASTGGYTDIVGLLLERDVDINIY 98

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                            +         G + L Y V   + + VE LL
Sbjct: 99  D---------------------------WN---------GGTPLLYAVRGNHVKCVEALL 122

Query: 210 KSGADPTVKDNSGHIPSDYA 229
             GAD T + +SG+ P D A
Sbjct: 123 ARGADLTTEADSGYTPMDLA 142

>3v30_A DNA-binding protein rfxank; structural genomics consortium, SGC, rfxank, ANK repeat, Pro binding; 1.57A {Homo sapiens} PDB: 3uxg_A Length = 172

 Score = 80.9 bits (201), Expect = 4e-18
 Identities = 22/136 (16%), Positives = 38/136 (27%), Gaps = 37/136 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A+  G    +   +E   +D+N+    G TPL  A     V  V  LL  GA+    
Sbjct: 73  LSLASTGGYTDIVGLLLER-DVDINIYDWNGGTPLLYAVRGNHVKCVEALLARGADLTTE 131

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                       +          G++ +   V  G  +V +++ 
Sbjct: 132 A---------------------------DS---------GYTPMDLAVALGYRKVQQVIE 155

Query: 210 KSGADPTVKDNSGHIP 225
                    +     P
Sbjct: 156 NHILKLFQSNLVPADP 171

>3v30_A DNA-binding protein rfxank; structural genomics consortium, SGC, rfxank, ANK repeat, Pro binding; 1.57A {Homo sapiens} PDB: 3uxg_A Length = 172

 Score = 66.3 bits (163), Expect = 6e-13
 Identities = 21/107 (19%), Positives = 30/107 (28%), Gaps = 37/107 (34%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGAN-PNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFN 178
               +H  A  G++D ++  L  G N  N  D                            
Sbjct: 2   DSLSIHQLAAQGELDQLKEHLRKGDNLVNKPD---------------------------E 34

Query: 179 DVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                     GF+ L +    G  E V  LL+ GADP +        
Sbjct: 35  R---------GFTPLIWASAFGEIETVRFLLEWGADPHILAKERESA 72

>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium, SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo sapiens} PDB: 3v2x_A 3v2o_A 3so8_A Length = 167

 Score = 84.7 bits (211), Expect = 2e-19
 Identities = 34/136 (25%), Positives = 49/136 (36%), Gaps = 37/136 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           + + A  G    L T IE  +  +N     G+TPL  AA +G++  V  LL+ GA+P L 
Sbjct: 7   VHQLAAQGEMLYLATRIEQ-ENVINHTDEEGFTPLMWAAAHGQIAVVEFLLQNGADPQLL 65

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                                    SAL      G T++V++LL
Sbjct: 66  G---------------------------KG---------RESALSLACSKGYTDIVKMLL 89

Query: 210 KSGADPTVKDNSGHIP 225
             G D    D +G  P
Sbjct: 90  DCGVDVNEYDWNGGTP 105

>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium, SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo sapiens} PDB: 3v2x_A 3v2o_A 3so8_A Length = 167

 Score = 78.6 bits (195), Expect = 3e-17
 Identities = 33/140 (23%), Positives = 56/140 (40%), Gaps = 37/140 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA +G    ++  ++N   D  +      + L +A   G  D V++LL+ G + N  
Sbjct: 40  LMWAAAHGQIAVVEFLLQN-GADPQLLGKGRESALSLACSKGYTDIVKMLLDCGVDVNEY 98

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                            +         G + L Y V   + + V++LL
Sbjct: 99  D---------------------------WN---------GGTPLLYAVHGNHVKCVKMLL 122

Query: 210 KSGADPTVKDNSGHIPSDYA 229
           +SGADPT++ +SG+   D A
Sbjct: 123 ESGADPTIETDSGYNSMDLA 142

>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium, SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo sapiens} PDB: 3v2x_A 3v2o_A 3so8_A Length = 167

 Score = 76.7 bits (190), Expect = 1e-16
 Identities = 24/131 (18%), Positives = 41/131 (31%), Gaps = 37/131 (28%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A   G    +K  ++   +DVN     G TPL  A     V  V++LLE+GA+P + 
Sbjct: 73  LSLACSKGYTDIVKMLLDC-GVDVNEYDWNGGTPLLYAVHGNHVKCVKMLLESGADPTIE 131

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                       +          G++++   V  G   V +++ 
Sbjct: 132 T---------------------------DS---------GYNSMDLAVALGYRSVQQVIE 155

Query: 210 KSGADPTVKDN 220
                      
Sbjct: 156 SHLLKLLQNIK 166

>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium, SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo sapiens} PDB: 3v2x_A 3v2o_A 3so8_A Length = 167

 Score = 72.8 bits (180), Expect = 3e-15
 Identities = 19/106 (17%), Positives = 30/106 (28%), Gaps = 36/106 (33%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
               +H  A  G++  +   +E     N  D                            +
Sbjct: 3   NSLSVHQLAAQGEMLYLATRIEQENVINHTD---------------------------EE 35

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                    GF+ L +    G   VVE LL++GADP +        
Sbjct: 36  ---------GFTPLMWAAAHGQIAVVEFLLQNGADPQLLGKGRESA 72

>3f6q_A Integrin-linked protein kinase; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 3ixe_A 2kbx_A Length = 179

 Score = 85.2 bits (212), Expect = 2e-19
 Identities = 28/136 (20%), Positives = 54/136 (39%), Gaps = 36/136 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           +F   R G+A  ++ +++N++ D+N     G++PLH A   G+   V +L+  GA  N+ 
Sbjct: 9   IFTQCREGNAVAVRLWLDNTENDLNQGDDHGFSPLHWACREGRSAVVEMLIMRGARINVM 68

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           +                                        + LH     G+ ++V+ LL
Sbjct: 69  N---------------------------RG---------DDTPLHLAASHGHRDIVQKLL 92

Query: 210 KSGADPTVKDNSGHIP 225
           +  AD    +  G++P
Sbjct: 93  QYKADINAVNEHGNVP 108

>3f6q_A Integrin-linked protein kinase; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 3ixe_A 2kbx_A Length = 179

 Score = 70.5 bits (174), Expect = 2e-14
 Identities = 23/139 (16%), Positives = 38/139 (27%), Gaps = 42/139 (30%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA +G    ++  ++  K D+N  +  G  PLH A   G+      L+  GA  ++ 
Sbjct: 76  LHLAASHGHRDIVQKLLQY-KADINAVNEHGNVPLHYACFWGQDQVAEDLVANGALVSIC 134

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           +                                      G   +          + E   
Sbjct: 135 N---------------------------KY---------GEMPVDKAKAPLRELLRERAE 158

Query: 210 KSGADP---TVKDNS--GH 223
           K G +      KD    G 
Sbjct: 159 KMGQNLNRIPYKDTFWKGT 177

>3f6q_A Integrin-linked protein kinase; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 3ixe_A 2kbx_A Length = 179

 Score = 67.8 bits (167), Expect = 2e-13
 Identities = 22/107 (20%), Positives = 31/107 (28%), Gaps = 37/107 (34%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGAN-PNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFN 178
               +      G    VR+ L+   N  N GD                           +
Sbjct: 5   FMDDIFTQCREGNAVAVRLWLDNTENDLNQGD---------------------------D 37

Query: 179 DVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                     GFS LH+    G + VVE+L+  GA   V +     P
Sbjct: 38  H---------GFSPLHWACREGRSAVVEMLIMRGARINVMNRGDDTP 75

>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat, chromodomain, aromatic CAGE, signal recognit particle, protein targeting; 3.18A {Arabidopsis thaliana} PDB: 1x3q_A 2hug_A Length = 244

 Score = 85.7 bits (213), Expect = 5e-19
 Identities = 36/148 (24%), Positives = 51/148 (34%), Gaps = 37/148 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
            + AAR    + L   +E+   DV+     G T L   A  G    VR+L EAGA+ +  
Sbjct: 49  WWTAARKADEQALSQLLEDR--DVDAVDENGRTALLFVAGLGSDKCVRLLAEAGADLDHR 106

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D+                                     G +ALH        EVVE L+
Sbjct: 107 DMRG-----------------------------------GLTALHMAAGYVRPEVVEALV 131

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQI 237
           + GAD  V+D  G    + A +      
Sbjct: 132 ELGADIEVEDERGLTALELAREILKTTP 159

>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat, chromodomain, aromatic CAGE, signal recognit particle, protein targeting; 3.18A {Arabidopsis thaliana} PDB: 1x3q_A 2hug_A Length = 244

 Score = 80.7 bits (200), Expect = 3e-17
 Identities = 22/131 (16%), Positives = 39/131 (29%), Gaps = 15/131 (11%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA Y   + ++  +E    D+ +    G T L +A    K       ++ G    L 
Sbjct: 115 LHMAAGYVRPEVVEALVEL-GADIEVEDERGLTALELAREILKTTPKGNPMQFGRRIGLE 173

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
            + N V      +     E++ KR               G    +        +   +  
Sbjct: 174 KVIN-VLEGQVFEYAEVDEIVEKRGK-------------GKDVEYLVRWKDGGDCEWVKG 219

Query: 210 KSGADPTVKDN 220
              A+   KD 
Sbjct: 220 VHVAEDVAKDY 230

>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat, chromodomain, aromatic CAGE, signal recognit particle, protein targeting; 3.18A {Arabidopsis thaliana} PDB: 1x3q_A 2hug_A Length = 244

 Score = 66.9 bits (164), Expect = 1e-12
 Identities = 22/131 (16%), Positives = 36/131 (27%), Gaps = 41/131 (31%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
                + G +         +  DV        TP   AA       +  LLE   + +  
Sbjct: 19  YLIEWKDGHSPSWVPSSYIAA-DVVSE---YETPWWTAARKADEQALSQLLE-DRDVDAV 73

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                            +         G +AL +    G+ + V LL 
Sbjct: 74  D---------------------------EN---------GRTALLFVAGLGSDKCVRLLA 97

Query: 210 KSGADPTVKDN 220
           ++GAD   +D 
Sbjct: 98  EAGADLDHRDM 108

>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat, chromodomain, aromatic CAGE, signal recognit particle, protein targeting; 3.18A {Arabidopsis thaliana} PDB: 1x3q_A 2hug_A Length = 244

 Score = 55.7 bits (135), Expect = 8e-09
 Identities = 8/110 (7%), Positives = 21/110 (19%), Gaps = 40/110 (36%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G     +   +G   +        A+                                ++
Sbjct: 15  GAMEYLIEWKDGHSPSWVPSSYIAADVV------------------------------SE 44

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYA 229
                      +         + + +  LL+   D    D +G     + 
Sbjct: 45  ---------YETPWWTAARKADEQALSQLLE-DRDVDAVDENGRTALLFV 84

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus} Length = 285

 Score = 85.7 bits (213), Expect = 1e-18
 Identities = 23/157 (14%), Positives = 54/157 (34%), Gaps = 19/157 (12%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
            + A        +  F+            +  + +H+   NG VD + +LL+   + N  
Sbjct: 133 FYHAVMLNDVSIVSYFLSEI--PSTFDLAILLSCIHITIKNGHVDMMILLLDYMTSTNTN 190

Query: 150 DL--FNTVHRTAAEK-KMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVE 206
           +   F    + A +   +   + L K      D+ N        SA    V+  + E+ +
Sbjct: 191 NSLLFIPDIKLAIDNKDIEMLQALFK-----YDI-NIY------SANLENVLLDDAEIAK 238

Query: 207 LLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAE 243
           ++++   +      +  +         + +I+ K  E
Sbjct: 239 MIIEKHVEYKSDSYTKDLDIVKN--NKLDEIISKNKE 273

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus} Length = 285

 Score = 84.1 bits (209), Expect = 4e-18
 Identities = 28/133 (21%), Positives = 45/133 (33%), Gaps = 40/133 (30%)

Query: 93  AARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF 152
                 +K+LK+F+ +   D       G +  + A  +  V  V  LL AGA  NL +  
Sbjct: 6   RINTWKSKQLKSFLSSK--DTFKADVHGHSASYYAIADNNVRLVCTLLNAGALKNLLE-- 61

Query: 153 NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG 212
                                          N        LH      +T++V++LL SG
Sbjct: 62  -------------------------------NEF-----PLHQAATLEDTKIVKILLFSG 85

Query: 213 ADPTVKDNSGHIP 225
            D +  D+ G+  
Sbjct: 86  LDDSQFDDKGNTA 98

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus} Length = 285

 Score = 69.5 bits (171), Expect = 3e-13
 Identities = 20/137 (14%), Positives = 38/137 (27%), Gaps = 39/137 (28%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGW-TPLHVAAINGKVDNVRVLLEAGANPNL 148
           L+ A   G+ + +K F++     +      GW T  + A +   V  V   L    +   
Sbjct: 99  LYYAVDSGNMQTVKLFVKK-NWRLMFYGKTGWKTSFYHAVMLNDVSIVSYFLSEIPSTF- 156

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
                                                     S +H  +  G+ +++ LL
Sbjct: 157 -----------------------DLAI-------------LLSCIHITIKNGHVDMMILL 180

Query: 209 LKSGADPTVKDNSGHIP 225
           L         ++   IP
Sbjct: 181 LDYMTSTNTNNSLLFIP 197

>1bd8_A P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyrin motif; 1.80A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bi8_B 1ap7_A 1blx_B Length = 156

 Score = 82.1 bits (204), Expect = 1e-18
 Identities = 29/137 (21%), Positives = 48/137 (35%), Gaps = 37/137 (27%)

Query: 89  TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
            L  AA  G  +E++  +    +  +  +  G T L V    G       LL+ GA+PN+
Sbjct: 5   RLSGAAARGDVQEVRRLLHRELVHPDALNRFGKTALQVMM-FGSTAIALELLKQGASPNV 63

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
            D                                      G S +H     G  + +++L
Sbjct: 64  QD---------------------------TS---------GTSPVHDAARTGFLDTLKVL 87

Query: 209 LKSGADPTVKDNSGHIP 225
           ++ GAD  V D +G +P
Sbjct: 88  VEHGADVNVPDGTGALP 104

>1bd8_A P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyrin motif; 1.80A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bi8_B 1ap7_A 1blx_B Length = 156

 Score = 63.6 bits (156), Expect = 3e-12
 Identities = 26/107 (24%), Positives = 35/107 (32%), Gaps = 38/107 (35%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEA-GANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFN 178
               L  AA  G V  VR LL     +P+  +                            
Sbjct: 2   AGDRLSGAAARGDVQEVRRLLHRELVHPDALN---------------------------R 34

Query: 179 DVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                     G +AL   ++ G+T +   LLK GA P V+D SG  P
Sbjct: 35  F---------GKTALQV-MMFGSTAIALELLKQGASPNVQDTSGTSP 71

>3aji_A 26S proteasome non-ATPase regulatory subunit 10; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dvw_A 2dwz_A* 1tr4_A 1uoh_A 1qym_A Length = 231

 Score = 83.0 bits (205), Expect = 4e-18
 Identities = 36/172 (20%), Positives = 59/172 (34%), Gaps = 9/172 (5%)

Query: 85  IKDLTLFRAARYGSAKEL-KTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG 143
           + ++ +   A  G   EL +  + + K           T LH A   G  + V  LL+ G
Sbjct: 5   VSNIMICNLAYSGKLDELKERILAD-KSLATRTDQDSRTALHWACSAGHTEIVEFLLQLG 63

Query: 144 ANPNLGDLF-NTV-HRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGN 201
              N  D    +  H  A+       + LL +    N V        G + LHY      
Sbjct: 64  VPVNDKDDAGWSPLHIAASAGXDEIVKALLVKGAHVNAVNQ-----NGCTPLHYAASKNR 118

Query: 202 TEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKE 253
            E+  +LL+ GA+P  KD+        A      +++       A    +  
Sbjct: 119 HEIAVMLLEGGANPDAKDHYDATAMHRAAAKGNLKMVHILLFYKASTNIQDT 170

>3aji_A 26S proteasome non-ATPase regulatory subunit 10; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dvw_A 2dwz_A* 1tr4_A 1uoh_A 1qym_A Length = 231

 Score = 64.5 bits (157), Expect = 7e-12
 Identities = 21/131 (16%), Positives = 45/131 (34%), Gaps = 9/131 (6%)

Query: 89  TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
           T    A   +  E+   +     + + +     T +H AA  G +  V +LL   A+ N+
Sbjct: 108 TPLHYAASKNRHEIAVMLLEGGANPDAKDHYDATAMHRAAAKGNLKMVHILLFYKASTNI 167

Query: 149 GDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVE 206
            D      +H    E+++   + L+ +                 + L      G   ++ 
Sbjct: 168 QDTEGNTPLHLACDEERVEEAKFLVTQGASIYIENKE-----EKTPLQVA--KGGLGLIL 220

Query: 207 LLLKSGADPTV 217
             L  G + ++
Sbjct: 221 KRLAEGEEASM 231

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score = 86.0 bits (214), Expect = 5e-18
 Identities = 36/162 (22%), Positives = 62/162 (38%), Gaps = 40/162 (24%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L   A+ G        I++  + V+    +G+TPLHVA+  G +  V+ LL+  A+ N  
Sbjct: 282 LHLVAQEGHVPVADVLIKH-GVMVDATTRMGYTPLHVASHYGNIKLVKFLLQHQADVNAK 340

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                                  G+S LH     G+T++V LLL
Sbjct: 341 T---------------------------KL---------GYSPLHQAAQQGHTDIVTLLL 364

Query: 210 KSGADPTVKDNSGHIPSDYAEDAN---IKQILQKYAEKYADL 248
           K+GA P    + G  P   A+      +  +L+   ++ + +
Sbjct: 365 KNGASPNEVSSDGTTPLAIAKRLGYISVTDVLKVVTDETSFV 406

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score = 82.5 bits (205), Expect = 7e-17
 Identities = 37/136 (27%), Positives = 47/136 (34%), Gaps = 37/136 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G  +  K  ++N K  VN +     TPLH AA  G  + V++LLE  ANPNL 
Sbjct: 51  LHMAARAGHTEVAKYLLQN-KAKVNAKAKDDQTPLHCAARIGHTNMVKLLLENNANPNLA 109

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                                  G + LH     G+ E V  LL
Sbjct: 110 T---------------------------TA---------GHTPLHIAAREGHVETVLALL 133

Query: 210 KSGADPTVKDNSGHIP 225
           +  A        G  P
Sbjct: 134 EKEASQACMTKKGFTP 149

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score = 81.8 bits (203), Expect = 9e-17
 Identities = 33/147 (22%), Positives = 48/147 (32%), Gaps = 38/147 (25%)

Query: 80  LECQSIKDLT-LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRV 138
             C + K  T L  AA+YG  +  +  +E      N     G TPLHVA  +  +D V++
Sbjct: 139 QACMTKKGFTPLHVAAKYGKVRVAELLLER-DAHPNAAGKNGLTPLHVAVHHNNLDIVKL 197

Query: 139 LLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVV 198
           LL  G +P+                                         G++ LH    
Sbjct: 198 LLPRGGSPHSPAWN------------------------------------GYTPLHIAAK 221

Query: 199 AGNTEVVELLLKSGADPTVKDNSGHIP 225
               EV   LL+ G     +   G  P
Sbjct: 222 QNQVEVARSLLQYGGSANAESVQGVTP 248

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score = 81.8 bits (203), Expect = 1e-16
 Identities = 29/136 (21%), Positives = 46/136 (33%), Gaps = 37/136 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A  + +   +K  +       +     G+TPLH+AA   +V+  R LL+ G + N  
Sbjct: 183 LHVAVHHNNLDIVKLLLPR-GGSPHSPAWNGYTPLHIAAKQNQVEVARSLLQYGGSANAE 241

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                                  G + LH     G+ E+V LLL
Sbjct: 242 S---------------------------VQ---------GVTPLHLAAQEGHAEMVALLL 265

Query: 210 KSGADPTVKDNSGHIP 225
              A+  + + SG  P
Sbjct: 266 SKQANGNLGNKSGLTP 281

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score = 76.0 bits (188), Expect = 8e-15
 Identities = 33/144 (22%), Positives = 53/144 (36%), Gaps = 40/144 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A+ YG+ K +K  +++ + DVN +  LG++PLH AA  G  D V +LL+ GA+PN  
Sbjct: 315 LHVASHYGNIKLVKFLLQH-QADVNAKTKLGYSPLHQAAQQGHTDIVTLLLKNGASPNEV 373

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL- 208
                                       +D         G + L      G   V ++L 
Sbjct: 374 S---------------------------SD---------GTTPLAIAKRLGYISVTDVLK 397

Query: 209 --LKSGADPTVKDNSGHIPSDYAE 230
                 +   V D       +  +
Sbjct: 398 VVTDETSFVLVSDKHRMSFPETVD 421

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1 Length = 437

 Score = 75.2 bits (186), Expect = 2e-14
 Identities = 27/114 (23%), Positives = 39/114 (34%), Gaps = 36/114 (31%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLL 171
                   G TPLHVA+  G +  V+ LL+ GA+PN+ +                     
Sbjct: 6   SGGGGGESGLTPLHVASFMGHLPIVKNLLQRGASPNVSN--------------------- 44

Query: 172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                              + LH    AG+TEV + LL++ A    K      P
Sbjct: 45  ------VK---------VETPLHMAARAGHTEVAKYLLQNKAKVNAKAKDDQTP 83

>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A 1ymp_A Length = 223

 Score = 81.3 bits (202), Expect = 1e-17
 Identities = 29/136 (21%), Positives = 47/136 (34%), Gaps = 36/136 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A    +    +  I N   D++ R   G TPL +AA       +  L+ + A+ N  
Sbjct: 62  LHAAVSADAQGVFQILIRNRATDLDARMHDGTTPLILAARLAVEGMLEDLINSHADVNAV 121

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                           +          G SALH+     N +   +LL
Sbjct: 122 D---------------------------DL---------GKSALHWAAAVNNVDAAVVLL 145

Query: 210 KSGADPTVKDNSGHIP 225
           K+GA+  +++N    P
Sbjct: 146 KNGANKDMQNNREETP 161

>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A 1ymp_A Length = 223

 Score = 65.9 bits (162), Expect = 2e-12
 Identities = 27/119 (22%), Positives = 43/119 (36%), Gaps = 37/119 (31%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G T LH+AA   + D  + LLEA A+ N+ D                           N 
Sbjct: 25  GETALHLAARYSRSDAAKRLLEASADANIQD---------------------------NM 57

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGA-DPTVKDNSGHIPSDYAEDANIKQI 237
                    G + LH  V A    V ++L+++ A D   + + G  P   A    ++ +
Sbjct: 58  ---------GRTPLHAAVSADAQGVFQILIRNRATDLDARMHDGTTPLILAARLAVEGM 107

>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A 1ymp_A Length = 223

 Score = 65.5 bits (161), Expect = 3e-12
 Identities = 20/131 (15%), Positives = 41/131 (31%), Gaps = 37/131 (28%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA   +       ++N   + +M++    TPL +AA  G  +  +VLL+  AN ++ 
Sbjct: 129 LHWAAAVNNVDAAVVLLKN-GANKDMQNNREETPLFLAAREGSYETAKVLLDHFANRDIT 187

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                           +                      + ++V LL 
Sbjct: 188 D---------------------------HM---------DRLPRDIAQERMHHDIVRLLD 211

Query: 210 KSGADPTVKDN 220
           +     + + +
Sbjct: 212 EYNLVRSPQLH 222

>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A 1ymp_A Length = 223

 Score = 45.5 bits (109), Expect = 1e-05
 Identities = 15/51 (29%), Positives = 26/51 (50%)

Query: 189 GFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
           G +ALH       ++  + LL++ AD  ++DN G  P   A  A+ + + Q
Sbjct: 25  GETALHLAARYSRSDAAKRLLEASADANIQDNMGRTPLHAAVSADAQGVFQ 75

>1awc_B Protein (GA binding protein beta 1); complex (transcription regulation/DNA), DNA-binding, nuclear protein, ETS domain, ankyrin repeats; HET: DNA BRU CBR; 2.15A {Mus musculus} SCOP: d.211.1.1 Length = 153

 Score = 79.0 bits (196), Expect = 1e-17
 Identities = 37/148 (25%), Positives = 55/148 (37%), Gaps = 37/148 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA+YG     +  +    +  + R  +  TPLH+AA  G  + V VLL+ GA+ N  
Sbjct: 38  LHLAAQYGHFSTTEVLLRA-GVSRDARTKVDRTPLHMAASEGHANIVEVLLKHGADVN-- 94

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                       K M                          +ALH+     + EVVELL+
Sbjct: 95  -----------AKDML-----------------------KMTALHWATEHNHQEVVELLI 120

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQI 237
           K GAD   +        D + D   + +
Sbjct: 121 KYGADVHTQSKFCKTAFDISIDNGNEDL 148

>1awc_B Protein (GA binding protein beta 1); complex (transcription regulation/DNA), DNA-binding, nuclear protein, ETS domain, ankyrin repeats; HET: DNA BRU CBR; 2.15A {Mus musculus} SCOP: d.211.1.1 Length = 153

 Score = 72.8 bits (180), Expect = 2e-15
 Identities = 33/137 (24%), Positives = 44/137 (32%), Gaps = 38/137 (27%)

Query: 89  TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
            L  AAR G   E++  + N          LG +PLH+AA  G      VLL AG + + 
Sbjct: 5   KLLEAARAGQDDEVRILMAN-GAPFTTDW-LGTSPLHLAAQYGHFSTTEVLLRAGVSRDA 62

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
                                                     + LH     G+  +VE+L
Sbjct: 63  RT---------------------------KV---------DRTPLHMAASEGHANIVEVL 86

Query: 209 LKSGADPTVKDNSGHIP 225
           LK GAD   KD      
Sbjct: 87  LKHGADVNAKDMLKMTA 103

>1awc_B Protein (GA binding protein beta 1); complex (transcription regulation/DNA), DNA-binding, nuclear protein, ETS domain, ankyrin repeats; HET: DNA BRU CBR; 2.15A {Mus musculus} SCOP: d.211.1.1 Length = 153

 Score = 64.3 bits (158), Expect = 2e-12
 Identities = 22/118 (18%), Positives = 30/118 (25%), Gaps = 37/118 (31%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
               L  AA  G+ D VR+L+  GA                                   
Sbjct: 2   LGKKLLEAARAGQDDEVRILMANGAPFT------------------------TDWL---- 33

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQI 237
                    G S LH     G+    E+LL++G     +      P   A       I
Sbjct: 34  ---------GTSPLHLAAQYGHFSTTEVLLRAGVSRDARTKVDRTPLHMAASEGHANI 82

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens} Length = 240

 Score = 81.3 bits (202), Expect = 1e-17
 Identities = 42/163 (25%), Positives = 63/163 (38%), Gaps = 41/163 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAING-KVDNVRVLLEAGANPNL 148
           +  AA++G    +   I     DV+M    G TPL  AA     VD  R+LL    + NL
Sbjct: 113 IHLAAQFGHTSIVAYLIAK-GQDVDMMDQNGMTPLMWAAYRTHSVDPTRLLLTFNVSVNL 171

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
           GD ++                                     +ALH+ V+AGNT V+ LL
Sbjct: 172 GDKYH-----------------------------------KNTALHWAVLAGNTTVISLL 196

Query: 209 LKSGADPTVKDNSGHIPSDYAEDAN----IKQILQKYAEKYAD 247
           L++GA+   ++  G    D A+       I  + +    K  D
Sbjct: 197 LEAGANVDAQNIKGESALDLAKQRKNVWMINHLQEARQAKGYD 239

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens} Length = 240

 Score = 79.8 bits (198), Expect = 5e-17
 Identities = 31/136 (22%), Positives = 49/136 (36%), Gaps = 36/136 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           + +A +YG  +  +  +E    DV        T LH AAIN ++D V+  +  GA  +  
Sbjct: 13  IVKATQYGIYERCRELVEA-GYDVRQPDKENVTLLHWAAINNRIDLVKYYISKGAIVDQL 71

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                        D        L  + LH+    G+  +V  L+
Sbjct: 72  G---------------------------GD--------LNSTPLHWATRQGHLSMVVQLM 96

Query: 210 KSGADPTVKDNSGHIP 225
           K GADP++ D  G   
Sbjct: 97  KYGADPSLIDGEGCSC 112

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens} Length = 240

 Score = 74.4 bits (184), Expect = 4e-15
 Identities = 32/137 (23%), Positives = 47/137 (34%), Gaps = 38/137 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMR-HPLGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
           L  AA       +K +I      V+     L  TPLH A   G +  V  L++ GA+P+L
Sbjct: 46  LHWAAINNRIDLVKYYISK-GAIVDQLGGDLNSTPLHWATRQGHLSMVVQLMKYGADPSL 104

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
            D                            +         G S +H     G+T +V  L
Sbjct: 105 ID---------------------------GE---------GCSCIHLAAQFGHTSIVAYL 128

Query: 209 LKSGADPTVKDNSGHIP 225
           +  G D  + D +G  P
Sbjct: 129 IAKGQDVDMMDQNGMTP 145

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens} Length = 240

 Score = 65.1 bits (160), Expect = 4e-12
 Identities = 23/132 (17%), Positives = 39/132 (29%), Gaps = 39/132 (29%)

Query: 90  LFRAARYGSAKE-LKTFIENSKLDVNMR-HPLGWTPLHVAAINGKVDNVRVLLEAGANPN 147
           L  AA    + +  +  +    + VN+       T LH A + G    + +LLEAGAN +
Sbjct: 146 LMWAAYRTHSVDPTRLLLTF-NVSVNLGDKYHKNTALHWAVLAGNTTVISLLLEAGANVD 204

Query: 148 LGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
             +                                      G SAL       N  ++  
Sbjct: 205 AQN---------------------------IK---------GESALDLAKQRKNVWMINH 228

Query: 208 LLKSGADPTVKD 219
           L ++       +
Sbjct: 229 LQEARQAKGYDN 240

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens} Length = 240

 Score = 64.8 bits (159), Expect = 7e-12
 Identities = 13/101 (12%), Positives = 25/101 (24%), Gaps = 36/101 (35%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
               +  A   G  +  R L+EAG +    D                            +
Sbjct: 9   STWDIVKATQYGIYERCRELVEAGYDVRQPD---------------------------KE 41

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDN 220
                      + LH+  +    ++V+  +  GA       
Sbjct: 42  ---------NVTLLHWAAINNRIDLVKYYISKGAIVDQLGG 73

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens} Length = 240

 Score = 42.8 bits (102), Expect = 1e-04
 Identities = 6/37 (16%), Positives = 10/37 (27%)

Query: 189 GFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
               +      G  E    L+++G D    D      
Sbjct: 9   STWDIVKATQYGIYERCRELVEAGYDVRQPDKENVTL 45

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A Length = 253

 Score = 81.7 bits (203), Expect = 1e-17
 Identities = 29/136 (21%), Positives = 47/136 (34%), Gaps = 36/136 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A    +    +  I N   D++ R   G TPL +AA       +  L+ + A+ N  
Sbjct: 94  LHAAVSADAQGVFQILIRNRATDLDARMHDGTTPLILAARLAVEGMLEDLINSHADVNAV 153

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                           +          G SALH+     N +   +LL
Sbjct: 154 D---------------------------DL---------GKSALHWAAAVNNVDAAVVLL 177

Query: 210 KSGADPTVKDNSGHIP 225
           K+GA+  +++N    P
Sbjct: 178 KNGANKDMQNNREETP 193

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A Length = 253

 Score = 67.1 bits (165), Expect = 1e-12
 Identities = 27/119 (22%), Positives = 43/119 (36%), Gaps = 37/119 (31%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G T LH+AA   + D  + LLEA A+ N+ D                           N 
Sbjct: 57  GETALHLAARYSRSDAAKRLLEASADANIQD---------------------------NM 89

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGA-DPTVKDNSGHIPSDYAEDANIKQI 237
                    G + LH  V A    V ++L+++ A D   + + G  P   A    ++ +
Sbjct: 90  ---------GRTPLHAAVSADAQGVFQILIRNRATDLDARMHDGTTPLILAARLAVEGM 139

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A Length = 253

 Score = 65.6 bits (161), Expect = 4e-12
 Identities = 20/126 (15%), Positives = 37/126 (29%), Gaps = 37/126 (29%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA   +       ++N   + +M++    TPL +AA  G  +  +VLL+  AN ++ 
Sbjct: 161 LHWAAAVNNVDAAVVLLKN-GANKDMQNNREETPLFLAAREGSYETAKVLLDHFANRDIT 219

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                           +                      + ++V LL 
Sbjct: 220 D---------------------------HM---------DRLPRDIAQERMHHDIVRLLD 243

Query: 210 KSGADP 215
                 
Sbjct: 244 LEHHHH 249

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A Length = 253

 Score = 62.9 bits (154), Expect = 4e-11
 Identities = 29/142 (20%), Positives = 51/142 (35%), Gaps = 48/142 (33%)

Query: 111 LDVNMRHPLGWTPLHVAAINGKVDN-------------VRVLLEAGANPNLGDLFNTVHR 157
           +DVN+R P G+TPL +A+ +G                 +   +  GA+ +          
Sbjct: 1   MDVNVRGPDGFTPLMIASCSGGGLETGNSEEEEDAPAVISDFIYQGASLH---------- 50

Query: 158 TAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTV 217
              +             D             G +ALH       ++  + LL++ AD  +
Sbjct: 51  --NQT------------DRT-----------GETALHLAARYSRSDAAKRLLEASADANI 85

Query: 218 KDNSGHIPSDYAEDANIKQILQ 239
           +DN G  P   A  A+ + + Q
Sbjct: 86  QDNMGRTPLHAAVSADAQGVFQ 107

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A Length = 253

 Score = 51.7 bits (125), Expect = 2e-07
 Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 1/58 (1%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN 147
           LF AAR GS +  K  +++   + ++   +   P  +A      D VR+L     + +
Sbjct: 194 LFLAAREGSYETAKVLLDH-FANRDITDHMDRLPRDIAQERMHHDIVRLLDLEHHHHH 250

>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT signaling, POL ribosylation, transferase-signaling protein complex; 2.00A {Mus musculus} Length = 351

 Score = 83.3 bits (207), Expect = 2e-17
 Identities = 34/137 (24%), Positives = 49/137 (35%), Gaps = 36/137 (26%)

Query: 89  TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
            L  AAR G+ ++L   +    ++ +       TPLH+AA   +V  V++LL+ GA+ + 
Sbjct: 27  ELLEAARSGNEEKLMALLTPLNVNCHASDGRKSTPLHLAAGYNRVRIVQLLLQHGADVHA 86

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
            D                                      G   LH     G+ EV ELL
Sbjct: 87  KD---------------------------KG---------GLVPLHNACSYGHYEVTELL 110

Query: 209 LKSGADPTVKDNSGHIP 225
           LK GA     D     P
Sbjct: 111 LKHGACVNAMDLWQFTP 127

>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT signaling, POL ribosylation, transferase-signaling protein complex; 2.00A {Mus musculus} Length = 351

 Score = 82.2 bits (204), Expect = 4e-17
 Identities = 35/160 (21%), Positives = 55/160 (34%), Gaps = 41/160 (25%)

Query: 90  LFRAARYGSAKEL---KTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP 146
           L  A      K     +  +     +VN ++    TPLHVAA     D + VL + GA  
Sbjct: 215 LHCAVASLHPKRKQVAELLLRK-GANVNEKNKDFMTPLHVAAERAHNDVMEVLHKHGAKM 273

Query: 147 NLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVE 206
           N  D                           +          G +ALH   +AG+ +   
Sbjct: 274 NALD---------------------------SL---------GQTALHRAALAGHLQTCR 297

Query: 207 LLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYA 246
           LLL  G+DP++    G   +    +  ++QIL +      
Sbjct: 298 LLLSYGSDPSIISLQGFTAAQMGNE-AVQQILSESTPMRT 336

>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT signaling, POL ribosylation, transferase-signaling protein complex; 2.00A {Mus musculus} Length = 351

 Score = 70.2 bits (173), Expect = 4e-13
 Identities = 25/133 (18%), Positives = 40/133 (30%), Gaps = 42/133 (31%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA       ++   ++    +N    LG T LH AA+ G +   R+LL  G++P++ 
Sbjct: 251 LHVAAERAHNDVMEVLHKH-GAKMNALDSLGQTALHRAALAGHLQTCRLLLSYGSDPSII 309

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                                  GF+A   G      E V+ +L
Sbjct: 310 S---------------------------LQ---------GFTAAQMG-----NEAVQQIL 328

Query: 210 KSGADPTVKDNSG 222
                    D   
Sbjct: 329 SESTPMRTSDVDY 341

>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT signaling, POL ribosylation, transferase-signaling protein complex; 2.00A {Mus musculus} Length = 351

 Score = 61.4 bits (150), Expect = 2e-10
 Identities = 20/115 (17%), Positives = 31/115 (26%), Gaps = 37/115 (32%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDN-VRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVL 170
              +        L  AA +G  +  + +L     N +  D                    
Sbjct: 16  KAVLTGEYKKDELLEAARSGNEEKLMALLTPLNVNCHASD-------------------- 55

Query: 171 LKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                               + LH         +V+LLL+ GAD   KD  G +P
Sbjct: 56  -------GR---------KSTPLHLAAGYNRVRIVQLLLQHGADVHAKDKGGLVP 94

>3twr_A Tankyrase-2; ankyrin repeat, protein-protein interaction, substrate recru poly(ADP-ribosyl)ation; HET: PE8; 1.55A {Homo sapiens} PDB: 3tws_A* 3twt_A* 3twv_A* 3tww_A 3twx_A 3twq_A 3twu_A 2y0i_S* Length = 165

 Score = 79.0 bits (196), Expect = 2e-17
 Identities = 33/136 (24%), Positives = 44/136 (32%), Gaps = 36/136 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA+ G  + +K       ++         TPLH AA   +V  V  LL+ GA+ +  
Sbjct: 12  LLEAAKAGDVETVKKLCTVQSVNCRDIEGRQSTPLHFAAGYNRVSVVEYLLQHGADVHAK 71

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      G   LH     G+ EV ELL+
Sbjct: 72  D---------------------------KG---------GLVPLHNACSYGHYEVAELLV 95

Query: 210 KSGADPTVKDNSGHIP 225
           K GA   V D     P
Sbjct: 96  KHGAVVNVADLWKFTP 111

>3twr_A Tankyrase-2; ankyrin repeat, protein-protein interaction, substrate recru poly(ADP-ribosyl)ation; HET: PE8; 1.55A {Homo sapiens} PDB: 3tws_A* 3twt_A* 3twv_A* 3tww_A 3twx_A 3twq_A 3twu_A 2y0i_S* Length = 165

 Score = 62.0 bits (152), Expect = 2e-11
 Identities = 28/124 (22%), Positives = 46/124 (37%), Gaps = 38/124 (30%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A  YG  +  +  +++    VN+     +TPLH AA  GK +  ++LL+ GA+P   
Sbjct: 79  LHNACSYGHYEVAELLVKH-GAVVNVADLWKFTPLHEAAAKGKYEICKLLLQHGADPTKK 137

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           +                            D         G + L   V  G+T++ +LL 
Sbjct: 138 N---------------------------RD---------GNTPLDL-VKDGDTDIQDLLR 160

Query: 210 KSGA 213
              A
Sbjct: 161 GDAA 164

>3twr_A Tankyrase-2; ankyrin repeat, protein-protein interaction, substrate recru poly(ADP-ribosyl)ation; HET: PE8; 1.55A {Homo sapiens} PDB: 3tws_A* 3twt_A* 3twv_A* 3tww_A 3twx_A 3twq_A 3twu_A 2y0i_S* Length = 165

 Score = 59.7 bits (146), Expect = 1e-10
 Identities = 22/107 (20%), Positives = 29/107 (27%), Gaps = 37/107 (34%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEA-GANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFN 178
               L  AA  G V+ V+ L      N    +                            
Sbjct: 8   ADRQLLEAAKAGDVETVKKLCTVQSVNCRDIE---------------------------G 40

Query: 179 DVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                       + LH+        VVE LL+ GAD   KD  G +P
Sbjct: 41  R---------QSTPLHFAAGYNRVSVVEYLLQHGADVHAKDKGGLVP 78

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens} Length = 285

 Score = 81.8 bits (203), Expect = 2e-17
 Identities = 30/140 (21%), Positives = 51/140 (36%), Gaps = 38/140 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           +  AAR G  + + + I     +++ +     TPL++A  N +   V+ LLE+GA+ N  
Sbjct: 161 IHEAARRGHVECVNSLIAY-GGNIDHKISHLGTPLYLACENQQRACVKKLLESGADVN-- 217

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                 + +                S LH  V   + E+  LL+
Sbjct: 218 ----------------------QGKG-------------QDSPLHAVVRTASEELACLLM 242

Query: 210 KSGADPTVKDNSGHIPSDYA 229
             GAD   K+  G  P +  
Sbjct: 243 DFGADTQAKNAEGKRPVELV 262

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens} Length = 285

 Score = 77.9 bits (193), Expect = 5e-16
 Identities = 28/131 (21%), Positives = 45/131 (34%), Gaps = 37/131 (28%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           +  AA +G    L+  I      VN+      +PLH A + G +  V++LL+ GA  N  
Sbjct: 63  MHEAAIHGHQLSLRNLISQ-GWAVNIITADHVSPLHEACLGGHLSCVKILLKHGAQVNGV 121

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                        D           + L    V+G+ + V LLL
Sbjct: 122 T---------------------------AD---------WHTPLFNACVSGSWDCVNLLL 145

Query: 210 KSGADPTVKDN 220
           + GA    + +
Sbjct: 146 QHGASVQPESD 156

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens} Length = 285

 Score = 75.2 bits (186), Expect = 4e-15
 Identities = 27/136 (19%), Positives = 41/136 (30%), Gaps = 38/136 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A   G    +K  +++    VN       TPL  A ++G  D V +LL+ GA+    
Sbjct: 96  LHEACLGGHLSCVKILLKH-GAQVNGVTADWHTPLFNACVSGSWDCVNLLLQHGASVQ-- 152

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                      E                             S +H     G+ E V  L+
Sbjct: 153 ----------PESD-------------------------LASPIHEAARRGHVECVNSLI 177

Query: 210 KSGADPTVKDNSGHIP 225
             G +   K +    P
Sbjct: 178 AYGGNIDHKISHLGTP 193

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens} Length = 285

 Score = 71.8 bits (177), Expect = 5e-14
 Identities = 24/106 (22%), Positives = 35/106 (33%), Gaps = 36/106 (33%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
            W+P+H AAI+G   ++R L+  G   N+                              D
Sbjct: 59  DWSPMHEAAIHGHQLSLRNLISQGWAVNIIT---------------------------AD 91

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                      S LH   + G+   V++LLK GA         H P
Sbjct: 92  ---------HVSPLHEACLGGHLSCVKILLKHGAQVNGVTADWHTP 128

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens} Length = 285

 Score = 63.3 bits (155), Expect = 3e-11
 Identities = 11/101 (10%), Positives = 31/101 (30%), Gaps = 7/101 (6%)

Query: 126 VAAINGKVDNVRVLLEAGANPNLGDLFNT-VHRTAAEKKMNPFEVLLKREDEFNDVLNPN 184
           + + +    +   L+  G++    D     +  +      +   + L       D ++  
Sbjct: 1   MGSSHHHHHHSSGLVPRGSHMASMDGKQGGMDGSKPAGPRDFPGIRLLSNPLMGDAVS-- 58

Query: 185 MTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                +S +H   + G+   +  L+  G    +       P
Sbjct: 59  ----DWSPMHEAAIHGHQLSLRNLISQGWAVNIITADHVSP 95

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 81.8 bits (203), Expect = 2e-17
 Identities = 37/140 (26%), Positives = 53/140 (37%), Gaps = 35/140 (25%)

Query: 86  KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGAN 145
                   ++     E +   E+ +L +   +  G TPLHVA I+   + VR+L +AGA+
Sbjct: 124 SHAPAAVDSQPNPENEEEPRDEDWRLQLEAENYDGHTPLHVAVIHKDAEMVRLLRDAGAD 183

Query: 146 PNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV 205
            N             E                           G + LH  V A    V+
Sbjct: 184 LN-----------KPEPTC------------------------GRTPLHLAVEAQAASVL 208

Query: 206 ELLLKSGADPTVKDNSGHIP 225
           ELLLK+GADPT +   G  P
Sbjct: 209 ELLLKAGADPTARMYGGRTP 228

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 77.6 bits (192), Expect = 5e-16
 Identities = 23/138 (16%), Positives = 40/138 (28%), Gaps = 38/138 (27%)

Query: 90  LFRAARYGSAKELKTFIEN--SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN 147
           L  A  +     L   +        +++++ LG T LH+AAI G+   V  L  AGA   
Sbjct: 13  LHLAVIHQHEPFLDFLLGFSAGHEYLDLQNDLGQTALHLAAILGEASTVEKLYAAGAGVL 72

Query: 148 LGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
           + +                                      G +ALH            +
Sbjct: 73  VAE---------------------------RG---------GHTALHLACRVRAHTCACV 96

Query: 208 LLKSGADPTVKDNSGHIP 225
           LL+         +  ++ 
Sbjct: 97  LLQPRPSHPRDASDTYLT 114

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 69.9 bits (172), Expect = 2e-13
 Identities = 23/106 (21%), Positives = 30/106 (28%), Gaps = 33/106 (31%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G T LH+A I+     +  LL   A     D                             
Sbjct: 9   GDTALHLAVIHQHEPFLDFLLGFSAGHEYLD--------LQNDL---------------- 44

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                    G +ALH   + G    VE L  +GA   V +  GH  
Sbjct: 45  ---------GQTALHLAAILGEASTVEKLYAAGAGVLVAERGGHTA 81

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D Length = 282

 Score = 61.0 bits (149), Expect = 2e-10
 Identities = 17/121 (14%), Positives = 28/121 (23%), Gaps = 37/121 (30%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A    +A  L+  ++    D   R   G TPL  A +       R+L   GA     
Sbjct: 196 LHLAVEAQAASVLELLLKA-GADPTARMYGGRTPLGSALLRPNPILARLLRAHGAPEPED 254

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                        D           S         +++  +   
Sbjct: 255 G---------------------------GD---------KLSPCSSSGSDSDSDNRDEGD 278

Query: 210 K 210
           +
Sbjct: 279 E 279

>1ycs_B 53BP2, P53BP2; ankyrin repeats, SH3, tumor suppressor, multigene family, nuclear protein, phosphorylation, disease mutation, polymorphism; 2.20A {Homo sapiens} SCOP: b.34.2.1 d.211.1.1 PDB: 4a63_B Length = 239

 Score = 80.4 bits (199), Expect = 3e-17
 Identities = 28/136 (20%), Positives = 51/136 (37%), Gaps = 38/136 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L    R    K     I +  + V   +PL    L  +++ G+ D V+ ++    +P+L 
Sbjct: 9   LPPGKRTNLRKTGSERIAH-GMRVK-FNPLPLALLLDSSLEGEFDLVQRIIYEVDDPSLP 66

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           +                           ++         G +ALH  V AG+TE+V+ L+
Sbjct: 67  N---------------------------DE---------GITALHNAVCAGHTEIVKFLV 90

Query: 210 KSGADPTVKDNSGHIP 225
           + G +    D+ G  P
Sbjct: 91  QFGVNVNAADSDGWTP 106

>1ycs_B 53BP2, P53BP2; ankyrin repeats, SH3, tumor suppressor, multigene family, nuclear protein, phosphorylation, disease mutation, polymorphism; 2.20A {Homo sapiens} SCOP: b.34.2.1 d.211.1.1 PDB: 4a63_B Length = 239

 Score = 75.7 bits (187), Expect = 1e-15
 Identities = 27/133 (20%), Positives = 45/133 (33%), Gaps = 37/133 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  ++  G    ++  I     D ++ +  G T LH A   G  + V+ L++ G N N  
Sbjct: 41  LLDSSLEGEFDLVQRIIYE-VDDPSLPNDEGITALHNAVCAGHTEIVKFLVQFGVNVNAA 99

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                           +D         G++ LH      N +V + L+
Sbjct: 100 D---------------------------SD---------GWTPLHCAASCNNVQVCKFLV 123

Query: 210 KSGADPTVKDNSG 222
           +SGA       S 
Sbjct: 124 ESGAAVFAMTYSD 136

>1ycs_B 53BP2, P53BP2; ankyrin repeats, SH3, tumor suppressor, multigene family, nuclear protein, phosphorylation, disease mutation, polymorphism; 2.20A {Homo sapiens} SCOP: b.34.2.1 d.211.1.1 PDB: 4a63_B Length = 239

 Score = 75.0 bits (185), Expect = 2e-15
 Identities = 29/166 (17%), Positives = 50/166 (30%), Gaps = 34/166 (20%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A   G  + +K  ++   ++VN     GWTPLH AA    V   + L+E+GA     
Sbjct: 74  LHNAVCAGHTEIVKFLVQF-GVNVNAADSDGWTPLHCAASCNNVQVCKFLVESGAAVF-- 130

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                          +  +                      +     +  G T+  + L 
Sbjct: 131 -----------AMTYSDMQ--------------------TAADKCEEMEEGYTQCSQFLY 159

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAE 255
                  + +          E  N  ++  K  +    + RE E E
Sbjct: 160 GVQEKMGIMNKGVIYALWDYEPQNDDELPMKEGDCMTIIHREDEDE 205

>1ycs_B 53BP2, P53BP2; ankyrin repeats, SH3, tumor suppressor, multigene family, nuclear protein, phosphorylation, disease mutation, polymorphism; 2.20A {Homo sapiens} SCOP: b.34.2.1 d.211.1.1 PDB: 4a63_B Length = 239

 Score = 67.6 bits (166), Expect = 6e-13
 Identities = 10/106 (9%), Positives = 22/106 (20%), Gaps = 37/106 (34%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G   L               +  G                                    
Sbjct: 5   GQVSLPPGKRTNLRKTGSERIAHGMRVKFNP----------------------------- 35

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                   L  + L    + G  ++V+ ++    DP++ ++ G   
Sbjct: 36  --------LPLALLLDSSLEGEFDLVQRIIYEVDDPSLPNDEGITA 73

>1bi7_B P16INK4A, MTS1, multiple tumor suppressor; cyclin dependent kinase, cyclin dependent kinase inhibitory protein, CDK, cell cycle; 3.40A {Homo sapiens} SCOP: d.211.1.1 PDB: 1a5e_A 1dc2_A 2a5e_A Length = 156

 Score = 77.9 bits (193), Expect = 3e-17
 Identities = 30/140 (21%), Positives = 47/140 (33%), Gaps = 37/140 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA  G  +E++  +E    + N  +  G  P+ V    G      +LL  GA PN  
Sbjct: 16  LATAAARGRVEEVRALLEA-GANPNAPNSYGRRPIQVMM-MGSARVAELLLLHGAEPNCA 73

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                  +T      +H     G  + + +L 
Sbjct: 74  D-------------------------------PATLT----RPVHDAAREGFLDTLVVLH 98

Query: 210 KSGADPTVKDNSGHIPSDYA 229
           ++GA   V+D  G +P D A
Sbjct: 99  RAGARLDVRDAWGRLPVDLA 118

>1bi7_B P16INK4A, MTS1, multiple tumor suppressor; cyclin dependent kinase, cyclin dependent kinase inhibitory protein, CDK, cell cycle; 3.40A {Homo sapiens} SCOP: d.211.1.1 PDB: 1a5e_A 1dc2_A 2a5e_A Length = 156

 Score = 71.4 bits (176), Expect = 7e-15
 Identities = 27/103 (26%), Positives = 37/103 (35%), Gaps = 37/103 (35%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
               L  AA  G+V+ VR LLEAGANPN  +                           + 
Sbjct: 12  SADWLATAAARGRVEEVRALLEAGANPNAPN---------------------------SY 44

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSG 222
                    G   +   ++ G+  V ELLL  GA+P   D + 
Sbjct: 45  ---------GRRPIQV-MMMGSARVAELLLLHGAEPNCADPAT 77

>1bi7_B P16INK4A, MTS1, multiple tumor suppressor; cyclin dependent kinase, cyclin dependent kinase inhibitory protein, CDK, cell cycle; 3.40A {Homo sapiens} SCOP: d.211.1.1 PDB: 1a5e_A 1dc2_A 2a5e_A Length = 156

 Score = 69.4 bits (171), Expect = 3e-14
 Identities = 19/112 (16%), Positives = 32/112 (28%), Gaps = 37/112 (33%)

Query: 112 DVNMRHPLGWT-PLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVL 170
           + N   P   T P+H AA  G +D + VL  AGA  ++ D                    
Sbjct: 69  EPNCADPATLTRPVHDAAREGFLDTLVVLHRAGARLDVRD-------------------- 108

Query: 171 LKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSG 222
                             G   +      G+ +V   L  +       +++ 
Sbjct: 109 -------AW---------GRLPVDLAEELGHRDVARYLRAAAGGTRGSNHAR 144

>1bi7_B P16INK4A, MTS1, multiple tumor suppressor; cyclin dependent kinase, cyclin dependent kinase inhibitory protein, CDK, cell cycle; 3.40A {Homo sapiens} SCOP: d.211.1.1 PDB: 1a5e_A 1dc2_A 2a5e_A Length = 156

 Score = 55.9 bits (136), Expect = 2e-09
 Identities = 17/72 (23%), Positives = 24/72 (33%), Gaps = 4/72 (5%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           +  AAR G    L          +++R   G  P+ +A   G  D  R L  A       
Sbjct: 82  VHDAAREGFLDTLVVLHRA-GARLDVRDAWGRLPVDLAEELGHRDVARYLRAAAGGTRGS 140

Query: 150 DLFNTVHRTAAE 161
           +        AAE
Sbjct: 141 N---HARIDAAE 149

>2l6b_A NR1C; ankyrin, consensus, repeat protein, ising model, DE NOV; NMR {Escherichia coli} Length = 115

 Score = 76.6 bits (190), Expect = 4e-17
 Identities = 37/136 (27%), Positives = 51/136 (37%), Gaps = 37/136 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA+ G A+E+K  +     DVN R   G TPLH+AA NG  + V++LL  GA+ N  
Sbjct: 13  LHNAAKNGHAEEVKKLLSK-GADVNARSKDGNTPLHLAAKNGHAEIVKLLLAKGADVNAR 71

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                                        D         G +  H     G+ E+V+LL 
Sbjct: 72  S---------------------------KD---------GNTPEHLAKKNGHHEIVKLLD 95

Query: 210 KSGADPTVKDNSGHIP 225
             GAD   +       
Sbjct: 96  AKGADVNARSWGSSHH 111

>2l6b_A NR1C; ankyrin, consensus, repeat protein, ising model, DE NOV; NMR {Escherichia coli} Length = 115

 Score = 69.3 bits (171), Expect = 1e-14
 Identities = 30/106 (28%), Positives = 39/106 (36%), Gaps = 36/106 (33%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G TPLH AA NG  + V+ LL  GA+ N                               D
Sbjct: 9   GNTPLHNAAKNGHAEEVKKLLSKGADVNARS---------------------------KD 41

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                    G + LH     G+ E+V+LLL  GAD   +   G+ P
Sbjct: 42  ---------GNTPLHLAAKNGHAEIVKLLLAKGADVNARSKDGNTP 78

>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural genomics of pathogenic protozoa consortium, SGPP, ANK repeat; 2.90A {Leishmania major} Length = 364

 Score = 82.2 bits (204), Expect = 4e-17
 Identities = 24/141 (17%), Positives = 55/141 (39%), Gaps = 13/141 (9%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGK--VDNVRVLLEAGANPN 147
                            E +++  +++H  G T LH     G   ++ +++L++ GA+P 
Sbjct: 115 ESLLNECDE-------REVNEIGSHVKHCKGQTALHWCVGLGPEYLEMIKILVQLGASPT 167

Query: 148 LGDLF-NTV-HRTAAEKKMNPFEVLLKREDEFNDVLNPNM-TFLGFSALHYGVVAGNTEV 204
             D    T   R    +     ++++      + +   +     G S LH+ ++    +V
Sbjct: 168 AKDKADETPLMRAMEFRNREALDLMMDTVPSKSSL-RLDYANKQGNSHLHWAILINWEDV 226

Query: 205 VELLLKSGADPTVKDNSGHIP 225
               ++ G D  ++DN   +P
Sbjct: 227 AMRFVEMGIDVNMEDNEHTVP 247

>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural genomics of pathogenic protozoa consortium, SGPP, ANK repeat; 2.90A {Leishmania major} Length = 364

 Score = 76.4 bits (189), Expect = 4e-15
 Identities = 18/153 (11%), Positives = 33/153 (21%), Gaps = 48/153 (31%)

Query: 90  LFRAARYGS---AKEL---------KTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVR 137
           L+ + R       KEL         +    ++   V     +    +  AA   K + ++
Sbjct: 248 LYLSVRAAMVLLTKELLQKTDVFLIQACPYHNGTTVLPDRVVWLDFVPAAADPSKQEVLQ 307

Query: 138 VLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGV 197
           +L E                                    N          G        
Sbjct: 308 LLQEKLDEVVRSL---------------------------NT---------GAGGAVKRK 331

Query: 198 VAGNTEVVELLLKSGADPTVKDNSGHIPSDYAE 230
                 V  + L   A    +  S    S  ++
Sbjct: 332 KKAAPAVKRMKLAPSAPVRTRSRSRARSSAVSK 364

>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural genomics of pathogenic protozoa consortium, SGPP, ANK repeat; 2.90A {Leishmania major} Length = 364

 Score = 74.9 bits (185), Expect = 9e-15
 Identities = 21/161 (13%), Positives = 44/161 (27%), Gaps = 44/161 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKL----DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGAN 145
           L RA  + + + L   ++         ++  +  G + LH A +    D     +E G +
Sbjct: 177 LMRAMEFRNREALDLMMDTVPSKSSLRLDYANKQGNSHLHWAILINWEDVAMRFVEMGID 236

Query: 146 PNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV 205
            N+ D                           N+             L+  V A    + 
Sbjct: 237 VNMED---------------------------NE---------HTVPLYLSVRAAMVLLT 260

Query: 206 ELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYA 246
           + LL+      ++    H            +++       A
Sbjct: 261 KELLQKTDVFLIQACPYH----NGTTVLPDRVVWLDFVPAA 297

>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural genomics of pathogenic protozoa consortium, SGPP, ANK repeat; 2.90A {Leishmania major} Length = 364

 Score = 71.1 bits (175), Expect = 2e-13
 Identities = 21/115 (18%), Positives = 34/115 (29%), Gaps = 36/115 (31%)

Query: 106 IENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMN 165
            +  KL+           +HVAA  G+ D VR L+E G +P + +               
Sbjct: 6   TDFPKLNRIKSDDENMEKIHVAARKGQTDEVRRLIETGVSPTIQN--------------- 50

Query: 166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDN 220
                                  G +ALH     G  +  + L   G   ++   
Sbjct: 51  ------------RF---------GCTALHLACKFGCVDTAKYLASVGEVHSLWHG 84

>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural genomics of pathogenic protozoa consortium, SGPP, ANK repeat; 2.90A {Leishmania major} Length = 364

 Score = 53.3 bits (129), Expect = 9e-08
 Identities = 23/138 (16%), Positives = 41/138 (29%), Gaps = 51/138 (36%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           +  A        +   +E +K         G  P  +     + +      E G++    
Sbjct: 88  IHLAVMANKTDLVVALVEGAKER-------GQMPESLLNECDEREVN----EIGSH---- 132

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGN--TEVVEL 207
                        K                         G +ALH+ V  G    E++++
Sbjct: 133 ---------VKHCK-------------------------GQTALHWCVGLGPEYLEMIKI 158

Query: 208 LLKSGADPTVKDNSGHIP 225
           L++ GA PT KD +   P
Sbjct: 159 LVQLGASPTAKDKADETP 176

>3b7b_A Euchromatic histone-lysine N-methyltransferase 1; ankyrin repeat, alternative splicing, ANK repeat, chromatin regulator, nucleus, phosphorylation; 2.99A {Homo sapiens} SCOP: k.37.1.1 PDB: 3b95_A* Length = 237

 Score = 80.1 bits (199), Expect = 4e-17
 Identities = 31/136 (22%), Positives = 53/136 (38%), Gaps = 36/136 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA+ G  + ++  + N ++DVN +   GWTP+  A     VD V++LL  G++ N+ 
Sbjct: 81  LHLAAKKGHYEVVQYLLSNGQMDVNCQDDGGWTPMIWATEYKHVDLVKLLLSKGSDINIR 140

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                           N+             LH+   +G  ++ E+LL
Sbjct: 141 D---------------------------NE---------ENICLHWAAFSGCVDIAEILL 164

Query: 210 KSGADPTVKDNSGHIP 225
            +  D    +  G  P
Sbjct: 165 AAKCDLHAVNIHGDSP 180

>3b7b_A Euchromatic histone-lysine N-methyltransferase 1; ankyrin repeat, alternative splicing, ANK repeat, chromatin regulator, nucleus, phosphorylation; 2.99A {Homo sapiens} SCOP: k.37.1.1 PDB: 3b95_A* Length = 237

 Score = 71.3 bits (176), Expect = 4e-14
 Identities = 26/114 (22%), Positives = 37/114 (32%), Gaps = 36/114 (31%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLL 171
           +  M H    +PLH AA  G VD   +L++AGAN +                        
Sbjct: 3   NFKMEHQNKRSPLHAAAEAGHVDICHMLVQAGANIDTCS--------------------- 41

Query: 172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                  D           + L       + E V+ L+K+GA    KD  G   
Sbjct: 42  ------ED---------QRTPLMEAAENNHLEAVKYLIKAGALVDPKDAEGSTC 80

>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin repeat Pro ribosome display, apoptosis; 1.80A {Synthetic source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D* 3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B* 2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C* Length = 169

 Score = 78.2 bits (194), Expect = 4e-17
 Identities = 44/136 (32%), Positives = 59/136 (43%), Gaps = 37/136 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN     GWTPLH+AA NG ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGRDDEVRILMAN-GADVNAEDASGWTPLHLAAFNGHLEIVEVLLKNGADVNAV 76

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                           +          G + L    + G+ E+VE+LL
Sbjct: 77  D---------------------------HA---------GMTPLRLAALFGHLEIVEVLL 100

Query: 210 KSGADPTVKDNSGHIP 225
           K+GAD    D  GH P
Sbjct: 101 KNGADVNANDMEGHTP 116

>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin repeat Pro ribosome display, apoptosis; 1.80A {Synthetic source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D* 3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B* 2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C* Length = 169

 Score = 73.9 bits (183), Expect = 1e-15
 Identities = 40/148 (27%), Positives = 62/148 (41%), Gaps = 37/148 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA  G  + ++  ++N   DVN     G TPL +AA+ G ++ V VLL+ GA+ N  
Sbjct: 51  LHLAAFNGHLEIVEVLLKN-GADVNAVDHAGMTPLRLAALFGHLEIVEVLLKNGADVNAN 109

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                            +         G + LH   + G+ E+VE+LL
Sbjct: 110 D---------------------------ME---------GHTPLHLAAMFGHLEIVEVLL 133

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQI 237
           K+GAD   +D  G    D + D   + +
Sbjct: 134 KNGADVNAQDKFGKTAFDISIDNGNEDL 161

>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin repeat Pro ribosome display, apoptosis; 1.80A {Synthetic source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D* 3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B* 2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C* Length = 169

 Score = 67.4 bits (166), Expect = 2e-13
 Identities = 28/106 (26%), Positives = 40/106 (37%), Gaps = 36/106 (33%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
               L  AA  G+ D VR+L+  GA+ N  D                             
Sbjct: 14  LGKKLLEAARAGRDDEVRILMANGADVNAED---------------------------AS 46

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                    G++ LH     G+ E+VE+LLK+GAD    D++G  P
Sbjct: 47  ---------GWTPLHLAAFNGHLEIVEVLLKNGADVNAVDHAGMTP 83

>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin repeat Pro ribosome display, apoptosis; 1.80A {Synthetic source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D* 3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B* 2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C* Length = 169

 Score = 60.1 bits (147), Expect = 8e-11
 Identities = 31/121 (25%), Positives = 48/121 (39%), Gaps = 37/121 (30%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA +G  + ++  ++N   DVN     G TPLH+AA+ G ++ V VLL+ GA+ N  
Sbjct: 84  LRLAALFGHLEIVEVLLKN-GADVNANDMEGHTPLHLAAMFGHLEIVEVLLKNGADVNAQ 142

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      G +A    +  GN ++ E+L 
Sbjct: 143 D---------------------------KF---------GKTAFDISIDNGNEDLAEILQ 166

Query: 210 K 210
           K
Sbjct: 167 K 167

>2jab_A H10-2-G3; HER2, darpin, ankyrin repeat protein, membrane protein, human epidermal growth factor receptor 2, de novo protein; 1.70A {} PDB: 3hg0_D 2xzt_G 2xzd_G 2y0b_G 2v4h_C Length = 136

 Score = 76.7 bits (190), Expect = 5e-17
 Identities = 40/148 (27%), Positives = 59/148 (39%), Gaps = 37/148 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DVN +   G TPL++A  +G ++ V VLL+ GA+ N  
Sbjct: 18  LLEAARAGQDDEVRILMAN-GADVNAKDEYGLTPLYLATAHGHLEIVEVLLKNGADVNAV 76

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      GF+ LH     G+ E+ E+LL
Sbjct: 77  D---------------------------AI---------GFTPLHLAAFIGHLEIAEVLL 100

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQI 237
           K GAD   +D  G    D +     + +
Sbjct: 101 KHGADVNAQDKFGKTAFDISIGNGNEDL 128

>2jab_A H10-2-G3; HER2, darpin, ankyrin repeat protein, membrane protein, human epidermal growth factor receptor 2, de novo protein; 1.70A {} PDB: 3hg0_D 2xzt_G 2xzd_G 2y0b_G 2v4h_C Length = 136

 Score = 64.3 bits (158), Expect = 1e-12
 Identities = 29/118 (24%), Positives = 40/118 (33%), Gaps = 36/118 (30%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
               L  AA  G+ D VR+L+  GA+ N  D                             
Sbjct: 14  LGKKLLEAARAGQDDEVRILMANGADVNAKD---------------------------EY 46

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQI 237
                    G + L+     G+ E+VE+LLK+GAD    D  G  P   A      +I
Sbjct: 47  ---------GLTPLYLATAHGHLEIVEVLLKNGADVNAVDAIGFTPLHLAAFIGHLEI 95

>2jab_A H10-2-G3; HER2, darpin, ankyrin repeat protein, membrane protein, human epidermal growth factor receptor 2, de novo protein; 1.70A {} PDB: 3hg0_D 2xzt_G 2xzd_G 2y0b_G 2v4h_C Length = 136

 Score = 58.6 bits (143), Expect = 1e-10
 Identities = 29/121 (23%), Positives = 48/121 (39%), Gaps = 37/121 (30%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L+ A  +G  + ++  ++N   DVN    +G+TPLH+AA  G ++   VLL+ GA+ N  
Sbjct: 51  LYLATAHGHLEIVEVLLKN-GADVNAVDAIGFTPLHLAAFIGHLEIAEVLLKHGADVNAQ 109

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      G +A    +  GN ++ E+L 
Sbjct: 110 D---------------------------KF---------GKTAFDISIGNGNEDLAEILQ 133

Query: 210 K 210
           K
Sbjct: 134 K 134

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A Length = 241

 Score = 79.8 bits (198), Expect = 6e-17
 Identities = 33/151 (21%), Positives = 52/151 (34%), Gaps = 38/151 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHP-LGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
           L  A      + ++  +E    D++      G +PL  A  N  +  V++LL+ GAN N 
Sbjct: 120 LHVAVNTECQETVQLLLER-GADIDAVDIKSGRSPLIHAVENNSLSMVQLLLQHGANVNA 178

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
                                                   G SALH     G   +V  L
Sbjct: 179 QM---------------------------YS---------GSSALHSASGRGLLPLVRTL 202

Query: 209 LKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
           ++SGAD ++K+     P   A    +  IL+
Sbjct: 203 VRSGADSSLKNCHNDTPLMVARSRRVIDILR 233

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A Length = 241

 Score = 70.9 bits (175), Expect = 5e-14
 Identities = 27/143 (18%), Positives = 46/143 (32%), Gaps = 43/143 (30%)

Query: 90  LFRAARYGSAKELKTFIENSKL---DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP 146
           L  A   G+   +   +   +    ++++ + L  TPLH+A I      VR+L+ AGA+P
Sbjct: 13  LHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSVVRLLVTAGASP 72

Query: 147 NLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVE 206
              D                                      G +A H      +   + 
Sbjct: 73  MALD---------------------------RH---------GQTAAHLACEHRSPTCLR 96

Query: 207 LLLKSGADPTV----KDNSGHIP 225
            LL S A  T+    ++  G   
Sbjct: 97  ALLDSAAPGTLDLEARNYDGLTA 119

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A Length = 241

 Score = 65.2 bits (160), Expect = 5e-12
 Identities = 25/124 (20%), Positives = 39/124 (31%), Gaps = 40/124 (32%)

Query: 120 GWTPLHVAAINGKVDNVRVLLE----AGANPNLGDLFNTVHRTAAEKKMNPFEVLLKRED 175
           G TPLH+A + G +  V  L+      G   ++ +                         
Sbjct: 9   GDTPLHIAVVQGNLPAVHRLVNLFQQGGRELDIYN------------------------- 43

Query: 176 EFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIK 235
             N            + LH  V+     VV LL+ +GA P   D  G   +  A +    
Sbjct: 44  --NL---------RQTPLHLAVITTLPSVVRLLVTAGASPMALDRHGQTAAHLACEHRSP 92

Query: 236 QILQ 239
             L+
Sbjct: 93  TCLR 96

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A Length = 241

 Score = 63.2 bits (155), Expect = 2e-11
 Identities = 18/124 (14%), Positives = 37/124 (29%), Gaps = 37/124 (29%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A    S   ++  +++   +VN +   G + LH A+  G +  VR L+ +GA+ +L 
Sbjct: 154 LIHAVENNSLSMVQLLLQH-GANVNAQMYSGSSALHSASGRGLLPLVRTLVRSGADSSLK 212

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           +                                        + L         +++    
Sbjct: 213 N---------------------------CH---------NDTPLMVARSRRVIDILRGKA 236

Query: 210 KSGA 213
              A
Sbjct: 237 TRPA 240

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A Length = 241

 Score = 48.6 bits (117), Expect = 2e-06
 Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGAN 145
           L  A+  G    ++T + +   D ++++    TPL VA     +D +R      A+
Sbjct: 187 LHSASGRGLLPLVRTLVRS-GADSSLKNCHNDTPLMVARSRRVIDILRGKATRPAS 241

>2zgd_A 3 repeat synthetic ankyrin; ankyrin repeat, hydroxylated, de novo protein; 1.90A {Synthetic} PDB: 2zgg_A 2xen_A Length = 110

 Score = 75.7 bits (187), Expect = 7e-17
 Identities = 28/147 (19%), Positives = 47/147 (31%), Gaps = 40/147 (27%)

Query: 93  AARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF 152
            + +         +      +          L  AA  G+ D VR+L+  GA+    D  
Sbjct: 1   GSSHHHHHHSSGLVPR-GSHMGSD---LGKKLLEAARAGQDDEVRILMANGADVAAKD-- 54

Query: 153 NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG 212
                                     +         G + LH     G+ EVV+LLL++G
Sbjct: 55  -------------------------KN---------GSTPLHLAARNGHLEVVKLLLEAG 80

Query: 213 ADPTVKDNSGHIPSDYAEDANIKQILQ 239
           AD   +D  G    D + D   + + +
Sbjct: 81  ADVXAQDKFGKTAFDISIDNGNEDLAE 107

>2zgd_A 3 repeat synthetic ankyrin; ankyrin repeat, hydroxylated, de novo protein; 1.90A {Synthetic} PDB: 2zgg_A 2xen_A Length = 110

 Score = 53.7 bits (130), Expect = 4e-09
 Identities = 26/61 (42%), Positives = 36/61 (59%), Gaps = 1/61 (1%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G   E++  + N   DV  +   G TPLH+AA NG ++ V++LLEAGA+    
Sbjct: 28  LLEAARAGQDDEVRILMAN-GADVAAKDKNGSTPLHLAARNGHLEVVKLLLEAGADVXAQ 86

Query: 150 D 150
           D
Sbjct: 87  D 87

>2rfa_A Transient receptor potential cation channel subfa member 6; TRPV6, ankyrin reapeat, ANK RE calcium channel, calcium transport, calmodulin-binding; 1.70A {Mus musculus} Length = 232

 Score = 78.8 bits (195), Expect = 1e-16
 Identities = 27/144 (18%), Positives = 47/144 (32%), Gaps = 31/144 (21%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA+    + L   ++    +V+ R  +G T LH+AA+   ++   VL+EA       
Sbjct: 7   LLLAAKENDVQALSKLLKFEGCEVHQRGAMGETALHIAALYDNLEAAMVLMEAAPE---- 62

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                +       ++                        G +ALH  V+  N  +V  LL
Sbjct: 63  -----LVFEPMTSELY----------------------EGQTALHIAVINQNVNLVRALL 95

Query: 210 KSGADPTVKDNSGHIPSDYAEDAN 233
             GA  + +               
Sbjct: 96  ARGASVSARATGSVFHYRPHNLIY 119

>1n0r_A 4ANK, 4 ankyrin repeats; structural protein; 1.50A {} SCOP: k.37.1.1 Length = 126

 Score = 75.5 bits (187), Expect = 1e-16
 Identities = 45/136 (33%), Positives = 62/136 (45%), Gaps = 37/136 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G  + +K  +E    DVN +   G TPLH+AA NG ++ V++LLEAGA+ N  
Sbjct: 6   LHLAARNGHLEVVKLLLEA-GADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGADVNAK 64

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                            +         G + LH     G+ EVV+LLL
Sbjct: 65  D---------------------------KN---------GRTPLHLAARNGHLEVVKLLL 88

Query: 210 KSGADPTVKDNSGHIP 225
           ++GAD   KD +G  P
Sbjct: 89  EAGADVNAKDKNGRTP 104

>1n0r_A 4ANK, 4 ankyrin repeats; structural protein; 1.50A {} SCOP: k.37.1.1 Length = 126

 Score = 71.6 bits (177), Expect = 3e-15
 Identities = 35/106 (33%), Positives = 48/106 (45%), Gaps = 36/106 (33%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G TPLH+AA NG ++ V++LLEAGA+ N  D                            +
Sbjct: 2   GRTPLHLAARNGHLEVVKLLLEAGADVNAKD---------------------------KN 34

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                    G + LH     G+ EVV+LLL++GAD   KD +G  P
Sbjct: 35  ---------GRTPLHLAARNGHLEVVKLLLEAGADVNAKDKNGRTP 71

>1n0r_A 4ANK, 4 ankyrin repeats; structural protein; 1.50A {} SCOP: k.37.1.1 Length = 126

 Score = 62.7 bits (154), Expect = 3e-12
 Identities = 40/124 (32%), Positives = 56/124 (45%), Gaps = 37/124 (29%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G  + +K  +E    DVN +   G TPLH+AA NG ++ V++LLEAGA+ N  
Sbjct: 39  LHLAARNGHLEVVKLLLEA-GADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGADVNAK 97

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                            +         G + LH     G+ EVV+LLL
Sbjct: 98  D---------------------------KN---------GRTPLHLAARNGHLEVVKLLL 121

Query: 210 KSGA 213
           ++GA
Sbjct: 122 EAGA 125

>1d9s_A Cyclin-dependent kinase 4 inhibitor B; helix-turn-helix, ankyrin repeat, signaling protein; NMR {Mus musculus} SCOP: i.11.1.1 Length = 136

 Score = 75.6 bits (187), Expect = 2e-16
 Identities = 27/111 (24%), Positives = 40/111 (36%), Gaps = 37/111 (33%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLL 171
            ++M        L  AA  G+V+ VR LLEAGA+PN  +                     
Sbjct: 4   GIHMLGGSSDAGLATAAARGQVETVRQLLEAGADPNALN--------------------- 42

Query: 172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSG 222
                            G   +   ++ G+ +V ELLL  GA+P   D + 
Sbjct: 43  ------RF---------GRRPIQV-MMMGSAQVAELLLLHGAEPNCADPAT 77

>1d9s_A Cyclin-dependent kinase 4 inhibitor B; helix-turn-helix, ankyrin repeat, signaling protein; NMR {Mus musculus} SCOP: i.11.1.1 Length = 136

 Score = 65.5 bits (161), Expect = 5e-13
 Identities = 19/104 (18%), Positives = 30/104 (28%), Gaps = 37/104 (35%)

Query: 112 DVNMRHPLGWT-PLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVL 170
           + N   P   T P+H AA  G +D + VL  AGA  ++ D                    
Sbjct: 69  EPNCADPATLTRPVHDAAREGFLDTLVVLHRAGARLDVCD-------------------- 108

Query: 171 LKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD 214
                             G   +      G+ ++   L  +  D
Sbjct: 109 -------AW---------GRLPVDLAEEQGHRDIARYLHAATGD 136

>1d9s_A Cyclin-dependent kinase 4 inhibitor B; helix-turn-helix, ankyrin repeat, signaling protein; NMR {Mus musculus} SCOP: i.11.1.1 Length = 136

 Score = 52.4 bits (127), Expect = 2e-08
 Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 1/56 (1%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGAN 145
           +  AAR G    L          +++    G  P+ +A   G  D  R L  A  +
Sbjct: 82  VHDAAREGFLDTLVVLHRA-GARLDVCDAWGRLPVDLAEEQGHRDIARYLHAATGD 136

>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A 1ixv_A 1wg0_A Length = 228

 Score = 77.9 bits (193), Expect = 2e-16
 Identities = 30/151 (19%), Positives = 50/151 (33%), Gaps = 39/151 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP-NL 148
           L  A      +  +  IEN    V ++      PLH AA  G +  + +L   G +  N 
Sbjct: 111 LHLAVGKKWFEVSQFLIEN-GASVRIKDKFNQIPLHRAASVGSLKLIELLCGLGKSAVNW 169

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
            D                                      G++ L + +  G+ +   LL
Sbjct: 170 QD---------------------------KQ---------GWTPLFHALAEGHGDAAVLL 193

Query: 209 L-KSGADPTVKDNSGHIPSDYAEDANIKQIL 238
           + K GA+  + DN G    D A +  +K+  
Sbjct: 194 VEKYGAEYDLVDNKGAKAEDVALNEQVKKFF 224

>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A 1ixv_A 1wg0_A Length = 228

 Score = 76.3 bits (189), Expect = 6e-16
 Identities = 23/138 (16%), Positives = 38/138 (27%), Gaps = 35/138 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L +A       +++  + +    +  +   G  PLH +      +    LL    N NL 
Sbjct: 6   LHQACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWSVSFQAHEITSFLLSKMENVNLD 65

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D  +                        +          G++  H     GN EVV+ L 
Sbjct: 66  DYPD------------------------DS---------GWTPFHIACSVGNLEVVKSLY 92

Query: 210 --KSGADPTVKDNSGHIP 225
                 D     N G   
Sbjct: 93  DRPLKPDLNKITNQGVTC 110

>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A 1ixv_A 1wg0_A Length = 228

 Score = 59.0 bits (144), Expect = 5e-10
 Identities = 31/122 (25%), Positives = 39/122 (31%), Gaps = 40/122 (32%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEA-GANPNL 148
           L RAA  GS K ++      K  VN +   GWTPL  A   G  D   +L+E  GA  +L
Sbjct: 144 LHRAASVGSLKLIELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVLLVEKYGAEYDL 203

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
            D                           N          G  A      A N +V +  
Sbjct: 204 VD---------------------------NK---------GAKAEDV---ALNEQVKKFF 224

Query: 209 LK 210
           L 
Sbjct: 225 LN 226

>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A 1ixv_A 1wg0_A Length = 228

 Score = 57.8 bits (141), Expect = 1e-09
 Identities = 19/111 (17%), Positives = 29/111 (26%), Gaps = 40/111 (36%)

Query: 119 LGWTPLHVAAINGKVDNVR-VLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEF 177
           +   PLH A +  +   V+ +L    +     D                           
Sbjct: 1   MSNYPLHQACMENEFFKVQELLHSKPSLLLQKD--------------------------- 33

Query: 178 NDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADP---TVKDNSGHIP 225
            D         G   LH+ V     E+   LL    +       D+SG  P
Sbjct: 34  QD---------GRIPLHWSVSFQAHEITSFLLSKMENVNLDDYPDDSGWTP 75

>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor, cytoplasm, phosphorylation, P53 binding protein, ANK repeat, SH3 domain; 2.10A {Homo sapiens} Length = 229

 Score = 78.1 bits (193), Expect = 2e-16
 Identities = 29/176 (16%), Positives = 49/176 (27%), Gaps = 43/176 (24%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA  G  + ++  ++    D +  +  G T LH A        V  L+ AGAN N  
Sbjct: 25  LLDAALTGELEVVQQAVKE-MNDPSQPNEEGITALHNAICGANYSIVDFLITAGANVNSP 83

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                           +          G++ LH      +T +   L+
Sbjct: 84  D---------------------------SH---------GWTPLHCAASCNDTVICMALV 107

Query: 210 KSGADPTVKD-NSGHIPSDYAEDA--NIKQILQKYAEKYADLQREKEAEERRKYPL 262
           + GA       + G    +  +             A+    +           Y L
Sbjct: 108 QHGAAIFATTLSDGATAFEKCDPYREGYADCATYLADVEQSM---GLMNSGAVYAL 160

>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor, cytoplasm, phosphorylation, P53 binding protein, ANK repeat, SH3 domain; 2.10A {Homo sapiens} Length = 229

 Score = 68.1 bits (167), Expect = 4e-13
 Identities = 21/118 (17%), Positives = 40/118 (33%), Gaps = 36/118 (30%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
               L  AA+ G+++ V+  ++   +P+  +                            +
Sbjct: 21  PLVLLLDAALTGELEVVQQAVKEMNDPSQPN---------------------------EE 53

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQI 237
                    G +ALH  +   N  +V+ L+ +GA+    D+ G  P   A   N   I
Sbjct: 54  ---------GITALHNAICGANYSIVDFLITAGANVNSPDSHGWTPLHCAASCNDTVI 102

>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor, cytoplasm, phosphorylation, P53 binding protein, ANK repeat, SH3 domain; 2.10A {Homo sapiens} Length = 229

 Score = 65.4 bits (160), Expect = 4e-12
 Identities = 21/151 (13%), Positives = 34/151 (22%), Gaps = 38/151 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A    +   +   I     +VN     GWTPLH AA          L++ GA     
Sbjct: 58  LHNAICGANYSIVDFLITA-GANVNSPDSHGWTPLHCAASCNDTVICMALVQHGAAIFAT 116

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA--GNTEVVEL 207
            L +                                   G +A         G  +    
Sbjct: 117 TLSD-----------------------------------GATAFEKCDPYREGYADCATY 141

Query: 208 LLKSGADPTVKDNSGHIPSDYAEDANIKQIL 238
           L        + ++               ++ 
Sbjct: 142 LADVEQSMGLMNSGAVYALWDYSAEFGDELS 172

>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor, cytoplasm, phosphorylation, P53 binding protein, ANK repeat, SH3 domain; 2.10A {Homo sapiens} Length = 229

 Score = 46.5 bits (111), Expect = 8e-06
 Identities = 16/142 (11%), Positives = 33/142 (23%), Gaps = 11/142 (7%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMR-HPLGWTPLHVAAI--NGKVDNVRVLLEAGANP 146
           L  AA           +++    +       G T          G  D    L +   + 
Sbjct: 91  LHCAASCNDTVICMALVQH-GAAIFATTLSDGATAFEKCDPYREGYADCATYLADVEQSM 149

Query: 147 NLGDLF-NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV 205
            L +          + +     E+  +  +    +          +   +  + G    V
Sbjct: 150 GLMNSGAVYALWDYSAE--FGDELSFREGESVTVLRRDGP---EETDWWWAALHGQEGYV 204

Query: 206 ELLLKSGADPTVKDNSGHIPSD 227
                 G  P VK     +   
Sbjct: 205 PRNYF-GLFPRVKPQRSKVKHH 225

>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor, cytoplasm, phosphorylation, P53 binding protein, ANK repeat, SH3 domain; 2.10A {Homo sapiens} Length = 229

 Score = 45.3 bits (108), Expect = 2e-05
 Identities = 12/90 (13%), Positives = 20/90 (22%), Gaps = 33/90 (36%)

Query: 136 VRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHY 195
           +R +L    +P                                              L  
Sbjct: 1   MRSVLRKAGSPRKAR---------------------------------RARLNPLVLLLD 27

Query: 196 GVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
             + G  EVV+  +K   DP+  +  G   
Sbjct: 28  AALTGELEVVQQAVKEMNDPSQPNEEGITA 57

>2pnn_A Transient receptor potential cation channel subfa member 1; TRPV1, ankyrin repeat domain, transport protein; HET: ATP; 2.70A {Rattus norvegicus} PDB: 2nyj_A* Length = 273

 Score = 77.1 bits (190), Expect = 7e-16
 Identities = 30/155 (19%), Positives = 52/155 (33%), Gaps = 35/155 (22%)

Query: 89  TLFRAARYGSAKELKTFIENSKL------DVNMRHP-LGWTPLHVAAIN---GKVDNVRV 138
           ++F A    + +EL++ +   +       D   + P  G T L  A +N   G+ D + +
Sbjct: 16  SIFDAVAQSNCQELESLLPFLQRSKKRLTDSEFKDPETGKTCLLKAMLNLHNGQNDTIAL 75

Query: 139 LLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVV 198
           LL+     +    F     T +  K                         G +ALH  + 
Sbjct: 76  LLDVARKTDSLKQFVNASYTDSYYK-------------------------GQTALHIAIE 110

Query: 199 AGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN 233
             N  +V LL+++GAD     N             
Sbjct: 111 RRNMTLVTLLVENGADVQAAANGDFFKKTKGRPGF 145

>2pnn_A Transient receptor potential cation channel subfa member 1; TRPV1, ankyrin repeat domain, transport protein; HET: ATP; 2.70A {Rattus norvegicus} PDB: 2nyj_A* Length = 273

 Score = 67.9 bits (166), Expect = 1e-12
 Identities = 21/117 (17%), Positives = 36/117 (30%), Gaps = 25/117 (21%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLL 171
                +  G T LH+A     +  V +L+E GA+                          
Sbjct: 93  SYTDSYYKGQTALHIAIERRNMTLVTLLVENGADVQAAA--------------------- 131

Query: 172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG---ADPTVKDNSGHIP 225
              D F         + G   L          +V+ LL++    AD + +D+ G+  
Sbjct: 132 -NGDFFKKTKGRPGFYFGELPLSLAACTNQLAIVKFLLQNSWQPADISARDSVGNTV 187

>2pnn_A Transient receptor potential cation channel subfa member 1; TRPV1, ankyrin repeat domain, transport protein; HET: ATP; 2.70A {Rattus norvegicus} PDB: 2nyj_A* Length = 273

 Score = 55.9 bits (135), Expect = 9e-09
 Identities = 19/127 (14%), Positives = 35/127 (27%), Gaps = 22/127 (17%)

Query: 90  LFRAARYGSAKELKTFIENSKL--DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN 147
           L  AA       +K  ++NS    D++ R  +G T LH                      
Sbjct: 152 LSLAACTNQLAIVKFLLQNSWQPADISARDSVGNTVLHALVEVADNTVDNTKFVT----- 206

Query: 148 LGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
              ++N +    A+         +                 G + L     +G   V+  
Sbjct: 207 --SMYNEILILGAKLHPTLKLEEITNRK-------------GLTPLALAASSGKIGVLAY 251

Query: 208 LLKSGAD 214
           +L+    
Sbjct: 252 ILQREIH 258

>2pnn_A Transient receptor potential cation channel subfa member 1; TRPV1, ankyrin repeat domain, transport protein; HET: ATP; 2.70A {Rattus norvegicus} PDB: 2nyj_A* Length = 273

 Score = 49.0 bits (117), Expect = 2e-06
 Identities = 24/150 (16%), Positives = 42/150 (28%), Gaps = 38/150 (25%)

Query: 90  LFRAARYGSAKELKTFIEN-------------SKLDVNMRHPLGWTPLHVAAINGKVDNV 136
           L  A    +   +   +EN              K         G  PL +AA   ++  V
Sbjct: 105 LHIAIERRNMTLVTLLVENGADVQAAANGDFFKKTKGRPGFYFGELPLSLAACTNQLAIV 164

Query: 137 RVLLEAG---ANPNLGDLF-NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSA 192
           + LL+     A+ +  D   NTV     E   N  +        +N++L           
Sbjct: 165 KFLLQNSWQPADISARDSVGNTVLHALVEVADNTVDNTKFVTSMYNEIL----------- 213

Query: 193 LHYGVVAGNTEVVELLLKSGADPTVKDNSG 222
                      +   L  +     + +  G
Sbjct: 214 ----------ILGAKLHPTLKLEEITNRKG 233

>2pnn_A Transient receptor potential cation channel subfa member 1; TRPV1, ankyrin repeat domain, transport protein; HET: ATP; 2.70A {Rattus norvegicus} PDB: 2nyj_A* Length = 273

 Score = 46.3 bits (110), Expect = 1e-05
 Identities = 14/60 (23%), Positives = 26/60 (43%)

Query: 86  KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGAN 145
            D T F  + Y     L   +  +     + +  G TPL +AA +GK+  +  +L+   +
Sbjct: 199 VDNTKFVTSMYNEILILGAKLHPTLKLEEITNRKGLTPLALAASSGKIGVLAYILQREIH 258

>1ihb_A P18-INK4C(INK6), cyclin-dependent kinase 6 inhibitor; cell cycle inhibitor, ankyrin repeat, CDK 4/6 inhibitor; 1.95A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bu9_A 1g3n_B 1mx4_A 1mx2_A 1mx6_A Length = 162

 Score = 74.0 bits (183), Expect = 1e-15
 Identities = 35/136 (25%), Positives = 56/136 (41%), Gaps = 38/136 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA  G  ++L + ++N  ++VN ++  G T L V    G  +  R LL  GANP+L 
Sbjct: 9   LASAAARGDLEQLTSLLQN-NVNVNAQNGFGRTALQVMK-LGNPEIARRLLLRGANPDLK 66

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      GF+ +H    AG  + ++ LL
Sbjct: 67  D---------------------------RT---------GFAVIHDAARAGFLDTLQTLL 90

Query: 210 KSGADPTVKDNSGHIP 225
           +  AD  ++DN G++P
Sbjct: 91  EFQADVNIEDNEGNLP 106

>1ihb_A P18-INK4C(INK6), cyclin-dependent kinase 6 inhibitor; cell cycle inhibitor, ankyrin repeat, CDK 4/6 inhibitor; 1.95A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bu9_A 1g3n_B 1mx4_A 1mx2_A 1mx6_A Length = 162

 Score = 70.9 bits (175), Expect = 1e-14
 Identities = 27/146 (18%), Positives = 52/146 (35%), Gaps = 38/146 (26%)

Query: 93  AARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF 152
             + G+ +  +  +     + +++   G+  +H AA  G +D ++ LLE  A+ N+ D  
Sbjct: 44  VMKLGNPEIARRLLLR-GANPDLKDRTGFAVIHDAARAGFLDTLQTLLEFQADVNIED-- 100

Query: 153 NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG 212
                                    N+         G   LH     G+  VVE L+K  
Sbjct: 101 -------------------------NE---------GNLPLHLAAKEGHLRVVEFLVKHT 126

Query: 213 A-DPTVKDNSGHIPSDYAEDANIKQI 237
           A +   +++ G    D A      ++
Sbjct: 127 ASNVGHRNHKGDTACDLARLYGRNEV 152

>1ihb_A P18-INK4C(INK6), cyclin-dependent kinase 6 inhibitor; cell cycle inhibitor, ankyrin repeat, CDK 4/6 inhibitor; 1.95A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bu9_A 1g3n_B 1mx4_A 1mx2_A 1mx6_A Length = 162

 Score = 67.0 bits (165), Expect = 2e-13
 Identities = 26/120 (21%), Positives = 37/120 (30%), Gaps = 37/120 (30%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
               L  AA  G ++ +  LL+   N N  +                             
Sbjct: 5   WGNELASAAARGDLEQLTSLLQNNVNVNAQN---------------------------GF 37

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
                    G +AL   +  GN E+   LL  GA+P +KD +G      A  A     LQ
Sbjct: 38  ---------GRTALQV-MKLGNPEIARRLLLRGANPDLKDRTGFAVIHDAARAGFLDTLQ 87

>1ihb_A P18-INK4C(INK6), cyclin-dependent kinase 6 inhibitor; cell cycle inhibitor, ankyrin repeat, CDK 4/6 inhibitor; 1.95A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bu9_A 1g3n_B 1mx4_A 1mx2_A 1mx6_A Length = 162

 Score = 50.1 bits (121), Expect = 2e-07
 Identities = 13/55 (23%), Positives = 29/55 (52%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGA 144
           L  AA+ G  + ++  ++++  +V  R+  G T   +A + G+ + V ++   GA
Sbjct: 107 LHLAAKEGHLRVVEFLVKHTASNVGHRNHKGDTACDLARLYGRNEVVSLMQANGA 161

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1 Length = 285

 Score = 76.0 bits (188), Expect = 2e-15
 Identities = 31/144 (21%), Positives = 52/144 (36%), Gaps = 39/144 (27%)

Query: 84  SIKDLT-LFRAARYGSAKELKTFIENSKLDVNMR-HPLGWTPLHVAAINGKVDNVRVLLE 141
           +++D   L +A +      ++  +E    +VN +    GWTPLH A    + D V +LL 
Sbjct: 2   AVEDNHLLIKAVQNEDVDLVQQLLEG-GANVNFQEEEGGWTPLHNAVQMSREDIVELLLR 60

Query: 142 AGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGN 201
            GA+P L                              +         G +      +AG+
Sbjct: 61  HGADPVLRK---------------------------KN---------GATPFLLAAIAGS 84

Query: 202 TEVVELLLKSGADPTVKDNSGHIP 225
            ++++L L  GAD    D  G   
Sbjct: 85  VKLLKLFLSKGADVNECDFYGFTA 108

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1 Length = 285

 Score = 75.6 bits (187), Expect = 3e-15
 Identities = 26/142 (18%), Positives = 46/142 (32%), Gaps = 37/142 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A +      ++  + +   D  +R   G TP  +AAI G V  +++ L  GA+ N  
Sbjct: 43  LHNAVQMSREDIVELLLRH-GADPVLRKKNGATPFLLAAIAGSVKLLKLFLSKGADVNEC 101

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      GF+A     V G  + ++ L 
Sbjct: 102 D---------------------------FY---------GFTAFMEAAVYGKVKALKFLY 125

Query: 210 KSGADPTVKDNSGHIPSDYAED 231
           K GA+  ++  +        + 
Sbjct: 126 KRGANVNLRRKTKEDQERLRKG 147

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1 Length = 285

 Score = 72.1 bits (178), Expect = 4e-14
 Identities = 28/153 (18%), Positives = 49/153 (32%), Gaps = 41/153 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDN----VRVLLEAGAN 145
           L  AA  G  + LK  ++    DVN    +G   L  A ++    +      +LL+ GA+
Sbjct: 152 LMDAAEKGHVEVLKILLDEMGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGAD 211

Query: 146 PNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV 205
            N+                                        G + L   V   +  +V
Sbjct: 212 VNVRG---------------------------ER---------GKTPLILAVEKKHLGLV 235

Query: 206 ELLL-KSGADPTVKDNSGHIPSDYAEDANIKQI 237
           + LL +   +    D+ G      A +  +K+I
Sbjct: 236 QRLLEQEHIEINDTDSDGKTALLLAVELKLKKI 268

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1 Length = 285

 Score = 69.4 bits (171), Expect = 3e-13
 Identities = 29/135 (21%), Positives = 41/135 (30%), Gaps = 40/135 (29%)

Query: 90  LFRAARYGSAKELKTFIE---NSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLE-AGAN 145
           L  A       +++       +   DVN+R   G TPL +A     +  V+ LLE     
Sbjct: 186 LIHALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEKKHLGLVQRLLEQEHIE 245

Query: 146 PNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV 205
            N  D                           +D         G +AL   V     ++ 
Sbjct: 246 INDTD---------------------------SD---------GKTALLLAVELKLKKIA 269

Query: 206 ELLLKSGADPTVKDN 220
           ELL K GA     D 
Sbjct: 270 ELLCKRGASTDCGDL 284

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1 Length = 285

 Score = 66.7 bits (164), Expect = 3e-12
 Identities = 36/150 (24%), Positives = 51/150 (34%), Gaps = 50/150 (33%)

Query: 90  LFRAARYGSAKELKTFIE---------NSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLL 140
              AA YG  K LK   +          +K D       G T L  AA  G V+ +++LL
Sbjct: 109 FMEAAVYGKVKALKFLYKRGANVNLRRKTKEDQERLRKGGATALMDAAEKGHVEVLKILL 168

Query: 141 -EAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA 199
            E GA+ N  D                           N          G +AL + +++
Sbjct: 169 DEMGADVNACD---------------------------NM---------GRNALIHALLS 192

Query: 200 GNT----EVVELLLKSGADPTVKDNSGHIP 225
            +      +  LLL  GAD  V+   G  P
Sbjct: 193 SDDSDVEAITHLLLDHGADVNVRGERGKTP 222

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis} Length = 201

 Score = 74.0 bits (183), Expect = 2e-15
 Identities = 36/154 (23%), Positives = 61/154 (39%), Gaps = 42/154 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG-ANPNL 148
              A   G  + L   ++++  D+N  +  G   L  AA  G +DNV++LLE G  + + 
Sbjct: 76  YLYAGAQGRTEILAYMLKHATPDLNKHNRYGGNALIPAAEKGHIDNVKLLLEDGREDIDF 135

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA-----GNTE 203
            +                           +          G++AL   V          +
Sbjct: 136 QN---------------------------DF---------GYTALIEAVGLREGNQLYQD 159

Query: 204 VVELLLKSGADPTVKDNSGHIPSDYAEDANIKQI 237
           +V+LL+++GAD ++KDNSG    DYA      +I
Sbjct: 160 IVKLLMENGADQSIKDNSGRTAMDYANQKGYTEI 193

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis} Length = 201

 Score = 73.3 bits (181), Expect = 4e-15
 Identities = 25/137 (18%), Positives = 48/137 (35%), Gaps = 38/137 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A +  + K++K  ++++   V+     G TPL++A  N  ++  + L++ GA+ NL 
Sbjct: 10  LEAANQRDT-KKVKEILQDTTYQVDEVDTEGNTPLNIAVHNNDIEIAKALIDRGADINLQ 68

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           +                           +            S   Y    G TE++  +L
Sbjct: 69  N---------------------------SI---------SDSPYLYAGAQGRTEILAYML 92

Query: 210 KSGA-DPTVKDNSGHIP 225
           K    D    +  G   
Sbjct: 93  KHATPDLNKHNRYGGNA 109

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis} Length = 201

 Score = 63.6 bits (156), Expect = 8e-12
 Identities = 13/106 (12%), Positives = 27/106 (25%), Gaps = 36/106 (33%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
               L  A          +L +     +  D                            +
Sbjct: 6   VGALLEAANQRDTKKVKEILQDTTYQVDEVD---------------------------TE 38

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                    G + L+  V   + E+ + L+  GAD  ++++    P
Sbjct: 39  ---------GNTPLNIAVHNNDIEIAKALIDRGADINLQNSISDSP 75

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis} Length = 201

 Score = 62.1 bits (152), Expect = 3e-11
 Identities = 25/126 (19%), Positives = 48/126 (38%), Gaps = 41/126 (32%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDN-----VRVLLEAGA 144
           L  AA  G    +K  +E+ + D++ ++  G+T L  A    + +      V++L+E GA
Sbjct: 110 LIPAAEKGHIDNVKLLLEDGREDIDFQNDFGYTALIEAVGLREGNQLYQDIVKLLMENGA 169

Query: 145 NPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEV 204
           + ++ D                           N          G +A+ Y    G TE+
Sbjct: 170 DQSIKD---------------------------NS---------GRTAMDYANQKGYTEI 193

Query: 205 VELLLK 210
            ++L +
Sbjct: 194 SKILAQ 199

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis} Length = 201

 Score = 59.4 bits (145), Expect = 2e-10
 Identities = 22/138 (15%), Positives = 46/138 (33%), Gaps = 39/138 (28%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGA-NPNL 148
           L  A      +  K  I+    D+N+++ +  +P   A   G+ + +  +L+    + N 
Sbjct: 43  LNIAVHNNDIEIAKALIDR-GADINLQNSISDSPYLYAGAQGRTEILAYMLKHATPDLNK 101

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
            +                                      G +AL      G+ + V+LL
Sbjct: 102 HN---------------------------RY---------GGNALIPAAEKGHIDNVKLL 125

Query: 209 LKSG-ADPTVKDNSGHIP 225
           L+ G  D   +++ G+  
Sbjct: 126 LEDGREDIDFQNDFGYTA 143

>1n0q_A 3ANK, 3 ankyrin repeats; structural protein; 1.26A {} SCOP: k.37.1.1 Length = 93

 Score = 70.5 bits (174), Expect = 2e-15
 Identities = 35/106 (33%), Positives = 48/106 (45%), Gaps = 36/106 (33%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G TPLH+AA NG ++ V++LLEAGA+ N  D                            +
Sbjct: 2   GRTPLHLAARNGHLEVVKLLLEAGADVNAKD---------------------------KN 34

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                    G + LH     G+ EVV+LLL++GAD   KD +G  P
Sbjct: 35  ---------GRTPLHLAARNGHLEVVKLLLEAGADVNAKDKNGRTP 71

>1n0q_A 3ANK, 3 ankyrin repeats; structural protein; 1.26A {} SCOP: k.37.1.1 Length = 93

 Score = 65.5 bits (161), Expect = 2e-13
 Identities = 40/124 (32%), Positives = 56/124 (45%), Gaps = 37/124 (29%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AAR G  + +K  +E    DVN +   G TPLH+AA NG ++ V++LLEAGA+ N  
Sbjct: 6   LHLAARNGHLEVVKLLLEAGA-DVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGADVNAK 64

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                            +         G + LH     G+ EVV+LLL
Sbjct: 65  D---------------------------KN---------GRTPLHLAARNGHLEVVKLLL 88

Query: 210 KSGA 213
           ++GA
Sbjct: 89  EAGA 92

>2rfm_A Putative ankyrin repeat protein TV1425; ANK repeat, protein binding; HET: BU2 GOL; 1.65A {Thermoplasma volcanium} Length = 192

 Score = 73.2 bits (181), Expect = 3e-15
 Identities = 26/136 (19%), Positives = 43/136 (31%), Gaps = 37/136 (27%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A   G    +   +EN    +  +   G T L  A  N ++     LL  G+N N  
Sbjct: 39  LMVACMLGMENAIDKLVEN-FDKLEDKDIEGSTALIWAVKNNRLGIAEKLLSKGSNVNTK 97

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      G + L + ++ G +E+   LL
Sbjct: 98  D---------------------------FS---------GKTPLMWSIIFGYSEMSYFLL 121

Query: 210 KSGADPTVKDNSGHIP 225
           + GA+   ++  G  P
Sbjct: 122 EHGANVNDRNLEGETP 137

>2rfm_A Putative ankyrin repeat protein TV1425; ANK repeat, protein binding; HET: BU2 GOL; 1.65A {Thermoplasma volcanium} Length = 192

 Score = 73.2 bits (181), Expect = 3e-15
 Identities = 30/148 (20%), Positives = 50/148 (33%), Gaps = 37/148 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A +       +  +     +VN +   G TPL  + I G  +    LLE GAN N  
Sbjct: 72  LIWAVKNNRLGIAEKLLSK-GSNVNTKDFSGKTPLMWSIIFGYSEMSYFLLEHGANVNDR 130

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           +                            +         G + L      G +E+V+ LL
Sbjct: 131 N---------------------------LE---------GETPLIVASKYGRSEIVKKLL 154

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQI 237
           + GAD + +D +G      A     +++
Sbjct: 155 ELGADISARDLTGLTAEASARIFGRQEV 182

>2rfm_A Putative ankyrin repeat protein TV1425; ANK repeat, protein binding; HET: BU2 GOL; 1.65A {Thermoplasma volcanium} Length = 192

 Score = 70.5 bits (174), Expect = 3e-14
 Identities = 25/148 (16%), Positives = 40/148 (27%), Gaps = 43/148 (29%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
                            +N     N R     TPL VA + G  + +  L+E        
Sbjct: 12  EKIKDEKSI-------NQNLDFLRNYRDSYNRTPLMVACMLGMENAIDKLVENFDKLEDK 64

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                            +         G +AL + V      + E LL
Sbjct: 65  D---------------------------IE---------GSTALIWAVKNNRLGIAEKLL 88

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQI 237
             G++   KD SG  P  ++      ++
Sbjct: 89  SKGSNVNTKDFSGKTPLMWSIIFGYSEM 116

>2rfm_A Putative ankyrin repeat protein TV1425; ANK repeat, protein binding; HET: BU2 GOL; 1.65A {Thermoplasma volcanium} Length = 192

 Score = 56.2 bits (137), Expect = 2e-09
 Identities = 25/120 (20%), Positives = 44/120 (36%), Gaps = 37/120 (30%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  +  +G ++     +E+   +VN R+  G TPL VA+  G+ + V+ LLE GA+ +  
Sbjct: 105 LMWSIIFGYSEMSYFLLEH-GANVNDRNLEGETPLIVASKYGRSEIVKKLLELGADISAR 163

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      G +A     + G  EV+++  
Sbjct: 164 D---------------------------LT---------GLTAEASARIFGRQEVIKIFT 187

>2rfm_A Putative ankyrin repeat protein TV1425; ANK repeat, protein binding; HET: BU2 GOL; 1.65A {Thermoplasma volcanium} Length = 192

 Score = 44.3 bits (106), Expect = 3e-05
 Identities = 13/118 (11%), Positives = 24/118 (20%), Gaps = 42/118 (35%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
           G     +        N+  L                                   D +  
Sbjct: 8   GEIVEKIKDEKSINQNLDFLRNYR-------------------------------DSY-- 34

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQI 237
                      + L    + G    ++ L+++      KD  G     +A   N   I
Sbjct: 35  ---------NRTPLMVACMLGMENAIDKLVENFDKLEDKDIEGSTALIWAVKNNRLGI 83

>2etb_A Transient receptor potential cation channel subfamily V member 2; TRPV2, ankyrin repeat domain, transport protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A Length = 256

 Score = 74.4 bits (183), Expect = 5e-15
 Identities = 26/155 (16%), Positives = 42/155 (27%), Gaps = 35/155 (22%)

Query: 89  TLFRAARYGSAKELKTFIE-------NSKLDVNMRHPLGWTPLHVAAIN---GKVDNVRV 138
            LF     G  +EL   +E                   G T L  A +N   G    +  
Sbjct: 5   RLFSVVSRGVPEELTGLLEYLRWNSKYLTDSAYTEGSTGKTCLMKAVLNLQDGVNACIMP 64

Query: 139 LLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVV 198
           LL+   +            T    +                         G SALH  + 
Sbjct: 65  LLQIDKDSGNPKPLVNAQCTDEFYQ-------------------------GHSALHIAIE 99

Query: 199 AGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN 233
             + + V+LL+++GAD  ++               
Sbjct: 100 KRSLQCVKLLVENGADVHLRACGRFFQKHQGTCFY 134

>2etb_A Transient receptor potential cation channel subfamily V member 2; TRPV2, ankyrin repeat domain, transport protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A Length = 256

 Score = 66.4 bits (162), Expect = 2e-12
 Identities = 20/117 (17%), Positives = 34/117 (29%), Gaps = 26/117 (22%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLL 171
                   G + LH+A     +  V++L+E GA+ +L                       
Sbjct: 82  QCTDEFYQGHSALHIAIEKRSLQCVKLLVENGADVHLRA--------------------- 120

Query: 172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG---ADPTVKDNSGHIP 225
                F         + G   L         +VV  LL++    A     D+ G+  
Sbjct: 121 --CGRFFQKHQGTCFYFGELPLSLAACTKQWDVVTYLLENPHQPASLEATDSLGNTV 175

>2etb_A Transient receptor potential cation channel subfamily V member 2; TRPV2, ankyrin repeat domain, transport protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A Length = 256

 Score = 64.4 bits (157), Expect = 1e-11
 Identities = 28/157 (17%), Positives = 47/157 (29%), Gaps = 31/157 (19%)

Query: 95  RYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG---ANPNLGDL 151
             G+   L+      +         G  PL +AA   + D V  LLE     A+    D 
Sbjct: 111 ENGADVHLRACGRFFQKHQGTCFYFGELPLSLAACTKQWDVVTYLLENPHQPASLEATDS 170

Query: 152 F-NTV-HRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
             NTV H        +P                        SAL   +  G  ++   L 
Sbjct: 171 LGNTVLHALVMIADNSP----------------------ENSALVIHMYDGLLQMGARLC 208

Query: 210 KSGADPTVKDNSG----HIPSDYAEDANIKQILQKYA 242
            +     + ++ G     + +   +    + ILQ+  
Sbjct: 209 PTVQLEEISNHQGLTPLKLAAKEGKIEIFRHILQREF 245

>2etb_A Transient receptor potential cation channel subfamily V member 2; TRPV2, ankyrin repeat domain, transport protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A Length = 256

 Score = 53.3 bits (128), Expect = 6e-08
 Identities = 18/152 (11%), Positives = 32/152 (21%), Gaps = 54/152 (35%)

Query: 90  LFRAARYGSAKELKTFIENSKL--DVNMRHPLGWTPLH----------------VAAING 131
           L  AA       +   +EN      +     LG T LH                +   +G
Sbjct: 140 LSLAACTKQWDVVTYLLENPHQPASLEATDSLGNTVLHALVMIADNSPENSALVIHMYDG 199

Query: 132 KVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFS 191
            +     L        + +                           +          G +
Sbjct: 200 LLQMGARLCPTVQLEEISN---------------------------HQ---------GLT 223

Query: 192 ALHYGVVAGNTEVVELLLKSGADPTVKDNSGH 223
            L      G  E+   +L+         +  H
Sbjct: 224 PLKLAAKEGKIEIFRHILQREFSGAAAHHHHH 255

>2etb_A Transient receptor potential cation channel subfamily V member 2; TRPV2, ankyrin repeat domain, transport protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A Length = 256

 Score = 49.8 bits (119), Expect = 8e-07
 Identities = 15/72 (20%), Positives = 29/72 (40%), Gaps = 1/72 (1%)

Query: 76  ALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDN 135
           AL ++   S ++  L      G  +         +    + +  G TPL +AA  GK++ 
Sbjct: 178 ALVMIADNSPENSALVIHMYDGLLQMGARLCPTVQ-LEEISNHQGLTPLKLAAKEGKIEI 236

Query: 136 VRVLLEAGANPN 147
            R +L+   +  
Sbjct: 237 FRHILQREFSGA 248

>3jxi_A Vanilloid receptor-related osmotically activated protein; ankyrin repeats, ANK repeat, ION transport, ionic channel, R transmembrane, transport; 2.30A {Gallus gallus} PDB: 3jxj_A Length = 260

 Score = 73.7 bits (181), Expect = 8e-15
 Identities = 27/147 (18%), Positives = 43/147 (29%), Gaps = 41/147 (27%)

Query: 89  TLFRAARYGSAKELKTFIE---NSKLDVNM----RHPLGWTPLHVAAIN---GKVDNVRV 138
            LF     GS   L+  +      K  +          G T L  A +N   G+ D + +
Sbjct: 8   ILFDIVSRGSPDGLEGLLSFLLTHKKRLTDEEFREPSTGKTCLPKALLNLSAGRNDTIPI 67

Query: 139 LLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMT---FLGFSALHY 195
           LL+                                     + +N       + G +ALH 
Sbjct: 68  LLDIAEKT----------------------------GNMREFINSPFRDVYYRGQTALHI 99

Query: 196 GVVAGNTEVVELLLKSGADPTVKDNSG 222
            +       VELL++ GAD   +    
Sbjct: 100 AIERRCKHYVELLVEKGADVHAQARGR 126

>3jxi_A Vanilloid receptor-related osmotically activated protein; ankyrin repeats, ANK repeat, ION transport, ionic channel, R transmembrane, transport; 2.30A {Gallus gallus} PDB: 3jxj_A Length = 260

 Score = 67.5 bits (165), Expect = 1e-12
 Identities = 23/130 (17%), Positives = 38/130 (29%), Gaps = 25/130 (19%)

Query: 99  AKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRT 158
           A++     E         +  G T LH+A        V +L+E GA+ +           
Sbjct: 72  AEKTGNMREFINSPFRDVYYRGQTALHIAIERRCKHYVELLVEKGADVH----------- 120

Query: 159 AAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG---ADP 215
              +    F         F           G   L          +V  L ++G   AD 
Sbjct: 121 --AQARGRFFQPKDEGGYFYF---------GELPLSLAACTNQPHIVHYLTENGHKQADL 169

Query: 216 TVKDNSGHIP 225
             +D+ G+  
Sbjct: 170 RRQDSRGNTV 179

>3jxi_A Vanilloid receptor-related osmotically activated protein; ankyrin repeats, ANK repeat, ION transport, ionic channel, R transmembrane, transport; 2.30A {Gallus gallus} PDB: 3jxj_A Length = 260

 Score = 65.6 bits (160), Expect = 5e-12
 Identities = 28/163 (17%), Positives = 46/163 (28%), Gaps = 29/163 (17%)

Query: 90  LFRAARYGSAKELKTFIEN-------------SKLDVNMRHPLGWTPLHVAAINGKVDNV 136
           L  A        ++  +E                 D       G  PL +AA   +   V
Sbjct: 97  LHIAIERRCKHYVELLVEKGADVHAQARGRFFQPKDEGGYFYFGELPLSLAACTNQPHIV 156

Query: 137 RVLLEAG---ANPNLGDLF-NTV-HRTAA---------EKKMNPFEVLLKREDEFNDVLN 182
             L E G   A+    D   NTV H   A         +     +++LL +  +     N
Sbjct: 157 HYLTENGHKQADLRRQDSRGNTVLHALVAIADNTRENTKFVTKMYDLLLIKCAKLFPDTN 216

Query: 183 PNMTF--LGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGH 223
                   G S L      G   + + +++         +  H
Sbjct: 217 LEALLNNDGLSPLMMAAKTGKIGIFQHIIRREIADAAAHHHHH 259

>1sw6_A Regulatory protein SWI6; transcription regulation, ankyrin repeats, cell-cycle; 2.10A {Saccharomyces cerevisiae} SCOP: d.211.1.1 Length = 327

 Score = 74.3 bits (182), Expect = 1e-14
 Identities = 27/157 (17%), Positives = 55/157 (35%), Gaps = 18/157 (11%)

Query: 90  LFRAARYGSAKELKTF---IENSKLDVNMRHPLGWTPLHVAAINGKVDN----------- 135
           L +A +  +  +  TF   ++     + +   +  T LH   I   +             
Sbjct: 168 LVKAVKSVNNYDSGTFEALLDYLYPCLILEDSMNRTILHHIIITSGMTGCSAAAKYYLDI 227

Query: 136 -VRVLLEAGANPNLGDLF--NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSA 192
            +  +++    P         +       ++ +     L  +    ++LN      G + 
Sbjct: 228 LMGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIANMLN-AQDSNGDTC 286

Query: 193 LHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYA 229
           L+     GN  +V+ LL  GADP + + SG  P D+ 
Sbjct: 287 LNIAARLGNISIVDALLDYGADPFIANKSGLRPVDFG 323

>1sw6_A Regulatory protein SWI6; transcription regulation, ankyrin repeats, cell-cycle; 2.10A {Saccharomyces cerevisiae} SCOP: d.211.1.1 Length = 327

 Score = 67.7 bits (165), Expect = 2e-12
 Identities = 26/169 (15%), Positives = 56/169 (33%), Gaps = 24/169 (14%)

Query: 100 KELKTFIENSKLDVNMRH-PLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD------LF 152
           +E+     N++L++N+     G TPLH       ++ V+ L++ G+N   GD      L 
Sbjct: 110 QEVNDAFPNTQLNLNIPVDEHGNTPLHWLTSIANLELVKHLVKHGSNRLYGDNMGESCLV 169

Query: 153 NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTE--------- 203
             V           FE LL        + +        + LH+ ++              
Sbjct: 170 KAVKSVNNYDSGT-FEALLDYLYPCLILEDSM----NRTILHHIIITSGMTGCSAAAKYY 224

Query: 204 ---VVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQ 249
              ++  ++K    P     +        ++   K  + +  +    + 
Sbjct: 225 LDILMGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIA 273

>3t8k_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center F or structural genomics, MCSG; 1.77A {Leptotrichia buccalis} Length = 186

 Score = 68.5 bits (168), Expect = 1e-13
 Identities = 19/145 (13%), Positives = 38/145 (26%), Gaps = 44/145 (30%)

Query: 89  TLFRAARYGSAKELKTFIEN--SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP 146
           T+  AA  G+ ++     E      +  ++  + +  L       +      L+  GA+ 
Sbjct: 9   TVSAAAMLGTYEDFLELFEKGYEDKESVLKSNILYDVLRNNNDEARYKISMFLINKGADI 68

Query: 147 NLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGV------VAG 200
                                           +         G +            + G
Sbjct: 69  KSRT---------------------------KE---------GTTLFFPLFQGGGNDITG 92

Query: 201 NTEVVELLLKSGADPTVKDNSGHIP 225
            TE+ ++ L+ GAD T       I 
Sbjct: 93  TTELCKIFLEKGADITALYKPYKIV 117

>3t8k_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center F or structural genomics, MCSG; 1.77A {Leptotrichia buccalis} Length = 186

 Score = 67.4 bits (165), Expect = 4e-13
 Identities = 16/145 (11%), Positives = 36/145 (24%), Gaps = 50/145 (34%)

Query: 90  LFRAARYGSAKELKTFIENSKL------DVNMRHPLGWTPLHVAAINGKVDNVR------ 137
            F   + G   ++    E  K+      D+   +      +     N  VD         
Sbjct: 79  FFPLFQGGG-NDITGTTELCKIFLEKGADITALYKPYKIVVFKNIFNYFVDENEMIPLYK 137

Query: 138 -VLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYG 196
            +  ++G    + D +                                    G +AL + 
Sbjct: 138 LIFSQSGLQLLIKDKW------------------------------------GLTALEFV 161

Query: 197 VVAGNTEVVELLLKSGADPTVKDNS 221
                   ++++        +K+NS
Sbjct: 162 KRCQKPIALKMMEDYIKKYNLKENS 186

>3t8k_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center F or structural genomics, MCSG; 1.77A {Leptotrichia buccalis} Length = 186

 Score = 61.6 bits (150), Expect = 3e-11
 Identities = 13/106 (12%), Positives = 25/106 (23%), Gaps = 33/106 (31%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
            +  +  AA+ G  ++   L E G       L +                          
Sbjct: 6   EYRTVSAAAMLGTYEDFLELFEKGYEDKESVLKSN------------------------- 40

Query: 180 VLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP 225
                   + +  L         ++   L+  GAD   +   G   
Sbjct: 41  --------ILYDVLRNNNDEARYKISMFLINKGADIKSRTKEGTTL 78

>2fo1_E LIN-12 protein; beta-barrel, protein-DNA complex, double helix, ankyrin repeat, gene regulation/signalling protein/DNA complex; 3.12A {Caenorhabditis elegans} SCOP: d.211.1.1 Length = 373

 Score = 71.1 bits (175), Expect = 2e-13
 Identities = 31/163 (19%), Positives = 47/163 (28%), Gaps = 55/163 (33%)

Query: 90  LFRAARYGSAKELKTFIENSKL------DVNMRHPL--------GWTPLHVAAINGKVDN 135
           L   A        +  + ++KL       V+             G T LH AA    +  
Sbjct: 239 LMIVAHNEG----RDQVASAKLLVEKGAKVDYDGAARKDSEKYKGRTALHYAAQVSNMPI 294

Query: 136 VRVLL-EAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALH 194
           V+ L+ E G+N +  D                            D         G + + 
Sbjct: 295 VKYLVGEKGSNKDKQD---------------------------ED---------GKTPIM 318

Query: 195 YGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQI 237
                G  EVV  L++ GA     D + H     A+  N   I
Sbjct: 319 LAAQEGRIEVVMYLIQQGASVEAVDATDHTARQLAQANNHHNI 361

>2fo1_E LIN-12 protein; beta-barrel, protein-DNA complex, double helix, ankyrin repeat, gene regulation/signalling protein/DNA complex; 3.12A {Caenorhabditis elegans} SCOP: d.211.1.1 Length = 373

 Score = 69.6 bits (171), Expect = 6e-13
 Identities = 30/142 (21%), Positives = 48/142 (33%), Gaps = 34/142 (23%)

Query: 90  LFRAARYGSAKELKTFIENSKL--DVNMRHPLGWTPLHVAAINGKVDNVRV---LLEAGA 144
           L +AA       +   + ++KL  D+      G T L + A N   D V     L+E GA
Sbjct: 203 LHQAAANRDFGMMVYMLNSTKLKGDIEELDRNGMTALMIVAHNEGRDQVASAKLLVEKGA 262

Query: 145 NPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEV 204
             +              +K                         G +ALHY     N  +
Sbjct: 263 KVDYDGAARK-----DSEKYK-----------------------GRTALHYAAQVSNMPI 294

Query: 205 VELLL-KSGADPTVKDNSGHIP 225
           V+ L+ + G++   +D  G  P
Sbjct: 295 VKYLVGEKGSNKDKQDEDGKTP 316

>2fo1_E LIN-12 protein; beta-barrel, protein-DNA complex, double helix, ankyrin repeat, gene regulation/signalling protein/DNA complex; 3.12A {Caenorhabditis elegans} SCOP: d.211.1.1 Length = 373

 Score = 68.4 bits (168), Expect = 1e-12
 Identities = 27/146 (18%), Positives = 44/146 (30%), Gaps = 46/146 (31%)

Query: 90  LFRAARYGSAKELKTFIENSKL-------DVNMRHPLGWTPLHVAAINGKVDNVRVLLEA 142
           L   A   SA++ +  I +          DVN       TPL +A +  +   V  L++A
Sbjct: 129 LHWIASNSSAEKSEDLIVHEAKECIAAGADVNAMDCDENTPLMLAVLARRRRLVAYLMKA 188

Query: 143 GANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNT 202
           GA+P + +                                        SALH      + 
Sbjct: 189 GADPTIYN---------------------------KS---------ERSALHQAAANRDF 212

Query: 203 EVVELLL---KSGADPTVKDNSGHIP 225
            ++  +L   K   D    D +G   
Sbjct: 213 GMMVYMLNSTKLKGDIEELDRNGMTA 238

>2fo1_E LIN-12 protein; beta-barrel, protein-DNA complex, double helix, ankyrin repeat, gene regulation/signalling protein/DNA complex; 3.12A {Caenorhabditis elegans} SCOP: d.211.1.1 Length = 373

 Score = 68.1 bits (167), Expect = 2e-12
 Identities = 17/125 (13%), Positives = 39/125 (31%), Gaps = 36/125 (28%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA+  +   +K  +     + + +   G TP+ +AA  G+++ V  L++ GA+    
Sbjct: 283 LHYAAQVSNMPIVKYLVGEKGSNKDKQDEDGKTPIMLAAQEGRIEVVMYLIQQGASVEAV 342

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                        +A        +  +V++  
Sbjct: 343 D---------------------------AT---------DHTARQLAQANNHHNIVDIFD 366

Query: 210 KSGAD 214
           +   +
Sbjct: 367 RCRPE 371

>2fo1_E LIN-12 protein; beta-barrel, protein-DNA complex, double helix, ankyrin repeat, gene regulation/signalling protein/DNA complex; 3.12A {Caenorhabditis elegans} SCOP: d.211.1.1 Length = 373

 Score = 63.4 bits (155), Expect = 6e-11
 Identities = 22/145 (15%), Positives = 36/145 (24%), Gaps = 25/145 (17%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A+  G  K  +  +++              P      NG              P   
Sbjct: 41  LLEASYDGYIKRQRNELQHY----------SLYPNPQGYGNGNDFLGDFNHTNLQIPTEP 90

Query: 150 DLF-NTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
           +        T A       E + +      D  +        + LH+     + E  E L
Sbjct: 91  EPESPIKLHTEAAGSYAITEPITRESVNIIDPRH------NRTVLHWIASNSSAEKSEDL 144

Query: 209 LKS--------GADPTVKDNSGHIP 225
           +          GAD    D   + P
Sbjct: 145 IVHEAKECIAAGADVNAMDCDENTP 169

>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 = 71.0 bits (173), Expect = 6e-13
 Identities = 74/552 (13%), Positives = 151/552 (27%), Gaps = 171/552 (30%)

Query: 95  RYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNT 154
           +Y     L  F +    + + +                 D  + +L   +   +  +  +
Sbjct: 15  QYQYKDILSVFEDAFVDNFDCKDVQ--------------DMPKSIL---SKEEIDHIIMS 57

Query: 155 VHRTAAEKKMNPFEVLLKREDE-----FNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
               +   ++  F  LL +++E       +VL  N  FL  S +          ++  + 
Sbjct: 58  KDAVSGTLRL--FWTLLSKQEEMVQKFVEEVLRINYKFL-MSPIKT--EQRQPSMMTRMY 112

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDR 269
               D    DN               Q+  KY     ++ R +   + R+  LE R    
Sbjct: 113 IEQRDRLYNDN---------------QVFAKY-----NVSRLQPYLKLRQALLELR---- 148

Query: 270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKK--E 327
                                        V +  G  G GKT +A  +        K   
Sbjct: 149 -------------------------PAKNVLID-GVLGSGKTWVALDVC----LSYKVQC 178

Query: 328 AFIR----LDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEV---- 379
                   L++        V +++      L +      T R     N  +    +    
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQK----LLYQIDPNWTSRSDHSSNIKLRIHSIQAEL 234

Query: 380 -----DKAHPDVLTVL--------LQLFDEGRLTDGKGKTIECKDAIFVMTSN------L 420
                 K + + L VL           F+           + CK  I + T        L
Sbjct: 235 RRLLKSKPYENCLLVLLNVQNAKAWNAFN-----------LSCK--ILLTTRFKQVTDFL 281

Query: 421 ASNEIAQHALQLRKEG---EE----FSK----RTPSISKS--QGSNLDVT-ISRHFKDHV 466
           ++      +L         +E      K    R   + +     +   ++ I+   +D +
Sbjct: 282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGL 341

Query: 467 VQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKH-NI-----N 520
                 +H   D+ L  I E       S + L     R++ F          +I     +
Sbjct: 342 ATWDNWKHVNCDK-LTTIIES------SLNVLEPAEYRKM-FDRLSVFPPSAHIPTILLS 393

Query: 521 IVW----DIDVETILA----------DGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIG 566
           ++W      DV  ++              +      SI +   +  +    A H +S++ 
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI-YLELKVKLENEYALH-RSIVD 451

Query: 567 KGSFVRLYVQWS 578
             +  + +    
Sbjct: 452 HYNIPKTFDSDD 463

>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 = 62.9 bits (152), Expect = 2e-10
 Identities = 77/549 (14%), Positives = 146/549 (26%), Gaps = 160/549 (29%)

Query: 6   VQRRQLVLCILSNYFKQKPYKR-------GFQSSKL------FYTTQSTQAD------FK 46
           V R Q  L +     + +P K        G   + +       Y  Q            K
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK 190

Query: 47  SCLSVFPKIRQSNNTCMYNNLLFASACSLALTL-LECQSIKD--LTLFRAARYGSAKELK 103
           +C S    +          +  + S    +  + L   SI+     L ++  Y       
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY------- 243

Query: 104 TFIENSKL---DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAA 160
              EN  L   +V              A N      ++LL       + D  +    T  
Sbjct: 244 ---ENCLLVLLNV-------QNAKAWNAFNLSC---KILLTT-RFKQVTDFLSAATTT-- 287

Query: 161 EKKMNPFEVLLKREDE----FNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPT 216
              ++   + L   DE        L+          L   V+  N   + ++       +
Sbjct: 288 HISLDHHSMTLT-PDEVKSLLLKYLD-----CRPQDLPREVLTTNPRRLSII---AE--S 336

Query: 217 VKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESA 276
           ++D       D  +  N  ++          L   + AE R+ +          V   SA
Sbjct: 337 IRDGLATW--DNWKHVNCDKLTTIIESSLNVL---EPAEYRKMF------DRLSVFPPSA 385

Query: 277 INIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSE 336
            +I +  +      W D     V + +        +L K     + +  KE+ I +    
Sbjct: 386 -HIPTILLSLI---WFDVIKSDVMVVV-------NKLHKYSL--VEKQPKESTISI---- 428

Query: 337 YQEKHEVAKLIGAPPGYLGHDDGGQLTKRLK-KCPNAVVLFDEVDKAHPDVLTVLLQLFD 395
                                    +   LK K  N   L       H      ++  ++
Sbjct: 429 -------------------PS----IYLELKVKLENEYAL-------H----RSIVDHYN 454

Query: 396 EGRLTDGKGKTIECKDA-IFVMTSNLASNEIAQHALQLRKEGE--EFSK----------- 441
             +  D         D   +        + I  H   +        F             
Sbjct: 455 IPKTFDSDDLIPPYLDQYFY--------SHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK 506

Query: 442 --RTPSISKSQGSNLDVTIS-RHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSEL 498
                +   + GS L+     + +K +    I     + +     +N I+ FLP  K E 
Sbjct: 507 IRHDSTAWNASGSILNTLQQLKFYKPY----ICDNDPKYER---LVNAILDFLP--KIEE 557

Query: 499 HTLVCRELN 507
           + +  +  +
Sbjct: 558 NLICSKYTD 566

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 56.0 bits (134), Expect = 3e-08
 Identities = 58/367 (15%), Positives = 113/367 (30%), Gaps = 96/367 (26%)

Query: 223 HIPSDYAE-DANIKQILQKYAEKY-ADLQREKEAEERRKYPLEQRLKDRIVGQESAIN-- 278
           H+  +  E     K IL  + + +  +    K+ ++  K  L +   D I+  + A++  
Sbjct: 6   HMDFETGEHQYQYKDILSVFEDAFVDNFDC-KDVQDMPKSILSKEEIDHIIMSKDAVSGT 64

Query: 279 --IISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIR-LDMS 335
             +    + ++E          V  F+         L     F +   K E     +   
Sbjct: 65  LRLFWTLLSKQEEM--------VQKFVEEV------LRINYKFLMSPIKTEQRQPSMMTR 110

Query: 336 EYQEKHEVAKLIGAPPGYLGHDDGGQLTK----RLKKCPNAVVLFDEVDKAHPDVLTVLL 391
            Y E+ +             ++D     K    RL+        + ++ +A       LL
Sbjct: 111 MYIEQRDRL-----------YNDNQVFAKYNVSRLQP-------YLKLRQA-------LL 145

Query: 392 QLFDEGRLT----DGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEF-----SKR 442
           +L     +      G GKT             +A +    + +Q + + + F     +  
Sbjct: 146 ELRPAKNVLIDGVLGSGKTW------------VALDVCLSYKVQCKMDFKIFWLNLKNCN 193

Query: 443 TPSISKSQGSNLDVTISRHFK---DHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELH 499
           +P         L   I  ++    DH     L+ H  +      +  ++   P+    L 
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA----ELRRLLKSKPYENC-L- 247

Query: 500 TLVCRELNFWAKKALDKHNIN-----IVWDIDVETILADGYDVHYGARSIKHEV----ER 550
            LV    N    KA +  N++           V   L+     H    S+ H        
Sbjct: 248 -LVLL--NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI---SLDHHSMTLTPD 301

Query: 551 QVVSQLA 557
           +V S L 
Sbjct: 302 EVKSLLL 308

>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 = 52.2 bits (124), Expect = 5e-07
 Identities = 84/584 (14%), Positives = 165/584 (28%), Gaps = 135/584 (23%)

Query: 80  LECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVL 139
            +C+ ++D+   ++    S +E+   I  SK  V+    L WT L       + + V+  
Sbjct: 33  FDCKDVQDMP--KSIL--SKEEID-HIIMSKDAVSGTLRLFWTLLS----KQE-EMVQKF 82

Query: 140 LEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDV------------------- 180
           +E     N   L + +     +  M     + +R+  +ND                    
Sbjct: 83  VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ 142

Query: 181 ----LNPNMTFLGFSALHYGVV-AGNTEVVELLLKSGADPTVKD---------NSGHIPS 226
               L P         +  GV+ +G T V   +        V+          N  +  S
Sbjct: 143 ALLELRPA----KNVLID-GVLGSGKTWVALDVCL---SYKVQCKMDFKIFWLNLKNCNS 194

Query: 227 DYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAIN--IISAAI 284
                  ++++L +    +          + R + ++  L+ R++  +   N  ++   +
Sbjct: 195 PETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR-RLLKSKPYENCLLVLLNV 253

Query: 285 KRKENGW------------TDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIR- 331
           +  +  W            T      V  FL ++      L          + K   ++ 
Sbjct: 254 QNAKA-WNAFNLSCKILLTTRFKQ--VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY 310

Query: 332 LDMSEYQEKHEVAK-------LIGA----PPG---YLGHDDGGQLTKRLKKC-----PN- 371
           LD        EV         +I               H +  +LT  ++       P  
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE 370

Query: 372 ------AVVLFDEVDKAHPDVLTVL------------LQLFDEGRLT--DGKGKTIECKD 411
                  + +F         +L+++            +    +  L     K  TI    
Sbjct: 371 YRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS 430

Query: 412 AIFVMTSNLASNEIAQHA--LQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQ- 468
               +   L  NE A H   +      + F              LD     H   H+   
Sbjct: 431 IYLELKVKL-ENEYALHRSIVDHYNIPKTFDSDDLIP-----PYLDQYFYSHIGHHLKNI 484

Query: 469 ------PILKRHFRRDEFLGR-INEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINI 521
                  + +  F    FL + I         S S L+TL  ++L F+     D      
Sbjct: 485 EHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTL--QQLKFYKPYICDNDPKYE 542

Query: 522 VWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVI 565
                +   L            I  +    ++ ++A   E   I
Sbjct: 543 RLVNAILDFL-----PKIEENLICSK-YTDLL-RIALMAEDEAI 579

>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 = 42.5 bits (99), Expect = 4e-04
 Identities = 70/457 (15%), Positives = 133/457 (29%), Gaps = 148/457 (32%)

Query: 16  LSNYFKQKPYKRGF------QSSKLFYTTQSTQA-DFKSCLSVFPKI----RQSNNTCMY 64
           L    K KPY+         Q++K +       A +   C     KI    R    T   
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAW------NAFNLS-C-----KILLTTRFKQVT--- 278

Query: 65  NNLLFASACSLAL-----TLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPL 119
           + L  A+   ++L     TL   +     +L         K L    ++   +V   +  
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEV---KSLL-------LKYLDCRPQDLPREVLTTN-- 326

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
              P  ++ I   + +              D +  V     +K     E  L       +
Sbjct: 327 ---PRRLSIIAESIRD---------GLATWDNWKHV---NCDKLTTIIESSL-------N 364

Query: 180 VLNPNMT---FLGFSALHYGVVAGN--TEVVELLLKSGADPTVKDNSGHIPSDYAEDANI 234
           VL P      F   S         +  T ++ L+     D    D             + 
Sbjct: 365 VLEPAEYRKMFDRLSVFPPSA---HIPTILLSLIW---FDVIKSD-----VMVVVNKLHK 413

Query: 235 KQILQKYAEKYA----DLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENG 290
             +++K  ++       +  E + +   +Y L + + D               I +  + 
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY------------NIPKTFDS 461

Query: 291 WTDDDHPL---VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI 347
                  L    +  +G               + H         L   E+ E+  + +++
Sbjct: 462 DDLIPPYLDQYFYSHIG---------------H-H---------LKNIEHPERMTLFRMV 496

Query: 348 GAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQL-FDEGRLTDGKGKT 406
                +L   D   L ++++    A         A   +L  L QL F +  + D   K 
Sbjct: 497 -----FL---DFRFLEQKIRHDSTAW-------NASGSILNTLQQLKFYKPYICDNDPKY 541

Query: 407 IECKDAI--FVMT--SNLASNE---IAQHALQLRKEG 436
               +AI  F+     NL  ++   + + AL    E 
Sbjct: 542 ERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEA 578

>2aja_A Ankyrin repeat family protein; NESG, Q5ZSV0, structural genomics, PSI, protein structure initiative; 2.80A {Legionella pneumophila} SCOP: a.118.24.1 Length = 376

 Score = 62.3 bits (151), Expect = 2e-10
 Identities = 18/139 (12%), Positives = 33/139 (23%), Gaps = 36/139 (25%)

Query: 87  DLTLFRAARYGSAKELKT--FIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGA 144
           ++  F AA  G +  L T   +  S   V +     +    +AA NG +  +  L E   
Sbjct: 93  EVICFVAAITGCSSALDTLCLLLTSDEIVKVIQAENYQAFRLAAENGHLHVLNRLCELAP 152

Query: 145 NPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEV 204
              +  +                                      + A       G+  V
Sbjct: 153 TEIMAMIQAE----------------------------------NYHAFRLAAENGHLHV 178

Query: 205 VELLLKSGADPTVKDNSGH 223
           +  L +             
Sbjct: 179 LNRLCELAPTEATAMIQAE 197

>2aja_A Ankyrin repeat family protein; NESG, Q5ZSV0, structural genomics, PSI, protein structure initiative; 2.80A {Legionella pneumophila} SCOP: a.118.24.1 Length = 376

 Score = 49.2 bits (117), Expect = 2e-06
 Identities = 21/156 (13%), Positives = 41/156 (26%), Gaps = 20/156 (12%)

Query: 90  LFRAARYGSAKELKTFIEN-SKLDVNMRHPLGWTPLHVAAI-NGKVDNVRVLLEAGANPN 147
              AA  G    L    E        M     +     AA+  G  + +  LL+      
Sbjct: 167 FRLAAENGHLHVLNRLCELAPTEATAMIQAENYYAFRWAAVGRGHHNVINFLLDCPVMLA 226

Query: 148 LGDLFNT----------VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGV 197
             ++             + R     K       L   D   D++  +    GF  L   +
Sbjct: 227 YAEIHEFEYGEKYVNPFIARHVNRLKEMHDAFKLSNPDGVFDLVTKSECLQGFYMLRNLI 286

Query: 198 VAGNTEVVELL--------LKSGADPTVKDNSGHIP 225
              +  +++ +        +K+ A         +  
Sbjct: 287 RRNDEVLLDDIRFLLSIPGIKALAPTATIPGDANEL 322

>1dcq_A PYK2-associated protein beta; zinc-binding module, ankyrin repeats, metal binding protein; 2.10A {Mus musculus} SCOP: d.211.1.1 g.45.1.1 Length = 278

 Score = 59.6 bits (144), Expect = 6e-10
 Identities = 24/134 (17%), Positives = 44/134 (32%), Gaps = 42/134 (31%)

Query: 116 RHPLGWTPLHVAAINGKVDNVRV---LLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLK 172
            H    T LH+A  +    ++ +   L++   N +                         
Sbjct: 165 GHEPDETALHLAVRSVDRTSLHIVDFLVQNSGNLDKQTG--------------------- 203

Query: 173 REDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDA 232
                           G +ALHY  +  N E ++LLL+  A   + + SG  P D A+  
Sbjct: 204 ---------------KGSTALHYCCLTDNAECLKLLLRGKASIEIANESGETPLDIAKRL 248

Query: 233 N---IKQILQKYAE 243
                +++L +   
Sbjct: 249 KHEHCEELLTQALS 262

>1dcq_A PYK2-associated protein beta; zinc-binding module, ankyrin repeats, metal binding protein; 2.10A {Mus musculus} SCOP: d.211.1.1 g.45.1.1 Length = 278

 Score = 46.5 bits (110), Expect = 1e-05
 Identities = 12/100 (12%), Positives = 28/100 (28%), Gaps = 36/100 (36%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLL 171
           +++ +   G T LH   +    + +++LL   A+  + +                     
Sbjct: 197 NLDKQTGKGSTALHYCCLTDNAECLKLLLRGKASIEIANE-------------------- 236

Query: 172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKS 211
                            G + L       +    ELL ++
Sbjct: 237 ----------------SGETPLDIAKRLKHEHCEELLTQA 260

>3jue_A Arfgap with coiled-coil, ANK repeat and PH domain containing protein 1; arfgap domain, zinc-binding module, GTPase activ metal-binding, nitration; 2.30A {Homo sapiens} Length = 368

 Score = 57.1 bits (137), Expect = 7e-09
 Identities = 34/152 (22%), Positives = 48/152 (31%), Gaps = 38/152 (25%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPL--GWTPLHVAAINGKVDNVRVLLEAGANPN 147
           LFRA+ +  +            DVN  +      TPL  A     +     LL+ GAN N
Sbjct: 203 LFRASGHPPSLPTMADALAHGADVNWVNGGQDNATPLIQATAANSLLACEFLLQNGANVN 262

Query: 148 LGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVEL 207
             D                                      G   LH+  + G+T +  L
Sbjct: 263 QADSA------------------------------------GRGPLHHATILGHTGLACL 286

Query: 208 LLKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
            LK GAD   +D+ G  P   A +     I+ 
Sbjct: 287 FLKRGADLGARDSEGRDPLTIAMETANADIVT 318

>3jue_A Arfgap with coiled-coil, ANK repeat and PH domain containing protein 1; arfgap domain, zinc-binding module, GTPase activ metal-binding, nitration; 2.30A {Homo sapiens} Length = 368

 Score = 41.3 bits (96), Expect = 6e-04
 Identities = 24/141 (17%), Positives = 37/141 (26%), Gaps = 37/141 (26%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L +A    S    +  ++N   +VN     G  PLH A I G      + L+ GA+    
Sbjct: 239 LIQATAANSLLACEFLLQNGA-NVNQADSAGRGPLHHATILGHTGLACLFLKRGADLGAR 297

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                      G   L   +   N ++V LL 
Sbjct: 298 DS------------------------------------EGRDPLTIAMETANADIVTLLR 321

Query: 210 KSGADPTVKDNSGHIPSDYAE 230
            +                Y +
Sbjct: 322 LAKMREAEAAQGQAGDETYLD 342

>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium, SGC, metal binding protein; 2.06A {Homo sapiens} Length = 301

 Score = 56.2 bits (135), Expect = 8e-09
 Identities = 18/121 (14%), Positives = 36/121 (29%), Gaps = 39/121 (32%)

Query: 120 GWTPLHVAAINGKVDNVRV---LLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDE 176
               LH+A       ++ +   +++ G + +                             
Sbjct: 190 EELVLHLAVKVANQASLPLVDFIIQNGGHLDAKA-------------------------- 223

Query: 177 FNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQ 236
                       G +ALHY  +    + ++LLLK  A     + +G    D A   + K+
Sbjct: 224 ----------ADGNTALHYAALYNQPDCLKLLLKGRALVGTVNEAGETALDIARKKHHKE 273

Query: 237 I 237
            
Sbjct: 274 C 274

>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium, SGC, metal binding protein; 2.06A {Homo sapiens} Length = 301

 Score = 47.7 bits (113), Expect = 6e-06
 Identities = 18/74 (24%), Positives = 32/74 (43%), Gaps = 3/74 (4%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFN-TVHRTAAEKKMNPFEVL 170
            ++ +   G T LH AA+  + D +++LL+  A     +    T    A +K     E L
Sbjct: 218 HLDAKAADGNTALHYAALYNQPDCLKLLLKGRALVGTVNEAGETALDIARKKHHKECEEL 277

Query: 171 LK--REDEFNDVLN 182
           L+  +   F   L+
Sbjct: 278 LEQAQAGTFAFPLH 291

>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1, linkers, alternat splicing; HET: GDP; 3.38A {Homo sapiens} PDB: 3lvr_E* Length = 497

 Score = 42.2 bits (99), Expect = 5e-04
 Identities = 10/39 (25%), Positives = 20/39 (51%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD 150
            ++ +   G T LH AA+  + D +++LL+  A     +
Sbjct: 199 HLDAKAADGNTALHYAALYNQPDCLKLLLKGRALVGTVN 237

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20 Length = 389

 Score = 47.1 bits (111), Expect = 9e-06
 Identities = 23/137 (16%), Positives = 44/137 (32%), Gaps = 10/137 (7%)

Query: 268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKE 327
            R+  +E  +  +   +           H      LG  G GKT   ++L          
Sbjct: 17  KRLPHREQQLQQLDILLGNWLRN--PGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTA 74

Query: 328 AFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGG-------QLTKRLKKCPNAVVL-FDEV 379
            F+ ++   Y+    +   I           G         L + L++    + L  D+ 
Sbjct: 75  RFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDA 134

Query: 380 DKAHPDVLTVLLQLFDE 396
               PD+L+  ++L  E
Sbjct: 135 FNLAPDILSTFIRLGQE 151

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus} Length = 604

 Score = 46.6 bits (111), Expect = 2e-05
 Identities = 26/146 (17%), Positives = 52/146 (35%), Gaps = 15/146 (10%)

Query: 235 KQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDD 294
           ++ L    E    L+   E     +  + ++L D+++GQE A+ +I  A  +K +     
Sbjct: 9   REALAPR-EYGESLELGIEFTTTEEIEVPEKLIDQVIGQEHAVEVIKTAANQKRH----- 62

Query: 295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYL 354
               V L +G  G GK+ L + +A           +   +     + E    I   P   
Sbjct: 63  ----VLL-IGEPGTGKSMLGQAMA----ELLPTETLEDILVFPNPEDENMPRIKTVPACQ 113

Query: 355 GHDDGGQLTKRLKKCPNAVVLFDEVD 380
           G     +  ++ K   +       + 
Sbjct: 114 GRRIVEKYREKAKSQESVKSSNMRLK 139

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli} Length = 500

 Score = 44.0 bits (104), Expect = 1e-04
 Identities = 41/173 (23%), Positives = 61/173 (35%), Gaps = 40/173 (23%)

Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYI 321
           L   L+  +  +  AI +   A    E+         VFL LG  GI K+ +A++L    
Sbjct: 16  LSSSLEKGLYERSHAIRLCLLAALSGES---------VFL-LGPPGIAKSLIARRLK--- 62

Query: 322 HRDKKEAFIRLDMSEYQ--------EKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCP--N 371
                 AF      EY         E      + G P       D G+  +         
Sbjct: 63  -----FAFQNARAFEYLMTRFSTPEE------VFG-PLSIQALKDEGRYERLTSGYLPEA 110

Query: 372 AVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNE 424
            +V  DE+ KA P +L  LL   +E +  +G     +    + V     ASNE
Sbjct: 111 EIVFLDEIWKAGPAILNTLLTAINERQFRNG-AHVEKIPMRLLVA----ASNE 158

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 41.7 bits (97), Expect = 5e-04
 Identities = 27/161 (16%), Positives = 58/161 (36%), Gaps = 19/161 (11%)

Query: 242 AEKYADLQREKEAEERRKYPLEQRLKDRIVGQESA-------INIISAAIKRKENGWTDD 294
           A    DL+ E E    ++   E  L   ++G +           ++     R++ G   +
Sbjct: 7   APTSIDLRAEYEGSGAKEVLEE--LDRELIGLKPVKDRIRETAALLLVERARQKLGLAHE 64

Query: 295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRD---KKEAFIRLDMSE------YQEKHEVAK 345
              L   F G+ G GKT +A ++A  +HR    +K   + +   +           +  +
Sbjct: 65  TPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKE 124

Query: 346 LIG-APPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPD 385
           ++  A  G L  D+   L +   +        + + +   +
Sbjct: 125 VLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMEN 165

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	607
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	100.0
4b93_B	269	Ankyrin repeat domain-containing protein 27; endoc	100.0
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	100.0
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	100.0
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	100.0
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	100.0
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	100.0
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	100.0
3aji_A	231	26S proteasome non-ATPase regulatory subunit 10; g	100.0
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	100.0
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	100.0
3utm_A	351	Tankyrase-1; tankyrase, TNKS, ankryin repeat clust	100.0
1yyh_A	253	HN1;, notch 1, ankyrin domain; ankyrin repeats, ce	100.0
2xai_A	261	ASB-9, ankyrin repeat and SOCS box protein 9; tran	100.0
2f8y_A	223	Notch homolog 1, translocation-associated (drosoph	100.0
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	100.0
3b7b_A	237	Euchromatic histone-lysine N-methyltransferase 1;	100.0
3ljn_A	364	Hypothetical protein; ankyrin, structural genomics	100.0
2rfa_A	232	Transient receptor potential cation channel subfa	100.0
3aji_A	231	26S proteasome non-ATPase regulatory subunit 10; g	100.0
2dzn_A	228	Probable 26S proteasome regulatory subunit P28; an	100.0
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	100.0
4g8k_A	337	2-5A-dependent ribonuclease; ankyrin-repeat domain	100.0
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	100.0
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	100.0
2xai_A	261	ASB-9, ankyrin repeat and SOCS box protein 9; tran	100.0
2dzn_A	228	Probable 26S proteasome regulatory subunit P28; an	100.0
3d9h_A	285	CDNA FLJ77766, highly similar to HOMO sapiens anky	100.0
2etb_A	256	Transient receptor potential cation channel subfam	100.0
4gpm_A	169	Engineered protein OR264; de novo protein, structu	100.0
3hra_A	201	Ankyrin repeat family protein; structural protein;	100.0
2fo1_E	373	LIN-12 protein; beta-barrel, protein-DNA complex,	100.0
1oy3_D	282	Transcription factor inhibitor I-kappa-B-beta; pro	100.0
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	100.0
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	100.0
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	100.0
3ljn_A	364	Hypothetical protein; ankyrin, structural genomics	99.98
2pnn_A	273	Transient receptor potential cation channel subfa	99.98
3jxi_A	260	Vanilloid receptor-related osmotically activated p	99.98
2fo1_E	373	LIN-12 protein; beta-barrel, protein-DNA complex,	99.98
3utm_A	351	Tankyrase-1; tankyrase, TNKS, ankryin repeat clust	99.98
4gpm_A	169	Engineered protein OR264; de novo protein, structu	99.98
4g8k_A	337	2-5A-dependent ribonuclease; ankyrin-repeat domain	99.97
2f8y_A	223	Notch homolog 1, translocation-associated (drosoph	99.97
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	99.97
1ikn_D	236	Protein (I-kappa-B-alpha), protein (NF-kappa-B P50	99.97
2rfm_A	192	Putative ankyrin repeat protein TV1425; ANK repeat	99.97
3b7b_A	237	Euchromatic histone-lysine N-methyltransferase 1;	99.97
3v31_A	167	Ankyrin repeat family A protein 2; structural geno	99.97
2rfa_A	232	Transient receptor potential cation channel subfa	99.97
1s70_B	299	130 kDa myosin-binding subunit of smooth muscle my	99.96
4hbd_A	276	KN motif and ankyrin repeat domain-containing Pro;	99.96
3twr_A	165	Tankyrase-2; ankyrin repeat, protein-protein inter	99.96
3v30_A	172	DNA-binding protein rfxank; structural genomics co	99.96
1ihb_A	162	P18-INK4C(INK6), cyclin-dependent kinase 6 inhibit	99.96
2y1l_E	169	Darpin-8.4; hydrolase-inhibitor complex, DEVD darp	99.96
1sw6_A	327	Regulatory protein SWI6; transcription regulation,	99.96
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	99.96
3f6q_A	179	Integrin-linked protein kinase; ILK, integrin-link	99.96
3v30_A	172	DNA-binding protein rfxank; structural genomics co	99.96
4b93_B	269	Ankyrin repeat domain-containing protein 27; endoc	99.96
3hra_A	201	Ankyrin repeat family protein; structural protein;	99.96
1awc_B	153	Protein (GA binding protein beta 1); complex (tran	99.96
2etb_A	256	Transient receptor potential cation channel subfam	99.96
2rfm_A	192	Putative ankyrin repeat protein TV1425; ANK repeat	99.96
2pnn_A	273	Transient receptor potential cation channel subfa	99.96
1ihb_A	162	P18-INK4C(INK6), cyclin-dependent kinase 6 inhibit	99.95
3v31_A	167	Ankyrin repeat family A protein 2; structural geno	99.95
2vge_A	229	RELA-associated inhibitor; iaspp, nucleus, apoptos	99.95
2y1l_E	169	Darpin-8.4; hydrolase-inhibitor complex, DEVD darp	99.95
1bd8_A	156	P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyr	99.95
3f6q_A	179	Integrin-linked protein kinase; ILK, integrin-link	99.95
3twr_A	165	Tankyrase-2; ankyrin repeat, protein-protein inter	99.95
1ycs_B	239	53BP2, P53BP2; ankyrin repeats, SH3, tumor suppres	99.95
1sw6_A	327	Regulatory protein SWI6; transcription regulation,	99.95
3jxi_A	260	Vanilloid receptor-related osmotically activated p	99.94
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	99.94
1awc_B	153	Protein (GA binding protein beta 1); complex (tran	99.94
1bd8_A	156	P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyr	99.94
4hbd_A	276	KN motif and ankyrin repeat domain-containing Pro;	99.94
1ycs_B	239	53BP2, P53BP2; ankyrin repeats, SH3, tumor suppres	99.94
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.94
1bi7_B	156	P16INK4A, MTS1, multiple tumor suppressor; cyclin	99.94
3t8k_A	186	Uncharacterized protein; structural genomics, PSI-	99.93
1d9s_A	136	Cyclin-dependent kinase 4 inhibitor B; helix-turn-	99.93
1d9s_A	136	Cyclin-dependent kinase 4 inhibitor B; helix-turn-	99.93
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.93
2vge_A	229	RELA-associated inhibitor; iaspp, nucleus, apoptos	99.93
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.92
3t8k_A	186	Uncharacterized protein; structural genomics, PSI-	99.92
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.92
2aja_A	376	Ankyrin repeat family protein; NESG, Q5ZSV0, struc	99.91
1n0r_A	126	4ANK, 4 ankyrin repeats; structural protein; 1.50A	99.91
3c5r_A	137	BARD-1, BRCA1-associated ring domain protein 1; an	99.91
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.91
2aja_A	376	Ankyrin repeat family protein; NESG, Q5ZSV0, struc	99.91
3ui2_A	244	Signal recognition particle 43 kDa protein, chlor;	99.91
2jab_A	136	H10-2-G3; HER2, darpin, ankyrin repeat protein, me	99.91
3aaa_C	123	Myotrophin, protein V-1; actin capping protein, ba	99.9
2b0o_E	301	UPLC1; arfgap, structural genomics, structural gen	99.9
1bi7_B	156	P16INK4A, MTS1, multiple tumor suppressor; cyclin	99.9
2jab_A	136	H10-2-G3; HER2, darpin, ankyrin repeat protein, me	99.9
3deo_A	183	Signal recognition particle 43 kDa protein; chloro	99.9
1n0r_A	126	4ANK, 4 ankyrin repeats; structural protein; 1.50A	99.9
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.89
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.89
3ehr_A	222	Osteoclast-stimulating factor 1; beta barrel, heli	99.89
3c5r_A	137	BARD-1, BRCA1-associated ring domain protein 1; an	99.89
3ui2_A	244	Signal recognition particle 43 kDa protein, chlor;	99.87
1dcq_A	278	PYK2-associated protein beta; zinc-binding module,	99.87
3deo_A	183	Signal recognition particle 43 kDa protein; chloro	99.86
3ehr_A	222	Osteoclast-stimulating factor 1; beta barrel, heli	99.86
2b0o_E	301	UPLC1; arfgap, structural genomics, structural gen	99.86
3aaa_C	123	Myotrophin, protein V-1; actin capping protein, ba	99.85
1n0q_A	93	3ANK, 3 ankyrin repeats; structural protein; 1.26A	99.84
3jue_A	368	Arfgap with coiled-coil, ANK repeat and PH domain	99.84
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.83
2l6b_A	115	NR1C; ankyrin, consensus, repeat protein, ising mo	99.83
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.83
1dcq_A	278	PYK2-associated protein beta; zinc-binding module,	99.83
3jue_A	368	Arfgap with coiled-coil, ANK repeat and PH domain	99.82
1n0q_A	93	3ANK, 3 ankyrin repeats; structural protein; 1.26A	99.82
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.8
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.8
2l6b_A	115	NR1C; ankyrin, consensus, repeat protein, ising mo	99.76
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.73
2zgd_A	110	3 repeat synthetic ankyrin; ankyrin repeat, hydrox	99.72
2zgd_A	110	3 repeat synthetic ankyrin; ankyrin repeat, hydrox	99.7
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.63
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.59
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.53
3pvs_A	447	Replication-associated recombination protein A; ma	99.53
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.52
3co5_A	143	Putative two-component system transcriptional RES	99.46
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.44
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.43
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.41
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.39
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.39
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.39
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.39
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.37
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.36
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.35
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.32
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.32
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.31
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.3
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.3
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.3
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.3
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.29
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.28
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.25
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.24
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.22
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.22
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.21
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.21
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.2
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.2
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.2
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.19
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.18
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.18
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.17
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.17
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.16
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.15
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.14
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.11
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.1
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.1
3bos_A	242	Putative DNA replication factor; P-loop containing	99.07
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.04
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.0
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.98
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	98.95
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.94
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	98.93
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.92
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.92
3f8t_A	506	Predicted ATPase involved in replication control,	98.91
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.9
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.89
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.89
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.86
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.84
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.82
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.79
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.77
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	98.73
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.73
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	98.73
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.72
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	98.57
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	98.5
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.5
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.39
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	98.21
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.17
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.13
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.08
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.0
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	97.97
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.89
2qgz_A	308	Helicase loader, putative primosome component; str	97.79
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.78
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.67
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.52
2fna_A	357	Conserved hypothetical protein; structural genomic	97.38
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.16
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.02
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	97.0
1qzm_A	94	ATP-dependent protease LA; oligomerization domain,	96.97
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.59
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.22
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.07
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	95.92
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	95.91
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	95.76
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.1
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	94.96
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	94.86
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.55
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	94.49
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	94.41
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	94.34
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	94.22
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.17
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	93.94
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	93.77
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	93.63
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.55
2eyu_A	261	Twitching motility protein PILT; pilus retraction	93.39
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	93.26
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	93.13
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	92.44
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	92.44
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	91.93
2ewv_A	372	Twitching motility protein PILT; pilus retraction	91.84
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	91.76
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	91.55
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	91.17
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	91.12
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	91.02
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	90.97
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	90.87
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	90.86
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	90.8
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	90.64
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	90.62
2vli_A	183	Antibiotic resistance protein; transferase, tunica	90.59
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	90.37
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	90.29
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	90.2
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	90.18
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	90.15
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	90.07
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	89.9
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	89.8
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	89.79
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	89.75
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	89.72
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	89.68
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	89.67
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	89.66
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	89.66
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	89.62
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	89.6
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	89.56
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	89.52
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	89.44
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	89.44
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	89.37
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	89.23
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	89.21
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	89.19
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	89.13
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	89.12
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	89.07
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	89.05
1via_A	175	Shikimate kinase; structural genomics, transferase	88.97
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	88.94
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	88.93
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	88.93
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	88.9
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	88.7
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	88.65
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	88.64
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	88.64
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	88.58
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	88.53
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	88.51
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	88.3
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	88.29
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	88.26
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	88.25
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	88.16
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	87.98
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	87.96
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	87.91
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	87.84
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	87.8
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	87.66
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	87.65
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	87.48
3h1t_A	590	Type I site-specific restriction-modification syst	87.46
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	87.35
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	87.29
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	87.17
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	87.16
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	87.1
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	86.98
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	86.92
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	86.81
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	86.65
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	86.46
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	86.44
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	86.26
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	86.18
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	86.13
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	86.07
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	85.99
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	85.87
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	85.62
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	85.6
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	85.59
2og2_A	359	Putative signal recognition particle receptor; nuc	85.51
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	85.32
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	84.85
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	84.71
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	84.7
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	84.46
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	84.33
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	84.05
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	83.93
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	83.9
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	83.84
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	83.8
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	83.76
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	83.75
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	83.71
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	83.6
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	83.6
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	83.53
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	83.45
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	83.33
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	83.14
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	82.83
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	82.81
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	82.75
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	82.67
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	82.62
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	82.54
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	82.37
1u94_A	356	RECA protein, recombinase A; homologous recombinat	82.34
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	82.15
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	82.13
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	82.03
1xp8_A	366	RECA protein, recombinase A; recombination, radior	81.86
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	81.83
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	81.82
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	81.78
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	81.61
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	81.32
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	81.28
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	81.03
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	80.99
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	80.73
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	80.36
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	80.36

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=100.00  E-value=3.7e-36  Score=343.76  Aligned_cols=295  Identities=41%  Similarity=0.712  Sum_probs=247.9

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE  339 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~  339 (607)
                      .+...+...++||+.+++.+...+.+...+..++++|. +++|+||+|+|||.+|+.+++.++.. ..+|+.++|+.+..
T Consensus       551 ~l~~~l~~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~-~~~~i~i~~~~~~~  629 (854)
T 1qvr_A          551 RLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT-EEAMIRIDMTEYME  629 (854)
T ss_dssp             SHHHHHHHHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS-GGGEEEECTTTCCS
T ss_pred             HHHHHHhcccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC-CCcEEEEechhccc
Confidence            45556677899999999999999999988888888898 99999999999999999999999775 67899999999999


Q ss_pred             cchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         340 KHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      .+.+.+++|.++||+|++.++.+++.++..+++|||||||+++++++++.|++++++|.+++..|++++|++++||+|||
T Consensus       630 ~~~~s~l~g~~~~~~G~~~~g~l~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~tsn  709 (854)
T 1qvr_A          630 KHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSN  709 (854)
T ss_dssp             SGGGGGC--------------CHHHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECC
T ss_pred             hhHHHHHcCCCCCCcCccccchHHHHHHhCCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEecC
Confidence            99999999999999999988899999999999999999999999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHH
Q psy1308         420 LASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELH  499 (607)
Q Consensus       420 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~  499 (607)
                      .+...+.+.. +.   +                    ..+ ....+.+.+.+.+.|+ |+|++||+.+++|.|++.+++.
T Consensus       710 ~~~~~~~~~~-~~---~--------------------~~~-~~l~~~v~~~~~~~f~-~~l~~Rl~~~i~~~pl~~edi~  763 (854)
T 1qvr_A          710 LGSPLILEGL-QK---G--------------------WPY-ERIRDEVFKVLQQHFR-PEFLNRLDEIVVFRPLTKEQIR  763 (854)
T ss_dssp             TTHHHHHHHH-HT---T--------------------CCH-HHHHHHHHHHHHTTSC-HHHHHTCSBCCBCCCCCHHHHH
T ss_pred             cChHHHhhhc-cc---c--------------------cch-HHHHHHHHHHHHhhCC-HHHHHhcCeEEeCCCCCHHHHH
Confidence            9988775521 00   0                    000 1123344455788898 9999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEEEEEecC
Q psy1308         500 TLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWS  578 (607)
Q Consensus       500 ~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~~~~~  578 (607)
                      .|+..++..+..++... ++.+.++++++++|++ +|+|++|+|+|++.|++.+..++++.++.++++.|++|+|+++++
T Consensus       764 ~i~~~~l~~~~~~~~~~-~~~~~~~~~a~~~L~~~~~~~~gn~R~L~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~  842 (854)
T 1qvr_A          764 QIVEIQLSYLRARLAEK-RISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVKEGDRVQVDVGPA  842 (854)
T ss_dssp             HHHHHHHHHHHHHHHTT-TCEEEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTHHHHHHHHHHTSSCSSCEEEEECCTT
T ss_pred             HHHHHHHHHHHHHHHhC-CceEEECHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHHHhCcCCCCCEEEEEEECC
Confidence            99999999999888654 7889999999999986 788899999999999999999999999999999999999999766


Q ss_pred             Ccccc
Q psy1308         579 KEVSE  583 (607)
Q Consensus       579 ~~~~~  583 (607)
                      +..+.
T Consensus       843 ~~~~~  847 (854)
T 1qvr_A          843 GLVFA  847 (854)
T ss_dssp             SCEEE
T ss_pred             EEEEE
Confidence            65443

>4b93_B Ankyrin repeat domain-containing protein 27; endocytosis, exocytosis, snare; 2.00A {Homo sapiens}

Probab=100.00  E-value=2.1e-36  Score=299.97  Aligned_cols=219  Identities=23%  Similarity=0.234  Sum_probs=174.1

Q ss_pred             CCCcCCchHHHHHHhcCChhHHHHHhcCCCccc--------ccccccCChHHHHH-----------HccCccchhccCCC
Q psy1308          25 YKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQ--------SNNTCMYNNLLFAS-----------ACSLALTLLECQSI   85 (607)
Q Consensus        25 ~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~--------~~~~~~~~~l~~a~-----------~~~~~~~~~~~~~~   85 (607)
                      .++..+.|||+.||..|+.++|++|++.+....        ..+..+.++++.+.           +...+..++..|.+
T Consensus         6 kkd~~~~~~L~~A~~~G~~~~v~~LL~~~~~~~~~~~~~~~~~~~~~~t~L~~a~~~~~~~~~v~~Ll~~Gadvn~~d~~   85 (269)
T 4b93_B            6 KKDYREVEKLLRAVADGDLEMVRYLLEWTEEDLEDAEDTVSAADPEFCHPLCQCPKCAPAQKRLAKVPASGLGVNVTSQD   85 (269)
T ss_dssp             -CCCHHHHHHHHHHHTTCHHHHHHHHTCC----------------------------------------CCCCTTCCCTT
T ss_pred             ccCccchhHHHHHHHcCCHHHHHHHHHCCCcccccccccccccCccCCCHHHHHHHhCCHHHHHHHHHHCCCCCCCcCCC
Confidence            356667899999999999999999998776432        22344556666553           23344566788999


Q ss_pred             CCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCC
Q psy1308          86 KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKK  163 (607)
Q Consensus        86 g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~  163 (607)
                      |+||||+||..|+.++|++|++.+ ++++.++..|.||||+|+..++.+++++|+++|++++.+|.  +||||+|+..|+
T Consensus        86 G~TpLh~A~~~g~~~~v~~Ll~~~-a~~~~~~~~g~t~l~~a~~~~~~~~~~~Ll~~g~~~n~~d~~g~TpL~~A~~~g~  164 (269)
T 4b93_B           86 GSSPLHVAALHGRADLIPLLLKHG-ANAGARNADQAVPLHLACQQGHFQVVKCLLDSNAKPNKKDLSGNTPLIYACSGGH  164 (269)
T ss_dssp             SCCHHHHHHHTTCTTHHHHHHHTT-CCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCSCCCCTTCCCHHHHHHHTTC
T ss_pred             CCCHHHHHHHcCcHHHHHHHHhcC-CCcCccCCCCCCccccccccChHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCC
Confidence            999999999999999999999999 99999999999999999999999999999999999999765  679999999999


Q ss_pred             ccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhH-HHHHHHHH
Q psy1308         164 MNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANI-KQILQKYA  242 (607)
Q Consensus       164 ~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~-~~~~~~ll  242 (607)
                      .+++++|+++|++++..+.     .|+||||+|+..|+.++|++|+++|+|++.+|..|+||||+|+.++. .++++.+.
T Consensus       165 ~~~v~~Ll~~gadvn~~~~-----~g~t~Lh~A~~~g~~~~v~~Ll~~Gad~~~~d~~G~TpL~~A~~~~~i~~lL~~l~  239 (269)
T 4b93_B          165 HELVALLLQHGASINASNN-----KGNTALHEAVIEKHVFVVELLLLHGASVQVLNKRQRTAVDCAEQNSKIMELLQVVP  239 (269)
T ss_dssp             GGGHHHHHHTTCCTTCBCT-----TSCBHHHHHHHTTCHHHHHHHHHTTCCSCCCCTTSCCSGGGSCTTCHHHHHTTC--
T ss_pred             HHHHHHHHHCCCCCCcccc-----CCCcHHHHHHHcCCHHHHHHHHHCCCCCCCcCCCCCCHHHHHHhCCcHHHHHHHHH
Confidence            9999999999999987754     49999999999999999999999999999999999999999998875 56666666


Q ss_pred             HhhhhHH
Q psy1308         243 EKYADLQ  249 (607)
Q Consensus       243 ~~~~~~~  249 (607)
                      ..++...
T Consensus       240 ~~~~~~~  246 (269)
T 4b93_B          240 SCVASLD  246 (269)
T ss_dssp             -------
T ss_pred             Hhchhhh
Confidence            6655544

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=100.00  E-value=2.7e-34  Score=291.47  Aligned_cols=300  Identities=39%  Similarity=0.688  Sum_probs=262.5

Q ss_pred             cccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc
Q psy1308         257 RRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS  335 (607)
Q Consensus       257 ~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a  335 (607)
                      .....+...+...++||+.+++.+...+.....++..+.+|. +++|+||+|+|||.+++.++..+... ..+++.++|+
T Consensus         6 ~~l~~l~~~l~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~-~~~~~~~~~~   84 (311)
T 4fcw_A            6 EKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT-EEAMIRIDMT   84 (311)
T ss_dssp             HHHHTHHHHHHTTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSC-GGGEEEEEGG
T ss_pred             HHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCC-CcceEEeecc
Confidence            344567788888999999999999999999888888888888 89999999999999999999998765 6689999999


Q ss_pred             cccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEE
Q psy1308         336 EYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFV  415 (607)
Q Consensus       336 ~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI  415 (607)
                      .+........++|.+++|.|+...+.+.+.+..++++++||||++++++++|+.|+++++++.+.+..|..+++++++||
T Consensus        85 ~~~~~~~~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI  164 (311)
T 4fcw_A           85 EYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVII  164 (311)
T ss_dssp             GCCSTTHHHHHHCCCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEEEE
T ss_pred             cccccccHHHhcCCCCccccccccchHHHHHHhCCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcEEE
Confidence            99988889999999999999988889999999999999999999999999999999999999999999999999999999


Q ss_pred             EecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCH
Q psy1308         416 MTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSK  495 (607)
Q Consensus       416 ~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~  495 (607)
                      +|||.+...+.+....                 ..        ......+.+...+.+.|. |+|++|++.++.|.|++.
T Consensus       165 ~ttn~~~~~i~~~~~~-----------------~~--------~~~~l~~~~~~~~~~~~~-~~l~~R~~~~~~~~p~~~  218 (311)
T 4fcw_A          165 MTSNLGSPLILEGLQK-----------------GW--------PYERIRDEVFKVLQQHFR-PEFLNRLDEIVVFRPLTK  218 (311)
T ss_dssp             EEESTTHHHHHTTTTS-----------------CC--------CSSTHHHHTHHHHHHHSC-HHHHTTCSEEEECCCCCH
T ss_pred             EecccCHHHHHhhhcc-----------------cc--------cHHHHHHHHHHHHHHhCC-HHHHhcCCeEEEeCCCCH
Confidence            9999988877653210                 00        000113344455677897 999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEEEE
Q psy1308         496 SELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLY  574 (607)
Q Consensus       496 ~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~  574 (607)
                      +++..|+..++..+..++.. .+..+.++++++++|++ +|++++|+|+|++.+++.+..++++.++.++++++++++|+
T Consensus       219 ~~~~~i~~~~l~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~gn~R~L~~~i~~~~~~~~~~~i~~~~~~~~~~i~i~  297 (311)
T 4fcw_A          219 EQIRQIVEIQMSYLRARLAE-KRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVKEGDRVQVD  297 (311)
T ss_dssp             HHHHHHHHHHTHHHHHHHHT-TTCEEEECHHHHHHHHHHSCBTTTBTTTHHHHHHHHTHHHHHHHHHHTSSCTTCEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHh-CCcEEEeCHHHHHHHHHhCCCccCCchhHHHHHHHHHHHHHHHHHHhCCCCCCCEEEEE
Confidence            99999999999998888765 47889999999999987 55559999999999999999999999999999999999999


Q ss_pred             EecCCccccc
Q psy1308         575 VQWSKEVSED  584 (607)
Q Consensus       575 ~~~~~~~~~~  584 (607)
                      +++++.++..
T Consensus       298 ~~~~~~~~~~  307 (311)
T 4fcw_A          298 VGPAGLVFAV  307 (311)
T ss_dssp             ECSSSEEEEC
T ss_pred             EECCeEEEEe
Confidence            9998876543

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=100.00  E-value=2.7e-35  Score=286.87  Aligned_cols=217  Identities=21%  Similarity=0.197  Sum_probs=171.2

Q ss_pred             CCCcCCchHHHHHHhcCChhHHHHHhc----CCCcccccccccCChHHHHHHcc----------CccchhccCCCCCHHH
Q psy1308          25 YKRGFQSSKLFYTTQSTQADFKSCLSV----FPKIRQSNNTCMYNNLLFASACS----------LALTLLECQSIKDLTL   90 (607)
Q Consensus        25 ~~~~~g~t~L~~A~~~g~~~~v~~L~~----~~~~~~~~~~~~~~~l~~a~~~~----------~~~~~~~~~~~g~t~L   90 (607)
                      ..+..|+||||+||..|+.+++++|+.    .+......+..+.++++.|+..+          .+...+..+..|.|||
T Consensus         4 ~~d~~g~t~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~l   83 (241)
T 1k1a_A            4 RADEDGDTPLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSVVRLLVTAGASPMALDRHGQTAA   83 (241)
T ss_dssp             ---CTTCCHHHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHH
T ss_pred             ccCCCCCcHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHHHHHHHHHcCCCccccCCCCCCHH
Confidence            457788999999999999999999886    56666666777778888775443          3334456677888888


Q ss_pred             HHHHHcCCHHHHHHHHhcCC---CCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC---CCchHHHHHHcCCc
Q psy1308          91 FRAARYGSAKELKTFIENSK---LDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD---LFNTVHRTAAEKKM  164 (607)
Q Consensus        91 h~A~~~g~~~~v~~Ll~~~~---~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d---~~~~l~~A~~~~~~  164 (607)
                      |+|+..|+.+++++|++.+.   .+++.+|..|+||||+|+..|+.+++++|+++|++++..+   ++||||+|+..|+.
T Consensus        84 ~~A~~~~~~~~~~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~g~t~L~~A~~~~~~  163 (241)
T 1k1a_A           84 HLACEHRSPTCLRALLDSAAPGTLDLEARNYDGLTALHVAVNTECQETVQLLLERGADIDAVDIKSGRSPLIHAVENNSL  163 (241)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCTTSCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHcCCCccccccccCcCCCcHHHHHHHcCCHHHHHHHHHcCCCcccccccCCCcHHHHHHHcCCH
Confidence            88888888888888888872   2788888888888888888888888888888888888765   46788888888888


Q ss_pred             cHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHh
Q psy1308         165 NPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEK  244 (607)
Q Consensus       165 ~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~  244 (607)
                      +++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|+|++.+|..|+||||+|+..++.++++.|..+
T Consensus       164 ~~v~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~tpl~~A~~~~~~~i~~~l~~~  238 (241)
T 1k1a_A          164 SMVQLLLQHGANVNAQMY-----SGSSALHSASGRGLLPLVRTLVRSGADSSLKNCHNDTPLMVARSRRVIDILRGKATR  238 (241)
T ss_dssp             HHHHHHHHTTCCTTCBCT-----TSCBHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCTTTTCSSHHHHHHHTC----
T ss_pred             HHHHHHHHcCCCCCCcCC-----CCCCHHHHHHHcCCHHHHHHHHhcCCCCCCcCCCCCCHHHHHHhcCcHHHHhhhccC
Confidence            888888888888876644     388888888888888888888888888888888888888888888888888888776


Q ss_pred             hh
Q psy1308         245 YA  246 (607)
Q Consensus       245 ~~  246 (607)
                      ++
T Consensus       239 ~a  240 (241)
T 1k1a_A          239 PA  240 (241)
T ss_dssp             --
T ss_pred             CC
Confidence            54

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=100.00  E-value=4.3e-35  Score=332.36  Aligned_cols=287  Identities=34%  Similarity=0.584  Sum_probs=250.3

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE  339 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~  339 (607)
                      .+...+...++||+.+++.+..++.....++.++++|. +++|+||+|+|||.+|+.+++.+.    .++++++|+.+.+
T Consensus       451 ~l~~~l~~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~----~~~~~i~~s~~~~  526 (758)
T 1r6b_X          451 NLGDRLKMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG----IELLRFDMSEYME  526 (758)
T ss_dssp             HHHHHHTTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT----CEEEEEEGGGCSS
T ss_pred             HHHHHHHhhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc----CCEEEEechhhcc
Confidence            35566777899999999999999999999998899998 899999999999999999999983    4699999999999


Q ss_pred             cchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         340 KHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      .+.+++++|.++||+|++.++.+++.++.++++|||||||+++++++++.|++++++|.+++..|++++|++++||+|||
T Consensus       527 ~~~~~~l~g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~tsN  606 (758)
T 1r6b_X          527 RHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTN  606 (758)
T ss_dssp             SSCCSSSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEEC
T ss_pred             hhhHhhhcCCCCCCcCccccchHHHHHHhCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEecC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHH
Q psy1308         420 LASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELH  499 (607)
Q Consensus       420 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~  499 (607)
                      .+...+.+...++....                          ......+.+.+.|+ |+|++||+.++.|.|++.+++.
T Consensus       607 ~~~~~~~~~~~g~~~~~--------------------------~~~~~~~~~~~~~~-~~l~~R~~~~i~~~~l~~~~~~  659 (758)
T 1r6b_X          607 AGVRETERKSIGLIHQD--------------------------NSTDAMEEIKKIFT-PEFRNRLDNIIWFDHLSTDVIH  659 (758)
T ss_dssp             SSCC-------------------------------------------CHHHHHHHSC-HHHHTTCSEEEECCCCCHHHHH
T ss_pred             cchhhhhhcccCccccc--------------------------hHHHHHHHHHHhcC-HHHHhhCCcceeeCCCCHHHHH
Confidence            98876654322211000                          01233456677897 9999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEEEEEecC
Q psy1308         500 TLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWS  578 (607)
Q Consensus       500 ~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~~~~~  578 (607)
                      .|+..++..+..++... ++.+.++++++++|++ +|++.+|+|+|++.|++.+.+++++.++.+.+..|++++|+++++
T Consensus       660 ~i~~~~l~~~~~~~~~~-~~~~~~~~~a~~~l~~~~~~~~~g~R~l~~~i~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~  738 (758)
T 1r6b_X          660 QVVDKFIVELQVQLDQK-GVSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNLKKPLANELLFGSLVDGGQVTVALDKE  738 (758)
T ss_dssp             HHHHHHHHHHHHHHHHT-TEEEEECHHHHHHHHHHHCBTTTBTTTHHHHHHHHHTHHHHHHHHHSTTTTCEEEEEEEEGG
T ss_pred             HHHHHHHHHHHHHHHHC-CcEEEeCHHHHHHHHHhCCCcCCCchHHHHHHHHHHHHHHHHHHHcCcCCCCCEEEEEEeCC
Confidence            99999999988888664 8889999999999986 788899999999999999999999999999999999999999765


Q ss_pred             C
Q psy1308         579 K  579 (607)
Q Consensus       579 ~  579 (607)
                      +
T Consensus       739 ~  739 (758)
T 1r6b_X          739 K  739 (758)
T ss_dssp             G
T ss_pred             c
Confidence            4

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1

Probab=100.00  E-value=1.2e-35  Score=316.27  Aligned_cols=308  Identities=21%  Similarity=0.237  Sum_probs=222.9

Q ss_pred             CCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCc----------cchhccCCCCCHHHH
Q psy1308          22 QKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLA----------LTLLECQSIKDLTLF   91 (607)
Q Consensus        22 ~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~----------~~~~~~~~~g~t~Lh   91 (607)
                      ..+..+..|.||||+||..|+.+++++|+..+......+..+.++++.|+..++.          ..++..+..|.||||
T Consensus         6 ~~~~~~~~g~t~L~~Aa~~g~~~~v~~Ll~~g~~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~g~t~L~   85 (437)
T 1n11_A            6 SGGGGGESGLTPLHVASFMGHLPIVKNLLQRGASPNVSNVKVETPLHMAARAGHTEVAKYLLQNKAKVNAKAKDDQTPLH   85 (437)
T ss_dssp             ---------CCHHHHHHHHTCHHHHHHHHHTTCCSCCSSSCCCCHHHHHHHHTCHHHHHHHHHHTCCSSCCCTTSCCHHH
T ss_pred             CccccCCCCCCHHHHHHHCCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHhCCCCCCCCCCCCCCHHH
Confidence            3445677788999999999999999999888877777777888888888654433          344567788889999


Q ss_pred             HHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHH
Q psy1308          92 RAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEV  169 (607)
Q Consensus        92 ~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~  169 (607)
                      +||..|+.++|++|+++| ++++.++..|.||||+|+..|+.+++++|+++|++++..+.  +||||+|+..|+.+++++
T Consensus        86 ~A~~~g~~~~v~~Ll~~g-a~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~  164 (437)
T 1n11_A           86 CAARIGHTNMVKLLLENN-ANPNLATTAGHTPLHIAAREGHVETVLALLEKEASQACMTKKGFTPLHVAAKYGKVRVAEL  164 (437)
T ss_dssp             HHHHHTCHHHHHHHHHHT-CCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHHHHH
T ss_pred             HHHHCCCHHHHHHHHhCC-CCCCCCCCCCCcHHHHHHHcCCHHHHHHHHhCCCCCcCCCCCCCCHHHHHHHcCCHHHHHH
Confidence            999999999999999888 88888888899999999999999999999988888876554  568999999999999999


Q ss_pred             HHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHH
Q psy1308         170 LLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       170 Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      |+++|++++..+.     .|.||||+|+..|+.+++++|+++|++++..+..|+||||+|+..++.++++.|++.+++..
T Consensus       165 Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~  239 (437)
T 1n11_A          165 LLERDAHPNAAGK-----NGLTPLHVAVHHNNLDIVKLLLPRGGSPHSPAWNGYTPLHIAAKQNQVEVARSLLQYGGSAN  239 (437)
T ss_dssp             HHHTTCCTTCCCS-----SCCCHHHHHHHTTCHHHHHHHGGGTCCSCCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTT
T ss_pred             HHhCCCCCCCCCC-----CCCCHHHHHHHcCCHHHHHHHHhCCCCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCC
Confidence            9998888876644     38889999999999999999999888888888888899999998888999998888887654


Q ss_pred             hhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCC-CC--CCCCCceeeeeccCCCChhHHHHHHHHHh---cc
Q psy1308         250 REKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENG-WT--DDDHPLVFLFLGSSGIGKTELAKQLAFYI---HR  323 (607)
Q Consensus       250 ~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~-~~--~~~~p~~~ll~G~~G~GKt~la~~la~~l---~~  323 (607)
                         ..+..+.++|+.+...   |..+.++.+   +...... ..  ....|+.+    ....|...+++.+.+..   ..
T Consensus       240 ---~~~~~g~t~L~~A~~~---g~~~~v~~L---l~~~~~~~~~~~~g~t~L~~----A~~~~~~~~~~~Ll~~g~~~~~  306 (437)
T 1n11_A          240 ---AESVQGVTPLHLAAQE---GHAEMVALL---LSKQANGNLGNKSGLTPLHL----VAQEGHVPVADVLIKHGVMVDA  306 (437)
T ss_dssp             ---CCCTTCCCHHHHHHHT---TCHHHHHHH---HTTTCCTTCCCTTCCCHHHH----HHHHTCHHHHHHHHHHTCCTTC
T ss_pred             ---CCCCCCCCHHHHHHHC---CCHHHHHHH---HhcCCCCCCCCCCCCCHHHH----HHHcCCHHHHHHHHhCCccCCC
Confidence               2355677888554432   333333333   2221110 11  11122211    11245666677766653   22


Q ss_pred             CcCCceEEeecccccccchhHhhhc
Q psy1308         324 DKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       324 ~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .+..+.++++++...++..+.++|-
T Consensus       307 ~~~~g~t~L~~A~~~g~~~~v~~Ll  331 (437)
T 1n11_A          307 TTRMGYTPLHVASHYGNIKLVKFLL  331 (437)
T ss_dssp             CCSSCCCHHHHHHHSSCSHHHHHHH
T ss_pred             CCCCCCCHHHHHHHcCcHHHHHHHH
Confidence            3456778888888888877777663

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A

Probab=100.00  E-value=1.7e-35  Score=291.07  Aligned_cols=213  Identities=20%  Similarity=0.227  Sum_probs=156.1

Q ss_pred             CCCCCcCCchHHHHHHhcC-------------ChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHH
Q psy1308          23 KPYKRGFQSSKLFYTTQST-------------QADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLT   89 (607)
Q Consensus        23 ~~~~~~~g~t~L~~A~~~g-------------~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~   89 (607)
                      .+..+..|+||||+|+.+|             +.+++++|+..+....                      ...|..|.||
T Consensus         3 vn~~d~~g~tpL~~A~~~g~~~~~~~~~~~~~~~~~v~~Ll~~g~~~~----------------------~~~d~~g~t~   60 (253)
T 1yyh_A            3 VNVRGPDGFTPLMIASCSGGGLETGNSEEEEDAPAVISDFIYQGASLH----------------------NQTDRTGETA   60 (253)
T ss_dssp             -----------------------------------------------------------------------CCCTTSCCH
T ss_pred             CCCCCCCCCcHHHHHHhccccccccchhhcCCChHHHHHHHHccCCcc----------------------cccCCCCCcH
Confidence            3556788999999999988             8888888887654332                      2457889999


Q ss_pred             HHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCC-CCCCCC--CCchHHHHHHcCCccH
Q psy1308          90 LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGA-NPNLGD--LFNTVHRTAAEKKMNP  166 (607)
Q Consensus        90 Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga-~~~~~d--~~~~l~~A~~~~~~~~  166 (607)
                      ||+||..|+.++|++|+++| ++++.+|..|+||||+|+..|+.+++++|+++|+ +++..+  ++||||+|+..|+.++
T Consensus        61 L~~A~~~g~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~~~~~~~~~~~~g~t~L~~A~~~~~~~~  139 (253)
T 1yyh_A           61 LHLAARYSRSDAAKRLLEAS-ADANIQDNMGRTPLHAAVSADAQGVFQILIRNRATDLDARMHDGTTPLILAARLAVEGM  139 (253)
T ss_dssp             HHHHHHTTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHSTTSCTTCCCTTCCCHHHHHHHHTCSSH
T ss_pred             HHHHHHcCCHHHHHHHHHcC-CCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCccccCCCCCcHHHHHHHcChHHH
Confidence            99999999999999999998 8999999999999999999999999999999987 777765  4679999999999999


Q ss_pred             HHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhh
Q psy1308         167 FEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYA  246 (607)
Q Consensus       167 ~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~  246 (607)
                      +++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|++.|+
T Consensus       140 v~~Ll~~g~~~~~~d~-----~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~tpL~~A~~~~~~~~v~~Ll~~ga  214 (253)
T 1yyh_A          140 LEDLINSHADVNAVDD-----LGKSALHWAAAVNNVDAAVVLLKNGANKDMQNNREETPLFLAAREGSYETAKVLLDHFA  214 (253)
T ss_dssp             HHHHHHTTCCTTCBCT-----TSCBHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTC
T ss_pred             HHHHHHcCCCCCCcCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHCCCHHHHHHHHHcCC
Confidence            9999999999887744     49999999999999999999999999999999999999999999999999999999998


Q ss_pred             hHHhhHHHhhcccccHHHHH
Q psy1308         247 DLQREKEAEERRKYPLEQRL  266 (607)
Q Consensus       247 ~~~~~~~~~~~~~~~L~~~l  266 (607)
                      +...   .+..+.+|+..+.
T Consensus       215 ~~~~---~d~~g~tpl~~A~  231 (253)
T 1yyh_A          215 NRDI---TDHMDRLPRDIAQ  231 (253)
T ss_dssp             CTTC---CCTTCCCHHHHHH
T ss_pred             Cccc---cccCCCCHHHHHH
Confidence            8663   4667888885544

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D

Probab=100.00  E-value=8.2e-36  Score=297.70  Aligned_cols=214  Identities=21%  Similarity=0.189  Sum_probs=183.0

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHH
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELK  103 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~  103 (607)
                      +..+..|+||||+||..|+.+++++|+..+....                    .++..+..|.||||+||..|+.++|+
T Consensus         3 ~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~--------------------~~~~~~~~g~t~L~~A~~~g~~~~v~   62 (282)
T 1oy3_D            3 GYVTEDGDTALHLAVIHQHEPFLDFLLGFSAGHE--------------------YLDLQNDLGQTALHLAAILGEASTVE   62 (282)
T ss_dssp             CCCCTTCCCHHHHHHHTTCHHHHHHHHHHHTTSG--------------------GGGCCCTTSCCHHHHHHHHTCHHHHH
T ss_pred             CccCCCCCcHHHHHHHcCCHHHHHHHHhcCCCcc--------------------cccccCCCCCCHHHHHHHcCCHHHHH
Confidence            3467789999999999999999999987643321                    13567889999999999999999999


Q ss_pred             HHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCC--------------------------------------
Q psy1308         104 TFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGAN--------------------------------------  145 (607)
Q Consensus       104 ~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~--------------------------------------  145 (607)
                      +|+++| ++++.+|..|+||||+|+..|+.+++++|+++|++                                      
T Consensus        63 ~Ll~~g-a~~~~~~~~g~tpL~~A~~~~~~~~v~~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  141 (282)
T 1oy3_D           63 KLYAAG-AGVLVAERGGHTALHLACRVRAHTCACVLLQPRPSHPRDASDTYLTQSQDCTPDTSHAPAAVDSQPNPENEEE  141 (282)
T ss_dssp             HHHHTT-CCSSCCCTTSCCHHHHHTTTTCHHHHHHHSSSCCSSCCCC---------------------------------
T ss_pred             HHHHcC-CCCCCCCCCCCCHHHHHHHcCCcchhHhhhccCCCCchhhHHHHhhcccccCcchhcchhhhccccccchhhh
Confidence            999998 99999999999999999999999999999998866                                      


Q ss_pred             ---------CCCCC--CCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         146 ---------PNLGD--LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       146 ---------~~~~d--~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                               ++..+  ++||||+|+..|+.+++++|+++|++++..+..    .|+||||+|+..|+.+++++|+++|+|
T Consensus       142 ~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~----~g~tpL~~A~~~~~~~~v~~Ll~~gad  217 (282)
T 1oy3_D          142 PRDEDWRLQLEAENYDGHTPLHVAVIHKDAEMVRLLRDAGADLNKPEPT----CGRTPLHLAVEAQAASVLELLLKAGAD  217 (282)
T ss_dssp             --CCCGGGGTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHTCCTTCCCTT----TCCCHHHHHHHTTCHHHHHHHHHTTCC
T ss_pred             hhhhhhhhcCCCcCCCCcCHHHHHHHcCCHHHHHHHHHcCCCCCCCCCC----CCcCHHHHHHHcCCHHHHHHHHHcCCC
Confidence                     44443  467999999999999999999999999877432    399999999999999999999999999


Q ss_pred             CCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHH
Q psy1308         215 PTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQR  265 (607)
Q Consensus       215 ~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~  265 (607)
                      ++.+|..|+||||+|+..++.+++++|+++|++..   ..+..+.+|+..+
T Consensus       218 ~~~~d~~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~---~~~~~g~tpl~~a  265 (282)
T 1oy3_D          218 PTARMYGGRTPLGSALLRPNPILARLLRAHGAPEP---EDGGDKLSPCSSS  265 (282)
T ss_dssp             TTCCCTTSCCHHHHHHTSSCHHHHHHHHHTTCCCC---CCC----------
T ss_pred             CcccccCCCCHHHHHHHcCCcHHHHHHHHcCCCcC---cCCCccccccccc
Confidence            99999999999999999999999999999999976   3466788888543

>3aji_A 26S proteasome non-ATPase regulatory subunit 10; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dvw_A 2dwz_A* 1tr4_A 1uoh_A 1qym_A

Probab=100.00  E-value=1.5e-34  Score=279.83  Aligned_cols=161  Identities=24%  Similarity=0.261  Sum_probs=118.2

Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHH
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRT  158 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A  158 (607)
                      ..+..|.||||+|+..|+.+++++|++++ ++++.+|..|.||||+|+..|+.+++++|+++|++++..+.  +||||+|
T Consensus        68 ~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~g~t~L~~A  146 (231)
T 3aji_A           68 DKDDAGWSPLHIAASAGXDEIVKALLVKG-AHVNAVNQNGCTPLHYAASKNRHEIAVMLLEGGANPDAKDHYDATAMHRA  146 (231)
T ss_dssp             CCCTTSCCHHHHHHHHTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHH
T ss_pred             CcCCCCCCHHHHHHHcCHHHHHHHHHHcC-CCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCCCCCcHHHHH
Confidence            45666777777777777777777777776 77777777777777777777777777777777777776553  4577777


Q ss_pred             HHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHH
Q psy1308         159 AAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQIL  238 (607)
Q Consensus       159 ~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~  238 (607)
                      +..|+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|+||+|+|+..++.+++
T Consensus       147 ~~~~~~~~v~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~t~l~~A~~~~~~~i~  221 (231)
T 3aji_A          147 AAKGNLKMVHILLFYKASTNIQDT-----EGNTPLHLACDEERVEEAKFLVTQGASIYIENKEEKTPLQVAKGGLGLILK  221 (231)
T ss_dssp             HHHTCHHHHHHHHHTTCCSCCCCT-----TSCCHHHHHHHTTCHHHHHHHHHTTCCSCCCCTTSCCHHHHSCHHHHHHHH
T ss_pred             HHcCCHHHHHHHHhcCCCccccCC-----CCCCHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHhhHHHHHH
Confidence            777777777777777777766533     377777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHhhhh
Q psy1308         239 QKYAEKYAD  247 (607)
Q Consensus       239 ~~ll~~~~~  247 (607)
                      ++|.+.+++
T Consensus       222 ~lL~~~~a~  230 (231)
T 3aji_A          222 RLAEGEEAS  230 (231)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHcccccc
Confidence            777766653

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1

Probab=100.00  E-value=7.6e-35  Score=310.08  Aligned_cols=324  Identities=19%  Similarity=0.217  Sum_probs=263.5

Q ss_pred             hhhhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCc------
Q psy1308           3 RILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLA------   76 (607)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~------   76 (607)
                      .+.....+++..++.. ....+..+..|.||||+||..|+.+++++|+..+......+..+.++++.|+..++.      
T Consensus        21 Aa~~g~~~~v~~Ll~~-g~~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~g~~~~v~~L   99 (437)
T 1n11_A           21 ASFMGHLPIVKNLLQR-GASPNVSNVKVETPLHMAARAGHTEVAKYLLQNKAKVNAKAKDDQTPLHCAARIGHTNMVKLL   99 (437)
T ss_dssp             HHHHTCHHHHHHHHHT-TCCSCCSSSCCCCHHHHHHHHTCHHHHHHHHHHTCCSSCCCTTSCCHHHHHHHHTCHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHc-CCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHH
Confidence            3445566677777765 345566788899999999999999999999999988888888899999999755543      


Q ss_pred             ----cchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC-
Q psy1308          77 ----LTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL-  151 (607)
Q Consensus        77 ----~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~-  151 (607)
                          ...+..+..|.||||+|+..|+.+++++|++.+ ++++..+..|.||||+|+..|+.+++++|+++|++++..+. 
T Consensus       100 l~~ga~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~~-~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~  178 (437)
T 1n11_A          100 LENNANPNLATTAGHTPLHIAAREGHVETVLALLEKE-ASQACMTKKGFTPLHVAAKYGKVRVAELLLERDAHPNAAGKN  178 (437)
T ss_dssp             HHHTCCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHTT-CCSCCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCSS
T ss_pred             HhCCCCCCCCCCCCCcHHHHHHHcCCHHHHHHHHhCC-CCCcCCCCCCCCHHHHHHHcCCHHHHHHHHhCCCCCCCCCCC
Confidence                344667889999999999999999999999998 89999999999999999999999999999999999998764 


Q ss_pred             -CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchh
Q psy1308         152 -FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAE  230 (607)
Q Consensus       152 -~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~  230 (607)
                       .||||+|+..++.+++++|+++|++++..+     ..|+||||+|+..|+.+++++|+++|++++..+..|.||||+|+
T Consensus       179 g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~-----~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~g~t~L~~A~  253 (437)
T 1n11_A          179 GLTPLHVAVHHNNLDIVKLLLPRGGSPHSPA-----WNGYTPLHIAAKQNQVEVARSLLQYGGSANAESVQGVTPLHLAA  253 (437)
T ss_dssp             CCCHHHHHHHTTCHHHHHHHGGGTCCSCCCC-----TTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHH
T ss_pred             CCCHHHHHHHcCCHHHHHHHHhCCCCCCCcC-----CCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHH
Confidence             679999999999999999999999987664     34999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCC----CCCCCceeeeeccC
Q psy1308         231 DANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWT----DDDHPLVFLFLGSS  306 (607)
Q Consensus       231 ~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~----~~~~p~~~ll~G~~  306 (607)
                      ..|+.+++++|++.+++...   .+..+.++|+.+...   |....++.+   +... ....    ...+|+.+    ..
T Consensus       254 ~~g~~~~v~~Ll~~~~~~~~---~~~~g~t~L~~A~~~---~~~~~~~~L---l~~g-~~~~~~~~~g~t~L~~----A~  319 (437)
T 1n11_A          254 QEGHAEMVALLLSKQANGNL---GNKSGLTPLHLVAQE---GHVPVADVL---IKHG-VMVDATTRMGYTPLHV----AS  319 (437)
T ss_dssp             HTTCHHHHHHHHTTTCCTTC---CCTTCCCHHHHHHHH---TCHHHHHHH---HHHT-CCTTCCCSSCCCHHHH----HH
T ss_pred             HCCCHHHHHHHHhcCCCCCC---CCCCCCCHHHHHHHc---CCHHHHHHH---HhCC-ccCCCCCCCCCCHHHH----HH
Confidence            99999999999999887653   356788899655432   333444433   3322 1111    12223322    22


Q ss_pred             CCChhHHHHHHHHHh---ccCcCCceEEeecccccccchhHhhh
Q psy1308         307 GIGKTELAKQLAFYI---HRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       307 G~GKt~la~~la~~l---~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..|...+++.|.+..   +..+..+.++++++...++.++.++|
T Consensus       320 ~~g~~~~v~~Ll~~gad~n~~~~~g~t~L~~A~~~g~~~iv~~L  363 (437)
T 1n11_A          320 HYGNIKLVKFLLQHQADVNAKTKLGYSPLHQAAQQGHTDIVTLL  363 (437)
T ss_dssp             HSSCSHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHH
T ss_pred             HcCcHHHHHHHHhcCCCCCCCCCCCCCHHHHHHHCChHHHHHHH
Confidence            356778888887753   33446788999999999988888877

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=100.00  E-value=4.5e-34  Score=323.30  Aligned_cols=273  Identities=38%  Similarity=0.671  Sum_probs=233.4

Q ss_pred             ccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccc
Q psy1308         258 RKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSE  336 (607)
Q Consensus       258 ~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~  336 (607)
                      ....+...+...++||+.+++.+...+.+...+...+.+|. +++|+||+|||||.+|+.+++.++.. ..+|++++|+.
T Consensus       481 ~l~~l~~~l~~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~-~~~~i~i~~s~  559 (758)
T 3pxi_A          481 KLLNMENILHSRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGD-EESMIRIDMSE  559 (758)
T ss_dssp             CC-CHHHHHHTTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSC-TTCEEEEEGGG
T ss_pred             HHHHHHHHHhCcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC-CcceEEEechh
Confidence            44567778888899999999999999999998888889998 89999999999999999999999775 77899999999


Q ss_pred             ccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEE
Q psy1308         337 YQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVM  416 (607)
Q Consensus       337 ~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~  416 (607)
                      +.+.+...              ++.+++.++..+++|||||||+++++++++.|++++++|.+++.+|+++++.+++||+
T Consensus       560 ~~~~~~~~--------------~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~  625 (758)
T 3pxi_A          560 YMEKHSTS--------------GGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIM  625 (758)
T ss_dssp             GCSSCCCC-----------------CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEE
T ss_pred             cccccccc--------------cchhhHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEE
Confidence            97754432              4567888999999999999999999999999999999999999999999999999999


Q ss_pred             ecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHH
Q psy1308         417 TSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKS  496 (607)
Q Consensus       417 tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~  496 (607)
                      |||.+...                                       .......+.+.|+ |+|++||+.++.|.|++.+
T Consensus       626 ttn~~~~~---------------------------------------~~~~~~~~~~~f~-p~l~~Rl~~~i~~~~l~~~  665 (758)
T 3pxi_A          626 TSNVGASE---------------------------------------KDKVMGELKRAFR-PEFINRIDEIIVFHSLEKK  665 (758)
T ss_dssp             EESSSTTC---------------------------------------CHHHHHHHHHHSC-HHHHTTSSEEEECC--CHH
T ss_pred             eCCCChhh---------------------------------------HHHHHHHHHhhCC-HHHHhhCCeEEecCCCCHH
Confidence            99976542                                       0112334566787 9999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEEEEE
Q psy1308         497 ELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYV  575 (607)
Q Consensus       497 ~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~~  575 (607)
                      ++..|+..++..+.+++... ++.+.++++++++|++ +|+|++|+|+|+++|++.+.+++++.++.+.++.|++++|++
T Consensus       666 ~~~~i~~~~l~~~~~~~~~~-~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~i~~~v~~~l~~~~l~~~~~~~~~~~~~~  744 (758)
T 3pxi_A          666 HLTEIVSLMSDQLTKRLKEQ-DLSIELTDAAKAKVAEEGVDLEYGARPLRRAIQKHVEDRLSEELLRGNIHKGQHIVLDV  744 (758)
T ss_dssp             HHHHHHHHHHHHHHHHHHTT-TCEEEECHHHHHHHHGGGCCTTTTTTTHHHHHHHHTHHHHHHHHHTTCSCSSSEEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHhC-CCeEEECHHHHHHHHHhCCCCCCCChHHHHHHHHHHHHHHHHHHHcCCCCCCCEEEEEE
Confidence            99999999999999988765 8899999999999986 899999999999999999999999999999999999999999


Q ss_pred             ecCCcccccCC
Q psy1308         576 QWSKEVSEDSA  586 (607)
Q Consensus       576 ~~~~~~~~~~~  586 (607)
                      ++++..+....
T Consensus       745 ~~~~~~~~~~~  755 (758)
T 3pxi_A          745 EDGEFVVKTTA  755 (758)
T ss_dssp             SSSSEEEEECC
T ss_pred             ECCEEEEEEec
Confidence            98876655443

>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT signaling, POL ribosylation, transferase-signaling protein complex; 2.00A {Mus musculus}

Probab=100.00  E-value=1.5e-34  Score=297.72  Aligned_cols=222  Identities=20%  Similarity=0.182  Sum_probs=189.7

Q ss_pred             hhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCH
Q psy1308           9 RQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDL   88 (607)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t   88 (607)
                      .+.+..++..+....+..+..|+||||+||..|+.+++++|++.+..                       ++..+..|.|
T Consensus        37 ~~~v~~ll~~~~~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~g~~-----------------------~~~~~~~g~t   93 (351)
T 3utm_A           37 EEKLMALLTPLNVNCHASDGRKSTPLHLAAGYNRVRIVQLLLQHGAD-----------------------VHAKDKGGLV   93 (351)
T ss_dssp             HHHHHHHCCTTTTTCCCSSTTCCCHHHHHHHTTCHHHHHHHHHTTCC-----------------------TTCCCTTCCC
T ss_pred             HHHHHHHHHhcCCCcccCCCCCCCHHHHHHHcCCHHHHHHHHHcCCC-----------------------CCccCCCCCc
Confidence            33444555555555556677777777777777777777777766543                       3466789999


Q ss_pred             HHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC------------------
Q psy1308          89 TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD------------------  150 (607)
Q Consensus        89 ~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d------------------  150 (607)
                      |||+|+..|+.+++++|++++ ++++.+|..|+||||+|+..|+.+++++|+++|++++..+                  
T Consensus        94 ~L~~A~~~g~~~iv~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~~~l~~a~~~~~~~~  172 (351)
T 3utm_A           94 PLHNACSYGHYEVTELLLKHG-ACVNAMDLWQFTPLHEAASKNRVEVCSLLLSHGADPTLVNCHGKSAVDMAPTPELRER  172 (351)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTT-CCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHCSSHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHCC-CCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCccccCCCCcchHHHhhhhhHHH
Confidence            999999999999999999998 9999999999999999999999999999999999987643                  


Q ss_pred             --------------------------------------CCchHHHHHHcC---CccHHHHHHhcCCCccccCCCCcCcCC
Q psy1308         151 --------------------------------------LFNTVHRTAAEK---KMNPFEVLLKREDEFNDVLNPNMTFLG  189 (607)
Q Consensus       151 --------------------------------------~~~~l~~A~~~~---~~~~~~~Ll~~g~~~~~~~~~~~d~~g  189 (607)
                                                            ++||||+|+..+   ..+++++|+++|++++..+.     .|
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~t~L~~A~~~~~~~~~~~~~~Ll~~g~~~~~~~~-----~g  247 (351)
T 3utm_A          173 LTYEFKGHSLLQAAREADLAKVKKTLALEIINFKQPQSHETALHCAVASLHPKRKQVAELLLRKGANVNEKNK-----DF  247 (351)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHTTTCCTTCCCTTTCCCHHHHHHHCCSTTHHHHHHHHHHTTCCTTCCCT-----TC
T ss_pred             HHhhhcccHHHHHHHhccHHHHHHHHHhhcccccCCCCCCCHHHHHHHHhCccHHHHHHHHHHcCCCcCCcCC-----CC
Confidence                                                  357999999994   47899999999999987744     49


Q ss_pred             cchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccH
Q psy1308         190 FSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPL  262 (607)
Q Consensus       190 ~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L  262 (607)
                      +||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|++.|++...   .+..+.+++
T Consensus       248 ~t~L~~A~~~g~~~~v~~Ll~~ga~~n~~d~~g~t~L~~A~~~~~~~~v~~Ll~~gad~~~---~~~~g~tal  317 (351)
T 3utm_A          248 MTPLHVAAERAHNDVMEVLHKHGAKMNALDSLGQTALHRAALAGHLQTCRLLLSYGSDPSI---ISLQGFTAA  317 (351)
T ss_dssp             CCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTC---CCTTSCCHH
T ss_pred             CCHHHHHHHcCCHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHcCcHHHHHHHHHcCCCCCC---cCCCCCChh
Confidence            9999999999999999999999999999999999999999999999999999999998763   466788888

>1yyh_A HN1;, notch 1, ankyrin domain; ankyrin repeats, cell cycle,transcription; 1.90A {Homo sapiens} PDB: 2he0_A 2f8x_K 3nbn_B 3v79_K* 1ot8_A

Probab=100.00  E-value=9.5e-35  Score=285.73  Aligned_cols=212  Identities=18%  Similarity=0.136  Sum_probs=178.6

Q ss_pred             hhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCC
Q psy1308           8 RRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKD   87 (607)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~   87 (607)
                      ..+++..++.......+..+..|.||||+||..|+.+++++|++.+...                       +..+..|.
T Consensus        35 ~~~~v~~Ll~~g~~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~-----------------------~~~~~~g~   91 (253)
T 1yyh_A           35 APAVISDFIYQGASLHNQTDRTGETALHLAARYSRSDAAKRLLEASADA-----------------------NIQDNMGR   91 (253)
T ss_dssp             -----------------CCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCT-----------------------TCCCTTSC
T ss_pred             ChHHHHHHHHccCCcccccCCCCCcHHHHHHHcCCHHHHHHHHHcCCCC-----------------------CCCCCCCC
Confidence            3455555665555444455789999999999999999999999876543                       35678899


Q ss_pred             HHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCcc
Q psy1308          88 LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMN  165 (607)
Q Consensus        88 t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~  165 (607)
                      ||||+|+..|+.+++++|++++..+++.++..|.||||+|+..|+.+++++|+++|++++..|.  +||||+|+..|+.+
T Consensus        92 t~L~~A~~~~~~~~v~~Ll~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~d~~g~t~L~~A~~~~~~~  171 (253)
T 1yyh_A           92 TPLHAAVSADAQGVFQILIRNRATDLDARMHDGTTPLILAARLAVEGMLEDLINSHADVNAVDDLGKSALHWAAAVNNVD  171 (253)
T ss_dssp             CHHHHHHHHTCHHHHHHHHHSTTSCTTCCCTTCCCHHHHHHHHTCSSHHHHHHHTTCCTTCBCTTSCBHHHHHHHHTCHH
T ss_pred             CHHHHHHHcCCHHHHHHHHHcCCCCccccCCCCCcHHHHHHHcChHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHcCCHH
Confidence            9999999999999999999999569999999999999999999999999999999999998774  67999999999999


Q ss_pred             HHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhh
Q psy1308         166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKY  245 (607)
Q Consensus       166 ~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~  245 (607)
                      ++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|+||+|+|+..|+.+++++|....
T Consensus       172 ~v~~Ll~~ga~~~~~~~-----~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~~~d~~g~tpl~~A~~~g~~~i~~~l~~~~  246 (253)
T 1yyh_A          172 AAVVLLKNGANKDMQNN-----REETPLFLAAREGSYETAKVLLDHFANRDITDHMDRLPRDIAQERMHHDIVRLLDLEH  246 (253)
T ss_dssp             HHHHHHHTTCCTTCCCT-----TSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHC--
T ss_pred             HHHHHHHcCCCCCCcCC-----CCCCHHHHHHHCCCHHHHHHHHHcCCCccccccCCCCHHHHHHHcCCHHHHHHHHHHh
Confidence            99999999999987744     4999999999999999999999999999999999999999999999999999998765


Q ss_pred             hh
Q psy1308         246 AD  247 (607)
Q Consensus       246 ~~  247 (607)
                      ..
T Consensus       247 ~~  248 (253)
T 1yyh_A          247 HH  248 (253)
T ss_dssp             --
T ss_pred             hh
Confidence            44

>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A 1ymp_A

Probab=100.00  E-value=1.5e-34  Score=278.33  Aligned_cols=210  Identities=19%  Similarity=0.134  Sum_probs=188.1

Q ss_pred             HHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHH
Q psy1308          12 VLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLF   91 (607)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh   91 (607)
                      +..++.+........+..|.||||+||..|+.+++++|++.+...                       +..+..|.||||
T Consensus         7 i~~Ll~~g~~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~-----------------------~~~~~~g~t~L~   63 (223)
T 2f8y_A            7 ISDFIYQGASLHNQTDRTGETALHLAARYSRSDAAKRLLEASADA-----------------------NIQDNMGRTPLH   63 (223)
T ss_dssp             EETTEETTCCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCCT-----------------------TCCCTTSCCHHH
T ss_pred             HHHHHHcCCCcccccCCCCCchHHHHHHcCCHHHHHHHHHcCCCC-----------------------CCcCCCCCCHHH
Confidence            334444444444445788999999999999999999999876443                       356788999999


Q ss_pred             HHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHH
Q psy1308          92 RAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEV  169 (607)
Q Consensus        92 ~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~  169 (607)
                      +|+..|+.+++++|++.+..+++.++..|.||||+|+..|+.+++++|+++|++++..|.  +||||+|+..|+.+++++
T Consensus        64 ~A~~~~~~~~v~~Ll~~~~~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~  143 (223)
T 2f8y_A           64 AAVSADAQGVFQILIRNRATDLDARMHDGTTPLILAARLAVEGMLEDLINSHADVNAVDDLGKSALHWAAAVNNVDAAVV  143 (223)
T ss_dssp             HHHHTTCHHHHHHHHHBTTSCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCTTCBCTTSCBHHHHHHHTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHcCCCCcccCCCCCCcHHHHHHHhCcHHHHHHHHHcCCCCcCcCCCCCcHHHHHHHcCCHHHHHH
Confidence            999999999999999999669999999999999999999999999999999999998764  679999999999999999


Q ss_pred             HHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHH
Q psy1308         170 LLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       170 Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      |+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|+||+|+|+..++.+++++|++.|+...
T Consensus       144 Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~t~l~~A~~~~~~~i~~~L~~~g~~~~  218 (223)
T 2f8y_A          144 LLKNGANKDMQNN-----REETPLFLAAREGSYETAKVLLDHFANRDITDHMDRLPRDIAQERMHHDIVRLLDEYNLVRS  218 (223)
T ss_dssp             HHHTTCCTTCCCT-----TCCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCSSC
T ss_pred             HHHcCCCCCCcCC-----CCcCHHHHHHHcCCHHHHHHHHHcCCCCccccccCCCHHHHHHHhcchHHHHHHHHcCCCcc
Confidence            9999999987744     49999999999999999999999999999999999999999999999999999999987643

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=100.00  E-value=4.9e-34  Score=284.82  Aligned_cols=238  Identities=21%  Similarity=0.181  Sum_probs=178.1

Q ss_pred             hchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHcc----------C
Q psy1308           6 VQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACS----------L   75 (607)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~----------~   75 (607)
                      ...-+++..+++.........+..|.||||+|+..|+.+++++|++.+......+..+.++++.|...+          .
T Consensus        15 ~g~~~~v~~Ll~~g~~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~   94 (285)
T 1wdy_A           15 NEDVDLVQQLLEGGANVNFQEEEGGWTPLHNAVQMSREDIVELLLRHGADPVLRKKNGATPFLLAAIAGSVKLLKLFLSK   94 (285)
T ss_dssp             TTCHHHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHcCCCcccccCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCcccCCCCCCHHHHHHHcCCHHHHHHHHHc
Confidence            344556666666554433333677889999999999999999999888777777777778887775333          3


Q ss_pred             ccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccC----------CCCCCcHHHHHHHcCCHHHHHHHHHc-CC
Q psy1308          76 ALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMR----------HPLGWTPLHVAAINGKVDNVRVLLEA-GA  144 (607)
Q Consensus        76 ~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~----------d~~g~tpLh~A~~~g~~~~v~~Ll~~-ga  144 (607)
                      +..++..+..|.||||+|+..|+.+++++|++.+ ++++.+          +..|.||||+|+..|+.+++++|+++ |+
T Consensus        95 g~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g-~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~~~~  173 (285)
T 1wdy_A           95 GADVNECDFYGFTAFMEAAVYGKVKALKFLYKRG-ANVNLRRKTKEDQERLRKGGATALMDAAEKGHVEVLKILLDEMGA  173 (285)
T ss_dssp             TCCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTT-CCTTCCCCCCHHHHHTTCCCCCHHHHHHHHTCHHHHHHHHHTSCC
T ss_pred             CCCCCccCcccCCHHHHHHHhCCHHHHHHHHHhC-CCcccccccHHHHHhhccCCCcHHHHHHHcCCHHHHHHHHHhcCC
Confidence            3344566777888888888888888888888877 777766          66778888888888888888888876 78


Q ss_pred             CCCCCCC--CchHHHHHHcCC----ccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHh-cCCCCCc
Q psy1308         145 NPNLGDL--FNTVHRTAAEKK----MNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLK-SGADPTV  217 (607)
Q Consensus       145 ~~~~~d~--~~~l~~A~~~~~----~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~-~gad~~~  217 (607)
                      +++..|.  +||||+|+..++    .+++++|+++|++++..+.     .|+||||+|+..|+.+++++|++ .|++++.
T Consensus       174 ~~~~~~~~g~t~l~~a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~~g~~~~~  248 (285)
T 1wdy_A          174 DVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGADVNVRGE-----RGKTPLILAVEKKHLGLVQRLLEQEHIEIND  248 (285)
T ss_dssp             CTTCCCTTSCCHHHHHHHCSCTTTHHHHHHHHHHTTCCSSCCCT-----TSCCHHHHHHHTTCHHHHHHHHHSSSCCTTC
T ss_pred             CCCccCCCCCCHHHHHHHccccchHHHHHHHHHHcCCCCCCcCC-----CCCcHHHHHHHcCCHHHHHHHHhccCCCccc
Confidence            7777654  558888888777    6777888888887776543     37888888888888888888887 6788888


Q ss_pred             cCCCCCCCCcchhhhhHHHHHHHHHHhhhhHH
Q psy1308         218 KDNSGHIPSDYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       218 ~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      +|..|+||||+|+..++.+++++|+++|++..
T Consensus       249 ~~~~g~t~l~~A~~~~~~~i~~~Ll~~Ga~~~  280 (285)
T 1wdy_A          249 TDSDGKTALLLAVELKLKKIAELLCKRGASTD  280 (285)
T ss_dssp             CCTTSCCHHHHHHHTTCHHHHHHHHHHSSCSC
T ss_pred             cCCCCCcHHHHHHHcCcHHHHHHHHHcCCCCC
Confidence            88888888888888888888888888777654

>3b7b_A Euchromatic histone-lysine N-methyltransferase 1; ankyrin repeat, alternative splicing, ANK repeat, chromatin regulator, nucleus, phosphorylation; 2.99A {Homo sapiens} SCOP: k.37.1.1 PDB: 3b95_A*

Probab=100.00  E-value=5.9e-34  Score=276.85  Aligned_cols=226  Identities=20%  Similarity=0.226  Sum_probs=157.1

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHH
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELK  103 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~  103 (607)
                      +..+..|.||||+||..|+.+++++|+..+....                       ..+..|.||||+|+..|+.++++
T Consensus         5 ~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~-----------------------~~~~~g~t~L~~A~~~~~~~~v~   61 (237)
T 3b7b_A            5 KMEHQNKRSPLHAAAEAGHVDICHMLVQAGANID-----------------------TCSEDQRTPLMEAAENNHLEAVK   61 (237)
T ss_dssp             CCSSCCSCCHHHHHHHHTCHHHHHHHHHTTCCTT-----------------------CCCTTCCCHHHHHHHTTCHHHHH
T ss_pred             ccccCCCCCHHHHHHHcCcHHHHHHHHHcCCCcC-----------------------ccCCCCCCHHHHHHHhCCHHHHH
Confidence            4567789999999999999999999998875544                       34556777777777777777777


Q ss_pred             HHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcC-CCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCcccc
Q psy1308         104 TFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG-ANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDV  180 (607)
Q Consensus       104 ~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~g-a~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~  180 (607)
                      +|++.+ ++++.++..|.||||+|+..|+.+++++|+++| ++++..+.  +||||+|+..++.+++++|+++|++++..
T Consensus        62 ~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~~~~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~  140 (237)
T 3b7b_A           62 YLIKAG-ALVDPKDAEGSTCLHLAAKKGHYEVVQYLLSNGQMDVNCQDDGGWTPMIWATEYKHVDLVKLLLSKGSDINIR  140 (237)
T ss_dssp             HHHTTT-CCCCCCCTTSCCHHHHHHHTTCHHHHHHHHTTTCCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCC
T ss_pred             HHHhCC-CCCCCCCCCCCcHHHHHHHcCCHHHHHHHHhCCCCCcccCCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCcc
Confidence            777766 677777777777777777777777777777776 56665543  45777777777777777777777766655


Q ss_pred             CCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccc
Q psy1308         181 LNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKY  260 (607)
Q Consensus       181 ~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~  260 (607)
                      +.     .|.||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|+++|++...   .+..+.+
T Consensus       141 ~~-----~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~gad~~~---~d~~g~t  212 (237)
T 3b7b_A          141 DN-----EENICLHWAAFSGCVDIAEILLAAKCDLHAVNIHGDSPLHIAARENRYDCVVLFLSRDSDVTL---KNKEGET  212 (237)
T ss_dssp             CT-----TSCCHHHHHHHHCCHHHHHHHHTTTCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHTTTCCTTC---CCTTSCC
T ss_pred             CC-----CCCCHHHHHHHCCCHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHhCCHhHHHHHHHcCCCCCc---cCCCCCC
Confidence            33     377777777777777777777777777777777777777777777777777777777766542   3456666


Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHH
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAI  284 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i  284 (607)
                      |++.+..   .++...+..+.+.+
T Consensus       213 ~l~~A~~---~~~~~~~~~l~~~l  233 (237)
T 3b7b_A          213 PLQCASL---NSQVWSALQMSKAL  233 (237)
T ss_dssp             HHHHSCT---TCHHHHHHHHHHHH
T ss_pred             HHHHHHH---HHHHHHHHHHHHHh
Confidence            6654432   24444444444443

>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural genomics of pathogenic protozoa consortium, SGPP, ANK repeat; 2.90A {Leishmania major}

Probab=100.00  E-value=6.6e-35  Score=302.82  Aligned_cols=227  Identities=15%  Similarity=0.130  Sum_probs=198.2

Q ss_pred             CCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccch--------hccCCCCCHHHHHHH
Q psy1308          23 KPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTL--------LECQSIKDLTLFRAA   94 (607)
Q Consensus        23 ~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~--------~~~~~~g~t~Lh~A~   94 (607)
                      .+..+..|.||||+||..|+.+++++|+..+......+..+.+++++|+..++...+        ...+..|.||||+|+
T Consensus        13 ~~~~d~~g~t~L~~Aa~~g~~~~v~~Ll~~g~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~~g~t~L~~A~   92 (364)
T 3ljn_A           13 RIKSDDENMEKIHVAARKGQTDEVRRLIETGVSPTIQNRFGCTALHLACKFGCVDTAKYLASVGEVHSLWHGQKPIHLAV   92 (364)
T ss_dssp             ---CCHHHHHHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHHCCHHHHHHHHHHCCCCCCBTTBCHHHHHH
T ss_pred             ccccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCccccCCCCCcHHHHHHHcCCHHHHHHHHHCCCCccccCCCCHHHHHH
Confidence            345678899999999999999999999999988888889999999999876654432        223348999999999


Q ss_pred             HcCCHHHHHHHHhc----CCCCCcc-----------------CCCCCCcHHHHHHHcC--CHHHHHHHHHcCCCCCCCCC
Q psy1308          95 RYGSAKELKTFIEN----SKLDVNM-----------------RHPLGWTPLHVAAING--KVDNVRVLLEAGANPNLGDL  151 (607)
Q Consensus        95 ~~g~~~~v~~Ll~~----~~~~~~~-----------------~d~~g~tpLh~A~~~g--~~~~v~~Ll~~ga~~~~~d~  151 (607)
                      ..|+.++|++|++.    + .+++.                 +|..|.||||+|+..|  +.++|++|+++|++++..|.
T Consensus        93 ~~g~~~~v~~Ll~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~~~v~~Ll~~ga~~~~~d~  171 (364)
T 3ljn_A           93 MANKTDLVVALVEGAKERG-QMPESLLNECDEREVNEIGSHVKHCKGQTALHWCVGLGPEYLEMIKILVQLGASPTAKDK  171 (364)
T ss_dssp             HTTCHHHHHHHHHHHHHHT-CCHHHHHTCCCCCCEEEETTEEEEESCCCHHHHHHHSCGGGHHHHHHHHHHTCCTTCCCT
T ss_pred             HcCCHHHHHHHHHhccccC-CCHHHHHhhcchHhhhhhccccCCCCCCCHHHHHHHcCCchHHHHHHHHHcCCCCcccCC
Confidence            99999999999998    6 77776                 8889999999999999  99999999999999999775


Q ss_pred             --CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcch
Q psy1308         152 --FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYA  229 (607)
Q Consensus       152 --~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A  229 (607)
                        +||||+|+..|+.+++++|+++|++....+-+..|..|+||||+|+..|+.++|++|+++|+|++.+|..|+||||+|
T Consensus       172 ~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~gad~~~~d~~g~tpL~~A  251 (364)
T 3ljn_A          172 ADETPLMRAMEFRNREALDLMMDTVPSKSSLRLDYANKQGNSHLHWAILINWEDVAMRFVEMGIDVNMEDNEHTVPLYLS  251 (364)
T ss_dssp             TSCCHHHHHHHTTCHHHHHHHHHHCSCSSSCCTTCCCTTCCCTTHHHHTTTCHHHHHHHHTTTCCTTCCCTTSCCHHHHH
T ss_pred             CCCCHHHHHHHcCCHHHHHHHHhcccccccccccccCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCHHHHH
Confidence              679999999999999999999999822222223355599999999999999999999999999999999999999999


Q ss_pred             hhhhHHHHHHHHHHhhhhHHh
Q psy1308         230 EDANIKQILQKYAEKYADLQR  250 (607)
Q Consensus       230 ~~~~~~~~~~~ll~~~~~~~~  250 (607)
                      +..|+.+++++|++++++...
T Consensus       252 ~~~g~~~~v~~Ll~~~~~~~~  272 (364)
T 3ljn_A          252 VRAAMVLLTKELLQKTDVFLI  272 (364)
T ss_dssp             HHTCCHHHHHHHHHHSCHHHH
T ss_pred             HHhChHHHHHHHHHcCCchhh
Confidence            999999999999999887653

>3aji_A 26S proteasome non-ATPase regulatory subunit 10; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dvw_A 2dwz_A* 1tr4_A 1uoh_A 1qym_A

Probab=100.00  E-value=8.5e-34  Score=274.60  Aligned_cols=207  Identities=21%  Similarity=0.236  Sum_probs=188.5

Q ss_pred             CcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHH
Q psy1308          27 RGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFI  106 (607)
Q Consensus        27 ~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll  106 (607)
                      ++.++||||+|+..|+.+.+++|+.....                      ..+..+..|.||||+|+..|+.+++++|+
T Consensus         3 ~~~~~~~l~~A~~~g~~~~v~~ll~~~~~----------------------~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll   60 (231)
T 3aji_A            3 GCVSNIMICNLAYSGKLDELKERILADKS----------------------LATRTDQDSRTALHWACSAGHTEIVEFLL   60 (231)
T ss_dssp             CCCSSSHHHHHHHHTCHHHHHHHHHHCGG----------------------GGGCCCTTSCCHHHHHHHHTCHHHHHHHH
T ss_pred             CccccchHHHHHHhCCHHHHHHHHHhchh----------------------hhhcCCCCCCCHHHHHHHcCcHHHHHHHH
Confidence            45689999999999999999999865321                      12467889999999999999999999999


Q ss_pred             hcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCC
Q psy1308         107 ENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPN  184 (607)
Q Consensus       107 ~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~  184 (607)
                      +.+ ++++.+|..|+||||+|+..|+.+++++|+++|++++..+.  +||||+|+..++.+++++|+++|++++..+.  
T Consensus        61 ~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~--  137 (231)
T 3aji_A           61 QLG-VPVNDKDDAGWSPLHIAASAGXDEIVKALLVKGAHVNAVNQNGCTPLHYAASKNRHEIAVMLLEGGANPDAKDH--  137 (231)
T ss_dssp             HTT-CCSCCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCT--
T ss_pred             HhC-CCCCCcCCCCCCHHHHHHHcCHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCC--
Confidence            998 99999999999999999999999999999999999998765  6799999999999999999999999887644  


Q ss_pred             cCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHH
Q psy1308         185 MTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQ  264 (607)
Q Consensus       185 ~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~  264 (607)
                         .|.||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|++.|++..   ..+..+.+|+..
T Consensus       138 ---~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~---~~~~~g~t~l~~  211 (231)
T 3aji_A          138 ---YDATAMHRAAAKGNLKMVHILLFYKASTNIQDTEGNTPLHLACDEERVEEAKFLVTQGASIY---IENKEEKTPLQV  211 (231)
T ss_dssp             ---TSCCHHHHHHHHTCHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCSC---CCCTTSCCHHHH
T ss_pred             ---CCCcHHHHHHHcCCHHHHHHHHhcCCCccccCCCCCCHHHHHHHCCCHHHHHHHHHCCCCCC---CCCCCCCCHHHH
Confidence               49999999999999999999999999999999999999999999999999999999999875   346778888843

>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A 1ixv_A 1wg0_A

Probab=100.00  E-value=3.2e-34  Score=276.96  Aligned_cols=204  Identities=14%  Similarity=0.138  Sum_probs=170.6

Q ss_pred             CCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhc
Q psy1308          29 FQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIEN  108 (607)
Q Consensus        29 ~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~  108 (607)
                      .|+||||+||..|+.+++++|+..+....                      ...+..|.||||+|+..|+.+++++|++.
T Consensus         1 ~g~t~L~~A~~~g~~~~v~~Ll~~~~~~~----------------------~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~   58 (228)
T 2dzn_A            1 MSNYPLHQACMENEFFKVQELLHSKPSLL----------------------LQKDQDGRIPLHWSVSFQAHEITSFLLSK   58 (228)
T ss_dssp             --CCHHHHHHHTTCHHHHHHHHHHCGGGT----------------------TCCCTTSCCHHHHHHHTTCHHHHHHHHHT
T ss_pred             CCccHHHHHHHhCCHHHHHHHHhcCcccc----------------------ccCCCCCCCHHHHHHHcCCHHHHHHHHhc
Confidence            47899999999999999999987653322                      24678889999999999999999999998


Q ss_pred             C-CCCCcc-CCCCCCcHHHHHHHcCCHHHHHHHHHcC--CCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCC
Q psy1308         109 S-KLDVNM-RHPLGWTPLHVAAINGKVDNVRVLLEAG--ANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLN  182 (607)
Q Consensus       109 ~-~~~~~~-~d~~g~tpLh~A~~~g~~~~v~~Ll~~g--a~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~  182 (607)
                      + ..+++. ++..|+||||+|+..|+.+++++|+++|  ++++..+.  +||||+|+..++.+++++|+++|++++..+.
T Consensus        59 ~~~~~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~  138 (228)
T 2dzn_A           59 MENVNLDDYPDDSGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQGVTCLHLAVGKKWFEVSQFLIENGASVRIKDK  138 (228)
T ss_dssp             CTTCCGGGCCCTTSCCHHHHHHHHCCHHHHHHHHSSSSCCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCSCCCCT
T ss_pred             cccccccccCCCCCCCHHHHHHHcCCHHHHHHHHhCCCCcccccCCcCCCCHHHHHHHcCCHhHHHHHHHcCCCccccCC
Confidence            7 234444 7788999999999999999999999988  77777654  6699999999999999999999998887644


Q ss_pred             CCcCcCCcchhhHHHhcCCHHHHHHHHhcC-CCCCccCCCCCCCCcchhhhhHHHHHHHHH-HhhhhHHhhHHHhhcccc
Q psy1308         183 PNMTFLGFSALHYGVVAGNTEVVELLLKSG-ADPTVKDNSGHIPSDYAEDANIKQILQKYA-EKYADLQREKEAEERRKY  260 (607)
Q Consensus       183 ~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~g-ad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll-~~~~~~~~~~~~~~~~~~  260 (607)
                           .|+||||+|+..|+.+++++|+++| ++++.+|..|+||||+|+..++.+++++|+ +.|++...   .+..+.+
T Consensus       139 -----~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~d~~g~t~L~~A~~~~~~~~v~~Ll~~~ga~~~~---~~~~g~t  210 (228)
T 2dzn_A          139 -----FNQIPLHRAASVGSLKLIELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVLLVEKYGAEYDL---VDNKGAK  210 (228)
T ss_dssp             -----TSCCHHHHHHHTTCHHHHHHHHTTTCCCSCCCCTTSCCHHHHHHHTTCHHHHHHHHHHHCCCSCC---BCTTSCB
T ss_pred             -----CCCCHHHHHHHcCCHHHHHHHHhcCcccccCcCCCCCCHHHHHHHcCCHHHHHHHHHhcCCCCCc---cCCCCCc
Confidence                 4899999999999999999999998 999999999999999999999999999999 77887653   4567788


Q ss_pred             cH
Q psy1308         261 PL  262 (607)
Q Consensus       261 ~L  262 (607)
                      ++
T Consensus       211 ~l  212 (228)
T 2dzn_A          211 AE  212 (228)
T ss_dssp             GG
T ss_pred             HH
Confidence            88

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens}

Probab=100.00  E-value=1.8e-33  Score=281.63  Aligned_cols=211  Identities=18%  Similarity=0.082  Sum_probs=118.3

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHcc----------CccchhccCCCCCHHHHHH
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACS----------LALTLLECQSIKDLTLFRA   93 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~----------~~~~~~~~~~~g~t~Lh~A   93 (607)
                      +..+..|.||||+||..|+.+++++|+..+......+..+.+++++|+..+          .+..++..+..|.||||+|
T Consensus        53 ~~~~~~g~t~L~~Aa~~g~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~~~~~~~g~t~L~~A  132 (285)
T 3d9h_A           53 MGDAVSDWSPMHEAAIHGHQLSLRNLISQGWAVNIITADHVSPLHEACLGGHLSCVKILLKHGAQVNGVTADWHTPLFNA  132 (285)
T ss_dssp             CSSSCCSCCHHHHHHHTTCHHHHHHHHHTTCCSCEECTTCCCHHHHHHHTTCHHHHHHHHHTTCCSSCCCTTCCCHHHHH
T ss_pred             cCCCccCCCHHHHHHHcCCHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHCCcHHHHHHHHHCCCCCCCCCCCCCCHHHHH
Confidence            456888999999999999999999999987666555555555555553222          1222334445555555555


Q ss_pred             HHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHH
Q psy1308          94 ARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLL  171 (607)
Q Consensus        94 ~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll  171 (607)
                      +..|+.+++++|++.+ ++++..+ .|.||||+|+..|+.+++++|+++|++++..|.  +||||+|+..|+.+++++|+
T Consensus       133 ~~~~~~~~v~~Ll~~g-~~~~~~~-~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~d~~g~t~L~~A~~~~~~~~v~~Ll  210 (285)
T 3d9h_A          133 CVSGSWDCVNLLLQHG-ASVQPES-DLASPIHEAARRGHVECVNSLIAYGGNIDHKISHLGTPLYLACENQQRACVKKLL  210 (285)
T ss_dssp             HHHTCHHHHHHHHHTT-CCSSCSC-TTSCHHHHHHHHTCHHHHHHHHHTTCCTTCCBTTTBCHHHHHHHTTCHHHHHHHH
T ss_pred             HHcCHHHHHHHHHHCC-CCCCCCC-CCCCHHHHHHHcCCHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHcCcHHHHHHHH
Confidence            5555555555555554 4444332 255555555555555555555555555554433  33555555555555555555


Q ss_pred             hcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHh
Q psy1308         172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEK  244 (607)
Q Consensus       172 ~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~  244 (607)
                      ++|++++.      |..|+||||+|+..|+.+++++|+++|+|++.+|.+|+||||+|+.  +.+++++|+++
T Consensus       211 ~~ga~~~~------~~~g~t~L~~A~~~~~~~~v~~Ll~~gad~~~~d~~g~t~l~~A~~--~~~~~~~Ll~~  275 (285)
T 3d9h_A          211 ESGADVNQ------GKGQDSPLHAVVRTASEELACLLMDFGADTQAKNAEGKRPVELVPP--ESPLAQLFLER  275 (285)
T ss_dssp             HTTCCTTC------CBTTBCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCGGGGSCT--TSHHHHHHHHH
T ss_pred             HCCCCCCC------CCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCCcCCCCCCHHHHhcC--ccHHHHHHHHh
Confidence            55555441      2225555555555555555555555555555555555555555552  23445555544

>4g8k_A 2-5A-dependent ribonuclease; ankyrin-repeat domain, single-stranded RNA, hydrolase; 2.40A {Homo sapiens} PDB: 4g8l_A*

Probab=100.00  E-value=4e-33  Score=286.19  Aligned_cols=239  Identities=21%  Similarity=0.194  Sum_probs=203.2

Q ss_pred             hhhchhhhHHHHHhhcccCCCCCC-cCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHc---------
Q psy1308           4 ILVQRRQLVLCILSNYFKQKPYKR-GFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASAC---------   73 (607)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~-~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~---------   73 (607)
                      +.....+++..|++. ....+..+ ..|.||||+||..|+.+++++|++.+......+..+.++++.+...         
T Consensus        33 v~~g~~~~V~~LL~~-Gadvn~~~~~~g~TpLh~A~~~g~~~iv~~Ll~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (337)
T 4g8k_A           33 VQNEDVDLVQQLLEG-GANVNFQEEEGGWTPLHNAVQMSREDIVELLLRHGADPVLRKKNGATPFILAAIAGSVKLLKLF  111 (337)
T ss_dssp             HHTTCHHHHHHHHHH-TCCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHHTCHHHHHHH
T ss_pred             HHcCCHHHHHHHHHC-CCCCCccCCCCCcCHHHHHHHcCCHHHHHHHHHcCCchhhhccCCCchhHHHHhcccchhhHHh
Confidence            334455666777765 34445444 4599999999999999999999999998888888888888777433         


Q ss_pred             -cCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccC----------CCCCCcHHHHHHHcCCHHHHHHHHH-
Q psy1308          74 -SLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMR----------HPLGWTPLHVAAINGKVDNVRVLLE-  141 (607)
Q Consensus        74 -~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~----------d~~g~tpLh~A~~~g~~~~v~~Ll~-  141 (607)
                       .....++..|..|.||||+|+..|+.+++++|+++| ++++..          +..|.||||+|+..|+.++|++|++ 
T Consensus       112 ~~~~~~~~~~d~~g~t~l~~A~~~~~~~~~~~ll~~g-a~~~~~~~~~~~~~~~~~~g~T~L~~A~~~g~~~~v~~LL~~  190 (337)
T 4g8k_A          112 LSKGADVNECDFYGFTAFMEAAVYGKVKALKFLYKRG-ANVNLRRKTKEDQERLRKGGATALMDAAEKGHVEVLKILLDE  190 (337)
T ss_dssp             HTTTCCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTT-CCTTCCCCCC-----CTTCSCCHHHHHHHHTCHHHHHHHHHH
T ss_pred             hhccchhhhhccCCCCHHHHHHHcCcHHHHHHHHHcC-CCcchhhccccccccccCCCCcHHHHHHHCCCHHHHHHHHhc
Confidence             344456788999999999999999999999999998 887754          4468999999999999999999996 


Q ss_pred             cCCCCCCCCC--CchHHHHHHcCCc----cHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhc-CCC
Q psy1308         142 AGANPNLGDL--FNTVHRTAAEKKM----NPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKS-GAD  214 (607)
Q Consensus       142 ~ga~~~~~d~--~~~l~~A~~~~~~----~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~-gad  214 (607)
                      .|++++..|.  .+|+|+++..+..    .++++|+++|++++..+.     .|+||||+|+..|+.+++++|++. |++
T Consensus       191 ~gad~n~~d~~g~t~l~~~~~~~~~~~~~~i~~lLl~~gad~n~~d~-----~g~t~L~~a~~~~~~~~v~~Ll~~~~~~  265 (337)
T 4g8k_A          191 MGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGADVNVRGE-----RGKTPLILAVEKKHLGLVQRLLEQEHIE  265 (337)
T ss_dssp             SCCCTTCCCTTSCCHHHHHHHHSCTTTHHHHHHHHHHTTCCTTCCCG-----GGCCHHHHHHHTTCHHHHHHHHTSTTCC
T ss_pred             cCCCcCccCCCCCcHHHHHHHHcCcccHHHHHHHHHHCCCCCCCcCC-----CCCCHHHHHHHhhhhHHHHHHHHhcCCc
Confidence            5999999876  5699988876553    478999999999987744     499999999999999999999985 899


Q ss_pred             CCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHH
Q psy1308         215 PTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       215 ~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      ++.+|.+|+||||+|+..|+.+++++|+++|++..
T Consensus       266 vn~~d~~G~TpL~~A~~~g~~~iv~~Ll~~GAd~n  300 (337)
T 4g8k_A          266 INDTDSDGKTALLLAVELKLKKIAELLCKRGASTD  300 (337)
T ss_dssp             TTCBCTTSCBHHHHHHHTTCHHHHHHHHTTSCSST
T ss_pred             ccCcCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCC
Confidence            99999999999999999999999999999999864

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E

Probab=100.00  E-value=1.2e-34  Score=281.76  Aligned_cols=201  Identities=20%  Similarity=0.160  Sum_probs=176.5

Q ss_pred             CCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHH
Q psy1308          25 YKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKT  104 (607)
Q Consensus        25 ~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~  104 (607)
                      ..+..|+||||+|+..|+.+++++|+..+...                   ...++..+..|.||||+|+..|+.++|++
T Consensus         3 ~~d~~g~t~L~~A~~~g~~~~v~~Ll~~~~~~-------------------~~~~~~~~~~g~t~L~~A~~~~~~~~v~~   63 (236)
T 1ikn_D            3 QLTEDGDSFLHLAIIHEEKALTMEVIRQVKGD-------------------LAFLNFQNNLQQTPLHLAVITNQPEIAEA   63 (236)
T ss_dssp             ----CCCCTTHHHHHTTCSSSSSCCCC------------------------CCCCCCCCTTCCCHHHHHHHTTCHHHHHC
T ss_pred             cCCCCCCchhHHHHHcCChhHHHHHHHHhhcc-------------------HHHhhccCCCCCCHHHHHHHcCCHHHHHH
Confidence            45678999999999999999999998764321                   12335678899999999999999999999


Q ss_pred             HHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCC------CCC--CCCchHHHHHHcCCccHHHHHHhcCCC
Q psy1308         105 FIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP------NLG--DLFNTVHRTAAEKKMNPFEVLLKREDE  176 (607)
Q Consensus       105 Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~------~~~--d~~~~l~~A~~~~~~~~~~~Ll~~g~~  176 (607)
                      |+++| ++++.+|..|+||||+|+..|+.+++++|+++|+++      +..  +++||||+|+..|+.+++++|+++|++
T Consensus        64 Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~  142 (236)
T 1ikn_D           64 LLGAG-CDPELRDFRGNTPLHLACEQGCLASVGVLTQSCTTPHLHSILKATNYNGHTCLHLASIHGYLGIVELLVSLGAD  142 (236)
T ss_dssp             CCSCC-CCSCCCCTTCCCHHHHHHHHTCHHHHHHHHHSTTTTSSSCGGGCCCTTCCCHHHHHHHTTCHHHHHHHHHHTCC
T ss_pred             HHHcC-CCCCCcCCCCCCHHHHHHHcCCHHHHHHHHhcccchhHHHHhhccCCCCCCHHHHHHHcCCHHHHHHHHHcCCC
Confidence            99998 999999999999999999999999999999999864      333  357899999999999999999999999


Q ss_pred             ccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHH
Q psy1308         177 FNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       177 ~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      ++..+..    .|+||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|++.|++..
T Consensus       143 ~~~~~~~----~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~tpl~~A~~~~~~~~~~~Ll~~ga~~~  211 (236)
T 1ikn_D          143 VNAQEPC----NGRTALHLAVDLQNPDLVSLLLKCGADVNRVTYQGYSPYQLTWGRPSTRIQQQLGQLTLENL  211 (236)
T ss_dssp             TTCCCTT----TCCCHHHHHHHTTCHHHHHHHHTTTCCSCCCCTTCCCGGGGCTTSSCHHHHHHHHTTSCGGG
T ss_pred             CCCCCCC----CCCCHHHHHHHcCCHHHHHHHHHcCCCCCcccCCCCCHHHHHHccCchHHHHHHHHcchhhh
Confidence            9887541    39999999999999999999999999999999999999999999999999999999999765

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=100.00  E-value=3.3e-33  Score=278.82  Aligned_cols=230  Identities=23%  Similarity=0.255  Sum_probs=203.1

Q ss_pred             CCchHHHHHHhcCChhHHHHHhcCCCccccc-ccccCChHHHHHHcc----------CccchhccCCCCCHHHHHHHHcC
Q psy1308          29 FQSSKLFYTTQSTQADFKSCLSVFPKIRQSN-NTCMYNNLLFASACS----------LALTLLECQSIKDLTLFRAARYG   97 (607)
Q Consensus        29 ~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~-~~~~~~~l~~a~~~~----------~~~~~~~~~~~g~t~Lh~A~~~g   97 (607)
                      .|+||||+|++.|+.+++++|++.+...... +..+.++++.|+..+          .+...+..+..|.||||+|+..|
T Consensus         4 ~g~~~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~   83 (285)
T 1wdy_A            4 EDNHLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGGWTPLHNAVQMSREDIVELLLRHGADPVLRKKNGATPFLLAAIAG   83 (285)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHHT
T ss_pred             ccchHHHHHHHcCCHHHHHHHHHcCCCcccccCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCcccCCCCCCHHHHHHHcC
Confidence            5789999999999999999999998777665 667789999986544          33445677889999999999999


Q ss_pred             CHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCC------------CCCchHHHHHHcCCcc
Q psy1308          98 SAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG------------DLFNTVHRTAAEKKMN  165 (607)
Q Consensus        98 ~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~------------d~~~~l~~A~~~~~~~  165 (607)
                      +.+++++|++++ ++++.+|..|+||||+|+..|+.+++++|+++|++++..            ++.||||+|+..|+.+
T Consensus        84 ~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~  162 (285)
T 1wdy_A           84 SVKLLKLFLSKG-ADVNECDFYGFTAFMEAAVYGKVKALKFLYKRGANVNLRRKTKEDQERLRKGGATALMDAAEKGHVE  162 (285)
T ss_dssp             CHHHHHHHHHTT-CCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTTCCTTCCCCCCHHHHHTTCCCCCHHHHHHHHTCHH
T ss_pred             CHHHHHHHHHcC-CCCCccCcccCCHHHHHHHhCCHHHHHHHHHhCCCcccccccHHHHHhhccCCCcHHHHHHHcCCHH
Confidence            999999999998 999999999999999999999999999999999999865            2467999999999999


Q ss_pred             HHHHHHhc-CCCccccCCCCcCcCCcchhhHHHhcCC----HHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHH
Q psy1308         166 PFEVLLKR-EDEFNDVLNPNMTFLGFSALHYGVVAGN----TEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQK  240 (607)
Q Consensus       166 ~~~~Ll~~-g~~~~~~~~~~~d~~g~TpLh~A~~~g~----~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~  240 (607)
                      ++++|+++ |++++..+.     .|+||||+|+..++    .+++++|+++|++++.+|..|+||||+|+..++.+++++
T Consensus       163 ~v~~Ll~~~~~~~~~~~~-----~g~t~l~~a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~  237 (285)
T 1wdy_A          163 VLKILLDEMGADVNACDN-----MGRNALIHALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEKKHLGLVQR  237 (285)
T ss_dssp             HHHHHHHTSCCCTTCCCT-----TSCCHHHHHHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHhcCCCCCccCC-----CCCCHHHHHHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHcCCHHHHHH
Confidence            99999987 998887644     49999999999999    999999999999999999999999999999999999999


Q ss_pred             HHH-hhhhHHhhHHHhhcccccHHHHHH
Q psy1308         241 YAE-KYADLQREKEAEERRKYPLEQRLK  267 (607)
Q Consensus       241 ll~-~~~~~~~~~~~~~~~~~~L~~~l~  267 (607)
                      |++ .+++..   ..+..+.++|+.+..
T Consensus       238 Ll~~~g~~~~---~~~~~g~t~l~~A~~  262 (285)
T 1wdy_A          238 LLEQEHIEIN---DTDSDGKTALLLAVE  262 (285)
T ss_dssp             HHHSSSCCTT---CCCTTSCCHHHHHHH
T ss_pred             HHhccCCCcc---ccCCCCCcHHHHHHH
Confidence            999 777765   346678899965544

>2dzn_A Probable 26S proteasome regulatory subunit P28; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} SCOP: d.211.1.1 PDB: 2dzo_A 1ixv_A 1wg0_A

Probab=100.00  E-value=8.3e-33  Score=266.97  Aligned_cols=210  Identities=20%  Similarity=0.168  Sum_probs=185.1

Q ss_pred             hhhhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhc-
Q psy1308           3 RILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLE-   81 (607)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~-   81 (607)
                      .+.....+.+..+++......+..+..|.||||+|+..|+.+++++|+..+.....                     .. 
T Consensus         9 A~~~g~~~~v~~Ll~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~~~~~~~---------------------~~~   67 (228)
T 2dzn_A            9 ACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWSVSFQAHEITSFLLSKMENVNL---------------------DDY   67 (228)
T ss_dssp             HHHTTCHHHHHHHHHHCGGGTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTCTTCCG---------------------GGC
T ss_pred             HHHhCCHHHHHHHHhcCccccccCCCCCCCHHHHHHHcCCHHHHHHHHhccccccc---------------------ccc
Confidence            34455667778888877776666888999999999999999999999988743321                     23 


Q ss_pred             cCCCCCHHHHHHHHcCCHHHHHHHHhcC-CCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHH
Q psy1308          82 CQSIKDLTLFRAARYGSAKELKTFIENS-KLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRT  158 (607)
Q Consensus        82 ~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~-~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A  158 (607)
                      .+..|.||||+|+..|+.+++++|++++ +++++.++..|.||||+|+..|+.+++++|+++|++++.+|.  +||||+|
T Consensus        68 ~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~g~t~L~~A  147 (228)
T 2dzn_A           68 PDDSGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQGVTCLHLAVGKKWFEVSQFLIENGASVRIKDKFNQIPLHRA  147 (228)
T ss_dssp             CCTTSCCHHHHHHHHCCHHHHHHHHSSSSCCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCSCCCCTTSCCHHHHH
T ss_pred             CCCCCCCHHHHHHHcCCHHHHHHHHhCCCCcccccCCcCCCCHHHHHHHcCCHhHHHHHHHcCCCccccCCCCCCHHHHH
Confidence            6789999999999999999999999986 478999999999999999999999999999999999998765  6799999


Q ss_pred             HHcCCccHHHHHHhcC-CCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHH-hcCCCCCccCCCCCCCCcchhhhhHHH
Q psy1308         159 AAEKKMNPFEVLLKRE-DEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL-KSGADPTVKDNSGHIPSDYAEDANIKQ  236 (607)
Q Consensus       159 ~~~~~~~~~~~Ll~~g-~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll-~~gad~~~~d~~g~Tpl~~A~~~~~~~  236 (607)
                      +..|+.+++++|+++| ++++..+.     .|+||||+|+..|+.+++++|+ ++|+|++.+|..|+||+|+|+..+..+
T Consensus       148 ~~~~~~~~v~~Ll~~g~~~~~~~d~-----~g~t~L~~A~~~~~~~~v~~Ll~~~ga~~~~~~~~g~t~l~~A~~~~~~~  222 (228)
T 2dzn_A          148 ASVGSLKLIELLCGLGKSAVNWQDK-----QGWTPLFHALAEGHGDAAVLLVEKYGAEYDLVDNKGAKAEDVALNEQVKK  222 (228)
T ss_dssp             HHTTCHHHHHHHHTTTCCCSCCCCT-----TSCCHHHHHHHTTCHHHHHHHHHHHCCCSCCBCTTSCBGGGGCSSTTHHH
T ss_pred             HHcCCHHHHHHHHhcCcccccCcCC-----CCCCHHHHHHHcCCHHHHHHHHHhcCCCCCccCCCCCcHHHHHHHHHHHH
Confidence            9999999999999999 88887644     4999999999999999999999 899999999999999999999876555


Q ss_pred             HH
Q psy1308         237 IL  238 (607)
Q Consensus       237 ~~  238 (607)
                      ++
T Consensus       223 ~l  224 (228)
T 2dzn_A          223 FF  224 (228)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3d9h_A CDNA FLJ77766, highly similar to HOMO sapiens ankyrin repeat and SOCS box-containing...; ASB9, ANK repeat, L-shaped, structural protein; 2.20A {Homo sapiens}

Probab=100.00  E-value=1.5e-33  Score=282.20  Aligned_cols=215  Identities=16%  Similarity=0.103  Sum_probs=84.6

Q ss_pred             CcCCchHHHHHHhcCChhHHHHHhcCCCc-----------ccccccccCChHHHHHHcc----------CccchhccCCC
Q psy1308          27 RGFQSSKLFYTTQSTQADFKSCLSVFPKI-----------RQSNNTCMYNNLLFASACS----------LALTLLECQSI   85 (607)
Q Consensus        27 ~~~g~t~L~~A~~~g~~~~v~~L~~~~~~-----------~~~~~~~~~~~l~~a~~~~----------~~~~~~~~~~~   85 (607)
                      ..+|.|+||+|+..|+.+.+..++.....           ....+..+.++++.|+..+          .+..++..|..
T Consensus        12 ~~~~~~~lH~Aa~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~g~t~L~~Aa~~g~~~~v~~Ll~~g~~~~~~~~~   91 (285)
T 3d9h_A           12 SGLVPRGSHMASMDGKQGGMDGSKPAGPRDFPGIRLLSNPLMGDAVSDWSPMHEAAIHGHQLSLRNLISQGWAVNIITAD   91 (285)
T ss_dssp             ------------------------------CCSEECCCCTTCSSSCCSCCHHHHHHHTTCHHHHHHHHHTTCCSCEECTT
T ss_pred             chHHHHHHHHHhhcCCCCCcccCCCCccccccchhhhhCcccCCCccCCCHHHHHHHcCCHHHHHHHHHCCCCCCCcCCC
Confidence            45789999999999997766665433211           1122334444444443222          11222334444


Q ss_pred             CCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC-CCchHHHHHHcCCc
Q psy1308          86 KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD-LFNTVHRTAAEKKM  164 (607)
Q Consensus        86 g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d-~~~~l~~A~~~~~~  164 (607)
                      |.||||+||..|+.++|++|++.+ ++++.+|..|+||||+|+..|+.+++++|+++|++++..+ ++||||+|+..|+.
T Consensus        92 g~t~L~~A~~~g~~~~v~~Ll~~g-a~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~g~t~L~~A~~~g~~  170 (285)
T 3d9h_A           92 HVSPLHEACLGGHLSCVKILLKHG-AQVNGVTADWHTPLFNACVSGSWDCVNLLLQHGASVQPESDLASPIHEAARRGHV  170 (285)
T ss_dssp             CCCHHHHHHHTTCHHHHHHHHHTT-CCSSCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCSSCSCTTSCHHHHHHHHTCH
T ss_pred             CCCHHHHHHHCCcHHHHHHHHHCC-CCCCCCCCCCCCHHHHHHHcCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHcCCH
Confidence            444444444444444444444444 4444444444444444444444444444444444444322 23444444444444


Q ss_pred             cHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHh
Q psy1308         165 NPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEK  244 (607)
Q Consensus       165 ~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~  244 (607)
                      +++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++. |..|+||||+|+..++.+++++|++.
T Consensus       171 ~~v~~Ll~~g~~~~~~d~-----~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~-~~~g~t~L~~A~~~~~~~~v~~Ll~~  244 (285)
T 3d9h_A          171 ECVNSLIAYGGNIDHKIS-----HLGTPLYLACENQQRACVKKLLESGADVNQ-GKGQDSPLHAVVRTASEELACLLMDF  244 (285)
T ss_dssp             HHHHHHHHTTCCTTCCBT-----TTBCHHHHHHHTTCHHHHHHHHHTTCCTTC-CBTTBCHHHHHHHTTCHHHHHHHHHT
T ss_pred             HHHHHHHHCCCCCCCcCC-----CCCCHHHHHHHcCcHHHHHHHHHCCCCCCC-CCCCCCHHHHHHHcCCHHHHHHHHHC
Confidence            444444444444443322     244444444444444444444444444442 44444444444444444444444444


Q ss_pred             hhhH
Q psy1308         245 YADL  248 (607)
Q Consensus       245 ~~~~  248 (607)
                      |++.
T Consensus       245 gad~  248 (285)
T 3d9h_A          245 GADT  248 (285)
T ss_dssp             TCCT
T ss_pred             CCCC
Confidence            4443

>2etb_A Transient receptor potential cation channel subfamily V member 2; TRPV2, ankyrin repeat domain, transport protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A

Probab=100.00  E-value=3.6e-34  Score=282.03  Aligned_cols=197  Identities=19%  Similarity=0.227  Sum_probs=172.7

Q ss_pred             CCchHHHHHHhcCChh----HHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHc---CCHHH
Q psy1308          29 FQSSKLFYTTQSTQAD----FKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARY---GSAKE  101 (607)
Q Consensus        29 ~g~t~L~~A~~~g~~~----~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~---g~~~~  101 (607)
                      ||+||||+||..|+.+    ++++|+..+......                   ....|..|.||||+||..   |+.++
T Consensus         1 ~G~t~L~~A~~~g~~~~v~~ll~~l~~~g~~i~~~-------------------~~~~d~~g~t~L~~A~~~~~~g~~~~   61 (256)
T 2etb_A            1 FDRDRLFSVVSRGVPEELTGLLEYLRWNSKYLTDS-------------------AYTEGSTGKTCLMKAVLNLQDGVNAC   61 (256)
T ss_dssp             CCHHHHHHHHHHTCGGGGTTHHHHHHHHTCCTTSG-------------------GGSBTTTTBCHHHHHHHTCBTTBCTT
T ss_pred             CCccHHHHHHHcCCHHHHHHHHHHHHHcCCCcccc-------------------cccCCCCCCCHHHHHHHccccchHHH
Confidence            6899999999999998    455555444332210                   012688999999999999   99999


Q ss_pred             HHHHHhcCCCCCcc-----------CCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC---------------CCchH
Q psy1308         102 LKTFIENSKLDVNM-----------RHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD---------------LFNTV  155 (607)
Q Consensus       102 v~~Ll~~~~~~~~~-----------~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d---------------~~~~l  155 (607)
                      |++|++.+ ++++.           +|..|+||||+|+..|+.+++++|+++|++++..+               ++|||
T Consensus        62 v~~Ll~~g-~~~~~~~~~~~~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~~~~~~~~~~~~~~~~~~~~g~tpL  140 (256)
T 2etb_A           62 IMPLLQID-KDSGNPKPLVNAQCTDEFYQGHSALHIAIEKRSLQCVKLLVENGADVHLRACGRFFQKHQGTCFYFGELPL  140 (256)
T ss_dssp             HHHHHHHH-HHTTCSSCGGGCCCCSTTTTTCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCCSGGGSCCSSSCCCSCSSHH
T ss_pred             HHHHHhcC-CcccchhhhcccccccccccCCCHHHHHHHcCCHHHHHHHHHcCCCCCcccccccccccccccccCCCCHH
Confidence            99999998 66653           34789999999999999999999999999999976               67899


Q ss_pred             HHHHHcCCccHHHHHHh---cCCCccccCCCCcCcCCcchhhHHHh--cCCHH-------HHHHHHhcCCCC-------C
Q psy1308         156 HRTAAEKKMNPFEVLLK---REDEFNDVLNPNMTFLGFSALHYGVV--AGNTE-------VVELLLKSGADP-------T  216 (607)
Q Consensus       156 ~~A~~~~~~~~~~~Ll~---~g~~~~~~~~~~~d~~g~TpLh~A~~--~g~~~-------~v~~Ll~~gad~-------~  216 (607)
                      |+|+..|+.+++++|++   +|++++..+.     .|+||||+|+.  .++.+       ++++|+++|+++       +
T Consensus       141 ~~A~~~~~~~~v~~Ll~~~~~ga~~n~~d~-----~g~TpLh~A~~~~~~~~~~~~~~~~iv~~Ll~~ga~~~~~~~~~~  215 (256)
T 2etb_A          141 SLAACTKQWDVVTYLLENPHQPASLEATDS-----LGNTVLHALVMIADNSPENSALVIHMYDGLLQMGARLCPTVQLEE  215 (256)
T ss_dssp             HHHHHTTCHHHHHHHHHCSSCCCCTTCCCT-----TSCCHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHHHHSTTCCGGG
T ss_pred             HHHHHcCCHHHHHHHHhccccCCCcCccCC-----CCCCHHHHHHHcccCCchhhHHHHHHHHHHHHcCCCccccccccc
Confidence            99999999999999999   9999988754     49999999999  88888       999999999999       9


Q ss_pred             ccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHh
Q psy1308         217 VKDNSGHIPSDYAEDANIKQILQKYAEKYADLQR  250 (607)
Q Consensus       217 ~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~  250 (607)
                      .+|..|+||||+|+..|+.+++++|++++++...
T Consensus       216 ~~d~~g~tpL~~A~~~g~~~~v~~Ll~~g~~~~~  249 (256)
T 2etb_A          216 ISNHQGLTPLKLAAKEGKIEIFRHILQREFSGAA  249 (256)
T ss_dssp             CCCTTSCCHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             ccCCCCCCHHHHHHHhCCHHHHHHHHhCCCCCCC
Confidence            9999999999999999999999999999987653

>4gpm_A Engineered protein OR264; de novo protein, structural genomics, PSI-biology, northeast structural genomics consortium, NESG; 2.00A {Synthetic construct} PDB: 4gmr_A

Probab=100.00  E-value=2.3e-33  Score=257.30  Aligned_cols=156  Identities=31%  Similarity=0.441  Sum_probs=145.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCcc
Q psy1308          88 LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMN  165 (607)
Q Consensus        88 t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~  165 (607)
                      ++|+.||+.|+.++|++||++| +|+|.+|..|+||||+|+..++.+++++|+++|++++.+|.  +||||+|+..|+.+
T Consensus         6 ~~L~~Aa~~G~~~~v~~Ll~~G-advn~~d~~g~t~l~~a~~~~~~~~~~~ll~~gad~~~~d~~g~TpLh~A~~~g~~~   84 (169)
T 4gpm_A            6 KRLIEAAENGNKDRVKDLIENG-ADVNASDSDGRTPLHHAAENGHKEVVKLLISKGADVNAKDSDGRTPLHHAAENGHKE   84 (169)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHCC-CCCCCcCCCCCCHHHHHHHcCCHHHHHHHHhcccchhhhccCCCCHHHHHHHcCCHH
Confidence            5799999999999999999999 99999999999999999999999999999999999999765  67999999999999


Q ss_pred             HHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhh
Q psy1308         166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKY  245 (607)
Q Consensus       166 ~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~  245 (607)
                      ++++|+++|++++..+.     .|+||||+|+..|+.++|++|+++|+|++.+|.+|+||||+|+..|+.+++++|+++|
T Consensus        85 ~v~~Ll~~gadvn~~d~-----~G~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~G~TpL~~A~~~g~~~iv~~Ll~~G  159 (169)
T 4gpm_A           85 VVKLLISKGADVNAKDS-----DGRTPLHHAAENGHKEVVKLLISKGADVNTSDSDGRTPLDLAREHGNEEVVKLLEKQG  159 (169)
T ss_dssp             HHHHHHHTTCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHTC-
T ss_pred             HHHHHHHCcCCCCCCCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCccccCCCCCCHHHHHHHcCCHHHHHHHHHCC
Confidence            99999999999988754     4999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHH
Q psy1308         246 ADLQ  249 (607)
Q Consensus       246 ~~~~  249 (607)
                      ++++
T Consensus       160 A~ie  163 (169)
T 4gpm_A          160 GWLE  163 (169)
T ss_dssp             ----
T ss_pred             CCcC
Confidence            9875

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis}

Probab=100.00  E-value=8e-33  Score=261.67  Aligned_cols=191  Identities=20%  Similarity=0.297  Sum_probs=174.1

Q ss_pred             CcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHH
Q psy1308          27 RGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFI  106 (607)
Q Consensus        27 ~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll  106 (607)
                      +.++.||||+|+..|+.+.++.|+..+..                      .++..+..|.||||+|+..|+.+++++|+
T Consensus         2 ~~~~~~~L~~A~~~g~~~~v~~ll~~~~~----------------------~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll   59 (201)
T 3hra_A            2 KTYEVGALLEAANQRDTKKVKEILQDTTY----------------------QVDEVDTEGNTPLNIAVHNNDIEIAKALI   59 (201)
T ss_dssp             -CCCTTHHHHHHHTTCHHHHHHHHTCTTC----------------------CTTCCCTTSCCHHHHHHHHTCHHHHHHHH
T ss_pred             CcccccHHHHHHHhccHHHHHHHHHcCCC----------------------CCCCCCCCCCCHHHHHHHcCCHHHHHHHH
Confidence            35789999999999999999999876532                      12466789999999999999999999999


Q ss_pred             hcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHH-HcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcC-CCccccCC
Q psy1308         107 ENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLL-EAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKRE-DEFNDVLN  182 (607)
Q Consensus       107 ~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll-~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g-~~~~~~~~  182 (607)
                      ++| ++++.+|..|+||||+|+..|+.+++++|+ ..+++++..+.  .||||+|+..|+.+++++|+++| ++++..+.
T Consensus        60 ~~g-~~~~~~~~~g~t~l~~A~~~~~~~~~~~Ll~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~  138 (201)
T 3hra_A           60 DRG-ADINLQNSISDSPYLYAGAQGRTEILAYMLKHATPDLNKHNRYGGNALIPAAEKGHIDNVKLLLEDGREDIDFQND  138 (201)
T ss_dssp             HTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHSCCCTTCCCTTSCCSHHHHHHTTCHHHHHHHHHHCCCCTTCCCT
T ss_pred             HcC-CCCCCCCCCCCCHHHHHHHcCCHHHHHHHHhccCcccccccCCCCcHHHHHHHcCCHHHHHHHHHcCCCCcCCCCC
Confidence            998 999999999999999999999999999999 66778888765  67999999999999999999999 88887644


Q ss_pred             CCcCcCCcchhhHHHhcCC-----HHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhh
Q psy1308         183 PNMTFLGFSALHYGVVAGN-----TEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKY  245 (607)
Q Consensus       183 ~~~d~~g~TpLh~A~~~g~-----~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~  245 (607)
                           .|+||||+|+..++     .+++++|+++|++++.+|..|+||||+|+..++.+++++|++.|
T Consensus       139 -----~g~t~L~~A~~~~~~~~~~~~~v~~Ll~~ga~~~~~~~~g~t~l~~A~~~~~~~~~~~Ll~~G  201 (201)
T 3hra_A          139 -----FGYTALIEAVGLREGNQLYQDIVKLLMENGADQSIKDNSGRTAMDYANQKGYTEISKILAQYN  201 (201)
T ss_dssp             -----TSCCHHHHHHHSSCCSHHHHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHTCC
T ss_pred             -----CCCCHHHHHHHhccchhhHHHHHHHHHHCCCCCCccCCCCCCHHHHHHHcCCHhHHHHHHhcC
Confidence                 49999999999998     99999999999999999999999999999999999999999764

>2fo1_E LIN-12 protein; beta-barrel, protein-DNA complex, double helix, ankyrin repeat, gene regulation/signalling protein/DNA complex; 3.12A {Caenorhabditis elegans} SCOP: d.211.1.1

Probab=100.00  E-value=1.1e-33  Score=294.39  Aligned_cols=251  Identities=12%  Similarity=0.117  Sum_probs=198.4

Q ss_pred             CCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHcc------------------CccchhccCC
Q psy1308          23 KPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACS------------------LALTLLECQS   84 (607)
Q Consensus        23 ~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~------------------~~~~~~~~~~   84 (607)
                      +..++..|.||||+|+..+ .+++++|+........ ...+.+++|+|+..+                  .+..++..|.
T Consensus        87 ~~~~~~~g~t~L~~Aa~~~-~~~~~~L~~~~~n~~d-~~~g~t~Lh~Aa~~g~~~~v~~Ll~~~~~~ll~~ga~vn~~d~  164 (373)
T 2fo1_E           87 PTEPEPESPIKLHTEAAGS-YAITEPITRESVNIID-PRHNRTVLHWIASNSSAEKSEDLIVHEAKECIAAGADVNAMDC  164 (373)
T ss_dssp             -------CCCHHHHHHHSS-SCCCSCCSTTTTTTCC-CSSCCCHHHHHHCTTCCSCCTTHHHHHHHHHHHTCCCTTCCCT
T ss_pred             ccCCCCCCccHHHHHhcCC-chHHHHhccccccccC-CcCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHhcCCCCcCCCC
Confidence            3456777888888888744 4677777765532221 245677777775433                  3345567889


Q ss_pred             CCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcC---CCCCCCCC--CchHHHHH
Q psy1308          85 IKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG---ANPNLGDL--FNTVHRTA  159 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~g---a~~~~~d~--~~~l~~A~  159 (607)
                      .|.||||+|+..|+.++|++|+++| ++++.+|..|.||||+|+..|+.+++++|+++|   ++++..|.  +||||+|+
T Consensus       165 ~g~TpL~~A~~~g~~~iv~~Ll~~g-a~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~d~~g~t~L~~A~  243 (373)
T 2fo1_E          165 DENTPLMLAVLARRRRLVAYLMKAG-ADPTIYNKSERSALHQAAANRDFGMMVYMLNSTKLKGDIEELDRNGMTALMIVA  243 (373)
T ss_dssp             TSCCHHHHHHHHTCHHHHHHHHHTT-CCSCCCCTTCCCHHHHHHHTTCHHHHHHHTTSHHHHHTTSCCCTTSCCHHHHHH
T ss_pred             CCCCHHHHHHHcChHHHHHHHHHCC-CCCcccCCCCCCHHHHHHHCCCHHHHHHHHhcCccccChhhcCCCCCCHHHHHH
Confidence            9999999999999999999999998 999999999999999999999999999999987   78887654  67999999


Q ss_pred             HcC---CccHHHHHHhcCCCccccCC---CCcCcCCcchhhHHHhcCCHHHHHHHHhcC-CCCCccCCCCCCCCcchhhh
Q psy1308         160 AEK---KMNPFEVLLKREDEFNDVLN---PNMTFLGFSALHYGVVAGNTEVVELLLKSG-ADPTVKDNSGHIPSDYAEDA  232 (607)
Q Consensus       160 ~~~---~~~~~~~Ll~~g~~~~~~~~---~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~g-ad~~~~d~~g~Tpl~~A~~~  232 (607)
                      ..+   +.+++++|+++|++++....   +..|..|+||||+|+..|+.++|++|+++| ++++.+|..|+||||+|+..
T Consensus       244 ~~~~~~~~~~v~~Ll~~g~~~~~~~~~~~~~~d~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~n~~d~~g~TpL~~A~~~  323 (373)
T 2fo1_E          244 HNEGRDQVASAKLLVEKGAKVDYDGAARKDSEKYKGRTALHYAAQVSNMPIVKYLVGEKGSNKDKQDEDGKTPIMLAAQE  323 (373)
T ss_dssp             HSCSTTHHHHHHHHHHHTCCSSCCSGGGTSSSSCCCCCTHHHHHSSCCHHHHHHHHHHSCCCTTCCCTTCCCHHHHHHHH
T ss_pred             HhCCcchHHHHHHHHHCCCCcccccccccCcccccCCCHHHHHHHhCCHHHHHHHHHhcCCCccCcCCCCCCHHHHHHHc
Confidence            988   78999999999999886321   223556999999999999999999999876 99999999999999999999


Q ss_pred             hHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHH
Q psy1308         233 NIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISA  282 (607)
Q Consensus       233 ~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~  282 (607)
                      |+.+++++|++.|++...   .+..+.++|..+...   |..+.++.+..
T Consensus       324 g~~~iv~~Ll~~gad~~~---~d~~g~t~l~~A~~~---g~~~iv~~Ll~  367 (373)
T 2fo1_E          324 GRIEVVMYLIQQGASVEA---VDATDHTARQLAQAN---NHHNIVDIFDR  367 (373)
T ss_dssp             TCHHHHHHHHHTTCCSSC---CCSSSCCHHHHHHHT---TCHHHHHHHHT
T ss_pred             CCHHHHHHHHHcCCCccC---CCCCCCCHHHHHHHc---CCHHHHHHHHh
Confidence            999999999999988763   467788899777654   56667766643

>1oy3_D Transcription factor inhibitor I-kappa-B-beta; protein-protein complex, transcription factors, nuclear localization, DNA binding protein; 2.05A {Mus musculus} SCOP: d.211.1.1 PDB: 1k3z_D

Probab=100.00  E-value=6.5e-33  Score=276.65  Aligned_cols=203  Identities=18%  Similarity=0.163  Sum_probs=164.9

Q ss_pred             hhhhchhhhHHHHHhhccc--CCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchh
Q psy1308           3 RILVQRRQLVLCILSNYFK--QKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLL   80 (607)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~   80 (607)
                      .+.....+++..+++....  ..+..+..|.||||+||..|+.+++++|++.+....                       
T Consensus        16 A~~~g~~~~v~~Ll~~g~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~~-----------------------   72 (282)
T 1oy3_D           16 AVIHQHEPFLDFLLGFSAGHEYLDLQNDLGQTALHLAAILGEASTVEKLYAAGAGVL-----------------------   72 (282)
T ss_dssp             HHHTTCHHHHHHHHHHHTTSGGGGCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCSS-----------------------
T ss_pred             HHHcCCHHHHHHHHhcCCCcccccccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCC-----------------------
Confidence            3444555667777655443  245677889999999999999999999998865433                       


Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCC----------------------------------------------CCCc
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSK----------------------------------------------LDVN  114 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~----------------------------------------------~~~~  114 (607)
                      ..+..|.||||+|+..|+.+++++|++++.                                              .+++
T Consensus        73 ~~~~~g~tpL~~A~~~~~~~~v~~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (282)
T 1oy3_D           73 VAERGGHTALHLACRVRAHTCACVLLQPRPSHPRDASDTYLTQSQDCTPDTSHAPAAVDSQPNPENEEEPRDEDWRLQLE  152 (282)
T ss_dssp             CCCTTSCCHHHHHTTTTCHHHHHHHSSSCCSSCCCC-----------------------------------CCCGGGGTT
T ss_pred             CCCCCCCCHHHHHHHcCCcchhHhhhccCCCCchhhHHHHhhcccccCcchhcchhhhccccccchhhhhhhhhhhhcCC
Confidence            567789999999999999999999999762                                              2377


Q ss_pred             cCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC---CCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcc
Q psy1308         115 MRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD---LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFS  191 (607)
Q Consensus       115 ~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d---~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~T  191 (607)
                      .+|..|+||||+|+..|+.+++++|+++|++++..+   ++||||+|+..|+.+++++|+++|++++..+..     |+|
T Consensus       153 ~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~g~tpL~~A~~~~~~~~v~~Ll~~gad~~~~d~~-----g~t  227 (282)
T 1oy3_D          153 AENYDGHTPLHVAVIHKDAEMVRLLRDAGADLNKPEPTCGRTPLHLAVEAQAASVLELLLKAGADPTARMYG-----GRT  227 (282)
T ss_dssp             CCCTTSCCHHHHHHHTTCHHHHHHHHHHTCCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTT-----SCC
T ss_pred             CcCCCCcCHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHHcCCHHHHHHHHHcCCCCcccccC-----CCC
Confidence            889999999999999999999999999999999976   678999999999999999999999999887544     999


Q ss_pred             hhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhh
Q psy1308         192 ALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN  233 (607)
Q Consensus       192 pLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~  233 (607)
                      |||+|+..|+.+++++|+++|++++.+|..|+||+++|....
T Consensus       228 pL~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~tpl~~a~~~~  269 (282)
T 1oy3_D          228 PLGSALLRPNPILARLLRAHGAPEPEDGGDKLSPCSSSGSDS  269 (282)
T ss_dssp             HHHHHHTSSCHHHHHHHHHTTCCCCCCC--------------
T ss_pred             HHHHHHHcCCcHHHHHHHHcCCCcCcCCCcccccccccCCcc
Confidence            999999999999999999999999999999999999998765

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens}

Probab=100.00  E-value=3.2e-32  Score=264.53  Aligned_cols=220  Identities=19%  Similarity=0.165  Sum_probs=187.3

Q ss_pred             CCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCcc----------chh-ccCCCCCHHHHHH
Q psy1308          25 YKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLAL----------TLL-ECQSIKDLTLFRA   93 (607)
Q Consensus        25 ~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~----------~~~-~~~~~g~t~Lh~A   93 (607)
                      ..+.+|.||||+|++.|+.+++++|++.+......+..+.++++.|...+...          ... ..+..|.||||+|
T Consensus         4 ~~d~~~~~~l~~A~~~g~~~~~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~~~~~~~~~~~~~~t~L~~A   83 (240)
T 3eu9_A            4 HIDDYSTWDIVKATQYGIYERCRELVEAGYDVRQPDKENVTLLHWAAINNRIDLVKYYISKGAIVDQLGGDLNSTPLHWA   83 (240)
T ss_dssp             CCSCGGGCCHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCBTTTTBCHHHHH
T ss_pred             ccccccchHHHHHHHcCChHHHHHHHHcCCCcCCCCCCCCCHHHHHHHhCCHHHHHHHHHcCCcchhhcCCcCCChhHHH
Confidence            45667888888888888888888888887777777777788888876554332          222 2345589999999


Q ss_pred             HHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCC-ccHHHHH
Q psy1308          94 ARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKK-MNPFEVL  170 (607)
Q Consensus        94 ~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~-~~~~~~L  170 (607)
                      +..|+.+++++|++.+ ++++.++..|.||||+|+..|+.+++++|+++|++++..+.  .||||+|+..++ .+++++|
T Consensus        84 ~~~~~~~~v~~Ll~~g-~~~~~~~~~g~t~l~~A~~~~~~~~~~~Ll~~~~~~~~~~~~g~t~l~~a~~~~~~~~~~~~L  162 (240)
T 3eu9_A           84 TRQGHLSMVVQLMKYG-ADPSLIDGEGCSCIHLAAQFGHTSIVAYLIAKGQDVDMMDQNGMTPLMWAAYRTHSVDPTRLL  162 (240)
T ss_dssp             HHHTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHHCCSSTTHHHH
T ss_pred             HHcCCHHHHHHHHHcC-CCCcccCCCCCCHHHHHHHcCHHHHHHHHHhcCCCccccCCCCCcHHHHHHHhCChHHHHHHH
Confidence            9999999999999998 99999999999999999999999999999999999998765  579999997766 8999999


Q ss_pred             HhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHH
Q psy1308         171 LKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       171 l~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      ++.|++++..+..    .|.||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|++.++...
T Consensus       163 ~~~~~~~~~~~~~----~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~l~~A~~~~~~~~v~~L~~~~~~~~  237 (240)
T 3eu9_A          163 LTFNVSVNLGDKY----HKNTALHWAVLAGNTTVISLLLEAGANVDAQNIKGESALDLAKQRKNVWMINHLQEARQAKG  237 (240)
T ss_dssp             HHTTCCTTCCCTT----TCCCHHHHHHHHTCHHHHHHHHHHTCCTTCBCTTSCBHHHHHHHTTCHHHHHHHHHHC----
T ss_pred             HhcCCCcchhhcc----CCCcHHHHHHHcCCHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHcCcHHHHHHHHHhhhccC
Confidence            9999999877541    39999999999999999999999999999999999999999999999999999999887653

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1

Probab=100.00  E-value=3.5e-32  Score=274.02  Aligned_cols=235  Identities=17%  Similarity=0.162  Sum_probs=153.6

Q ss_pred             hhhhhchhhhHHHHHhhccc--------CCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHc
Q psy1308           2 FRILVQRRQLVLCILSNYFK--------QKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASAC   73 (607)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~   73 (607)
                      ..+-..|.+.+..++.....        .....+..|.||||+||..|+.+++++|+..+....                
T Consensus         4 ~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~t~l~~A~~~g~~~~v~~Ll~~g~~~~----------------   67 (299)
T 1s70_B            4 ADAKQKRNEQLKRWIGSETDLEPPVVKRKKTKVKFDDGAVFLAACSSGDTEEVLRLLERGADIN----------------   67 (299)
T ss_dssp             HHHHHHHHHHHHHHHHTTTSSCCSCCCCSCCCCEECHHHHHHHHHHHTCHHHHHHHHHHCCCTT----------------
T ss_pred             hHHHHHHHHHHHHHHccccccccccccCcccccccCCccHHHHHHHcCCHHHHHHHHHcCCCCc----------------
Confidence            34445566555555544322        122234568899999999999999999998765444                


Q ss_pred             cCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--
Q psy1308          74 SLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--  151 (607)
Q Consensus        74 ~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--  151 (607)
                             ..+..|.||||+||..|+.++|++|+++| +++|.+|..|+||||+|+..|+.+++++|+++|++++..+.  
T Consensus        68 -------~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g-a~~~~~~~~g~tpL~~A~~~g~~~~v~~Ll~~g~~~~~~~~~g  139 (299)
T 1s70_B           68 -------YANVDGLTALHQACIDDNVDMVKFLVENG-ANINQPDNEGWIPLHAAASCGYLDIAEYLISQGAHVGAVNSEG  139 (299)
T ss_dssp             -------CBCTTCCBHHHHHHHTTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTS
T ss_pred             -------ccCCCCCCHHHHHHHcCCHHHHHHHHHCC-CCCCCCCCCCCcHHHHHHHcCCHHHHHHHHhCCCCCCCcCCCC
Confidence                   45566777777777777777777777776 77777777777777777777777777777777777776553  


Q ss_pred             CchHHHHHHcCCccHHHHHHh-cCCCcccc---------------------CCCCcCcCCcchhhHHHhcCCHHHHHHHH
Q psy1308         152 FNTVHRTAAEKKMNPFEVLLK-REDEFNDV---------------------LNPNMTFLGFSALHYGVVAGNTEVVELLL  209 (607)
Q Consensus       152 ~~~l~~A~~~~~~~~~~~Ll~-~g~~~~~~---------------------~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll  209 (607)
                      .||||+|+..++.++++.++. .+.+++..                     .....+..|.||||+|+..|+.+++++|+
T Consensus       140 ~t~l~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll  219 (299)
T 1s70_B          140 DTPLDIAEEEAMEELLQNEVNRQGVDIEAARKEEERIMLRDARQWLNSGHINDVRHAKSGGTALHVAAAKGYTEVLKLLI  219 (299)
T ss_dssp             CCHHHHCCSHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCCCTTTCCCHHHHHHHHTCHHHHHHHH
T ss_pred             CCHHHHHHhcchHHHHHHHHhhcCCCchhhhhhhhhHHHHHHHHHHhccCcchhhhcCCCCCHHHHHHHCCcHHHHHHHH
Confidence            457777766666666665543 23332210                     01112334667777777777777777777


Q ss_pred             hcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHH
Q psy1308         210 KSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLE  263 (607)
Q Consensus       210 ~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~  263 (607)
                      ++|++++.+|..|+||||+|+..|+.+++++|++.|++...   .+..+.+|+.
T Consensus       220 ~~g~d~~~~d~~g~tpL~~A~~~~~~~~v~~Ll~~gad~~~---~d~~g~t~l~  270 (299)
T 1s70_B          220 QARYDVNIKDYDGWTPLHAAAHWGKEEACRILVENLCDMEA---VNKVGQTAFD  270 (299)
T ss_dssp             TTTCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTC---CCTTSCCTTT
T ss_pred             HcCCCCCCcCCCCCcHHHHHHhcCCHHHHHHHHHcCCCCCC---cCCCCCCHHH
Confidence            77777777777777777777777777777777777666542   2445555554

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=100.00  E-value=1.5e-32  Score=274.88  Aligned_cols=222  Identities=14%  Similarity=0.126  Sum_probs=188.3

Q ss_pred             CCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHH
Q psy1308          22 QKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKE  101 (607)
Q Consensus        22 ~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~  101 (607)
                      ..+..+..|.||||+||..|+.+++++|+..+....                       ..  +|.||||+|+..|+.++
T Consensus        23 ~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~-----------------------~~--~g~t~L~~A~~~g~~~~   77 (285)
T 3kea_A           23 DTFKADVHGHSASYYAIADNNVRLVCTLLNAGALKN-----------------------LL--ENEFPLHQAATLEDTKI   77 (285)
T ss_dssp             TTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTGGGS-----------------------CC--TTCCHHHHHTTSSSCHH
T ss_pred             CCCccCCCCCCHHHHHHHcCCHHHHHHHHhCCCCCC-----------------------CC--CCCCHHHHHHHcCCHHH
Confidence            467788999999999999999999999998865433                       22  48999999999999999


Q ss_pred             HHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC---CchHHHHHHcCCccHHHHHHhcCCCcc
Q psy1308         102 LKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL---FNTVHRTAAEKKMNPFEVLLKREDEFN  178 (607)
Q Consensus       102 v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~---~~~l~~A~~~~~~~~~~~Ll~~g~~~~  178 (607)
                      +++|+++| ++++.+|..|+||||+|+..|+.+++++|+++|++++..+.   .||||+|+..|+.+++++|+++|++..
T Consensus        78 v~~Ll~~g-a~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~~~~~~~g~~t~L~~A~~~~~~~~v~~Ll~~g~~~~  156 (285)
T 3kea_A           78 VKILLFSG-LDDSQFDDKGNTALYYAVDSGNMQTVKLFVKKNWRLMFYGKTGWKTSFYHAVMLNDVSIVSYFLSEIPSTF  156 (285)
T ss_dssp             HHHHHHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHCGGGGGCSSSGGGSHHHHHHHTTCHHHHHHHHTTSCTTC
T ss_pred             HHHHHHCC-CCCCCcCCCCCcHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCCHHHHHHHcCCHHHHHHHHhCCCccc
Confidence            99999998 99999999999999999999999999999999999998765   479999999999999999999998763


Q ss_pred             ccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCC-CcchhhhhHHHHHHHHHHhhhhHHhhHHHhhc
Q psy1308         179 DVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP-SDYAEDANIKQILQKYAEKYADLQREKEAEER  257 (607)
Q Consensus       179 ~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tp-l~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~  257 (607)
                      ..      ..|+||||+|+..|+.+++++|+++|++++.+|..|+|| ||+|+..++.+++++|++.|++....+.    
T Consensus       157 ~~------~~g~t~L~~A~~~g~~~~v~~Ll~~gad~n~~~~~g~t~~L~~A~~~~~~~~v~~Ll~~gad~~~~~~----  226 (285)
T 3kea_A          157 DL------AILLSCIHITIKNGHVDMMILLLDYMTSTNTNNSLLFIPDIKLAIDNKDIEMLQALFKYDINIYSANL----  226 (285)
T ss_dssp             CC------STHHHHHHHHHHTTCHHHHHHHHHHHHHTCTTCCCBCCTTHHHHHHHTCHHHHHHHTTSCBCSTTTTG----
T ss_pred             cc------cCCccHHHHHHHcChHHHHHHHHHcCCCCCcccCCCCChHHHHHHHcCCHHHHHHHHHcCCCCCCCCh----
Confidence            22      149999999999999999999999999999999999998 9999999999999999999998775431    


Q ss_pred             ccccHHHHHHhHhhhhHHHHHHHHHHHHHhh
Q psy1308         258 RKYPLEQRLKDRIVGQESAINIISAAIKRKE  288 (607)
Q Consensus       258 ~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~  288 (607)
                      ..         ...|..+.++.+.+.-....
T Consensus       227 ~a---------~~~~~~~iv~~Ll~~g~~~~  248 (285)
T 3kea_A          227 EN---------VLLDDAEIAKMIIEKHVEYK  248 (285)
T ss_dssp             GG---------GTTTCHHHHHHHHHHHHHHT
T ss_pred             hh---------hhcCCHHHHHHHHHcCCCCC
Confidence            11         12456666776666554443

>3ljn_A Hypothetical protein; ankyrin, structural genomics, PSI, structural genomics of pathogenic protozoa consortium, SGPP, ANK repeat; 2.90A {Leishmania major}

Probab=99.98  E-value=3.9e-32  Score=281.91  Aligned_cols=237  Identities=11%  Similarity=-0.005  Sum_probs=202.8

Q ss_pred             hhhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccc-----
Q psy1308           4 ILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALT-----   78 (607)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~-----   78 (607)
                      +.....+++..++.. ....+..+..|.||||+||..|+.+++++|+..+....  ...+.++++.|...++...     
T Consensus        28 a~~g~~~~v~~Ll~~-g~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~~--~~~g~t~L~~A~~~g~~~~v~~Ll  104 (364)
T 3ljn_A           28 ARKGQTDEVRRLIET-GVSPTIQNRFGCTALHLACKFGCVDTAKYLASVGEVHS--LWHGQKPIHLAVMANKTDLVVALV  104 (364)
T ss_dssp             HHHTCHHHHHHHHHT-TCCTTCCCTTCCCHHHHHHHHCCHHHHHHHHHHCCCCC--CBTTBCHHHHHHHTTCHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHc-CCCccccCCCCCcHHHHHHHcCCHHHHHHHHHCCCCcc--ccCCCCHHHHHHHcCCHHHHHHHH
Confidence            344555666677655 45567788899999999999999999999999887443  3467899999876554321     


Q ss_pred             ---------hhc-----------------cCCCCCHHHHHHHHcC--CHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHc
Q psy1308          79 ---------LLE-----------------CQSIKDLTLFRAARYG--SAKELKTFIENSKLDVNMRHPLGWTPLHVAAIN  130 (607)
Q Consensus        79 ---------~~~-----------------~~~~g~t~Lh~A~~~g--~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~  130 (607)
                               .+.                 .+..|.||||+|+..|  +.++|++|++.| ++++.+|..|+||||+|+..
T Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~~~v~~Ll~~g-a~~~~~d~~g~t~L~~A~~~  183 (364)
T 3ljn_A          105 EGAKERGQMPESLLNECDEREVNEIGSHVKHCKGQTALHWCVGLGPEYLEMIKILVQLG-ASPTAKDKADETPLMRAMEF  183 (364)
T ss_dssp             HHHHHHTCCHHHHHTCCCCCCEEEETTEEEEESCCCHHHHHHHSCGGGHHHHHHHHHHT-CCTTCCCTTSCCHHHHHHHT
T ss_pred             HhccccCCCHHHHHhhcchHhhhhhccccCCCCCCCHHHHHHHcCCchHHHHHHHHHcC-CCCcccCCCCCCHHHHHHHc
Confidence                     122                 7788999999999999  999999999998 99999999999999999999


Q ss_pred             CCHHHHHHHHHcCCC-----CCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHH
Q psy1308         131 GKVDNVRVLLEAGAN-----PNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTE  203 (607)
Q Consensus       131 g~~~~v~~Ll~~ga~-----~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~  203 (607)
                      |+.++|++|+++|++     ++..|.  +||||+|+..|+.+++++|+++|++++..+..     |+||||+|+..|+.+
T Consensus       184 g~~~~v~~Ll~~g~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~gad~~~~d~~-----g~tpL~~A~~~g~~~  258 (364)
T 3ljn_A          184 RNREALDLMMDTVPSKSSLRLDYANKQGNSHLHWAILINWEDVAMRFVEMGIDVNMEDNE-----HTVPLYLSVRAAMVL  258 (364)
T ss_dssp             TCHHHHHHHHHHCSCSSSCCTTCCCTTCCCTTHHHHTTTCHHHHHHHHTTTCCTTCCCTT-----SCCHHHHHHHTCCHH
T ss_pred             CCHHHHHHHHhcccccccccccccCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCC-----CCCHHHHHHHhChHH
Confidence            999999999999999     888664  67999999999999999999999999877544     999999999999999


Q ss_pred             HHHHHHhcCCCCCc------------cCCCCCCCCcchhhhhHHHHHHHHHHhhhhHH
Q psy1308         204 VVELLLKSGADPTV------------KDNSGHIPSDYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       204 ~v~~Ll~~gad~~~------------~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      ++++|+++|++++.            .+..++||+++|+..++.+.+..|+..+.+..
T Consensus       259 ~v~~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~aa~~~~~~~v~~ll~~~~~~~  316 (364)
T 3ljn_A          259 LTKELLQKTDVFLIQACPYHNGTTVLPDRVVWLDFVPAAADPSKQEVLQLLQEKLDEV  316 (364)
T ss_dssp             HHHHHHHHSCHHHHHTCTTBSSSSBCGGGCCCCTTSCSSCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCchhhhcCcccCcccccccccccccchhhhhccCHHHHHHHHHHHHHHH
Confidence            99999999877533            56678999999999999888888888876654

>2pnn_A Transient receptor potential cation channel subfa member 1; TRPV1, ankyrin repeat domain, transport protein; HET: ATP; 2.70A {Rattus norvegicus} PDB: 2nyj_A*

Probab=99.98  E-value=3.3e-33  Score=277.96  Aligned_cols=204  Identities=17%  Similarity=0.185  Sum_probs=171.3

Q ss_pred             CCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHc---CCH
Q psy1308          23 KPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARY---GSA   99 (607)
Q Consensus        23 ~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~---g~~   99 (607)
                      .+..+.+|+||||+||..|+.++++.|+..+......               ........+..|+||||+||..   |+.
T Consensus         6 ~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~~~~~~~~---------------~~~~~~~~~~~g~tpL~~A~~~~~~g~~   70 (273)
T 2pnn_A            6 EKPPRLYDRRSIFDAVAQSNCQELESLLPFLQRSKKR---------------LTDSEFKDPETGKTCLLKAMLNLHNGQN   70 (273)
T ss_dssp             -----CCCHHHHHHHHHTTCSSTTTTHHHHHHHSCCC---------------TTSGGGSCTTTCCCHHHHHHHSCBTTBC
T ss_pred             CCCCCcccchHHHHHHHcCCHHHHHHHHHHHhhcccc---------------cCCcccccCcCCCCHHHHHHHHHhcCCh
Confidence            3456788999999999999999999887632111100               0000013578999999999987   999


Q ss_pred             HHHHHHHhcCCCC-------Cc----cCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC----------------CC
Q psy1308         100 KELKTFIENSKLD-------VN----MRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD----------------LF  152 (607)
Q Consensus       100 ~~v~~Ll~~~~~~-------~~----~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d----------------~~  152 (607)
                      ++|++|++.+ ++       +|    .+|..|+||||+|+..|+.++|++|+++|++++..+                ++
T Consensus        71 ~~v~~Ll~~g-a~~~~~~~~i~~~~~~~d~~g~tpL~~A~~~g~~~~v~~Ll~~ga~~~~~~~~~~~~~~~~~~~~~~g~  149 (273)
T 2pnn_A           71 DTIALLLDVA-RKTDSLKQFVNASYTDSYYKGQTALHIAIERRNMTLVTLLVENGADVQAAANGDFFKKTKGRPGFYFGE  149 (273)
T ss_dssp             HHHHHHHHHH-HHTTCHHHHHTCCCCSTTTTTCCHHHHHHHTTCHHHHHHHHHTTCCTTCCBCSGGGSSCSSSCCCCSCB
T ss_pred             HHHHHHHHhh-ccccchhHHhhcccccccCCCCCHHHHHHHcCCHHHHHHHHHCCCCcCccccccccccccccccccCCC
Confidence            9999999987 44       22    367789999999999999999999999999999876                56


Q ss_pred             chHHHHHHcCCccHHHHHHh---cCCCccccCCCCcCcCCcchhhHHHhcCC---------HHHHHHHHhcCCCCC----
Q psy1308         153 NTVHRTAAEKKMNPFEVLLK---REDEFNDVLNPNMTFLGFSALHYGVVAGN---------TEVVELLLKSGADPT----  216 (607)
Q Consensus       153 ~~l~~A~~~~~~~~~~~Ll~---~g~~~~~~~~~~~d~~g~TpLh~A~~~g~---------~~~v~~Ll~~gad~~----  216 (607)
                      ||||+|+..|+.+++++|++   +|++++..+..     |+||||+|+..|+         .+++++|+++|++++    
T Consensus       150 tpL~~A~~~g~~~~v~~Ll~~~~~gad~~~~d~~-----g~tpLh~A~~~~~~~~~~~~~~~~~v~~Ll~~ga~~n~~~~  224 (273)
T 2pnn_A          150 LPLSLAACTNQLAIVKFLLQNSWQPADISARDSV-----GNTVLHALVEVADNTVDNTKFVTSMYNEILILGAKLHPTLK  224 (273)
T ss_dssp             SHHHHHHHTTCHHHHHHHHHCSSCCCCTTCCCTT-----SCCHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHHHHCTTCC
T ss_pred             CHHHHHHHcCCHHHHHHHHhcccCCCCceeeCCC-----CCcHHHHHHHccCcchhHHHHHHHHHHHHHHhhhhcccccc
Confidence            79999999999999999999   99999877544     9999999999998         899999999999997    


Q ss_pred             ---ccCCCCCCCCcchhhhhHHHHHHHHHHhhhh
Q psy1308         217 ---VKDNSGHIPSDYAEDANIKQILQKYAEKYAD  247 (607)
Q Consensus       217 ---~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~  247 (607)
                         .+|..|+||||+|+..|+.+++++|+++|+.
T Consensus       225 ~~~~~d~~g~TpL~~A~~~g~~~iv~~Ll~~ga~  258 (273)
T 2pnn_A          225 LEEITNRKGLTPLALAASSGKIGVLAYILQREIH  258 (273)
T ss_dssp             GGGCCCTTSCCHHHHHHHTTCHHHHHHHHHHHTC
T ss_pred             cccccCCCCCCHHHHHHHhChHHHHHHHHHCCCC
Confidence               4899999999999999999999999999994

>3jxi_A Vanilloid receptor-related osmotically activated protein; ankyrin repeats, ANK repeat, ION transport, ionic channel, R transmembrane, transport; 2.30A {Gallus gallus} PDB: 3jxj_A 4dx1_A 4dx2_A*

Probab=99.98  E-value=5.2e-33  Score=274.34  Aligned_cols=200  Identities=19%  Similarity=0.139  Sum_probs=172.4

Q ss_pred             CcCCchHHHHHHhcCChhHHHHHhc----CCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHH---HcCCH
Q psy1308          27 RGFQSSKLFYTTQSTQADFKSCLSV----FPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAA---RYGSA   99 (607)
Q Consensus        27 ~~~g~t~L~~A~~~g~~~~v~~L~~----~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~---~~g~~   99 (607)
                      +.+|+||||.||..|+.+.++.|+.    .+......+                   ...+..|.||||+|+   ..|+.
T Consensus         2 ~~~~~~~L~~A~~~g~~~~v~~ll~~l~~~~~~~~~~~-------------------~~~~~~g~t~L~~A~~~~~~g~~   62 (260)
T 3jxi_A            2 KVFNRPILFDIVSRGSPDGLEGLLSFLLTHKKRLTDEE-------------------FREPSTGKTCLPKALLNLSAGRN   62 (260)
T ss_dssp             CCCCHHHHHHHHHHTCGGGGTTHHHHHHHHTCCTTSGG-------------------GSCTTTCCCHHHHHHTSCBTTBC
T ss_pred             ccchHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcchhh-------------------hhccCCCCcHHHHHHHHhhcCCH
Confidence            4689999999999999996555544    443332210                   134578999999999   67999


Q ss_pred             HHHHHHHhcCC----------CCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC----------------CCc
Q psy1308         100 KELKTFIENSK----------LDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD----------------LFN  153 (607)
Q Consensus       100 ~~v~~Ll~~~~----------~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d----------------~~~  153 (607)
                      ++|++|++.+.          .+++..|..|+||||+||..|+.++|++|+++|++++..+                ++|
T Consensus        63 ~~v~~Ll~~g~~~~~~~~~~~~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~~~~~~~~~~~~~~~~~~~~~g~t  142 (260)
T 3jxi_A           63 DTIPILLDIAEKTGNMREFINSPFRDVYYRGQTALHIAIERRCKHYVELLVEKGADVHAQARGRFFQPKDEGGYFYFGEL  142 (260)
T ss_dssp             THHHHHHHHHHHTTCHHHHHTCCBCCSSEESBCHHHHHHHTTCHHHHHHHHHTTCCTTCCCEECCCSSSCCCCSCCSCSS
T ss_pred             HHHHHHHHhcccccchHhhhcccccccccCCCCHHHHHHHcCCHHHHHHHHhCCCCcCccccccccCcccccccccCCCC
Confidence            99999999861          3345566689999999999999999999999999999987                678


Q ss_pred             hHHHHHHcCCccHHHHHHh---cCCCccccCCCCcCcCCcchhhHHHhcCC---------HHHHHHHHhcCCCC------
Q psy1308         154 TVHRTAAEKKMNPFEVLLK---REDEFNDVLNPNMTFLGFSALHYGVVAGN---------TEVVELLLKSGADP------  215 (607)
Q Consensus       154 ~l~~A~~~~~~~~~~~Ll~---~g~~~~~~~~~~~d~~g~TpLh~A~~~g~---------~~~v~~Ll~~gad~------  215 (607)
                      |||+|+..|+.+++++|++   +|++++..+.     .|+||||+|+..|+         .+++++|+++|+++      
T Consensus       143 pL~~A~~~g~~~~v~~Ll~~~~~ga~~~~~d~-----~g~TpLh~A~~~~~~~~~~~~~~~~~v~~Ll~~ga~~~~~~~~  217 (260)
T 3jxi_A          143 PLSLAACTNQPHIVHYLTENGHKQADLRRQDS-----RGNTVLHALVAIADNTRENTKFVTKMYDLLLIKCAKLFPDTNL  217 (260)
T ss_dssp             HHHHHHHTTCHHHHHHHHHCSSCCCCTTCCCT-----TSCCHHHHHHHHCCSSHHHHHHHHHHHHHHHHHHHHHCTTCCG
T ss_pred             HHHHHHHcCCHHHHHHHHhccccCCCCcccCC-----CCCcHHHHHHHhccCchhHHHHHHHHHHHHHHhCcccccccch
Confidence            9999999999999999999   9999987754     49999999999887         79999999999998      


Q ss_pred             -CccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHh
Q psy1308         216 -TVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQR  250 (607)
Q Consensus       216 -~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~  250 (607)
                       +.+|..|+||||+|+..|+.+++++|+++|++...
T Consensus       218 ~~~~d~~g~tpL~~A~~~g~~~~v~~Ll~~g~~~~~  253 (260)
T 3jxi_A          218 EALLNNDGLSPLMMAAKTGKIGIFQHIIRREIADAA  253 (260)
T ss_dssp             GGCCCTTSCCHHHHHHHTTCHHHHHHHHHHHHHHHC
T ss_pred             hhcccCCCCCHHHHHHHcCCHHHHHHHHHhCCCccc
Confidence             67999999999999999999999999999988654

>2fo1_E LIN-12 protein; beta-barrel, protein-DNA complex, double helix, ankyrin repeat, gene regulation/signalling protein/DNA complex; 3.12A {Caenorhabditis elegans} SCOP: d.211.1.1

Probab=99.98  E-value=8.9e-33  Score=287.64  Aligned_cols=220  Identities=17%  Similarity=0.165  Sum_probs=194.0

Q ss_pred             CCCC-cCCchHHHHHHhcCChhHHHHHh--------cCCCcccccccccCChHHHHHHcc----------CccchhccCC
Q psy1308          24 PYKR-GFQSSKLFYTTQSTQADFKSCLS--------VFPKIRQSNNTCMYNNLLFASACS----------LALTLLECQS   84 (607)
Q Consensus        24 ~~~~-~~g~t~L~~A~~~g~~~~v~~L~--------~~~~~~~~~~~~~~~~l~~a~~~~----------~~~~~~~~~~   84 (607)
                      +..+ ..|+||||+||..|+.+++++|+        ..+...+..+..+.+++++|+..+          .+..++..+.
T Consensus       118 n~~d~~~g~t~Lh~Aa~~g~~~~v~~Ll~~~~~~ll~~ga~vn~~d~~g~TpL~~A~~~g~~~iv~~Ll~~ga~~~~~~~  197 (373)
T 2fo1_E          118 NIIDPRHNRTVLHWIASNSSAEKSEDLIVHEAKECIAAGADVNAMDCDENTPLMLAVLARRRRLVAYLMKAGADPTIYNK  197 (373)
T ss_dssp             TTCCCSSCCCHHHHHHCTTCCSCCTTHHHHHHHHHHHTCCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCSCCCCT
T ss_pred             cccCCcCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHhcCCCCcCCCCCCCCHHHHHHHcChHHHHHHHHHCCCCCcccCC
Confidence            4445 68999999999999999888876        788888888889999999996444          3445567889


Q ss_pred             CCCHHHHHHHHcCCHHHHHHHHhcCC--CCCccCCCCCCcHHHHHHHcC---CHHHHHHHHHcCCCCCCC----------
Q psy1308          85 IKDLTLFRAARYGSAKELKTFIENSK--LDVNMRHPLGWTPLHVAAING---KVDNVRVLLEAGANPNLG----------  149 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~~v~~Ll~~~~--~~~~~~d~~g~tpLh~A~~~g---~~~~v~~Ll~~ga~~~~~----------  149 (607)
                      .|.||||+|+..|+.+++++|++++.  ++++.+|..|+||||+|+..+   +.+++++|+++|++++..          
T Consensus       198 ~g~t~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~d~~g~t~L~~A~~~~~~~~~~~v~~Ll~~g~~~~~~~~~~~~~~d~  277 (373)
T 2fo1_E          198 SERSALHQAAANRDFGMMVYMLNSTKLKGDIEELDRNGMTALMIVAHNEGRDQVASAKLLVEKGAKVDYDGAARKDSEKY  277 (373)
T ss_dssp             TCCCHHHHHHHTTCHHHHHHHTTSHHHHHTTSCCCTTSCCHHHHHHHSCSTTHHHHHHHHHHHTCCSSCCSGGGTSSSSC
T ss_pred             CCCCHHHHHHHCCCHHHHHHHHhcCccccChhhcCCCCCCHHHHHHHhCCcchHHHHHHHHHCCCCcccccccccCcccc
Confidence            99999999999999999999999763  689999999999999999998   899999999999999862          


Q ss_pred             CCCchHHHHHHcCCccHHHHHHhcC-CCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcc
Q psy1308         150 DLFNTVHRTAAEKKMNPFEVLLKRE-DEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDY  228 (607)
Q Consensus       150 d~~~~l~~A~~~~~~~~~~~Ll~~g-~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~  228 (607)
                      +++||||+|+..|+.+++++|++++ ++++..+.     .|+||||+|+..|+.++|++|+++|++++.+|..|+||||+
T Consensus       278 ~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~n~~d~-----~g~TpL~~A~~~g~~~iv~~Ll~~gad~~~~d~~g~t~l~~  352 (373)
T 2fo1_E          278 KGRTALHYAAQVSNMPIVKYLVGEKGSNKDKQDE-----DGKTPIMLAAQEGRIEVVMYLIQQGASVEAVDATDHTARQL  352 (373)
T ss_dssp             CCCCTHHHHHSSCCHHHHHHHHHHSCCCTTCCCT-----TCCCHHHHHHHHTCHHHHHHHHHTTCCSSCCCSSSCCHHHH
T ss_pred             cCCCHHHHHHHhCCHHHHHHHHHhcCCCccCcCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCccCCCCCCCCHHHH
Confidence            4578999999999999999999886 88887644     49999999999999999999999999999999999999999


Q ss_pred             hhhhhHHHHHHHHHHhhhhH
Q psy1308         229 AEDANIKQILQKYAEKYADL  248 (607)
Q Consensus       229 A~~~~~~~~~~~ll~~~~~~  248 (607)
                      |+..|+.+++++|++.+++.
T Consensus       353 A~~~g~~~iv~~Ll~~~a~~  372 (373)
T 2fo1_E          353 AQANNHHNIVDIFDRCRPER  372 (373)
T ss_dssp             HHHTTCHHHHHHHHTTC---
T ss_pred             HHHcCCHHHHHHHHhcCccc
Confidence            99999999999999988763

>3utm_A Tankyrase-1; tankyrase, TNKS, ankryin repeat clusters, WNT signaling, POL ribosylation, transferase-signaling protein complex; 2.00A {Mus musculus}

Probab=99.98  E-value=7.2e-32  Score=277.73  Aligned_cols=216  Identities=21%  Similarity=0.267  Sum_probs=190.9

Q ss_pred             CCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHH
Q psy1308          26 KRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTF  105 (607)
Q Consensus        26 ~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~L  105 (607)
                      .+.+|.|+||.||..|+.+.++.|+....                      ..++..|..|.||||+||..|+.++|++|
T Consensus        20 ~~~~~~~~L~~A~~~g~~~~v~~ll~~~~----------------------~~~~~~d~~g~t~L~~A~~~g~~~~v~~L   77 (351)
T 3utm_A           20 TGEYKKDELLEAARSGNEEKLMALLTPLN----------------------VNCHASDGRKSTPLHLAAGYNRVRIVQLL   77 (351)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHCCTTT----------------------TTCCCSSTTCCCHHHHHHHTTCHHHHHHH
T ss_pred             eccccchhHHHHHHcCCHHHHHHHHHhcC----------------------CCcccCCCCCCCHHHHHHHcCCHHHHHHH
Confidence            45678899999999999999999976421                      12246788999999999999999999999


Q ss_pred             HhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCC
Q psy1308         106 IENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNP  183 (607)
Q Consensus       106 l~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~  183 (607)
                      +++| ++++.+|..|+||||+|+..|+.+++++|+++|++++..|.  +||||+|+..|+.+++++|+++|++++..+..
T Consensus        78 l~~g-~~~~~~~~~g~t~L~~A~~~g~~~iv~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~  156 (351)
T 3utm_A           78 LQHG-ADVHAKDKGGLVPLHNACSYGHYEVTELLLKHGACVNAMDLWQFTPLHEAASKNRVEVCSLLLSHGADPTLVNCH  156 (351)
T ss_dssp             HHTT-CCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTT
T ss_pred             HHcC-CCCCccCCCCCcHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCccccCC
Confidence            9998 99999999999999999999999999999999999998775  67999999999999999999999998765421


Q ss_pred             -------------------------------------------------CcCcCCcchhhHHHhc---CCHHHHHHHHhc
Q psy1308         184 -------------------------------------------------NMTFLGFSALHYGVVA---GNTEVVELLLKS  211 (607)
Q Consensus       184 -------------------------------------------------~~d~~g~TpLh~A~~~---g~~~~v~~Ll~~  211 (607)
                                                                       ..+..|.||||+|+..   ++.+++++|+++
T Consensus       157 g~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~t~L~~A~~~~~~~~~~~~~~Ll~~  236 (351)
T 3utm_A          157 GKSAVDMAPTPELRERLTYEFKGHSLLQAAREADLAKVKKTLALEIINFKQPQSHETALHCAVASLHPKRKQVAELLLRK  236 (351)
T ss_dssp             SCCHHHHCSSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHTTTCCTTCCCTTTCCCHHHHHHHCCSTTHHHHHHHHHHT
T ss_pred             CCcchHHHhhhhhHHHHHhhhcccHHHHHHHhccHHHHHHHHHhhcccccCCCCCCCHHHHHHHHhCccHHHHHHHHHHc
Confidence                                                             2345689999999999   568999999999


Q ss_pred             CCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHH
Q psy1308         212 GADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLK  267 (607)
Q Consensus       212 gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~  267 (607)
                      |++++.+|..|+||||+|+..|+.+++++|++.|++...   .+..+.++|+.+..
T Consensus       237 g~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~n~---~d~~g~t~L~~A~~  289 (351)
T 3utm_A          237 GANVNEKNKDFMTPLHVAAERAHNDVMEVLHKHGAKMNA---LDSLGQTALHRAAL  289 (351)
T ss_dssp             TCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTC---CCTTSCCHHHHHHH
T ss_pred             CCCcCCcCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCC---cCCCCCCHHHHHHH
Confidence            999999999999999999999999999999999998763   46788999966553

>4gpm_A Engineered protein OR264; de novo protein, structural genomics, PSI-biology, northeast structural genomics consortium, NESG; 2.00A {Synthetic construct} PDB: 4gmr_A

Probab=99.98  E-value=1.2e-31  Score=245.74  Aligned_cols=157  Identities=27%  Similarity=0.297  Sum_probs=141.6

Q ss_pred             hHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCC
Q psy1308          32 SKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKL  111 (607)
Q Consensus        32 t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~  111 (607)
                      ++|+.||+.|+.++|++|++.+..+                       +..|..|+||||+|+..|+.+++++|++.+ +
T Consensus         6 ~~L~~Aa~~G~~~~v~~Ll~~Gadv-----------------------n~~d~~g~t~l~~a~~~~~~~~~~~ll~~g-a   61 (169)
T 4gpm_A            6 KRLIEAAENGNKDRVKDLIENGADV-----------------------NASDSDGRTPLHHAAENGHKEVVKLLISKG-A   61 (169)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTTCCT-----------------------TCCCTTSCCHHHHHHHTTCHHHHHHHHHTT-C
T ss_pred             HHHHHHHHcCCHHHHHHHHHCCCCC-----------------------CCcCCCCCCHHHHHHHcCCHHHHHHHHhcc-c
Confidence            5799999999999999999876543                       367889999999999999999999999999 9


Q ss_pred             CCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCC
Q psy1308         112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLG  189 (607)
Q Consensus       112 ~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g  189 (607)
                      +++.+|..|+||||+||..|+.++|++|+++|+++|.+|.  +||||+|+..|+.+++++|+++|++++..+..     |
T Consensus        62 d~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gadvn~~d~~G~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~-----G  136 (169)
T 4gpm_A           62 DVNAKDSDGRTPLHHAAENGHKEVVKLLISKGADVNAKDSDGRTPLHHAAENGHKEVVKLLISKGADVNTSDSD-----G  136 (169)
T ss_dssp             CTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTT-----S
T ss_pred             chhhhccCCCCHHHHHHHcCCHHHHHHHHHCcCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCccccCCC-----C
Confidence            9999999999999999999999999999999999999765  67999999999999999999999999877544     9


Q ss_pred             cchhhHHHhcCCHHHHHHHHhcCCCCCc
Q psy1308         190 FSALHYGVVAGNTEVVELLLKSGADPTV  217 (607)
Q Consensus       190 ~TpLh~A~~~g~~~~v~~Ll~~gad~~~  217 (607)
                      +||||+|+..|+.+++++|+++||+++-
T Consensus       137 ~TpL~~A~~~g~~~iv~~Ll~~GA~ie~  164 (169)
T 4gpm_A          137 RTPLDLAREHGNEEVVKLLEKQGGWLEH  164 (169)
T ss_dssp             CCHHHHHHHTTCHHHHHHHHTC------
T ss_pred             CCHHHHHHHcCCHHHHHHHHHCCCCcCC
Confidence            9999999999999999999999999864

>4g8k_A 2-5A-dependent ribonuclease; ankyrin-repeat domain, single-stranded RNA, hydrolase; 2.40A {Homo sapiens} PDB: 4g8l_A*

Probab=99.97  E-value=1.2e-30  Score=267.70  Aligned_cols=204  Identities=18%  Similarity=0.096  Sum_probs=161.2

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHH
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELK  103 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~  103 (607)
                      +..+..|.||||+|+..|+.+++++|+..+.........             .......+..|.||||+||..|+.++|+
T Consensus       119 ~~~d~~g~t~l~~A~~~~~~~~~~~ll~~ga~~~~~~~~-------------~~~~~~~~~~g~T~L~~A~~~g~~~~v~  185 (337)
T 4g8k_A          119 NECDFYGFTAFMEAAVYGKVKALKFLYKRGANVNLRRKT-------------KEDQERLRKGGATALMDAAEKGHVEVLK  185 (337)
T ss_dssp             TCBCTTCCBHHHHHHHTTCHHHHHHHHHTTCCTTCCCCC-------------C-----CTTCSCCHHHHHHHHTCHHHHH
T ss_pred             hhhccCCCCHHHHHHHcCcHHHHHHHHHcCCCcchhhcc-------------ccccccccCCCCcHHHHHHHCCCHHHHH
Confidence            334455555555555555555555555554433322110             1112345678999999999999999999


Q ss_pred             HHHhcCCCCCccCCCCCCcHHHHHHHcCC----HHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhc-CCC
Q psy1308         104 TFIENSKLDVNMRHPLGWTPLHVAAINGK----VDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKR-EDE  176 (607)
Q Consensus       104 ~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~----~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~-g~~  176 (607)
                      +||++.++++|.+|..|.||||+++..++    ..++++|+++|+++|.+|.  +||||+|+..|+.+++++|++. |++
T Consensus       186 ~LL~~~gad~n~~d~~g~t~l~~~~~~~~~~~~~~i~~lLl~~gad~n~~d~~g~t~L~~a~~~~~~~~v~~Ll~~~~~~  265 (337)
T 4g8k_A          186 ILLDEMGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEKKHLGLVQRLLEQEHIE  265 (337)
T ss_dssp             HHHHHSCCCTTCCCTTSCCHHHHHHHHSCTTTHHHHHHHHHHTTCCTTCCCGGGCCHHHHHHHTTCHHHHHHHHTSTTCC
T ss_pred             HHHhccCCCcCccCCCCCcHHHHHHHHcCcccHHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHhhhhHHHHHHHHhcCCc
Confidence            99986559999999999999999887554    4688999999999999875  6799999999999999999985 788


Q ss_pred             ccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHh
Q psy1308         177 FNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQR  250 (607)
Q Consensus       177 ~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~  250 (607)
                      ++..+.     .|+||||+|+..|+.++|++|+++|||+|.+     ||||+|+.+++.+++++|+++|++...
T Consensus       266 vn~~d~-----~G~TpL~~A~~~g~~~iv~~Ll~~GAd~n~~-----~~L~~A~~~~~~~iv~~Ll~~GA~~d~  329 (337)
T 4g8k_A          266 INDTDS-----DGKTALLLAVELKLKKIAELLCKRGASTDCG-----DLVMTARRNYDHSLVKVLLSHGAKEDF  329 (337)
T ss_dssp             TTCBCT-----TSCBHHHHHHHTTCHHHHHHHHTTSCSSTTC-----CHHHHHHHTTCHHHHHHHHHTTCCC--
T ss_pred             ccCcCC-----CCCCHHHHHHHcCCHHHHHHHHHCCCCCCCC-----CHHHHHHHcCCHHHHHHHHHCcCCCCC
Confidence            887754     4999999999999999999999999999754     599999999999999999999998764

>2f8y_A Notch homolog 1, translocation-associated (drosophila); ankyrin repeats, transcription; 1.55A {Homo sapiens} PDB: 2qc9_A 1ymp_A

Probab=99.97  E-value=4.2e-31  Score=254.13  Aligned_cols=177  Identities=23%  Similarity=0.310  Sum_probs=162.6

Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCC-CCCCCC--CCchHHH
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGA-NPNLGD--LFNTVHR  157 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga-~~~~~d--~~~~l~~  157 (607)
                      ..|..|.||||+||..|+.+++++|++++ ++++.+|..|+||||+|+..|+.+++++|+++++ +++..+  ++||||+
T Consensus        20 ~~d~~g~t~L~~A~~~g~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~~~~~~~~~~~~g~t~L~~   98 (223)
T 2f8y_A           20 QTDRTGETALHLAARYSRSDAAKRLLEAS-ADANIQDNMGRTPLHAAVSADAQGVFQILIRNRATDLDARMHDGTTPLIL   98 (223)
T ss_dssp             CCTTTCCCHHHHHHHTTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHBTTSCTTCCCTTCCCHHHH
T ss_pred             ccCCCCCchHHHHHHcCCHHHHHHHHHcC-CCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCcccCCCCCCcHHHH
Confidence            34789999999999999999999999998 9999999999999999999999999999999987 777755  4679999


Q ss_pred             HHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHH
Q psy1308         158 TAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQI  237 (607)
Q Consensus       158 A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~  237 (607)
                      |+..++.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.++
T Consensus        99 A~~~~~~~~~~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~  173 (223)
T 2f8y_A           99 AARLAVEGMLEDLINSHADVNAVDD-----LGKSALHWAAAVNNVDAAVVLLKNGANKDMQNNREETPLFLAAREGSYET  173 (223)
T ss_dssp             HHHHTCHHHHHHHHHTTCCTTCBCT-----TSCBHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHHTCHHH
T ss_pred             HHHhCcHHHHHHHHHcCCCCcCcCC-----CCCcHHHHHHHcCCHHHHHHHHHcCCCCCCcCCCCcCHHHHHHHcCCHHH
Confidence            9999999999999999999987754     49999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhHHhhHHHhhcccccHHHHH
Q psy1308         238 LQKYAEKYADLQREKEAEERRKYPLEQRL  266 (607)
Q Consensus       238 ~~~ll~~~~~~~~~~~~~~~~~~~L~~~l  266 (607)
                      +++|++.+++...   .+..+.+++..+.
T Consensus       174 v~~Ll~~ga~~~~---~~~~g~t~l~~A~  199 (223)
T 2f8y_A          174 AKVLLDHFANRDI---TDHMDRLPRDIAQ  199 (223)
T ss_dssp             HHHHHHTTCCTTC---CCTTCCCHHHHHH
T ss_pred             HHHHHHcCCCCcc---ccccCCCHHHHHH
Confidence            9999999998753   4567888885554

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=99.97  E-value=3e-30  Score=251.10  Aligned_cols=196  Identities=18%  Similarity=0.157  Sum_probs=155.4

Q ss_pred             cccccCChHHHHHHccC--------------ccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHH
Q psy1308          59 NNTCMYNNLLFASACSL--------------ALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPL  124 (607)
Q Consensus        59 ~~~~~~~~l~~a~~~~~--------------~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpL  124 (607)
                      .+..+.++++.|+..+.              +..++..+..|.||||+|+..|+.+++++|++.| ++++.+|..|+|||
T Consensus         5 ~d~~g~t~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g-~~~~~~~~~g~t~l   83 (241)
T 1k1a_A            5 ADEDGDTPLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSVVRLLVTAG-ASPMALDRHGQTAA   83 (241)
T ss_dssp             --CTTCCHHHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHHHHHHHHTT-CCTTCCCTTSCCHH
T ss_pred             cCCCCCcHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHHHHHHHHHcC-CCccccCCCCCCHH
Confidence            34566777777754443              2344566778888888888888888888888888 88888888888888


Q ss_pred             HHHHHcCCHHHHHHHHHcCC----CCCCCC--CCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHh
Q psy1308         125 HVAAINGKVDNVRVLLEAGA----NPNLGD--LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVV  198 (607)
Q Consensus       125 h~A~~~g~~~~v~~Ll~~ga----~~~~~d--~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~  198 (607)
                      |+|+..|+.+++++|+++|+    +++..+  ++||||+|+..|+.+++++|+++|++++..+.    ..|.||||+|+.
T Consensus        84 ~~A~~~~~~~~~~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~----~~g~t~L~~A~~  159 (241)
T 1k1a_A           84 HLACEHRSPTCLRALLDSAAPGTLDLEARNYDGLTALHVAVNTECQETVQLLLERGADIDAVDI----KSGRSPLIHAVE  159 (241)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCTTSCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCT----TTCCCHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHcCCCccccccccCcCCCcHHHHHHHcCCHHHHHHHHHcCCCcccccc----cCCCcHHHHHHH
Confidence            88888888888888888877    666654  35688888888888888888888888876642    238888888888


Q ss_pred             cCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccH
Q psy1308         199 AGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPL  262 (607)
Q Consensus       199 ~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L  262 (607)
                      .|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|++.|++...   .+..+.+|+
T Consensus       160 ~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~---~~~~g~tpl  220 (241)
T 1k1a_A          160 NNSLSMVQLLLQHGANVNAQMYSGSSALHSASGRGLLPLVRTLVRSGADSSL---KNCHNDTPL  220 (241)
T ss_dssp             TTCHHHHHHHHHTTCCTTCBCTTSCBHHHHHHHHTCHHHHHHHHHTTCCTTC---CCTTSCCTT
T ss_pred             cCCHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHcCCHHHHHHHHhcCCCCCC---cCCCCCCHH
Confidence            8888888888888888888888888888888888888888888888887653   356677787

>1ikn_D Protein (I-kappa-B-alpha), protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Homo sapiens} SCOP: d.211.1.1 PDB: 1nfi_E

Probab=99.97  E-value=2.1e-30  Score=251.74  Aligned_cols=194  Identities=16%  Similarity=0.158  Sum_probs=165.6

Q ss_pred             hhHHHHHhhccc---CCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCC
Q psy1308          10 QLVLCILSNYFK---QKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIK   86 (607)
Q Consensus        10 ~~~~~~~~~~~~---~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g   86 (607)
                      +.+..++.....   ..+..+..|.||||+||..|+.+++++|+..+....                       ..+..|
T Consensus        22 ~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~-----------------------~~~~~g   78 (236)
T 1ikn_D           22 ALTMEVIRQVKGDLAFLNFQNNLQQTPLHLAVITNQPEIAEALLGAGCDPE-----------------------LRDFRG   78 (236)
T ss_dssp             SSSSCCCC-----CCCCCCCCTTCCCHHHHHHHTTCHHHHHCCCSCCCCSC-----------------------CCCTTC
T ss_pred             hHHHHHHHHhhccHHHhhccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCC-----------------------CcCCCC
Confidence            333444444333   356678889999999999999999999987764433                       567899


Q ss_pred             CHHHHHHHHcCCHHHHHHHHhcCCCC------CccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC---CCchHHH
Q psy1308          87 DLTLFRAARYGSAKELKTFIENSKLD------VNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD---LFNTVHR  157 (607)
Q Consensus        87 ~t~Lh~A~~~g~~~~v~~Ll~~~~~~------~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d---~~~~l~~  157 (607)
                      .||||+|+..|+.+++++|++.+ .+      ++..+..|+||||+|+..|+.+++++|+++|++++..+   ++||||+
T Consensus        79 ~t~L~~A~~~~~~~~v~~Ll~~~-~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~~g~tpL~~  157 (236)
T 1ikn_D           79 NTPLHLACEQGCLASVGVLTQSC-TTPHLHSILKATNYNGHTCLHLASIHGYLGIVELLVSLGADVNAQEPCNGRTALHL  157 (236)
T ss_dssp             CCHHHHHHHHTCHHHHHHHHHST-TTTSSSCGGGCCCTTCCCHHHHHHHTTCHHHHHHHHHHTCCTTCCCTTTCCCHHHH
T ss_pred             CCHHHHHHHcCCHHHHHHHHhcc-cchhHHHHhhccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCCHHHH
Confidence            99999999999999999999998 44      67788999999999999999999999999999999875   4679999


Q ss_pred             HHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCC--ccCCCCCCCCcchhhh
Q psy1308         158 TAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPT--VKDNSGHIPSDYAEDA  232 (607)
Q Consensus       158 A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~--~~d~~g~Tpl~~A~~~  232 (607)
                      |+..|+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|+++.  ..+..|.||.+.+...
T Consensus       158 A~~~~~~~~v~~Ll~~ga~~~~~~~-----~g~tpl~~A~~~~~~~~~~~Ll~~ga~~~~~~~~~~~~~~~~~~~~~  229 (236)
T 1ikn_D          158 AVDLQNPDLVSLLLKCGADVNRVTY-----QGYSPYQLTWGRPSTRIQQQLGQLTLENLQMLPESEDEESYDTESEF  229 (236)
T ss_dssp             HHHTTCHHHHHHHHTTTCCSCCCCT-----TCCCGGGGCTTSSCHHHHHHHHTTSCGGGSSCCCCCTTTCCCCC---
T ss_pred             HHHcCCHHHHHHHHHcCCCCCcccC-----CCCCHHHHHHccCchHHHHHHHHcchhhhhcCCccchHHHHhhhccc
Confidence            9999999999999999999987754     49999999999999999999999999876  8899999999988754

>2rfm_A Putative ankyrin repeat protein TV1425; ANK repeat, protein binding; HET: BU2 GOL; 1.65A {Thermoplasma volcanium}

Probab=99.97  E-value=2.2e-30  Score=243.24  Aligned_cols=162  Identities=22%  Similarity=0.184  Sum_probs=153.3

Q ss_pred             hhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHH
Q psy1308          79 LLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVH  156 (607)
Q Consensus        79 ~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~  156 (607)
                      .+..|..|.||||+||..|+.+++++|++.+ ++++.+|..|+||||+|+..|+.+++++|+++|++++..|.  +||||
T Consensus        28 ~n~~d~~g~t~L~~A~~~g~~~~v~~Ll~~~-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~  106 (192)
T 2rfm_A           28 RNYRDSYNRTPLMVACMLGMENAIDKLVENF-DKLEDKDIEGSTALIWAVKNNRLGIAEKLLSKGSNVNTKDFSGKTPLM  106 (192)
T ss_dssp             HTCCCTTCCCHHHHHHHHTCGGGHHHHHHHH-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHTCCTTCCCTTSCCHHH
T ss_pred             HhCcCCCCCCHHHHHHHcCCHHHHHHHHHhc-cccccccccCccHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCcHHH
Confidence            3568899999999999999999999999998 89999999999999999999999999999999999998775  67999


Q ss_pred             HHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHH
Q psy1308         157 RTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQ  236 (607)
Q Consensus       157 ~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~  236 (607)
                      +|+..|+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|+||+|+|+..++.+
T Consensus       107 ~A~~~~~~~~v~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~t~l~~A~~~~~~~  181 (192)
T 2rfm_A          107 WSIIFGYSEMSYFLLEHGANVNDRNL-----EGETPLIVASKYGRSEIVKKLLELGADISARDLTGLTAEASARIFGRQE  181 (192)
T ss_dssp             HHHHHTCHHHHHHHHHTTCCSSCCCT-----TCCCHHHHHHHHTCHHHHHHHHHTTCCTTCBCTTSCBHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHCCCCCCCCCC-----CCCCHHHHHHHcCCHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHhCcHH
Confidence            99999999999999999999987754     4999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhh
Q psy1308         237 ILQKYAEKYA  246 (607)
Q Consensus       237 ~~~~ll~~~~  246 (607)
                      ++++|++.+.
T Consensus       182 ~v~~Ll~~~~  191 (192)
T 2rfm_A          182 VIKIFTEVRR  191 (192)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHhccC
Confidence            9999998763

>3b7b_A Euchromatic histone-lysine N-methyltransferase 1; ankyrin repeat, alternative splicing, ANK repeat, chromatin regulator, nucleus, phosphorylation; 2.99A {Homo sapiens} SCOP: k.37.1.1 PDB: 3b95_A*

Probab=99.97  E-value=7.3e-30  Score=247.90  Aligned_cols=228  Identities=19%  Similarity=0.189  Sum_probs=190.3

Q ss_pred             hhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHH
Q psy1308          79 LLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVH  156 (607)
Q Consensus        79 ~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~  156 (607)
                      ++..+..|.||||+||..|+.+++++|+++| ++++.++..|+||||+|+..|+.+++++|+++|++++..+.  .||||
T Consensus         4 ~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~   82 (237)
T 3b7b_A            4 FKMEHQNKRSPLHAAAEAGHVDICHMLVQAG-ANIDTCSEDQRTPLMEAAENNHLEAVKYLIKAGALVDPKDAEGSTCLH   82 (237)
T ss_dssp             CCCSSCCSCCHHHHHHHHTCHHHHHHHHHTT-CCTTCCCTTCCCHHHHHHHTTCHHHHHHHHTTTCCCCCCCTTSCCHHH
T ss_pred             cccccCCCCCHHHHHHHcCcHHHHHHHHHcC-CCcCccCCCCCCHHHHHHHhCCHHHHHHHHhCCCCCCCCCCCCCcHHH
Confidence            4567889999999999999999999999998 99999999999999999999999999999999999998765  67999


Q ss_pred             HHHHcCCccHHHHHHhcC-CCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHH
Q psy1308         157 RTAAEKKMNPFEVLLKRE-DEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIK  235 (607)
Q Consensus       157 ~A~~~~~~~~~~~Ll~~g-~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~  235 (607)
                      +|+..|+.+++++|+++| .+++..+     ..|+||||+|+..|+.+++++|+++|++++.+|..|.||||+|+..|+.
T Consensus        83 ~A~~~~~~~~~~~Ll~~~~~~~~~~~-----~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~  157 (237)
T 3b7b_A           83 LAAKKGHYEVVQYLLSNGQMDVNCQD-----DGGWTPMIWATEYKHVDLVKLLLSKGSDINIRDNEENICLHWAAFSGCV  157 (237)
T ss_dssp             HHHHTTCHHHHHHHHTTTCCCTTCCC-----TTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHHCCH
T ss_pred             HHHHcCCHHHHHHHHhCCCCCcccCC-----CCCCCHHHHHHHcCCHHHHHHHHHCCCCCCccCCCCCCHHHHHHHCCCH
Confidence            999999999999999998 6776654     4499999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHH
Q psy1308         236 QILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAK  315 (607)
Q Consensus       236 ~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~  315 (607)
                      +++++|++.+++...   .+..+.++|+.+...   ++...++.+...-...........+|+.+.    .-.|+...+.
T Consensus       158 ~~~~~Ll~~g~~~~~---~~~~g~t~L~~A~~~---~~~~~v~~Ll~~gad~~~~d~~g~t~l~~A----~~~~~~~~~~  227 (237)
T 3b7b_A          158 DIAEILLAAKCDLHA---VNIHGDSPLHIAARE---NRYDCVVLFLSRDSDVTLKNKEGETPLQCA----SLNSQVWSAL  227 (237)
T ss_dssp             HHHHHHHTTTCCTTC---CCTTCCCHHHHHHHT---TCHHHHHHHHTTTCCTTCCCTTSCCHHHHS----CTTCHHHHHH
T ss_pred             HHHHHHHHcCCCCCC---cCCCCCCHHHHHHHh---CCHhHHHHHHHcCCCCCccCCCCCCHHHHH----HHHHHHHHHH
Confidence            999999999988763   356788999766543   455666655544333333333344455332    3457777777


Q ss_pred             HHHHHhc
Q psy1308         316 QLAFYIH  322 (607)
Q Consensus       316 ~la~~l~  322 (607)
                      .+.+.+.
T Consensus       228 ~l~~~l~  234 (237)
T 3b7b_A          228 QMSKALQ  234 (237)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhh
Confidence            7766653

>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium, SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo sapiens} PDB: 3v2x_A 3v2o_A 3so8_A

Probab=99.97  E-value=7.6e-30  Score=233.81  Aligned_cols=159  Identities=28%  Similarity=0.341  Sum_probs=150.8

Q ss_pred             CCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcC
Q psy1308          85 IKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEK  162 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~  162 (607)
                      .|.||||.||..|+.+++++|++.+ .+++.+|..|+||||+|+..|+.+++++|+++|++++..+.  +||||+|+..|
T Consensus         2 ~~~t~L~~A~~~g~~~~v~~ll~~~-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~   80 (167)
T 3v31_A            2 ANSLSVHQLAAQGEMLYLATRIEQE-NVINHTDEEGFTPLMWAAAHGQIAVVEFLLQNGADPQLLGKGRESALSLACSKG   80 (167)
T ss_dssp             TTCCCHHHHHHTTCHHHHHHHHHHS-SCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHHT
T ss_pred             CCcchHHHHHHCCCHHHHHHHHHcC-CCcCCCCCCCCCHHHHHHHCCCHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHcC
Confidence            5889999999999999999999998 89999999999999999999999999999999999998765  57999999999


Q ss_pred             CccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHH
Q psy1308         163 KMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYA  242 (607)
Q Consensus       163 ~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll  242 (607)
                      +.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..|+.+++++|+
T Consensus        81 ~~~~v~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~l~~A~~~~~~~~~~~L~  155 (167)
T 3v31_A           81 YTDIVKMLLDCGVDVNEYDW-----NGGTPLLYAVHGNHVKCVKMLLESGADPTIETDSGYNSMDLAVALGYRSVQQVIE  155 (167)
T ss_dssp             CHHHHHHHHHHTCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHHTCHHHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCcCCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHcCcHHHHHHHH
Confidence            99999999999999987744     4999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhhHH
Q psy1308         243 EKYADLQ  249 (607)
Q Consensus       243 ~~~~~~~  249 (607)
                      +++++..
T Consensus       156 ~~~~~~~  162 (167)
T 3v31_A          156 SHLLKLL  162 (167)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHH
Confidence            9987654

>2rfa_A Transient receptor potential cation channel subfa member 6; TRPV6, ankyrin reapeat, ANK RE calcium channel, calcium transport, calmodulin-binding; 1.70A {Mus musculus}

Probab=99.97  E-value=4.7e-30  Score=248.50  Aligned_cols=194  Identities=20%  Similarity=0.249  Sum_probs=165.5

Q ss_pred             CCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCC-----CCC--CCCchHHH
Q psy1308          85 IKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP-----NLG--DLFNTVHR  157 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~-----~~~--d~~~~l~~  157 (607)
                      .|+||||+||..|+.+++++|++..+++++.+|..|+||||+||..|+.+++++|+++|+++     +..  +++||||+
T Consensus         2 ~g~t~L~~A~~~g~~~~v~~Ll~~~g~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~~g~t~L~~   81 (232)
T 2rfa_A            2 IWESPLLLAAKENDVQALSKLLKFEGCEVHQRGAMGETALHIAALYDNLEAAMVLMEAAPELVFEPMTSELYEGQTALHI   81 (232)
T ss_dssp             CTTCHHHHHHHTTCHHHHHHHHTTTCSCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHCGGGGGCCCCSTTTTTCCHHHH
T ss_pred             CCCCHHHHHHHcCCHHHHHHHHHhcCCCcccCCCCCCCHHHHHHHcCCHHHHHHHHHcCchhccccccccCCCCcCHHHH
Confidence            58999999999999999999999844999999999999999999999999999999999986     433  45789999


Q ss_pred             HHHcCCccHHHHHHhcCCCccccCCC--------CcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcch
Q psy1308         158 TAAEKKMNPFEVLLKREDEFNDVLNP--------NMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYA  229 (607)
Q Consensus       158 A~~~~~~~~~~~Ll~~g~~~~~~~~~--------~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A  229 (607)
                      |+..|+.+++++|+++|++++..+..        ..|..|+||||+|+..|+.+++++|+++|+|++.+|..|+||||+|
T Consensus        82 A~~~~~~~~v~~Ll~~g~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~d~~g~t~L~~A  161 (232)
T 2rfa_A           82 AVINQNVNLVRALLARGASVSARATGSVFHYRPHNLIYYGEHPLSFAACVGSEEIVRLLIEHGADIRAQDSLGNTVLHIL  161 (232)
T ss_dssp             HHHTTCHHHHHHHHHTTCCTTCCCCSGGGSCCTTCSCCCCSSHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHH
T ss_pred             HHHcCCHHHHHHHHhCCCCCCcccCCcceeecccccccCCCCHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCCHHHHH
Confidence            99999999999999999999876541        2345699999999999999999999999999999999999999999


Q ss_pred             hhhhHHHHH----HHHHHhhhhHHhh---HHHhhcccccHHHHHHhHhhhhHHHHHHHH
Q psy1308         230 EDANIKQIL----QKYAEKYADLQRE---KEAEERRKYPLEQRLKDRIVGQESAINIIS  281 (607)
Q Consensus       230 ~~~~~~~~~----~~ll~~~~~~~~~---~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~  281 (607)
                      +..++.+++    ++|++.+++....   +..+..+.+||+.+...   |+.+.++.+.
T Consensus       162 ~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~~~~~~~g~tpl~~A~~~---g~~~~v~~Ll  217 (232)
T 2rfa_A          162 ILQPNKTFACQMYNLLLSYDGGDHLKSLELVPNNQGLTPFKLAGVE---GNIVMFQHLM  217 (232)
T ss_dssp             HTCSCHHHHHHHHHHHHHTTCSCSSCCGGGCCCTTSCCHHHHHHHH---TCHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHhcCCchhhhhhhccCCCCCCCHHHHHHHc---CCHHHHHHHH
Confidence            999999888    9999999865311   23467889999555432   3444444443

>1s70_B 130 kDa myosin-binding subunit of smooth muscle myosin phophatase (M130), serine/threonine protein phosphatase PP1-beta (OR delta) catalytic subunit; myosin phosphatase; HET: PGE; 2.70A {Gallus gallus} SCOP: d.211.1.1

Probab=99.96  E-value=6.9e-30  Score=257.23  Aligned_cols=189  Identities=23%  Similarity=0.268  Sum_probs=163.7

Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHH
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRT  158 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A  158 (607)
                      ..+..|.||||.||..|+.++|++|+++| +++|.+|..|+||||+||..|+.++|++|+++|++++..|.  +||||+|
T Consensus        35 ~~~~~~~t~l~~A~~~g~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~~~~~~~g~tpL~~A  113 (299)
T 1s70_B           35 KVKFDDGAVFLAACSSGDTEEVLRLLERG-ADINYANVDGLTALHQACIDDNVDMVKFLVENGANINQPDNEGWIPLHAA  113 (299)
T ss_dssp             CCEECHHHHHHHHHHHTCHHHHHHHHHHC-CCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHH
T ss_pred             ccccCCccHHHHHHHcCCHHHHHHHHHcC-CCCcccCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCcHHHHH
Confidence            34567899999999999999999999999 99999999999999999999999999999999999998764  6799999


Q ss_pred             HHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHh-cCCCCC---------------------
Q psy1308         159 AAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLK-SGADPT---------------------  216 (607)
Q Consensus       159 ~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~-~gad~~---------------------  216 (607)
                      +..|+.+++++|+++|++++..+.     .|.||||+|+..|+.++++.|+. .|++++                     
T Consensus       114 ~~~g~~~~v~~Ll~~g~~~~~~~~-----~g~t~l~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  188 (299)
T 1s70_B          114 ASCGYLDIAEYLISQGAHVGAVNS-----EGDTPLDIAEEEAMEELLQNEVNRQGVDIEAARKEEERIMLRDARQWLNSG  188 (299)
T ss_dssp             HHHTCHHHHHHHHHTTCCTTCCCT-----TSCCHHHHCCSHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCHHHHHHHHhCCCCCCCcCC-----CCCCHHHHHHhcchHHHHHHHHhhcCCCchhhhhhhhhHHHHHHHHHHhcc
Confidence            999999999999999999987744     49999999999999999988775 355543                     


Q ss_pred             -----ccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHH
Q psy1308         217 -----VKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIIS  281 (607)
Q Consensus       217 -----~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~  281 (607)
                           ..+..|.||||+|+..|+.+++++|++.|++...   .+..+.+||+.+...   |+...++.+.
T Consensus       189 ~~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g~d~~~---~d~~g~tpL~~A~~~---~~~~~v~~Ll  252 (299)
T 1s70_B          189 HINDVRHAKSGGTALHVAAAKGYTEVLKLLIQARYDVNI---KDYDGWTPLHAAAHW---GKEEACRILV  252 (299)
T ss_dssp             CCCCCCCTTTCCCHHHHHHHHTCHHHHHHHHTTTCCTTC---CCTTCCCHHHHHHHT---TCHHHHHHHH
T ss_pred             CcchhhhcCCCCCHHHHHHHCCcHHHHHHHHHcCCCCCC---cCCCCCcHHHHHHhc---CCHHHHHHHH
Confidence                 3567899999999999999999999999988763   467889999666543   4555555444

>4hbd_A KN motif and ankyrin repeat domain-containing Pro; structural genomics consortium, SGC, protein binding; 1.72A {Homo sapiens}

Probab=99.96  E-value=2.7e-30  Score=257.25  Aligned_cols=190  Identities=16%  Similarity=0.169  Sum_probs=169.4

Q ss_pred             CchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcC
Q psy1308          30 QSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENS  109 (607)
Q Consensus        30 g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~  109 (607)
                      .++++|.|+..|+.+.++.++...                     ....++..|..|.||||+||..|+.++|++|++.|
T Consensus        76 ~~~~l~~a~~~~~~~~~~~l~~~~---------------------~~~~~n~~d~~g~T~Lh~A~~~g~~~~v~~Ll~~g  134 (276)
T 4hbd_A           76 CRSDAHPELVRRHLVTFRAMSARL---------------------LDYVVNIADSNGNTALHYSVSHANFPVVQQLLDSG  134 (276)
T ss_dssp             HSTTCCHHHHHHHHHHHHHHCHHH---------------------HHHHHTCCCTTSCCHHHHHHHTTCHHHHHHHHHTS
T ss_pred             hccCCCHHHHHHHHHHHHHHHHHH---------------------HhhcCcCCCCCCCCHHHHHHHCCCHHHHHHHHHCC
Confidence            457778888888888877775331                     11124678999999999999999999999999999


Q ss_pred             CCCCccCCCCCCcHHHHHH-----HcCCHHHHHHHHHcCCCCCCCC--CCchHHHHHHcCCccHHHHHHhcCCCccccCC
Q psy1308         110 KLDVNMRHPLGWTPLHVAA-----INGKVDNVRVLLEAGANPNLGD--LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLN  182 (607)
Q Consensus       110 ~~~~~~~d~~g~tpLh~A~-----~~g~~~~v~~Ll~~ga~~~~~d--~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~  182 (607)
                      ..+++.+|..|+||||+|+     ..++.+++++|++.|++++..+  ++||||+|+..|+.+++++|+++|++++..+.
T Consensus       135 ~~~~~~~~~~g~tpL~~a~~~~~~~~~~~~~v~~Ll~~g~~~~~~~~~g~tpLh~A~~~g~~~~v~~Ll~~gad~n~~d~  214 (276)
T 4hbd_A          135 VCKVDKQNRAGYSPIMLTALATLKTQDDIETVLQLFRLGNINAKASQAGQTALMLAVSHGRVDVVKALLACEADVNVQDD  214 (276)
T ss_dssp             CCCTTCCCTTSCCHHHHGGGCCCCSHHHHHHHHHHHHHSCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCT
T ss_pred             CCcCCCCCCCCCCHHHHHHHHHhhhhhhHHHHHHHHHcCCCccccCCCCCCHHHHHHHcCCHHHHHHHHhCCCCCCCCCC
Confidence            4499999999999999999     6789999999999999988865  57899999999999999999999999988754


Q ss_pred             CCcCcCCcchhhHHHhcCCHHHHHHHHh-cCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhh
Q psy1308         183 PNMTFLGFSALHYGVVAGNTEVVELLLK-SGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKY  245 (607)
Q Consensus       183 ~~~d~~g~TpLh~A~~~g~~~~v~~Ll~-~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~  245 (607)
                           .|+||||+|+..|+.+++++|++ .|+|++.+|..|+||||+|+..|+.+++++|+++.
T Consensus       215 -----~G~TpLh~A~~~g~~~iv~~Ll~~~gad~~~~d~~g~TpL~~A~~~g~~~iv~~Ll~~~  273 (276)
T 4hbd_A          215 -----DGSTALMCACEHGHKEIAGLLLAVPSCDISLTDRDGSTALMVALDAGQSEIASMLYSRM  273 (276)
T ss_dssp             -----TSCCHHHHHHHHTCHHHHHHHHTSTTCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHHC
T ss_pred             -----CCCCHHHHHHHCCCHHHHHHHHhcCCCCCcCcCCCCCCHHHHHHHcCCHHHHHHHHhcc
Confidence                 49999999999999999999999 89999999999999999999999999999999875

>3twr_A Tankyrase-2; ankyrin repeat, protein-protein interaction, substrate recru poly(ADP-ribosyl)ation; HET: PE8; 1.55A {Homo sapiens} SCOP: d.211.1.0 PDB: 3tws_A* 3twt_A* 3twv_A* 3tww_A 3twx_A 3twq_A 3twu_A 2y0i_S*

Probab=99.96  E-value=1.5e-29  Score=231.35  Aligned_cols=159  Identities=28%  Similarity=0.342  Sum_probs=146.6

Q ss_pred             cCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHH
Q psy1308          82 CQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTA  159 (607)
Q Consensus        82 ~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~  159 (607)
                      .+..|.||||.|+..|+.+++++|++.++.+++..+..|+||||+|+..|+.+++++|+++|++++..|.  +||||+|+
T Consensus         4 ~~~~~~~~l~~A~~~g~~~~v~~ll~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~   83 (165)
T 3twr_A            4 GNSEADRQLLEAAKAGDVETVKKLCTVQSVNCRDIEGRQSTPLHFAAGYNRVSVVEYLLQHGADVHAKDKGGLVPLHNAC   83 (165)
T ss_dssp             --CHHHHHHHHHHHHTCHHHHHHHCCTTTTTCCCTTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHH
T ss_pred             CcchhhHHHHHHHHhCCHHHHHHHHHcCCCCccccccCCCCHHHHHHHcChHHHHHHHHhcCCCCCccCCCCCCHHHHHH
Confidence            4667899999999999999999999987789999999999999999999999999999999999998775  67999999


Q ss_pred             HcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHH
Q psy1308         160 AEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQ  239 (607)
Q Consensus       160 ~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~  239 (607)
                      ..|+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|+||||+|+. ++.++++
T Consensus        84 ~~~~~~~v~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~t~l~~a~~-~~~~i~~  157 (165)
T 3twr_A           84 SYGHYEVAELLVKHGAVVNVADL-----WKFTPLHEAAAKGKYEICKLLLQHGADPTKKNRDGNTPLDLVKD-GDTDIQD  157 (165)
T ss_dssp             HTTCHHHHHHHHHTTCCTTCCCT-----TCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCTGGGSCT-TCHHHHH
T ss_pred             HcCcHHHHHHHHhCCCCCCCcCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCCcccCCCCCChhHhHhc-CChHHHH
Confidence            99999999999999999987744     49999999999999999999999999999999999999999887 8889999


Q ss_pred             HHHHhhh
Q psy1308         240 KYAEKYA  246 (607)
Q Consensus       240 ~ll~~~~  246 (607)
                      +|+++|+
T Consensus       158 ~L~~~gA  164 (165)
T 3twr_A          158 LLRGDAA  164 (165)
T ss_dssp             HHHTC--
T ss_pred             HHhhccc
Confidence            9998875

>3v30_A DNA-binding protein rfxank; structural genomics consortium, SGC, rfxank, ANK repeat, Pro binding; 1.57A {Homo sapiens} PDB: 3uxg_A

Probab=99.96  E-value=1.4e-29  Score=233.29  Aligned_cols=158  Identities=28%  Similarity=0.344  Sum_probs=103.4

Q ss_pred             CHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCc
Q psy1308          87 DLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKM  164 (607)
Q Consensus        87 ~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~  164 (607)
                      .||||.||..|+.+++++|++.++.+++.+|..|+||||+|+..|+.+++++|+++|++++..+.  +||||+|+..|+.
T Consensus         3 ~~~L~~A~~~g~~~~v~~ll~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~   82 (172)
T 3v30_A            3 SLSIHQLAAQGELDQLKEHLRKGDNLVNKPDERGFTPLIWASAFGEIETVRFLLEWGADPHILAKERESALSLASTGGYT   82 (172)
T ss_dssp             -CCHHHHHHTTCHHHHHHHHTTCSGGGGCCCTTSCCHHHHHHHTTCHHHHHHHHHHTCCTTCCCTTCCCHHHHHHHTTCH
T ss_pred             hhhHHHHHHcCCHHHHHHHHHcCcccccCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCchhhcccCCCHHHHHHHCCCH
Confidence            45666666666666666666666333566666666666666666666666666666666665443  4466666666666


Q ss_pred             cHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHh
Q psy1308         165 NPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEK  244 (607)
Q Consensus       165 ~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~  244 (607)
                      +++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|+++
T Consensus        83 ~~v~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~t~l~~A~~~~~~~~~~~L~~~  157 (172)
T 3v30_A           83 DIVGLLLERDVDINIYDW-----NGGTPLLYAVRGNHVKCVEALLARGADLTTEADSGYTPMDLAVALGYRKVQQVIENH  157 (172)
T ss_dssp             HHHHHHHTTTCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCccccCCCCCCHHHHHHHhCcHHHHHHHHHH
Confidence            666666666666655433     377777777777777777777777777777777777777777777777777777777


Q ss_pred             hhhHH
Q psy1308         245 YADLQ  249 (607)
Q Consensus       245 ~~~~~  249 (607)
                      +++..
T Consensus       158 ~~~~~  162 (172)
T 3v30_A          158 ILKLF  162 (172)
T ss_dssp             HHHHS
T ss_pred             HHHHh
Confidence            66654

>1ihb_A P18-INK4C(INK6), cyclin-dependent kinase 6 inhibitor; cell cycle inhibitor, ankyrin repeat, CDK 4/6 inhibitor; 1.95A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bu9_A 1g3n_B 1mx4_A 1mx2_A 1mx6_A

Probab=99.96  E-value=1e-29  Score=231.60  Aligned_cols=157  Identities=27%  Similarity=0.369  Sum_probs=145.7

Q ss_pred             CCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHc
Q psy1308          84 SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAE  161 (607)
Q Consensus        84 ~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~  161 (607)
                      ....||||.|+..|+.+++++|++++ ++++.+|..|+||||+|+. |+.+++++|+++|++++.++.  +||||+|+..
T Consensus         3 ~~~~~~L~~A~~~g~~~~v~~Ll~~~-~~~~~~~~~g~t~L~~A~~-~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~   80 (162)
T 1ihb_A            3 EPWGNELASAAARGDLEQLTSLLQNN-VNVNAQNGFGRTALQVMKL-GNPEIARRLLLRGANPDLKDRTGFAVIHDAARA   80 (162)
T ss_dssp             --CHHHHHHHHHHTCHHHHHHHTTSC-CCTTCCCTTSCCHHHHCCS-SCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHH
T ss_pred             chHhhHHHHHHHcCCHHHHHHHHhCC-CCccccCccCccHHHHHHc-CcHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHc
Confidence            35679999999999999999999998 9999999999999999999 999999999999999998765  6799999999


Q ss_pred             CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC-CCccCCCCCCCCcchhhhhHHHHHHH
Q psy1308         162 KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD-PTVKDNSGHIPSDYAEDANIKQILQK  240 (607)
Q Consensus       162 ~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad-~~~~d~~g~Tpl~~A~~~~~~~~~~~  240 (607)
                      |+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++ ++.+|..|+||||+|+..++.+++++
T Consensus        81 ~~~~~v~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~~g~t~l~~A~~~~~~~~~~~  155 (162)
T 1ihb_A           81 GFLDTLQTLLEFQADVNIEDN-----EGNLPLHLAAKEGHLRVVEFLVKHTASNVGHRNHKGDTACDLARLYGRNEVVSL  155 (162)
T ss_dssp             TCHHHHHHHHHTTCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHHSCCCTTCCCTTSCCHHHHHHHTTCHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCCcCC-----CCCCHHHHHHHcCCHHHHHHHHHccCCCCCCcCCCCCcHHHHHHHcCCHHHHHH
Confidence            999999999999999987754     499999999999999999999999998 59999999999999999999999999


Q ss_pred             HHHhhhh
Q psy1308         241 YAEKYAD  247 (607)
Q Consensus       241 ll~~~~~  247 (607)
                      |+++|++
T Consensus       156 Ll~~GAd  162 (162)
T 1ihb_A          156 MQANGAG  162 (162)
T ss_dssp             HHHTC--
T ss_pred             HHHhCCC
Confidence            9999875

>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin repeat Pro ribosome display, apoptosis; 1.80A {Synthetic source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D* 3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B* 2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C*

Probab=99.96  E-value=2.5e-29  Score=230.93  Aligned_cols=158  Identities=34%  Similarity=0.461  Sum_probs=146.9

Q ss_pred             cCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHH
Q psy1308          82 CQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTA  159 (607)
Q Consensus        82 ~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~  159 (607)
                      ....+.|+||.||..|+.++|++|++++ +++|.+|..|+||||+|+..|+.+++++|+++|++++..|.  +||||+|+
T Consensus        10 ~~~~~~~~l~~A~~~g~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~   88 (169)
T 2y1l_E           10 HGSDLGKKLLEAARAGRDDEVRILMANG-ADVNAEDASGWTPLHLAAFNGHLEIVEVLLKNGADVNAVDHAGMTPLRLAA   88 (169)
T ss_dssp             ---CHHHHHHHHHHHTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHH
T ss_pred             CCCcccchHHHHHHcCCHHHHHHHHHCC-CCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCccCCCCCCHHHHHH
Confidence            3456789999999999999999999998 99999999999999999999999999999999999998765  67999999


Q ss_pred             HcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHH
Q psy1308         160 AEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQ  239 (607)
Q Consensus       160 ~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~  239 (607)
                      ..|+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|.||||+|+..++.++++
T Consensus        89 ~~~~~~~~~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~l~~A~~~~~~~~~~  163 (169)
T 2y1l_E           89 LFGHLEIVEVLLKNGADVNANDM-----EGHTPLHLAAMFGHLEIVEVLLKNGADVNAQDKFGKTAFDISIDNGNEDLAE  163 (169)
T ss_dssp             HTTCHHHHHHHHHTTCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHH
T ss_pred             HcCCHHHHHHHHHcCCCCCCCCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHhCCHHHHH
Confidence            99999999999999999987744     4999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhh
Q psy1308         240 KYAEKY  245 (607)
Q Consensus       240 ~ll~~~  245 (607)
                      +|++.|
T Consensus       164 ~L~~~G  169 (169)
T 2y1l_E          164 ILQKLN  169 (169)
T ss_dssp             HHHTC-
T ss_pred             HHHHcC
Confidence            998764

>1sw6_A Regulatory protein SWI6; transcription regulation, ankyrin repeats, cell-cycle; 2.10A {Saccharomyces cerevisiae} SCOP: d.211.1.1

Probab=99.96  E-value=6.5e-30  Score=260.98  Aligned_cols=177  Identities=17%  Similarity=0.226  Sum_probs=146.7

Q ss_pred             cCCCC-CCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCC-
Q psy1308          21 KQKPY-KRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGS-   98 (607)
Q Consensus        21 ~~~~~-~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~-   98 (607)
                      ...+. .+..|+||||+||..|+.+++++|++.+..+.                       ..|..|+||||+|+..|+ 
T Consensus       121 ~dvn~~~d~~g~TpLh~Aa~~g~~~~v~~Ll~~Gad~n-----------------------~~d~~g~TpLh~A~~~g~~  177 (327)
T 1sw6_A          121 LNLNIPVDEHGNTPLHWLTSIANLELVKHLVKHGSNRL-----------------------YGDNMGESCLVKAVKSVNN  177 (327)
T ss_dssp             CCSCSCCSTTCCCHHHHHHHTTCHHHHHHHHHTTCCTT-----------------------BCCTTCCCHHHHHHHSSHH
T ss_pred             CCcccccCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCC-----------------------CcCCCCCCHHHHHHHhccc
Confidence            44455 68899999999999999999999998865443                       668899999999999998 


Q ss_pred             --HHHHHHHHhcCCCCCccCCCCCCcHHHHHHH----cCCHHHHHHHHHc--------------------CCCCCCCCC-
Q psy1308          99 --AKELKTFIENSKLDVNMRHPLGWTPLHVAAI----NGKVDNVRVLLEA--------------------GANPNLGDL-  151 (607)
Q Consensus        99 --~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~----~g~~~~v~~Ll~~--------------------ga~~~~~d~-  151 (607)
                        .++++.|++.+.++++.+|..|+||||+|+.    .|+.+++++|++.                    |++++..+. 
T Consensus       178 ~~~~~~~~ll~~~~~~~~~~d~~g~tpLh~A~~~~~~~g~~~~v~~Ll~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~  257 (327)
T 1sw6_A          178 YDSGTFEALLDYLYPCLILEDSMNRTILHHIIITSGMTGCSAAAKYYLDILMGWIVKKQNRPIQSGTNEKESKPNDKNGE  257 (327)
T ss_dssp             HHTTCHHHHHHHHGGGGGEECTTCCCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHGGGCCEEEC--------------
T ss_pred             ccHHHHHHHHHhhhccccCCCCCCCCHHHHHHHHccccccHHHHHHHHHHHHHHHhcccchHHHhhhhcccCCccccccc
Confidence              7888888888767899999999999999999    8999999999987                    889988765 


Q ss_pred             -CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchh
Q psy1308         152 -FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAE  230 (607)
Q Consensus       152 -~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~  230 (607)
                       +||||+|+.      +++|+++  +++..     |..|+||||+|+..|+.++|++|+++|+|++.+|..|+||||+|+
T Consensus       258 g~t~L~~a~~------~~~Ll~~--~~n~~-----d~~G~TpLh~A~~~g~~~~v~~Ll~~Gad~~~~d~~G~TpL~~A~  324 (327)
T 1sw6_A          258 RKDSILENLD------LKWIIAN--MLNAQ-----DSNGDTCLNIAARLGNISIVDALLDYGADPFIANKSGLRPVDFGA  324 (327)
T ss_dssp             --CHHHHHCS------HHHHHHH--TTTCC-----CTTSCCHHHHHHHHCCHHHHHHHHHTTCCTTCCCTTSCCGGGGTC
T ss_pred             CCChhHHHHH------HHHHHHh--CCCCC-----CCCCCCHHHHHHHcCCHHHHHHHHHcCCCCcccCCCCCCHHHHHH
Confidence             569999985      8999998  45554     445999999999999999999999999999999999999999998


Q ss_pred             hhh
Q psy1308         231 DAN  233 (607)
Q Consensus       231 ~~~  233 (607)
                      ..|
T Consensus       325 ~~g  327 (327)
T 1sw6_A          325 GLE  327 (327)
T ss_dssp             C--
T ss_pred             hcC
Confidence            764

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=99.96  E-value=5e-30  Score=256.58  Aligned_cols=216  Identities=11%  Similarity=0.029  Sum_probs=181.2

Q ss_pred             hccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHH
Q psy1308          80 LECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHR  157 (607)
Q Consensus        80 ~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~  157 (607)
                      +..|..|.||||+||..|+.++|++|+++| ++++.+|  |+||||+|+..|+.+++++|+++|++++.+|.  +||||+
T Consensus        25 ~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~g-~~~~~~~--g~t~L~~A~~~g~~~~v~~Ll~~ga~~~~~d~~g~t~L~~  101 (285)
T 3kea_A           25 FKADVHGHSASYYAIADNNVRLVCTLLNAG-ALKNLLE--NEFPLHQAATLEDTKIVKILLFSGLDDSQFDDKGNTALYY  101 (285)
T ss_dssp             TCCCTTSCCHHHHHHHTTCHHHHHHHHHTT-GGGSCCT--TCCHHHHHTTSSSCHHHHHHHHTTCCTTCCCTTSCCHHHH
T ss_pred             CccCCCCCCHHHHHHHcCCHHHHHHHHhCC-CCCCCCC--CCCHHHHHHHcCCHHHHHHHHHCCCCCCCcCCCCCcHHHH
Confidence            577899999999999999999999999998 8999884  99999999999999999999999999998765  679999


Q ss_pred             HHHcCCccHHHHHHhcCCCccccCCCCcCcCC-cchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHH
Q psy1308         158 TAAEKKMNPFEVLLKREDEFNDVLNPNMTFLG-FSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQ  236 (607)
Q Consensus       158 A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g-~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~  236 (607)
                      |+..|+.+++++|+++|++++..+..     | .||||+|+..|+.+++++|+++|+++... ..|+||||+|+..|+.+
T Consensus       102 A~~~g~~~~v~~Ll~~ga~~~~~~~~-----g~~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~-~~g~t~L~~A~~~g~~~  175 (285)
T 3kea_A          102 AVDSGNMQTVKLFVKKNWRLMFYGKT-----GWKTSFYHAVMLNDVSIVSYFLSEIPSTFDL-AILLSCIHITIKNGHVD  175 (285)
T ss_dssp             HHHTTCHHHHHHHHHHCGGGGGCSSS-----GGGSHHHHHHHTTCHHHHHHHHTTSCTTCCC-STHHHHHHHHHHTTCHH
T ss_pred             HHHcCCHHHHHHHHhcCCCCCccCCC-----CCCCHHHHHHHcCCHHHHHHHHhCCCccccc-cCCccHHHHHHHcChHH
Confidence            99999999999999999999877544     8 79999999999999999999999887333 28999999999999999


Q ss_pred             HHHHHHHhhhhHHhhHHHhhccccc-HHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHH
Q psy1308         237 ILQKYAEKYADLQREKEAEERRKYP-LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAK  315 (607)
Q Consensus       237 ~~~~ll~~~~~~~~~~~~~~~~~~~-L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~  315 (607)
                      ++++|++.|++..   ..+..+.++ |+.+..   .|+.+.++.+...-........ .          ..-.|...+++
T Consensus       176 ~v~~Ll~~gad~n---~~~~~g~t~~L~~A~~---~~~~~~v~~Ll~~gad~~~~~~-~----------a~~~~~~~iv~  238 (285)
T 3kea_A          176 MMILLLDYMTSTN---TNNSLLFIPDIKLAID---NKDIEMLQALFKYDINIYSANL-E----------NVLLDDAEIAK  238 (285)
T ss_dssp             HHHHHHHHHHHTC---TTCCCBCCTTHHHHHH---HTCHHHHHHHTTSCBCSTTTTG-G----------GGTTTCHHHHH
T ss_pred             HHHHHHHcCCCCC---cccCCCCChHHHHHHH---cCCHHHHHHHHHcCCCCCCCCh-h----------hhhcCCHHHHH
Confidence            9999999999876   346678887 877665   3677788877554221111111 0          02257888999


Q ss_pred             HHHHHh
Q psy1308         316 QLAFYI  321 (607)
Q Consensus       316 ~la~~l  321 (607)
                      .+.+..
T Consensus       239 ~Ll~~g  244 (285)
T 3kea_A          239 MIIEKH  244 (285)
T ss_dssp             HHHHHH
T ss_pred             HHHHcC
Confidence            888764

>3f6q_A Integrin-linked protein kinase; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 3ixe_A 2kbx_A

Probab=99.96  E-value=3.5e-29  Score=232.25  Aligned_cols=162  Identities=25%  Similarity=0.350  Sum_probs=150.4

Q ss_pred             CCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHc
Q psy1308          84 SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAE  161 (607)
Q Consensus        84 ~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~  161 (607)
                      ..+.++||.||..|+.++|++|++.++.+++.+|..|+||||+||..|+.+++++|+++|++++..|.  +||||+|+..
T Consensus         3 ~~~~~~l~~A~~~g~~~~v~~ll~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~   82 (179)
T 3f6q_A            3 PEFMDDIFTQCREGNAVAVRLWLDNTENDLNQGDDHGFSPLHWACREGRSAVVEMLIMRGARINVMNRGDDTPLHLAASH   82 (179)
T ss_dssp             ----CCHHHHHHHTCHHHHHHHHHCTTSCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHhcCcccccccCCCCCCHHHHHHHcCcHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHc
Confidence            45788999999999999999999997789999999999999999999999999999999999998765  6799999999


Q ss_pred             CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHH
Q psy1308         162 KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKY  241 (607)
Q Consensus       162 ~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~l  241 (607)
                      |+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|+|||++|+..++.+++++|
T Consensus        83 ~~~~~v~~Ll~~g~~~~~~d~-----~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~tpl~~A~~~~~~~~~~~L  157 (179)
T 3f6q_A           83 GHRDIVQKLLQYKADINAVNE-----HGNVPLHYACFWGQDQVAEDLVANGALVSICNKYGEMPVDKAKAPLRELLRERA  157 (179)
T ss_dssp             TCHHHHHHHHHTTCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHTTCCSSBCCTTSCCGGGGSCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCccCC-----CCCCHHHHHHHcCCHHHHHHHHHCCCCcchhccCCCCcHHHHHHHHHHHHHHHH
Confidence            999999999999999987754     499999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhhHHh
Q psy1308         242 AEKYADLQR  250 (607)
Q Consensus       242 l~~~~~~~~  250 (607)
                      ++.+++...
T Consensus       158 ~~~g~~~~~  166 (179)
T 3f6q_A          158 EKMGQNLNR  166 (179)
T ss_dssp             HHTTCCCSC
T ss_pred             HHhhcCccc
Confidence            999988753

>3v30_A DNA-binding protein rfxank; structural genomics consortium, SGC, rfxank, ANK repeat, Pro binding; 1.57A {Homo sapiens} PDB: 3uxg_A

Probab=99.96  E-value=1.8e-29  Score=232.44  Aligned_cols=141  Identities=17%  Similarity=0.187  Sum_probs=127.2

Q ss_pred             hhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHH
Q psy1308          79 LLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVH  156 (607)
Q Consensus        79 ~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~  156 (607)
                      ++..+..|.||||+|+..|+.++|++|++++ ++++.+|..|+||||+|+..|+.+++++|+++|++++..|.  +||||
T Consensus        29 ~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~  107 (172)
T 3v30_A           29 VNKPDERGFTPLIWASAFGEIETVRFLLEWG-ADPHILAKERESALSLASTGGYTDIVGLLLERDVDINIYDWNGGTPLL  107 (172)
T ss_dssp             GGCCCTTSCCHHHHHHHTTCHHHHHHHHHHT-CCTTCCCTTCCCHHHHHHHTTCHHHHHHHHTTTCCTTCCCTTSCCHHH
T ss_pred             ccCCCCCCCCHHHHHHHcCCHHHHHHHHHcC-CCchhhcccCCCHHHHHHHCCCHHHHHHHHHcCCCCCCCCCCCCCHHH
Confidence            5678899999999999999999999999999 99999999999999999999999999999999999998765  67999


Q ss_pred             HHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCC
Q psy1308         157 RTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIP  225 (607)
Q Consensus       157 ~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tp  225 (607)
                      +|+..|+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|+++...+..|.||
T Consensus       108 ~A~~~~~~~~v~~Ll~~ga~~~~~~~-----~g~t~l~~A~~~~~~~~~~~L~~~~~~~~~~~~~~~~p  171 (172)
T 3v30_A          108 YAVRGNHVKCVEALLARGADLTTEAD-----SGYTPMDLAVALGYRKVQQVIENHILKLFQSNLVPADP  171 (172)
T ss_dssp             HHHHTTCHHHHHHHHHTTCCTTCCCT-----TSCCHHHHHHHHTCHHHHHHHHHHHHHHSCC-------
T ss_pred             HHHHcCCHHHHHHHHHcCCCccccCC-----CCCCHHHHHHHhCcHHHHHHHHHHHHHHhcccCCCCCC
Confidence            99999999999999999999987754     49999999999999999999999999999999999887

>4b93_B Ankyrin repeat domain-containing protein 27; endocytosis, exocytosis, snare; 2.00A {Homo sapiens}

Probab=99.96  E-value=2.3e-30  Score=256.38  Aligned_cols=175  Identities=23%  Similarity=0.297  Sum_probs=137.9

Q ss_pred             hccCCCCCHHHHHHHHcCCHH-HHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHH
Q psy1308          80 LECQSIKDLTLFRAARYGSAK-ELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVH  156 (607)
Q Consensus        80 ~~~~~~g~t~Lh~A~~~g~~~-~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~  156 (607)
                      +..+..|.||||+|+..++.+ ++++|++.| +++|.+|.+|+||||+||..|+.++|++|++.|++++..+.  .||+|
T Consensus        46 ~~~~~~~~t~L~~a~~~~~~~~~v~~Ll~~G-advn~~d~~G~TpLh~A~~~g~~~~v~~Ll~~~a~~~~~~~~g~t~l~  124 (269)
T 4b93_B           46 SAADPEFCHPLCQCPKCAPAQKRLAKVPASG-LGVNVTSQDGSSPLHVAALHGRADLIPLLLKHGANAGARNADQAVPLH  124 (269)
T ss_dssp             -----------------------------CC-CCTTCCCTTSCCHHHHHHHTTCTTHHHHHHHTTCCTTCCCTTCCCHHH
T ss_pred             cccCccCCCHHHHHHHhCCHHHHHHHHHHCC-CCCCCcCCCCCCHHHHHHHcCcHHHHHHHHhcCCCcCccCCCCCCccc
Confidence            456778999999999988764 789999998 99999999999999999999999999999999999998665  67999


Q ss_pred             HHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHH
Q psy1308         157 RTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQ  236 (607)
Q Consensus       157 ~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~  236 (607)
                      +|+..++.+++++|+++|++++..+.     .|+||||+||..|+.++|++|+++|+|+|.+|..|+||||+|+..|+.+
T Consensus       125 ~a~~~~~~~~~~~Ll~~g~~~n~~d~-----~g~TpL~~A~~~g~~~~v~~Ll~~gadvn~~~~~g~t~Lh~A~~~g~~~  199 (269)
T 4b93_B          125 LACQQGHFQVVKCLLDSNAKPNKKDL-----SGNTPLIYACSGGHHELVALLLQHGASINASNNKGNTALHEAVIEKHVF  199 (269)
T ss_dssp             HHHHHTCHHHHHHHHHTTCCSCCCCT-----TCCCHHHHHHHTTCGGGHHHHHHTTCCTTCBCTTSCBHHHHHHHTTCHH
T ss_pred             cccccChHHHHHHHHHCCCCCCCCCC-----CCCCHHHHHHHCCCHHHHHHHHHCCCCCCccccCCCcHHHHHHHcCCHH
Confidence            99999999999999999999987744     4999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhhHHhhHHHhhcccccHH
Q psy1308         237 ILQKYAEKYADLQREKEAEERRKYPLE  263 (607)
Q Consensus       237 ~~~~ll~~~~~~~~~~~~~~~~~~~L~  263 (607)
                      ++++|++.|++...   .+..|.|||+
T Consensus       200 ~v~~Ll~~Gad~~~---~d~~G~TpL~  223 (269)
T 4b93_B          200 VVELLLLHGASVQV---LNKRQRTAVD  223 (269)
T ss_dssp             HHHHHHHTTCCSCC---CCTTSCCSGG
T ss_pred             HHHHHHHCCCCCCC---cCCCCCCHHH
Confidence            99999999998763   4678899993

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis}

Probab=99.96  E-value=1.9e-28  Score=231.46  Aligned_cols=181  Identities=19%  Similarity=0.203  Sum_probs=161.4

Q ss_pred             hhhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccC
Q psy1308           4 ILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQ   83 (607)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~   83 (607)
                      +.....+.+..++.......+..+..|.||||+||..|+.+++++|++.+...                       +..+
T Consensus        13 ~~~g~~~~v~~ll~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~-----------------------~~~~   69 (201)
T 3hra_A           13 ANQRDTKKVKEILQDTTYQVDEVDTEGNTPLNIAVHNNDIEIAKALIDRGADI-----------------------NLQN   69 (201)
T ss_dssp             HHTTCHHHHHHHHTCTTCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCT-----------------------TCCC
T ss_pred             HHhccHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCC-----------------------CCCC
Confidence            34445566777777777677888899999999999999999999999876543                       3567


Q ss_pred             CCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcC-CCCCCCCC--CchHHHHHH
Q psy1308          84 SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG-ANPNLGDL--FNTVHRTAA  160 (607)
Q Consensus        84 ~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~g-a~~~~~d~--~~~l~~A~~  160 (607)
                      ..|.||||+|+..|+.+++++|++.++.+++.+|..|.||||+|+..|+.+++++|+++| ++++.+|.  +||||+|+.
T Consensus        70 ~~g~t~l~~A~~~~~~~~~~~Ll~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~~g~t~L~~A~~  149 (201)
T 3hra_A           70 SISDSPYLYAGAQGRTEILAYMLKHATPDLNKHNRYGGNALIPAAEKGHIDNVKLLLEDGREDIDFQNDFGYTALIEAVG  149 (201)
T ss_dssp             TTSCCHHHHHHHTTCHHHHHHHHHHSCCCTTCCCTTSCCSHHHHHHTTCHHHHHHHHHHCCCCTTCCCTTSCCHHHHHHH
T ss_pred             CCCCCHHHHHHHcCCHHHHHHHHhccCcccccccCCCCcHHHHHHHcCCHHHHHHHHHcCCCCcCCCCCCCCCHHHHHHH
Confidence            889999999999999999999997776899999999999999999999999999999999 89998765  679999999


Q ss_pred             cCC-----ccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcC
Q psy1308         161 EKK-----MNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG  212 (607)
Q Consensus       161 ~~~-----~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~g  212 (607)
                      .++     .+++++|+++|++++..+..     |+||||+|+..|+.+++++|+++|
T Consensus       150 ~~~~~~~~~~~v~~Ll~~ga~~~~~~~~-----g~t~l~~A~~~~~~~~~~~Ll~~G  201 (201)
T 3hra_A          150 LREGNQLYQDIVKLLMENGADQSIKDNS-----GRTAMDYANQKGYTEISKILAQYN  201 (201)
T ss_dssp             SSCCSHHHHHHHHHHHHTTCCTTCCCTT-----SCCHHHHHHHHTCHHHHHHHHTCC
T ss_pred             hccchhhHHHHHHHHHHCCCCCCccCCC-----CCCHHHHHHHcCCHhHHHHHHhcC
Confidence            998     89999999999999877544     999999999999999999999987

>1awc_B Protein (GA binding protein beta 1); complex (transcription regulation/DNA), DNA-binding, nuclear protein, ETS domain, ankyrin repeats; HET: DNA BRU CBR; 2.15A {Mus musculus} SCOP: d.211.1.1

Probab=99.96  E-value=8.9e-29  Score=223.25  Aligned_cols=149  Identities=31%  Similarity=0.391  Sum_probs=140.2

Q ss_pred             CCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCC
Q psy1308          86 KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKK  163 (607)
Q Consensus        86 g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~  163 (607)
                      ..|+||.|+..|+.+++++|++.+ ++++ .+..|.||||+|+..|+.+++++|+++|++++..+.  +||||+|+..|+
T Consensus         2 ~~~~L~~A~~~g~~~~v~~Ll~~g-~~~~-~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~   79 (153)
T 1awc_B            2 LGKKLLEAARAGQDDEVRILMANG-APFT-TDWLGTSPLHLAAQYGHFSTTEVLLRAGVSRDARTKVDRTPLHMAASEGH   79 (153)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHT-CCCC-CCTTCCCHHHHHHHHTCHHHHHHHHTTTCCTTCCCTTCCCHHHHHHHHTC
T ss_pred             ccHHHHHHHHcCCHHHHHHHHHcC-CCCC-cCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCh
Confidence            468999999999999999999998 7776 588999999999999999999999999999998765  679999999999


Q ss_pred             ccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHH
Q psy1308         164 MNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKY  241 (607)
Q Consensus       164 ~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~l  241 (607)
                      .+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..|+.+++++|
T Consensus        80 ~~~v~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~t~l~~A~~~~~~~i~~~L  152 (153)
T 1awc_B           80 ANIVEVLLKHGADVNAKDM-----LKMTALHWATEHNHQEVVELLIKYGADVHTQSKFCKTAFDISIDNGNEDLAEIL  152 (153)
T ss_dssp             HHHHHHHHTTTCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCCccccCCCCCCHHHHHHHcCCHHHHHHh
Confidence            9999999999999987754     499999999999999999999999999999999999999999999999999876

>2etb_A Transient receptor potential cation channel subfamily V member 2; TRPV2, ankyrin repeat domain, transport protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A

Probab=99.96  E-value=2.6e-29  Score=247.21  Aligned_cols=196  Identities=17%  Similarity=0.136  Sum_probs=166.0

Q ss_pred             CCCHHHHHHHHcCCHH----HHHHHHhcCCCCCcc----CCCCCCcHHHHHHHc---CCHHHHHHHHHcCCCCCCC----
Q psy1308          85 IKDLTLFRAARYGSAK----ELKTFIENSKLDVNM----RHPLGWTPLHVAAIN---GKVDNVRVLLEAGANPNLG----  149 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~----~v~~Ll~~~~~~~~~----~d~~g~tpLh~A~~~---g~~~~v~~Ll~~ga~~~~~----  149 (607)
                      .|.||||+||..|+.+    ++++|++.+ +++|.    +|..|+||||+|+..   |+.+++++|+++|++++..    
T Consensus         1 ~G~t~L~~A~~~g~~~~v~~ll~~l~~~g-~~i~~~~~~~d~~g~t~L~~A~~~~~~g~~~~v~~Ll~~g~~~~~~~~~~   79 (256)
T 2etb_A            1 FDRDRLFSVVSRGVPEELTGLLEYLRWNS-KYLTDSAYTEGSTGKTCLMKAVLNLQDGVNACIMPLLQIDKDSGNPKPLV   79 (256)
T ss_dssp             CCHHHHHHHHHHTCGGGGTTHHHHHHHHT-CCTTSGGGSBTTTTBCHHHHHHHTCBTTBCTTHHHHHHHHHHTTCSSCGG
T ss_pred             CCccHHHHHHHcCCHHHHHHHHHHHHHcC-CCcccccccCCCCCCCHHHHHHHccccchHHHHHHHHhcCCcccchhhhc
Confidence            4789999999999997    667777788 99998    899999999999999   9999999999999988743    


Q ss_pred             ---------CCCchHHHHHHcCCccHHHHHHhcCCCccccCCC--------CcCcCCcchhhHHHhcCCHHHHHHHHh--
Q psy1308         150 ---------DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNP--------NMTFLGFSALHYGVVAGNTEVVELLLK--  210 (607)
Q Consensus       150 ---------d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~--------~~d~~g~TpLh~A~~~g~~~~v~~Ll~--  210 (607)
                               +++||||+|+..|+.+++++|+++|++++..+..        ..|..|+||||+|+..|+.+++++|++  
T Consensus        80 ~~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~~~~~~~~~~~~~~~~~~~~g~tpL~~A~~~~~~~~v~~Ll~~~  159 (256)
T 2etb_A           80 NAQCTDEFYQGHSALHIAIEKRSLQCVKLLVENGADVHLRACGRFFQKHQGTCFYFGELPLSLAACTKQWDVVTYLLENP  159 (256)
T ss_dssp             GCCCCSTTTTTCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCCSGGGSCCSSSCCCSCSSHHHHHHHTTCHHHHHHHHHCS
T ss_pred             ccccccccccCCCHHHHHHHcCCHHHHHHHHHcCCCCCcccccccccccccccccCCCCHHHHHHHcCCHHHHHHHHhcc
Confidence                     3688999999999999999999999999877542        123349999999999999999999999  


Q ss_pred             -cCCCCCccCCCCCCCCcchhh--hhHHH-------HHHHHHHhhhhHHhh----HHHhhcccccHHHHHHhHhhhhHHH
Q psy1308         211 -SGADPTVKDNSGHIPSDYAED--ANIKQ-------ILQKYAEKYADLQRE----KEAEERRKYPLEQRLKDRIVGQESA  276 (607)
Q Consensus       211 -~gad~~~~d~~g~Tpl~~A~~--~~~~~-------~~~~ll~~~~~~~~~----~~~~~~~~~~L~~~l~~~i~Gq~~a  276 (607)
                       +|+|++.+|..|+||||+|+.  .++.+       ++++|++.|++....    +..+..+.+||+.+...   |+.+.
T Consensus       160 ~~ga~~n~~d~~g~TpLh~A~~~~~~~~~~~~~~~~iv~~Ll~~ga~~~~~~~~~~~~d~~g~tpL~~A~~~---g~~~~  236 (256)
T 2etb_A          160 HQPASLEATDSLGNTVLHALVMIADNSPENSALVIHMYDGLLQMGARLCPTVQLEEISNHQGLTPLKLAAKE---GKIEI  236 (256)
T ss_dssp             SCCCCTTCCCTTSCCHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHHHHSTTCCGGGCCCTTSCCHHHHHHHT---TCHHH
T ss_pred             ccCCCcCccCCCCCCHHHHHHHcccCCchhhHHHHHHHHHHHHcCCCcccccccccccCCCCCCHHHHHHHh---CCHHH
Confidence             999999999999999999998  77887       999999999987210    24467889999666543   45566


Q ss_pred             HHHHHHHH
Q psy1308         277 INIISAAI  284 (607)
Q Consensus       277 i~~l~~~i  284 (607)
                      ++.+.+.-
T Consensus       237 v~~Ll~~g  244 (256)
T 2etb_A          237 FRHILQRE  244 (256)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHhCC
Confidence            66555443

>2rfm_A Putative ankyrin repeat protein TV1425; ANK repeat, protein binding; HET: BU2 GOL; 1.65A {Thermoplasma volcanium}

Probab=99.96  E-value=1.4e-28  Score=230.97  Aligned_cols=161  Identities=18%  Similarity=0.159  Sum_probs=147.2

Q ss_pred             CCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHH
Q psy1308          23 KPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKEL  102 (607)
Q Consensus        23 ~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v  102 (607)
                      .+..+..|+||||+||..|+.+++++|+..+..                       ++..+..|.||||+|+..|+.+++
T Consensus        28 ~n~~d~~g~t~L~~A~~~g~~~~v~~Ll~~~~~-----------------------~~~~~~~g~t~L~~A~~~~~~~~v   84 (192)
T 2rfm_A           28 RNYRDSYNRTPLMVACMLGMENAIDKLVENFDK-----------------------LEDKDIEGSTALIWAVKNNRLGIA   84 (192)
T ss_dssp             HTCCCTTCCCHHHHHHHHTCGGGHHHHHHHHCC-----------------------TTCCCTTSCCHHHHHHHTTCHHHH
T ss_pred             HhCcCCCCCCHHHHHHHcCCHHHHHHHHHhccc-----------------------cccccccCccHHHHHHHcCCHHHH
Confidence            355788899999999999999999999876432                       235678899999999999999999


Q ss_pred             HHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCcccc
Q psy1308         103 KTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDV  180 (607)
Q Consensus       103 ~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~  180 (607)
                      ++|++.+ ++++.+|..|+||||+|+..|+.+++++|+++|++++.+|.  +||||+|+..|+.+++++|+++|++++..
T Consensus        85 ~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~  163 (192)
T 2rfm_A           85 EKLLSKG-SNVNTKDFSGKTPLMWSIIFGYSEMSYFLLEHGANVNDRNLEGETPLIVASKYGRSEIVKKLLELGADISAR  163 (192)
T ss_dssp             HHHHHHT-CCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCSSCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCTTCB
T ss_pred             HHHHHCC-CCCCCCCCCCCcHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCCc
Confidence            9999999 99999999999999999999999999999999999999764  67999999999999999999999999877


Q ss_pred             CCCCcCcCCcchhhHHHhcCCHHHHHHHHhcC
Q psy1308         181 LNPNMTFLGFSALHYGVVAGNTEVVELLLKSG  212 (607)
Q Consensus       181 ~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~g  212 (607)
                      +.     .|+||||+|+..|+.+++++|+++|
T Consensus       164 ~~-----~g~t~l~~A~~~~~~~~v~~Ll~~~  190 (192)
T 2rfm_A          164 DL-----TGLTAEASARIFGRQEVIKIFTEVR  190 (192)
T ss_dssp             CT-----TSCBHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CC-----CCCCHHHHHHHhCcHHHHHHHHhcc
Confidence            54     4999999999999999999999875

>2pnn_A Transient receptor potential cation channel subfa member 1; TRPV1, ankyrin repeat domain, transport protein; HET: ATP; 2.70A {Rattus norvegicus} PDB: 2nyj_A*

Probab=99.96  E-value=5.2e-29  Score=247.59  Aligned_cols=189  Identities=16%  Similarity=0.179  Sum_probs=146.5

Q ss_pred             CCcCCchHHHHHHhc---CChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHH
Q psy1308          26 KRGFQSSKLFYTTQS---TQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKEL  102 (607)
Q Consensus        26 ~~~~g~t~L~~A~~~---g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v  102 (607)
                      .+..|.||||+||..   |+.+++++|+..+......        .  ..  ........|..|.||||+|+..|+.++|
T Consensus        50 ~~~~g~tpL~~A~~~~~~g~~~~v~~Ll~~ga~~~~~--------~--~~--i~~~~~~~d~~g~tpL~~A~~~g~~~~v  117 (273)
T 2pnn_A           50 DPETGKTCLLKAMLNLHNGQNDTIALLLDVARKTDSL--------K--QF--VNASYTDSYYKGQTALHIAIERRNMTLV  117 (273)
T ss_dssp             CTTTCCCHHHHHHHSCBTTBCHHHHHHHHHHHHTTCH--------H--HH--HTCCCCSTTTTTCCHHHHHHHTTCHHHH
T ss_pred             cCcCCCCHHHHHHHHHhcCChHHHHHHHHhhccccch--------h--HH--hhcccccccCCCCCHHHHHHHcCCHHHH
Confidence            477899999999987   9999999999875432210        0  00  0011234677999999999999999999


Q ss_pred             HHHHhcCCCCCccCCC--------------CCCcHHHHHHHcCCHHHHHHHHH---cCCCCCCCCC--CchHHHHHHcCC
Q psy1308         103 KTFIENSKLDVNMRHP--------------LGWTPLHVAAINGKVDNVRVLLE---AGANPNLGDL--FNTVHRTAAEKK  163 (607)
Q Consensus       103 ~~Ll~~~~~~~~~~d~--------------~g~tpLh~A~~~g~~~~v~~Ll~---~ga~~~~~d~--~~~l~~A~~~~~  163 (607)
                      ++|+++| ++++.++.              .|+||||+|+..|+.+++++|++   +|++++.+|.  +||||+|+..|+
T Consensus       118 ~~Ll~~g-a~~~~~~~~~~~~~~~~~~~~~~g~tpL~~A~~~g~~~~v~~Ll~~~~~gad~~~~d~~g~tpLh~A~~~~~  196 (273)
T 2pnn_A          118 TLLVENG-ADVQAAANGDFFKKTKGRPGFYFGELPLSLAACTNQLAIVKFLLQNSWQPADISARDSVGNTVLHALVEVAD  196 (273)
T ss_dssp             HHHHHTT-CCTTCCBCSGGGSSCSSSCCCCSCBSHHHHHHHTTCHHHHHHHHHCSSCCCCTTCCCTTSCCHHHHHHHHCC
T ss_pred             HHHHHCC-CCcCccccccccccccccccccCCCCHHHHHHHcCCHHHHHHHHhcccCCCCceeeCCCCCcHHHHHHHccC
Confidence            9999998 99999987              79999999999999999999999   9999999765  679999999998


Q ss_pred             ---------ccHHHHHHhcCCCccccCC--CCcCcCCcchhhHHHhcCCHHHHHHHHhcCC-CCCccCCCCCCCCc
Q psy1308         164 ---------MNPFEVLLKREDEFNDVLN--PNMTFLGFSALHYGVVAGNTEVVELLLKSGA-DPTVKDNSGHIPSD  227 (607)
Q Consensus       164 ---------~~~~~~Ll~~g~~~~~~~~--~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~ga-d~~~~d~~g~Tpl~  227 (607)
                               .+++++|+++|++++....  +..|..|+||||+|+..|+.+++++|+++|| |+......+++|-+
T Consensus       197 ~~~~~~~~~~~~v~~Ll~~ga~~n~~~~~~~~~d~~g~TpL~~A~~~g~~~iv~~Ll~~ga~dp~~~~~~~~~~~~  272 (273)
T 2pnn_A          197 NTVDNTKFVTSMYNEILILGAKLHPTLKLEEITNRKGLTPLALAASSGKIGVLAYILQREIHEPECRHAAAHHHHH  272 (273)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHCTTCCGGGCCCTTSCCHHHHHHHTTCHHHHHHHHHHHTC--------------
T ss_pred             cchhHHHHHHHHHHHHHHhhhhcccccccccccCCCCCCHHHHHHHhChHHHHHHHHHCCCCCchhhhhhhhhccC
Confidence                     7899999999999874110  1124559999999999999999999999999 99998888887754

>1ihb_A P18-INK4C(INK6), cyclin-dependent kinase 6 inhibitor; cell cycle inhibitor, ankyrin repeat, CDK 4/6 inhibitor; 1.95A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bu9_A 1g3n_B 1mx4_A 1mx2_A 1mx6_A

Probab=99.95  E-value=3.1e-28  Score=221.67  Aligned_cols=156  Identities=20%  Similarity=0.200  Sum_probs=140.2

Q ss_pred             CCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhc
Q psy1308          29 FQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIEN  108 (607)
Q Consensus        29 ~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~  108 (607)
                      ...||||+|+..|+.+++++|++.+...                       +..+..|.||||+|+. |+.+++++|+++
T Consensus         4 ~~~~~L~~A~~~g~~~~v~~Ll~~~~~~-----------------------~~~~~~g~t~L~~A~~-~~~~~v~~Ll~~   59 (162)
T 1ihb_A            4 PWGNELASAAARGDLEQLTSLLQNNVNV-----------------------NAQNGFGRTALQVMKL-GNPEIARRLLLR   59 (162)
T ss_dssp             -CHHHHHHHHHHTCHHHHHHHTTSCCCT-----------------------TCCCTTSCCHHHHCCS-SCHHHHHHHHHT
T ss_pred             hHhhHHHHHHHcCCHHHHHHHHhCCCCc-----------------------cccCccCccHHHHHHc-CcHHHHHHHHHc
Confidence            3569999999999999999998765432                       3567899999999999 999999999999


Q ss_pred             CCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCC-ccccCCCCc
Q psy1308         109 SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDE-FNDVLNPNM  185 (607)
Q Consensus       109 ~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~-~~~~~~~~~  185 (607)
                      + ++++.+|..|+||||+|+..|+.+++++|+++|++++.+|.  +||||+|+..|+.+++++|+++|++ ++..     
T Consensus        60 g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~-----  133 (162)
T 1ihb_A           60 G-ANPDLKDRTGFAVIHDAARAGFLDTLQTLLEFQADVNIEDNEGNLPLHLAAKEGHLRVVEFLVKHTASNVGHR-----  133 (162)
T ss_dssp             T-CCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHSCCCTTCC-----
T ss_pred             C-CCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHccCCCCCCc-----
Confidence            8 99999999999999999999999999999999999998765  6799999999999999999999998 4555     


Q ss_pred             CcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         186 TFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       186 d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                      |..|+||||+|+..|+.+++++|+++|||
T Consensus       134 ~~~g~t~l~~A~~~~~~~~~~~Ll~~GAd  162 (162)
T 1ihb_A          134 NHKGDTACDLARLYGRNEVVSLMQANGAG  162 (162)
T ss_dssp             CTTSCCHHHHHHHTTCHHHHHHHHHTC--
T ss_pred             CCCCCcHHHHHHHcCCHHHHHHHHHhCCC
Confidence            34499999999999999999999999986

>3v31_A Ankyrin repeat family A protein 2; structural genomics consortium, SGC, ankra2, ANK repeat, Pro binding, HDAC4; 1.57A {Homo sapiens} PDB: 3v2x_A 3v2o_A 3so8_A

Probab=99.95  E-value=2.8e-28  Score=223.34  Aligned_cols=159  Identities=15%  Similarity=0.138  Sum_probs=145.8

Q ss_pred             cCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHh
Q psy1308          28 GFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIE  107 (607)
Q Consensus        28 ~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~  107 (607)
                      +.|+||||+|+..|+.+++++|+..+..                       ++..|..|.||||+|+..|+.+++++|++
T Consensus         1 G~~~t~L~~A~~~g~~~~v~~ll~~~~~-----------------------~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~   57 (167)
T 3v31_A            1 GANSLSVHQLAAQGEMLYLATRIEQENV-----------------------INHTDEEGFTPLMWAAAHGQIAVVEFLLQ   57 (167)
T ss_dssp             CTTCCCHHHHHHTTCHHHHHHHHHHSSC-----------------------TTCCCTTSCCHHHHHHHTTCHHHHHHHHH
T ss_pred             CCCcchHHHHHHCCCHHHHHHHHHcCCC-----------------------cCCCCCCCCCHHHHHHHCCCHHHHHHHHH
Confidence            3589999999999999999999876533                       24678899999999999999999999999


Q ss_pred             cCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCc
Q psy1308         108 NSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNM  185 (607)
Q Consensus       108 ~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~  185 (607)
                      ++ ++++.+|..|.||||+|+..|+.+++++|+++|++++..|.  +||||+|+..|+.+++++|+++|++++..+.   
T Consensus        58 ~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~---  133 (167)
T 3v31_A           58 NG-ADPQLLGKGRESALSLACSKGYTDIVKMLLDCGVDVNEYDWNGGTPLLYAVHGNHVKCVKMLLESGADPTIETD---  133 (167)
T ss_dssp             TT-CCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHHTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCT---
T ss_pred             cC-CCCCCcCCCCCcHHHHHHHcCCHHHHHHHHHCCCCCCcCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCC---
Confidence            98 99999999999999999999999999999999999998765  6799999999999999999999999987744   


Q ss_pred             CcCCcchhhHHHhcCCHHHHHHHHhcCCCC
Q psy1308         186 TFLGFSALHYGVVAGNTEVVELLLKSGADP  215 (607)
Q Consensus       186 d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~  215 (607)
                        .|+||||+|+..|+.+++++|++++++.
T Consensus       134 --~g~t~l~~A~~~~~~~~~~~L~~~~~~~  161 (167)
T 3v31_A          134 --SGYNSMDLAVALGYRSVQQVIESHLLKL  161 (167)
T ss_dssp             --TSCCHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             --CCCCHHHHHHHcCcHHHHHHHHHHHHHH
Confidence              4999999999999999999999987654

>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor, cytoplasm, phosphorylation, P53 binding protein, ANK repeat, SH3 domain; 2.10A {Homo sapiens}

Probab=99.95  E-value=1.4e-30  Score=251.69  Aligned_cols=185  Identities=16%  Similarity=0.031  Sum_probs=164.0

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHH
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELK  103 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~  103 (607)
                      +..+..|.||||+||..|+.+++++|+..+...                       +..|..|.||||+||..|+.++|+
T Consensus        15 ~~~~~~~~t~L~~A~~~g~~~~v~~Ll~~g~~~-----------------------~~~d~~g~tpLh~A~~~g~~~~v~   71 (229)
T 2vge_A           15 RRARLNPLVLLLDAALTGELEVVQQAVKEMNDP-----------------------SQPNEEGITALHNAICGANYSIVD   71 (229)
T ss_dssp             CCTTSCHHHHHHHHHHHTCHHHHHHHHHHSSCT-----------------------TCCCTTSCCHHHHHHHTTCHHHHH
T ss_pred             cccccchhHHHHHHHHcCCHHHHHHHHhcCCCC-----------------------CCCCCCCCCHHHHHHHcCCHHHHH
Confidence            345667889999999999999999998765432                       356789999999999999999999


Q ss_pred             HHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCC---CCCchHHHH--HHcCCccHHHHHHhcCCCcc
Q psy1308         104 TFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG---DLFNTVHRT--AAEKKMNPFEVLLKREDEFN  178 (607)
Q Consensus       104 ~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~---d~~~~l~~A--~~~~~~~~~~~Ll~~g~~~~  178 (607)
                      +|++.| +++|.+|..|+||||+|+..|+.+++++|+++|++++..   +++||||+|  +..|+.+++++|+++|++++
T Consensus        72 ~Ll~~g-a~~n~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~~~~~g~tpL~~A~a~~~~~~~~v~~Ll~~ga~~~  150 (229)
T 2vge_A           72 FLITAG-ANVNSPDSHGWTPLHCAASCNDTVICMALVQHGAAIFATTLSDGATAFEKCDPYREGYADCATYLADVEQSMG  150 (229)
T ss_dssp             HHHHTT-CCTTCCCTTCCCHHHHHHHTTCHHHHHHHHTTTCCTTCCCSSTTCCTGGGCCTTSTTHHHHHHHHHHHHHHTT
T ss_pred             HHHHCC-CCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCcccccCCCCCCHHHHHHHHhcChHHHHHHHHHcCCCcc
Confidence            999998 999999999999999999999999999999999999986   457899999  99999999999999999998


Q ss_pred             ccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC--CCccCCCCCCCCcchhhhhHHHHHHH
Q psy1308         179 DVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD--PTVKDNSGHIPSDYAEDANIKQILQK  240 (607)
Q Consensus       179 ~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad--~~~~d~~g~Tpl~~A~~~~~~~~~~~  240 (607)
                      ..+.     .|.||||.++..+..   ++|++.|++  ++.+|..|+||||+|+..|+.++++.
T Consensus       151 ~~~~-----~~~~~l~~~~~~~~~---~~ll~~ga~~~~~~~d~~G~TpL~~A~~~g~~~~v~~  206 (229)
T 2vge_A          151 LMNS-----GAVYALWDYSAEFGD---ELSFREGESVTVLRRDGPEETDWWWAALHGQEGYVPR  206 (229)
T ss_dssp             TSGG-----GEEEESSCBCCSSTT---BCCBCTTCEEEEEESSCTTCSSEEEEEETTEEEEEEG
T ss_pred             cccC-----CchHHHHHHhhcccc---ccCccccccccccccCCCcccHHHHHHHcCCcceeeh
Confidence            8744     499999976655433   678899988  77889999999999999999988865

>2y1l_E Darpin-8.4; hydrolase-inhibitor complex, DEVD darpin, ankyrin repeat Pro ribosome display, apoptosis; 1.80A {Synthetic source} PDB: 3noc_D* 4dx5_D* 2j8s_D* 4dx6_D* 4dx7_D* 3nog_D* 1mj0_A 1svx_A 2qyj_A 2bkg_A 2p2c_P 2bkk_B* 2v5q_C 2xee_A 2xeh_A 3q9n_C* 3q9u_C*

Probab=99.95  E-value=9.6e-28  Score=220.32  Aligned_cols=159  Identities=26%  Similarity=0.287  Sum_probs=142.9

Q ss_pred             CCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHH
Q psy1308          25 YKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKT  104 (607)
Q Consensus        25 ~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~  104 (607)
                      .....+.||||+||..|+.+++++|++.+...                       +..+..|.||||+|+..|+.+++++
T Consensus         9 ~~~~~~~~~l~~A~~~g~~~~v~~Ll~~g~~~-----------------------~~~~~~g~t~L~~A~~~~~~~~v~~   65 (169)
T 2y1l_E            9 HHGSDLGKKLLEAARAGRDDEVRILMANGADV-----------------------NAEDASGWTPLHLAAFNGHLEIVEV   65 (169)
T ss_dssp             ----CHHHHHHHHHHHTCHHHHHHHHHTTCCT-----------------------TCCCTTSCCHHHHHHHTTCHHHHHH
T ss_pred             cCCCcccchHHHHHHcCCHHHHHHHHHCCCCC-----------------------CCCCCCCCCHHHHHHHcCCHHHHHH
Confidence            34566789999999999999999999876443                       3567889999999999999999999


Q ss_pred             HHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCC
Q psy1308         105 FIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLN  182 (607)
Q Consensus       105 Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~  182 (607)
                      |++++ ++++.+|..|+||||+|+..|+.+++++|+++|++++..|.  +||||+|+..|+.+++++|+++|++++..+.
T Consensus        66 Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~  144 (169)
T 2y1l_E           66 LLKNG-ADVNAVDHAGMTPLRLAALFGHLEIVEVLLKNGADVNANDMEGHTPLHLAAMFGHLEIVEVLLKNGADVNAQDK  144 (169)
T ss_dssp             HHHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCT
T ss_pred             HHHcC-CCCCccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCC
Confidence            99998 99999999999999999999999999999999999998765  6799999999999999999999999887644


Q ss_pred             CCcCcCCcchhhHHHhcCCHHHHHHHHhcC
Q psy1308         183 PNMTFLGFSALHYGVVAGNTEVVELLLKSG  212 (607)
Q Consensus       183 ~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~g  212 (607)
                           .|.||||+|+..|+.+++++|+++|
T Consensus       145 -----~g~t~l~~A~~~~~~~~~~~L~~~G  169 (169)
T 2y1l_E          145 -----FGKTAFDISIDNGNEDLAEILQKLN  169 (169)
T ss_dssp             -----TSCCHHHHHHHTTCHHHHHHHHTC-
T ss_pred             -----CCCCHHHHHHHhCCHHHHHHHHHcC
Confidence                 4999999999999999999999886

>1bd8_A P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyrin motif; 1.80A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bi8_B 1ap7_A 1blx_B

Probab=99.95  E-value=3.2e-28  Score=220.16  Aligned_cols=152  Identities=24%  Similarity=0.329  Sum_probs=143.3

Q ss_pred             CCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCC
Q psy1308          86 KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKK  163 (607)
Q Consensus        86 g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~  163 (607)
                      +.||||.||..|+.+++++|++..+.+++.+|..|+||||+ +..|+.+++++|+++|++++..|.  +||||+|+..|+
T Consensus         2 ~~~~L~~A~~~g~~~~v~~ll~~~~~~~~~~~~~g~t~L~~-~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~   80 (156)
T 1bd8_A            2 AGDRLSGAAARGDVQEVRRLLHRELVHPDALNRFGKTALQV-MMFGSTAIALELLKQGASPNVQDTSGTSPVHDAARTGF   80 (156)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHTTCCCTTCCCTTSCCHHHH-SCTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTC
T ss_pred             cchHHHHHHHhCCHHHHHHHHHhhCcCccccCCCCCcHHHH-HHcCCHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHcCc
Confidence            56999999999999999999999657999999999999999 999999999999999999998765  679999999999


Q ss_pred             ccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHH
Q psy1308         164 MNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAE  243 (607)
Q Consensus       164 ~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~  243 (607)
                      .+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++ ++++.+|..|+||||+|+..++.+++++|++
T Consensus        81 ~~~v~~Ll~~g~~~~~~~~-----~g~t~L~~A~~~~~~~~v~~Ll~~-~~~~~~~~~g~t~l~~A~~~~~~~~v~~Ll~  154 (156)
T 1bd8_A           81 LDTLKVLVEHGADVNVPDG-----TGALPIHLAVQEGHTAVVSFLAAE-SDLHRRDARGLTPLELALQRGAQDLVDILQG  154 (156)
T ss_dssp             HHHHHHHHHTTCCSCCCCT-----TSCCHHHHHHHHTCHHHHHHHHTT-SCTTCCCTTSCCHHHHHHHSCCHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCCCCcCC-----CCCcHHHHHHHhChHHHHHHHHhc-cCCCCcCCCCCCHHHHHHHcCcHHHHHHHHh
Confidence            9999999999999987754     499999999999999999999999 9999999999999999999999999999986


Q ss_pred             h
Q psy1308         244 K  244 (607)
Q Consensus       244 ~  244 (607)
                      +
T Consensus       155 ~  155 (156)
T 1bd8_A          155 H  155 (156)
T ss_dssp             T
T ss_pred             h
Confidence            4

>3f6q_A Integrin-linked protein kinase; ILK, integrin-linked kinase, pinch, ankyrin repeat, ANK, IPP; 1.60A {Homo sapiens} PDB: 3ixe_A 2kbx_A

Probab=99.95  E-value=9.7e-28  Score=222.48  Aligned_cols=166  Identities=17%  Similarity=0.036  Sum_probs=150.2

Q ss_pred             CCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhc
Q psy1308          29 FQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIEN  108 (607)
Q Consensus        29 ~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~  108 (607)
                      .+.+|||.||..|+.+++++|+..+...                      ++..+..|.||||+||..|+.+++++|++.
T Consensus         4 ~~~~~l~~A~~~g~~~~v~~ll~~~~~~----------------------~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~   61 (179)
T 3f6q_A            4 EFMDDIFTQCREGNAVAVRLWLDNTEND----------------------LNQGDDHGFSPLHWACREGRSAVVEMLIMR   61 (179)
T ss_dssp             ---CCHHHHHHHTCHHHHHHHHHCTTSC----------------------TTCCCTTSCCHHHHHHHTTCHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHhcCccc----------------------ccccCCCCCCHHHHHHHcCcHHHHHHHHHc
Confidence            4679999999999999999999774322                      246788999999999999999999999999


Q ss_pred             CCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcC
Q psy1308         109 SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMT  186 (607)
Q Consensus       109 ~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d  186 (607)
                      + ++++.+|..|+||||+|+..|+.+++++|+++|++++..|.  +||||+|+..|+.+++++|+++|++++..+.    
T Consensus        62 g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~d~~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~----  136 (179)
T 3f6q_A           62 G-ARINVMNRGDDTPLHLAASHGHRDIVQKLLQYKADINAVNEHGNVPLHYACFWGQDQVAEDLVANGALVSICNK----  136 (179)
T ss_dssp             T-CCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCSSBCCT----
T ss_pred             C-CCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCccCCCCCCHHHHHHHcCCHHHHHHHHHCCCCcchhcc----
Confidence            8 99999999999999999999999999999999999999765  6799999999999999999999999987754    


Q ss_pred             cCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCC
Q psy1308         187 FLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSG  222 (607)
Q Consensus       187 ~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g  222 (607)
                       .|.||||+|+..++.+++++|+++|++++..+..+
T Consensus       137 -~g~tpl~~A~~~~~~~~~~~L~~~g~~~~~~~~~~  171 (179)
T 3f6q_A          137 -YGEMPVDKAKAPLRELLRERAEKMGQNLNRIPYKD  171 (179)
T ss_dssp             -TSCCGGGGSCHHHHHHHHHHHHHTTCCCSCBCCCC
T ss_pred             -CCCCcHHHHHHHHHHHHHHHHHHhhcCcccCCccc
Confidence             49999999999999999999999999999887665

>3twr_A Tankyrase-2; ankyrin repeat, protein-protein interaction, substrate recru poly(ADP-ribosyl)ation; HET: PE8; 1.55A {Homo sapiens} SCOP: d.211.1.0 PDB: 3tws_A* 3twt_A* 3twv_A* 3tww_A 3twx_A 3twq_A 3twu_A 2y0i_S*

Probab=99.95  E-value=8.3e-28  Score=219.69  Aligned_cols=159  Identities=21%  Similarity=0.298  Sum_probs=141.4

Q ss_pred             CCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHH
Q psy1308          26 KRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTF  105 (607)
Q Consensus        26 ~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~L  105 (607)
                      .+..|.||||+|+..|+.+++++|+......                      ....+..|.||||+|+..|+.+++++|
T Consensus         4 ~~~~~~~~l~~A~~~g~~~~v~~ll~~~~~~----------------------~~~~~~~g~t~L~~A~~~~~~~~v~~L   61 (165)
T 3twr_A            4 GNSEADRQLLEAAKAGDVETVKKLCTVQSVN----------------------CRDIEGRQSTPLHFAAGYNRVSVVEYL   61 (165)
T ss_dssp             --CHHHHHHHHHHHHTCHHHHHHHCCTTTTT----------------------CCCTTTTCCCHHHHHHHTTCHHHHHHH
T ss_pred             CcchhhHHHHHHHHhCCHHHHHHHHHcCCCC----------------------ccccccCCCCHHHHHHHcChHHHHHHH
Confidence            4567899999999999999999998754321                      235677899999999999999999999


Q ss_pred             HhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCC
Q psy1308         106 IENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNP  183 (607)
Q Consensus       106 l~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~  183 (607)
                      ++++ ++++.+|..|+||||+|+..|+.+++++|+++|++++..|.  +||||+|+..|+.+++++|+++|++++..+. 
T Consensus        62 l~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~-  139 (165)
T 3twr_A           62 LQHG-ADVHAKDKGGLVPLHNACSYGHYEVAELLVKHGAVVNVADLWKFTPLHEAAAKGKYEICKLLLQHGADPTKKNR-  139 (165)
T ss_dssp             HHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCT-
T ss_pred             HhcC-CCCCccCCCCCCHHHHHHHcCcHHHHHHHHhCCCCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCcccCC-
Confidence            9998 99999999999999999999999999999999999998775  6799999999999999999999999987754 


Q ss_pred             CcCcCCcchhhHHHhcCCHHHHHHHHhcCC
Q psy1308         184 NMTFLGFSALHYGVVAGNTEVVELLLKSGA  213 (607)
Q Consensus       184 ~~d~~g~TpLh~A~~~g~~~~v~~Ll~~ga  213 (607)
                          .|+||||+|+. |+.+++++|+++||
T Consensus       140 ----~g~t~l~~a~~-~~~~i~~~L~~~gA  164 (165)
T 3twr_A          140 ----DGNTPLDLVKD-GDTDIQDLLRGDAA  164 (165)
T ss_dssp             ----TSCCTGGGSCT-TCHHHHHHHHTC--
T ss_pred             ----CCCChhHhHhc-CChHHHHHHhhccc
Confidence                49999999877 99999999999886

>1ycs_B 53BP2, P53BP2; ankyrin repeats, SH3, tumor suppressor, multigene family, nuclear protein, phosphorylation, disease mutation, polymorphism; 2.20A {Homo sapiens} SCOP: b.34.2.1 d.211.1.1 PDB: 4a63_B

Probab=99.95  E-value=2.1e-28  Score=238.15  Aligned_cols=178  Identities=15%  Similarity=0.086  Sum_probs=127.6

Q ss_pred             cCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHh
Q psy1308          28 GFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIE  107 (607)
Q Consensus        28 ~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~  107 (607)
                      ..|.||||.|+..++.++++.|+..+....                        .+..|.||||.|+..|+.++|++|++
T Consensus         3 ~~g~t~L~~a~~~~~~~~~~~ll~~g~~~~------------------------~~~~~~t~L~~A~~~g~~~~v~~Ll~   58 (239)
T 1ycs_B            3 ITGQVSLPPGKRTNLRKTGSERIAHGMRVK------------------------FNPLPLALLLDSSLEGEFDLVQRIIY   58 (239)
T ss_dssp             ----------------------------------------------------------CHHHHHHHHHHTCHHHHHHHTS
T ss_pred             ccccccCchhhhhhhHHHHHHHhccCCCcc------------------------cCchhhHHHHHHHHcCCHHHHHHHHH
Confidence            458999999999999999999988765433                        23567899999999999999999999


Q ss_pred             cCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCc
Q psy1308         108 NSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNM  185 (607)
Q Consensus       108 ~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~  185 (607)
                      .+ +++|.+|..|+||||+||..|+.+++++|+++|++++.+|.  +||||+|+..|+.+++++|+++|++++..+..  
T Consensus        59 ~g-~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~~~~d~~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~~~~~~--  135 (239)
T 1ycs_B           59 EV-DDPSLPNDEGITALHNAVCAGHTEIVKFLVQFGVNVNAADSDGWTPLHCAASCNNVQVCKFLVESGAAVFAMTYS--  135 (239)
T ss_dssp             TT-SSCCCCCTTSCCHHHHHHHHTCHHHHHHHHHHTCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCSS--
T ss_pred             cC-CCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCcceecCC--
Confidence            98 89999999999999999999999999999999999998765  67999999999999999999999999877544  


Q ss_pred             CcCCcchhhHH--HhcCCHHHHHHHHhcCCCCCcc---------CCCCCCCCcchhhhhH
Q psy1308         186 TFLGFSALHYG--VVAGNTEVVELLLKSGADPTVK---------DNSGHIPSDYAEDANI  234 (607)
Q Consensus       186 d~~g~TpLh~A--~~~g~~~~v~~Ll~~gad~~~~---------d~~g~Tpl~~A~~~~~  234 (607)
                        .++||||+|  +..|+.+++++|+++|++++..         +..+.+|++++...|.
T Consensus       136 --~~~t~l~~a~~~~~g~~~~~~~Ll~~~a~~~~~~~~~~~al~d~~~~~~~eLa~~~G~  193 (239)
T 1ycs_B          136 --DMQTAADKCEEMEEGYTQCSQFLYGVQEKMGIMNKGVIYALWDYEPQNDDELPMKEGD  193 (239)
T ss_dssp             --SCCCHHHHCCSSSTTCCCHHHHHHHHHHHTTTTGGGEEEESSCBCCSSTTBCCBCSSC
T ss_pred             --CCcchHHHHHHhhhccHHHHHHHHHhhhcccccccceEEEEeccCCCCCCcccccCCC
Confidence              134999999  7889999999999999988876         5668888888877664

>1sw6_A Regulatory protein SWI6; transcription regulation, ankyrin repeats, cell-cycle; 2.10A {Saccharomyces cerevisiae} SCOP: d.211.1.1

Probab=99.95  E-value=6.7e-29  Score=253.45  Aligned_cols=218  Identities=12%  Similarity=-0.017  Sum_probs=161.2

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccc---c-----------ccCCh---HHHH----------HHccCc
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNN---T-----------CMYNN---LLFA----------SACSLA   76 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~---~-----------~~~~~---l~~a----------~~~~~~   76 (607)
                      +..+..|.|+++     |+.+++++|+..+.......   +           .....   .+.+          .+...+
T Consensus        46 ~~~~~~g~~~~~-----g~~~~v~~Ll~~g~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~l~~~g  120 (327)
T 1sw6_A           46 MKALPSPVVNDN-----EQKMKLEAFLQRLLFPEIQEMPTSLNNDSSNRNSEGGSSNQQQQHVSFDSLLQEVNDAFPNTQ  120 (327)
T ss_dssp             EECBCCCCCCCH-----HHHHHHHHHHHHHHC-------------------------------CHHHHHHHHHHHCTTSC
T ss_pred             ccCCCCCCcccC-----chhHHHHHHHHhccCCccccchHhhhcccccccccccCCccchhHHHHHhhHHHHHHHHHhcC
Confidence            445678899987     99999999997764433210   0           00000   0111          223344


Q ss_pred             cchhc-cCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCC---HHHHHHHHHcC-CCCCCCC-
Q psy1308          77 LTLLE-CQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGK---VDNVRVLLEAG-ANPNLGD-  150 (607)
Q Consensus        77 ~~~~~-~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~---~~~v~~Ll~~g-a~~~~~d-  150 (607)
                      ..++. .|..|.||||+||..|+.++|++||++| +++|.+|..|+||||+|+..|+   .++++.|++.+ ++++..| 
T Consensus       121 ~dvn~~~d~~g~TpLh~Aa~~g~~~~v~~Ll~~G-ad~n~~d~~g~TpLh~A~~~g~~~~~~~~~~ll~~~~~~~~~~d~  199 (327)
T 1sw6_A          121 LNLNIPVDEHGNTPLHWLTSIANLELVKHLVKHG-SNRLYGDNMGESCLVKAVKSVNNYDSGTFEALLDYLYPCLILEDS  199 (327)
T ss_dssp             CCSCSCCSTTCCCHHHHHHHTTCHHHHHHHHHTT-CCTTBCCTTCCCHHHHHHHSSHHHHTTCHHHHHHHHGGGGGEECT
T ss_pred             CCcccccCCCCCcHHHHHHHcCCHHHHHHHHHcC-CCCCCcCCCCCCHHHHHHHhcccccHHHHHHHHHhhhccccCCCC
Confidence            55666 7889999999999999999999999998 9999999999999999999888   68888888876 6677655 


Q ss_pred             -CCchHHHHHH----cCCccHHHHHHhc--------------------CCCccccCCCCcCcCCcchhhHHHhcCCHHHH
Q psy1308         151 -LFNTVHRTAA----EKKMNPFEVLLKR--------------------EDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV  205 (607)
Q Consensus       151 -~~~~l~~A~~----~~~~~~~~~Ll~~--------------------g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v  205 (607)
                       ++||||+|+.    .|+.+++++|++.                    |++++..     |..|+||||+|+.      +
T Consensus       200 ~g~tpLh~A~~~~~~~g~~~~v~~Ll~~~~~~~~~~~~~~i~~~~~~~g~~~~~~-----~~~g~t~L~~a~~------~  268 (327)
T 1sw6_A          200 MNRTILHHIIITSGMTGCSAAAKYYLDILMGWIVKKQNRPIQSGTNEKESKPNDK-----NGERKDSILENLD------L  268 (327)
T ss_dssp             TCCCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHGGGCCEEEC---------------------CHHHHHCS------H
T ss_pred             CCCCHHHHHHHHccccccHHHHHHHHHHHHHHHhcccchHHHhhhhcccCCcccc-----cccCCChhHHHHH------H
Confidence             4679999998    8899999999887                    6666655     3449999999986      8


Q ss_pred             HHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHH
Q psy1308         206 ELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLE  263 (607)
Q Consensus       206 ~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~  263 (607)
                      ++|+++  +++.+|..|+||||+|+..|+.+++++|++.|++..   ..+..+.+||+
T Consensus       269 ~~Ll~~--~~n~~d~~G~TpLh~A~~~g~~~~v~~Ll~~Gad~~---~~d~~G~TpL~  321 (327)
T 1sw6_A          269 KWIIAN--MLNAQDSNGDTCLNIAARLGNISIVDALLDYGADPF---IANKSGLRPVD  321 (327)
T ss_dssp             HHHHHH--TTTCCCTTSCCHHHHHHHHCCHHHHHHHHHTTCCTT---CCCTTSCCGGG
T ss_pred             HHHHHh--CCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCc---ccCCCCCCHHH
Confidence            888888  689999999999999999999999999999999876   34677888883

>3jxi_A Vanilloid receptor-related osmotically activated protein; ankyrin repeats, ANK repeat, ION transport, ionic channel, R transmembrane, transport; 2.30A {Gallus gallus} PDB: 3jxj_A 4dx1_A 4dx2_A*

Probab=99.94  E-value=3.2e-28  Score=239.91  Aligned_cols=198  Identities=16%  Similarity=0.163  Sum_probs=161.1

Q ss_pred             CCCCCHHHHHHHHcCCHHHHHHHHh----cCCCCCccCC----CCCCcHHHHHH---HcCCHHHHHHHHHcCCCC-----
Q psy1308          83 QSIKDLTLFRAARYGSAKELKTFIE----NSKLDVNMRH----PLGWTPLHVAA---INGKVDNVRVLLEAGANP-----  146 (607)
Q Consensus        83 ~~~g~t~Lh~A~~~g~~~~v~~Ll~----~~~~~~~~~d----~~g~tpLh~A~---~~g~~~~v~~Ll~~ga~~-----  146 (607)
                      +..|.|+||.||..|+.+.++.|++    .+ ++++..+    ..|+||||+|+   ..|+.+++++|++.|+++     
T Consensus         2 ~~~~~~~L~~A~~~g~~~~v~~ll~~l~~~~-~~~~~~~~~~~~~g~t~L~~A~~~~~~g~~~~v~~Ll~~g~~~~~~~~   80 (260)
T 3jxi_A            2 KVFNRPILFDIVSRGSPDGLEGLLSFLLTHK-KRLTDEEFREPSTGKTCLPKALLNLSAGRNDTIPILLDIAEKTGNMRE   80 (260)
T ss_dssp             CCCCHHHHHHHHHHTCGGGGTTHHHHHHHHT-CCTTSGGGSCTTTCCCHHHHHHTSCBTTBCTHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcchhhhhccCCCCcHHHHHHHHhhcCCHHHHHHHHHhcccccchHh
Confidence            4578999999999999996555555    77 8888776    67999999999   779999999999998653     


Q ss_pred             ------CCC--CCCchHHHHHHcCCccHHHHHHhcCCCccccCC---------CCcCcCCcchhhHHHhcCCHHHHHHHH
Q psy1308         147 ------NLG--DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLN---------PNMTFLGFSALHYGVVAGNTEVVELLL  209 (607)
Q Consensus       147 ------~~~--d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~---------~~~d~~g~TpLh~A~~~g~~~~v~~Ll  209 (607)
                            +..  +++||||+|+..|+.+++++|+++|++++..+.         ...+..|+||||+|+..|+.+++++|+
T Consensus        81 ~~~~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~~~~~~~~~~~~~~~~~~~~~g~tpL~~A~~~g~~~~v~~Ll  160 (260)
T 3jxi_A           81 FINSPFRDVYYRGQTALHIAIERRCKHYVELLVEKGADVHAQARGRFFQPKDEGGYFYFGELPLSLAACTNQPHIVHYLT  160 (260)
T ss_dssp             HHTCCBCCSSEESBCHHHHHHHTTCHHHHHHHHHTTCCTTCCCEECCCSSSCCCCSCCSCSSHHHHHHHTTCHHHHHHHH
T ss_pred             hhcccccccccCCCCHHHHHHHcCCHHHHHHHHhCCCCcCccccccccCcccccccccCCCCHHHHHHHcCCHHHHHHHH
Confidence                  222  467899999999999999999999999998752         111145999999999999999999999


Q ss_pred             h---cCCCCCccCCCCCCCCcchhhhhH---------HHHHHHHHHhhhhHHhh----HHHhhcccccHHHHHHhHhhhh
Q psy1308         210 K---SGADPTVKDNSGHIPSDYAEDANI---------KQILQKYAEKYADLQRE----KEAEERRKYPLEQRLKDRIVGQ  273 (607)
Q Consensus       210 ~---~gad~~~~d~~g~Tpl~~A~~~~~---------~~~~~~ll~~~~~~~~~----~~~~~~~~~~L~~~l~~~i~Gq  273 (607)
                      +   +|++++.+|..|+||||+|+..++         .+++++|++.|++....    +..+..+.+||+.+...   |+
T Consensus       161 ~~~~~ga~~~~~d~~g~TpLh~A~~~~~~~~~~~~~~~~~v~~Ll~~ga~~~~~~~~~~~~d~~g~tpL~~A~~~---g~  237 (260)
T 3jxi_A          161 ENGHKQADLRRQDSRGNTVLHALVAIADNTRENTKFVTKMYDLLLIKCAKLFPDTNLEALLNNDGLSPLMMAAKT---GK  237 (260)
T ss_dssp             HCSSCCCCTTCCCTTSCCHHHHHHHHCCSSHHHHHHHHHHHHHHHHHHHHHCTTCCGGGCCCTTSCCHHHHHHHT---TC
T ss_pred             hccccCCCCcccCCCCCcHHHHHHHhccCchhHHHHHHHHHHHHHHhCcccccccchhhcccCCCCCHHHHHHHc---CC
Confidence            9   999999999999999999997666         79999999999987310    13467889999665433   45


Q ss_pred             HHHHHHHHHHH
Q psy1308         274 ESAINIISAAI  284 (607)
Q Consensus       274 ~~ai~~l~~~i  284 (607)
                      .+.++.+.+.-
T Consensus       238 ~~~v~~Ll~~g  248 (260)
T 3jxi_A          238 IGIFQHIIRRE  248 (260)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            55555554433

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens}

Probab=99.94  E-value=1.8e-26  Score=223.76  Aligned_cols=206  Identities=17%  Similarity=0.115  Sum_probs=172.8

Q ss_pred             hhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccc-cccCChHHHHHHcc---------
Q psy1308           5 LVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNN-TCMYNNLLFASACS---------   74 (607)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~-~~~~~~l~~a~~~~---------   74 (607)
                      ....-+.+..+++.. ...+..+..|.||||+|+..|+.+++++|+..+....... ..+.++++.|...+         
T Consensus        18 ~~g~~~~~~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~~~~~~~~~~~~~~t~L~~A~~~~~~~~v~~Ll   96 (240)
T 3eu9_A           18 QYGIYERCRELVEAG-YDVRQPDKENVTLLHWAAINNRIDLVKYYISKGAIVDQLGGDLNSTPLHWATRQGHLSMVVQLM   96 (240)
T ss_dssp             HTTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCBTTTTBCHHHHHHHHTCHHHHHHHH
T ss_pred             HcCChHHHHHHHHcC-CCcCCCCCCCCCHHHHHHHhCCHHHHHHHHHcCCcchhhcCCcCCChhHHHHHcCCHHHHHHHH
Confidence            334455666666654 3456677889999999999999999999999887666543 44789999886444         


Q ss_pred             -CccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCC-HHHHHHHHHcCCCCCCCCC-
Q psy1308          75 -LALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGK-VDNVRVLLEAGANPNLGDL-  151 (607)
Q Consensus        75 -~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~-~~~v~~Ll~~ga~~~~~d~-  151 (607)
                       .+...+..+..|.||||+|+..|+.+++++|++++ ++++.++..|.||||+|+..++ .+++++|++.|++++..+. 
T Consensus        97 ~~g~~~~~~~~~g~t~l~~A~~~~~~~~~~~Ll~~~-~~~~~~~~~g~t~l~~a~~~~~~~~~~~~L~~~~~~~~~~~~~  175 (240)
T 3eu9_A           97 KYGADPSLIDGEGCSCIHLAAQFGHTSIVAYLIAKG-QDVDMMDQNGMTPLMWAAYRTHSVDPTRLLLTFNVSVNLGDKY  175 (240)
T ss_dssp             HTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHHCCSSTTHHHHHHTTCCTTCCCTT
T ss_pred             HcCCCCcccCCCCCCHHHHHHHcCHHHHHHHHHhcC-CCccccCCCCCcHHHHHHHhCChHHHHHHHHhcCCCcchhhcc
Confidence             33445667889999999999999999999999998 9999999999999999997776 8999999999999998754 


Q ss_pred             --CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCc
Q psy1308         152 --FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTV  217 (607)
Q Consensus       152 --~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~  217 (607)
                        .||||+|+..|+.+++++|+++|++++..+..     |.||||+|+..|+.+++++|+++|++...
T Consensus       176 ~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~-----g~t~l~~A~~~~~~~~v~~L~~~~~~~~~  238 (240)
T 3eu9_A          176 HKNTALHWAVLAGNTTVISLLLEAGANVDAQNIK-----GESALDLAKQRKNVWMINHLQEARQAKGY  238 (240)
T ss_dssp             TCCCHHHHHHHHTCHHHHHHHHHHTCCTTCBCTT-----SCBHHHHHHHTTCHHHHHHHHHHC-----
T ss_pred             CCCcHHHHHHHcCCHHHHHHHHHcCCCCCCcCCC-----CCCHHHHHHHcCcHHHHHHHHHhhhccCc
Confidence              57999999999999999999999999877544     99999999999999999999999987654

>1awc_B Protein (GA binding protein beta 1); complex (transcription regulation/DNA), DNA-binding, nuclear protein, ETS domain, ankyrin repeats; HET: DNA BRU CBR; 2.15A {Mus musculus} SCOP: d.211.1.1

Probab=99.94  E-value=8.5e-27  Score=210.19  Aligned_cols=149  Identities=23%  Similarity=0.328  Sum_probs=136.9

Q ss_pred             CchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcC
Q psy1308          30 QSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENS  109 (607)
Q Consensus        30 g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~  109 (607)
                      +.||||+|+..|+.+++++|++.+...                        ..+..|.||||+|+..|+.+++++|++.+
T Consensus         2 ~~~~L~~A~~~g~~~~v~~Ll~~g~~~------------------------~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g   57 (153)
T 1awc_B            2 LGKKLLEAARAGQDDEVRILMANGAPF------------------------TTDWLGTSPLHLAAQYGHFSTTEVLLRAG   57 (153)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTCCC------------------------CCCTTCCCHHHHHHHHTCHHHHHHHHTTT
T ss_pred             ccHHHHHHHHcCCHHHHHHHHHcCCCC------------------------CcCCCCCCHHHHHHHcCCHHHHHHHHHcC
Confidence            469999999999999999998775421                        24678999999999999999999999998


Q ss_pred             CCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCc
Q psy1308         110 KLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTF  187 (607)
Q Consensus       110 ~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~  187 (607)
                       ++++.+|..|+||||+|+..|+.+++++|+++|++++.+|.  +||||+|+..|+.+++++|+++|++++..+.     
T Consensus        58 -~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~-----  131 (153)
T 1awc_B           58 -VSRDARTKVDRTPLHMAASEGHANIVEVLLKHGADVNAKDMLKMTALHWATEHNHQEVVELLIKYGADVHTQSK-----  131 (153)
T ss_dssp             -CCTTCCCTTCCCHHHHHHHHTCHHHHHHHHTTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCT-----
T ss_pred             -CCCCCCCCCCCCHHHHHHHcChHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCccccCC-----
Confidence             99999999999999999999999999999999999999775  6799999999999999999999999987754     


Q ss_pred             CCcchhhHHHhcCCHHHHHHH
Q psy1308         188 LGFSALHYGVVAGNTEVVELL  208 (607)
Q Consensus       188 ~g~TpLh~A~~~g~~~~v~~L  208 (607)
                      .|.||||+|+..|+.+++++|
T Consensus       132 ~g~t~l~~A~~~~~~~i~~~L  152 (153)
T 1awc_B          132 FCKTAFDISIDNGNEDLAEIL  152 (153)
T ss_dssp             TSCCHHHHHHHTTCHHHHHHH
T ss_pred             CCCCHHHHHHHcCCHHHHHHh
Confidence            499999999999999999987

>1bd8_A P19INK4D CDK4/6 inhibitor; tumor suppressor, ankyrin motif; 1.80A {Homo sapiens} SCOP: d.211.1.1 PDB: 1bi8_B 1ap7_A 1blx_B

Probab=99.94  E-value=1.6e-26  Score=208.99  Aligned_cols=152  Identities=18%  Similarity=0.217  Sum_probs=137.6

Q ss_pred             CchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcC
Q psy1308          30 QSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENS  109 (607)
Q Consensus        30 g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~  109 (607)
                      |.||||+||..|+.+++++|+.....                      ..+..+..|.||||+ |..|+.+++++|+++|
T Consensus         2 ~~~~L~~A~~~g~~~~v~~ll~~~~~----------------------~~~~~~~~g~t~L~~-~~~~~~~~v~~Ll~~g   58 (156)
T 1bd8_A            2 AGDRLSGAAARGDVQEVRRLLHRELV----------------------HPDALNRFGKTALQV-MMFGSTAIALELLKQG   58 (156)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHTTCC----------------------CTTCCCTTSCCHHHH-SCTTCHHHHHHHHHTT
T ss_pred             cchHHHHHHHhCCHHHHHHHHHhhCc----------------------CccccCCCCCcHHHH-HHcCCHHHHHHHHHCC
Confidence            57999999999999999999877211                      123567889999999 9999999999999998


Q ss_pred             CCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCc
Q psy1308         110 KLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTF  187 (607)
Q Consensus       110 ~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~  187 (607)
                       ++++.+|..|+||||+|+..|+.+++++|+++|++++.+|.  +||||+|+..|+.+++++|+++ ++++..+.     
T Consensus        59 -~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~-~~~~~~~~-----  131 (156)
T 1bd8_A           59 -ASPNVQDTSGTSPVHDAARTGFLDTLKVLVEHGADVNVPDGTGALPIHLAVQEGHTAVVSFLAAE-SDLHRRDA-----  131 (156)
T ss_dssp             -CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHHTCHHHHHHHHTT-SCTTCCCT-----
T ss_pred             -CCCCCcCCCCCCHHHHHHHcCcHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHhChHHHHHHHHhc-cCCCCcCC-----
Confidence             99999999999999999999999999999999999998765  6799999999999999999999 88877644     


Q ss_pred             CCcchhhHHHhcCCHHHHHHHHhc
Q psy1308         188 LGFSALHYGVVAGNTEVVELLLKS  211 (607)
Q Consensus       188 ~g~TpLh~A~~~g~~~~v~~Ll~~  211 (607)
                      .|.||||+|+..|+.+++++|+++
T Consensus       132 ~g~t~l~~A~~~~~~~~v~~Ll~~  155 (156)
T 1bd8_A          132 RGLTPLELALQRGAQDLVDILQGH  155 (156)
T ss_dssp             TSCCHHHHHHHSCCHHHHHHHHTT
T ss_pred             CCCCHHHHHHHcCcHHHHHHHHhh
Confidence            499999999999999999999974

>4hbd_A KN motif and ankyrin repeat domain-containing Pro; structural genomics consortium, SGC, protein binding; 1.72A {Homo sapiens}

Probab=99.94  E-value=1.6e-26  Score=230.00  Aligned_cols=162  Identities=16%  Similarity=0.110  Sum_probs=147.1

Q ss_pred             CCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHH-----HcC
Q psy1308          23 KPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAA-----RYG   97 (607)
Q Consensus        23 ~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~-----~~g   97 (607)
                      .+..+..|+||||+||..|+.+++++|+..+...                      ++..+..|.||||+|+     ..+
T Consensus       104 ~n~~d~~g~T~Lh~A~~~g~~~~v~~Ll~~g~~~----------------------~~~~~~~g~tpL~~a~~~~~~~~~  161 (276)
T 4hbd_A          104 VNIADSNGNTALHYSVSHANFPVVQQLLDSGVCK----------------------VDKQNRAGYSPIMLTALATLKTQD  161 (276)
T ss_dssp             HTCCCTTSCCHHHHHHHTTCHHHHHHHHHTSCCC----------------------TTCCCTTSCCHHHHGGGCCCCSHH
T ss_pred             CcCCCCCCCCHHHHHHHCCCHHHHHHHHHCCCCc----------------------CCCCCCCCCCHHHHHHHHHhhhhh
Confidence            4567888999999999999999999999886522                      2467789999999999     678


Q ss_pred             CHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHh-cC
Q psy1308          98 SAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLK-RE  174 (607)
Q Consensus        98 ~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~-~g  174 (607)
                      +.+++++|++.+ .+++..|..|+||||+|+..|+.++|++|+++|+++|.+|.  +||||+|+..|+.+++++|++ .|
T Consensus       162 ~~~~v~~Ll~~g-~~~~~~~~~g~tpLh~A~~~g~~~~v~~Ll~~gad~n~~d~~G~TpLh~A~~~g~~~iv~~Ll~~~g  240 (276)
T 4hbd_A          162 DIETVLQLFRLG-NINAKASQAGQTALMLAVSHGRVDVVKALLACEADVNVQDDDGSTALMCACEHGHKEIAGLLLAVPS  240 (276)
T ss_dssp             HHHHHHHHHHHS-CTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHTSTT
T ss_pred             hHHHHHHHHHcC-CCccccCCCCCCHHHHHHHcCCHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHCCCHHHHHHHHhcCC
Confidence            999999999999 88999999999999999999999999999999999999765  679999999999999999999 89


Q ss_pred             CCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcC
Q psy1308         175 DEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG  212 (607)
Q Consensus       175 ~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~g  212 (607)
                      ++++..+..     |+||||+|+..|+.+++++|++++
T Consensus       241 ad~~~~d~~-----g~TpL~~A~~~g~~~iv~~Ll~~~  273 (276)
T 4hbd_A          241 CDISLTDRD-----GSTALMVALDAGQSEIASMLYSRM  273 (276)
T ss_dssp             CCTTCCCTT-----SCCHHHHHHHHTCHHHHHHHHHHC
T ss_pred             CCCcCcCCC-----CCCHHHHHHHcCCHHHHHHHHhcc
Confidence            999887544     999999999999999999999874

>1ycs_B 53BP2, P53BP2; ankyrin repeats, SH3, tumor suppressor, multigene family, nuclear protein, phosphorylation, disease mutation, polymorphism; 2.20A {Homo sapiens} SCOP: b.34.2.1 d.211.1.1 PDB: 4a63_B

Probab=99.94  E-value=2.1e-27  Score=231.14  Aligned_cols=160  Identities=18%  Similarity=0.211  Sum_probs=118.3

Q ss_pred             CCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHc
Q psy1308          84 SIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAE  161 (607)
Q Consensus        84 ~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~  161 (607)
                      ..|.||||.|+..|+.++++.|+++| ++++.. ..|.||||+|+..|+.+++++|+++|++++..|.  +||||+|+..
T Consensus         3 ~~g~t~L~~a~~~~~~~~~~~ll~~g-~~~~~~-~~~~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~d~~g~t~L~~A~~~   80 (239)
T 1ycs_B            3 ITGQVSLPPGKRTNLRKTGSERIAHG-MRVKFN-PLPLALLLDSSLEGEFDLVQRIIYEVDDPSLPNDEGITALHNAVCA   80 (239)
T ss_dssp             ------------------------------------CHHHHHHHHHHTCHHHHHHHTSTTSSCCCCCTTSCCHHHHHHHH
T ss_pred             ccccccCchhhhhhhHHHHHHHhccC-CCcccC-chhhHHHHHHHHcCCHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHc
Confidence            46899999999999999999999999 899864 7899999999999999999999999999998765  6799999999


Q ss_pred             CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCC-CCCcch--hhhhHHHHH
Q psy1308         162 KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGH-IPSDYA--EDANIKQIL  238 (607)
Q Consensus       162 ~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~-Tpl~~A--~~~~~~~~~  238 (607)
                      |+.+++++|+++|++++..+..     |+||||+|+..|+.+++++|+++|++++.+|..|. ||||+|  +..|+.+++
T Consensus        81 g~~~~v~~Ll~~ga~~~~~d~~-----g~tpL~~A~~~~~~~~v~~Ll~~ga~~~~~~~~~~~t~l~~a~~~~~g~~~~~  155 (239)
T 1ycs_B           81 GHTEIVKFLVQFGVNVNAADSD-----GWTPLHCAASCNNVQVCKFLVESGAAVFAMTYSDMQTAADKCEEMEEGYTQCS  155 (239)
T ss_dssp             TCHHHHHHHHHHTCCTTCCCTT-----CCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCSSSCCCHHHHCCSSSTTCCCHH
T ss_pred             CCHHHHHHHHHcCCCCCccCCC-----CCCHHHHHHHcCCHHHHHHHHHcCCCcceecCCCCcchHHHHHHhhhccHHHH
Confidence            9999999999999999887554     99999999999999999999999999999998887 999999  788999999


Q ss_pred             HHHHHhhhhHHh
Q psy1308         239 QKYAEKYADLQR  250 (607)
Q Consensus       239 ~~ll~~~~~~~~  250 (607)
                      ++|++.+++...
T Consensus       156 ~~Ll~~~a~~~~  167 (239)
T 1ycs_B          156 QFLYGVQEKMGI  167 (239)
T ss_dssp             HHHHHHHHHTTT
T ss_pred             HHHHHhhhcccc
Confidence            999999988764

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=99.94  E-value=1.5e-26  Score=239.25  Aligned_cols=273  Identities=21%  Similarity=0.330  Sum_probs=178.3

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHHHh----hCCCCCC---CCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIKRK----ENGWTDD---DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~~~----~~~~~~~---~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      .+...+...++||+.+++.+..++...    ..+....   ..+..++|+||+|||||.+|+.+++.+.    .+|+.++
T Consensus         8 ~l~~~l~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~----~~~~~~~   83 (363)
T 3hws_A            8 EIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD----VPFTMAD   83 (363)
T ss_dssp             HHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT----CCEEEEE
T ss_pred             HHHHHHHhhccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC----CCEEEec
Confidence            355667778999999999998887422    2222111   1234899999999999999999999884    4699999


Q ss_pred             cccccccchhHhhhcCCCCCccCCCCchhhHHHhh-------CCCeEEEEecCCccCHH--------------HHHHHHH
Q psy1308         334 MSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK-------CPNAVVLFDEVDKAHPD--------------VLTVLLQ  392 (607)
Q Consensus       334 ~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~-------~~~~vl~lDEiek~~~~--------------~~~~Ll~  392 (607)
                      |+.+..           .+|+|....+.+...+..       ++++|||||||+++++.              +|+.|++
T Consensus        84 ~~~l~~-----------~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~  152 (363)
T 3hws_A           84 ATTLTE-----------AGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLK  152 (363)
T ss_dssp             HHHHTT-----------CHHHHHHHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHH
T ss_pred             hHHhcc-----------cccccccHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHH
Confidence            986532           223443333444444433       45789999999999987              9999999


Q ss_pred             hhcccee---ecCCCcEEecC--------ceEEEEecCc-chHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcch
Q psy1308         393 LFDEGRL---TDGKGKTIECK--------DAIFVMTSNL-ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISR  460 (607)
Q Consensus       393 ~~~~~~~---~~~~g~~~~~~--------~~~iI~tsn~-~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  460 (607)
                      +++ |..   .+..|+..++.        |.+||+++|. +.+.+.+...+.. .       .+................
T Consensus       153 ~le-g~~~~~~~~~~~~~~~~~~~~i~tsn~~~i~~g~~~~l~~~i~~~~~~~-~-------~~gf~~~~~~~~~~~~~~  223 (363)
T 3hws_A          153 LIE-GTVAAVPPQGGRKHPQQEFLQVDTSKILFICGGAFAGLDKVISHRVETG-S-------GIGFGATVKAKSDKASEG  223 (363)
T ss_dssp             HHH-CC----------------CCCCCTTSSEEEEEECCTTHHHHHHHHHCCC-C-------------------CCSCHH
T ss_pred             Hhc-CceeeccCccccccCCCceEEEECCCceEEecCCcHHHHHHHHHhhhcc-c-------cCCccccccccccchhhH
Confidence            999 553   34455555444        4445555444 6666655432110 0       000000000000001112


Q ss_pred             hhhhhhhhHHHHhc-cCChhhhccccceeeeccCCHHHHHHHHHH----HHHHHHHHHhhcCCcEEEeCHhHHHHHHc-c
Q psy1308         461 HFKDHVVQPILKRH-FRRDEFLGRINEIVYFLPFSKSELHTLVCR----ELNFWAKKALDKHNINIVWDIDVETILAD-G  534 (607)
Q Consensus       461 ~~~~~~~~~~l~~~-f~~~el~~ri~~iv~f~pl~~~~~~~i~~~----~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~  534 (607)
                      .+.+.+....+... |+ |+|++||+.+++|.|++++++.+|+..    .+..+.+++.. .++.+.++++++++|++ +
T Consensus       224 ~l~~~v~~~~l~~~~~~-~~l~~R~~~~~~~~pl~~~~~~~I~~~~~~~l~~~~~~~~~~-~~~~l~~~~~a~~~L~~~~  301 (363)
T 3hws_A          224 ELLAQVEPEDLIKFGLI-PEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNL-EGVDLEFRDEALDAIAKKA  301 (363)
T ss_dssp             HHHHTCCHHHHHHHTCC-HHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHT-TTCEEEECHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHcCCC-HHHhcccCeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHh-cCceEEECHHHHHHHHHhh
Confidence            22333333333333 87 999999999999999999999999998    66666655543 48899999999999986 7


Q ss_pred             CCCCCCccchhHHHHHHHHHHHHHH
Q psy1308         535 YDVHYGARSIKHEVERQVVSQLAAA  559 (607)
Q Consensus       535 ~~~~~GaR~L~~~i~~~i~~~l~~~  559 (607)
                      |+|++|+|+|+++|++.+.+++++.
T Consensus       302 ~~~~~gaR~L~~~ie~~~~~~l~~~  326 (363)
T 3hws_A          302 MARKTGARGLRSIVEAALLDTMYDL  326 (363)
T ss_dssp             HHTTCTTTTHHHHHHHHHHHHHHST
T ss_pred             cCCccCchHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999988754

>1bi7_B P16INK4A, MTS1, multiple tumor suppressor; cyclin dependent kinase, cyclin dependent kinase inhibitory protein, CDK, cell cycle; 3.40A {Homo sapiens} SCOP: d.211.1.1 PDB: 1a5e_A 1dc2_A 2a5e_A

Probab=99.94  E-value=6.9e-27  Score=211.58  Aligned_cols=143  Identities=20%  Similarity=0.230  Sum_probs=115.8

Q ss_pred             hccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--Cc-hHH
Q psy1308          80 LECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FN-TVH  156 (607)
Q Consensus        80 ~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~-~l~  156 (607)
                      ...+..|.||||+||..|+.++|++|++++ +++|.+|..|+||||+|+ .|+.+++++|+++|++++.+|.  +| |||
T Consensus         6 ~~~~~~~~t~L~~A~~~g~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~-~~~~~~v~~Ll~~g~~~~~~d~~g~ttpL~   83 (156)
T 1bi7_B            6 GSSMEPSADWLATAAARGRVEEVRALLEAG-ANPNAPNSYGRRPIQVMM-MGSARVAELLLLHGAEPNCADPATLTRPVH   83 (156)
T ss_dssp             ----CCSTTHHHHHHHHTCHHHHHHHHTTT-CCTTCCCSSSCCTTTSSC-TTCHHHHHHHHTTTCCCCCCCTTTCCCHHH
T ss_pred             cCCCccchHHHHHHHHcCCHHHHHHHHHcC-CCCCCCCCCCCCHHHHHH-cCCHHHHHHHHHcCCCCCCcCCCCCcHHHH
Confidence            356788999999999999999999999998 999999999999999996 9999999999999999999765  66 999


Q ss_pred             HHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcch
Q psy1308         157 RTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYA  229 (607)
Q Consensus       157 ~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A  229 (607)
                      +|+..|+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|++++.+|..|.||.+-+
T Consensus        84 ~A~~~~~~~~v~~Ll~~ga~~~~~d~-----~g~tpl~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~t~~~~~  151 (156)
T 1bi7_B           84 DAAREGFLDTLVVLHRAGARLDVRDA-----WGRLPVDLAEELGHRDVARYLRAAAGGTRGSNHARIDAAEGP  151 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHTCCSSCCCT-----TCCCHHHHHHHHTCHHHHHHHSSCC-----------------
T ss_pred             HHHHCCCHHHHHHHHHcCCCCcccCC-----CCCCHHHHHHHhCHHHHHHHHHHcCCCCCccCcCcCcccccC
Confidence            99999999999999999999987754     499999999999999999999999999999999999998744

>3t8k_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center F or structural genomics, MCSG; 1.77A {Leptotrichia buccalis}

Probab=99.93  E-value=6.4e-27  Score=217.95  Aligned_cols=155  Identities=12%  Similarity=0.071  Sum_probs=136.7

Q ss_pred             CCHHHHHHHHcCCHHHHHHHHhcCCCCCccCC-CCCCcHHHHHHHcCCH----HHHHHHHHcCCCCCCCCC--CchHHHH
Q psy1308          86 KDLTLFRAARYGSAKELKTFIENSKLDVNMRH-PLGWTPLHVAAINGKV----DNVRVLLEAGANPNLGDL--FNTVHRT  158 (607)
Q Consensus        86 g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d-~~g~tpLh~A~~~g~~----~~v~~Ll~~ga~~~~~d~--~~~l~~A  158 (607)
                      +.++|+.||+.|+.+.++.++..+   ++.++ ..|+||||+|+..|+.    +++++|+++|+++|.+|.  +||||+|
T Consensus         6 ~~~~l~~Aa~~g~~~~~~~l~~~~---~~~~~~~~g~T~Lh~A~~~~~~~~~~~iv~~Ll~~Gadvn~~d~~g~TpLh~a   82 (186)
T 3t8k_A            6 EYRTVSAAAMLGTYEDFLELFEKG---YEDKESVLKSNILYDVLRNNNDEARYKISMFLINKGADIKSRTKEGTTLFFPL   82 (186)
T ss_dssp             HCSSHHHHHHHSCHHHHHHHHHHS---SSCHHHHHTTTHHHHHTTCSCHHHHHHHHHHHHHTTCCSSCCCTTCCCTHHHH
T ss_pred             cccHHHHHHHcCCHHHHHHHHhcC---cccccccCCCCHHHHHHHcCCcchHHHHHHHHHHCCCCCCCCCCCCCcHHHHH
Confidence            457899999999999999999865   45555 7799999999999985    599999999999999765  6799999


Q ss_pred             HHcCC------ccHHHHHHhcCCCccccCCCCcCcCCc-chhhHHHhcC-----CHHHHHHHHh-cCCCCCccCCCCCCC
Q psy1308         159 AAEKK------MNPFEVLLKREDEFNDVLNPNMTFLGF-SALHYGVVAG-----NTEVVELLLK-SGADPTVKDNSGHIP  225 (607)
Q Consensus       159 ~~~~~------~~~~~~Ll~~g~~~~~~~~~~~d~~g~-TpLh~A~~~g-----~~~~v~~Ll~-~gad~~~~d~~g~Tp  225 (607)
                      +..++      .+++++|+++|++++..+.     .|+ ||||+|+..+     +.+++++|++ +|+|++.+|..|+||
T Consensus        83 ~~~~~~~~~~~~~iv~~Ll~~Gadin~~d~-----~g~ttpLh~A~~~~~~~~~~~~iv~~Ll~~~gad~~~~d~~G~Tp  157 (186)
T 3t8k_A           83 FQGGGNDITGTTELCKIFLEKGADITALYK-----PYKIVVFKNIFNYFVDENEMIPLYKLIFSQSGLQLLIKDKWGLTA  157 (186)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCCSSSCBG-----GGTBCTTGGGGGCCSCHHHHHHHHHHHHTSTTCCTTCCCTTSCCH
T ss_pred             HHcCCcchhhHHHHHHHHHHCCCCCCccCC-----CcCchHHHHHHHcCCChhhHHHHHHHHHHhcCCCCcccCCCCCCH
Confidence            99987      4679999999999998754     499 9999999954     4679999999 999999999999999


Q ss_pred             CcchhhhhHHHHHHHHHHhhhhH
Q psy1308         226 SDYAEDANIKQILQKYAEKYADL  248 (607)
Q Consensus       226 l~~A~~~~~~~~~~~ll~~~~~~  248 (607)
                      ||+|+..++.+++++|.+.....
T Consensus       158 L~~A~~~~~~~~v~~L~~~~~~~  180 (186)
T 3t8k_A          158 LEFVKRCQKPIALKMMEDYIKKY  180 (186)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999998776543

>1d9s_A Cyclin-dependent kinase 4 inhibitor B; helix-turn-helix, ankyrin repeat, signaling protein; NMR {Mus musculus} SCOP: i.11.1.1

Probab=99.93  E-value=2.4e-26  Score=202.88  Aligned_cols=130  Identities=26%  Similarity=0.260  Sum_probs=69.4

Q ss_pred             CCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcC
Q psy1308         111 LDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFL  188 (607)
Q Consensus       111 ~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~  188 (607)
                      ++++.+|..|.||||+|+..|+.+++++|+++|++++.+|.  +||||+|+. ++.+++++|+++|++++..     |..
T Consensus         3 ~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~-~~~~~v~~Ll~~g~~~~~~-----~~~   76 (136)
T 1d9s_A            3 PGIHMLGGSSDAGLATAAARGQVETVRQLLEAGADPNALNRFGRRPIQVMMM-GSAQVAELLLLHGAEPNCA-----DPA   76 (136)
T ss_dssp             CCCSCCCCCCSCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCTTTTTSTT-SCHHHHHHHHHHTCCSSCC-----BTT
T ss_pred             CCccCCCCCCccHHHHHHHcCCHHHHHHHHHcCCCcCCcCCCCCCHHHHHHc-CCHHHHHHHHHCCCCCCCc-----CCC
Confidence            34444444444444444444444444444444444444332  334444444 4444444444444444333     223


Q ss_pred             -CcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhh
Q psy1308         189 -GFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYA  246 (607)
Q Consensus       189 -g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~  246 (607)
                       |+||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|+++|+
T Consensus        77 ~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~d~~g~tpl~~A~~~~~~~~~~~Ll~~Ga  135 (136)
T 1d9s_A           77 TLTRPVHDAAREGFLDTLVVLHRAGARLDVCDAWGRLPVDLAEEQGHRDIARYLHAATG  135 (136)
T ss_dssp             TTBCHHHHHHHHTCHHHHHHHHHTCCCCCCCSSSSSCHHHHHHHHTCHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHcCCHHHHHHHHHcCCCCCccCCCCCCHHHHHHHcCCHHHHHHHHHcCC
Confidence             5666666666666666666666666666666666666666666666666666666554

>1d9s_A Cyclin-dependent kinase 4 inhibitor B; helix-turn-helix, ankyrin repeat, signaling protein; NMR {Mus musculus} SCOP: i.11.1.1

Probab=99.93  E-value=3.7e-26  Score=201.64  Aligned_cols=130  Identities=22%  Similarity=0.310  Sum_probs=122.1

Q ss_pred             chhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC---Cch
Q psy1308          78 TLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL---FNT  154 (607)
Q Consensus        78 ~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~---~~~  154 (607)
                      .++..+..|.||||+|+..|+.+++++|++++ ++++.+|..|+||||+|+. |+.+++++|+++|++++.+|.   +||
T Consensus         4 ~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~~-~~~~~v~~Ll~~g~~~~~~~~~~g~t~   81 (136)
T 1d9s_A            4 GIHMLGGSSDAGLATAAARGQVETVRQLLEAG-ADPNALNRFGRRPIQVMMM-GSAQVAELLLLHGAEPNCADPATLTRP   81 (136)
T ss_dssp             CCSCCCCCCSCHHHHHHHTTCHHHHHHHHHTT-CCTTCCCTTCCTTTTTSTT-SCHHHHHHHHHHTCCSSCCBTTTTBCH
T ss_pred             CccCCCCCCccHHHHHHHcCCHHHHHHHHHcC-CCcCCcCCCCCCHHHHHHc-CCHHHHHHHHHCCCCCCCcCCCCCCCH
Confidence            45678899999999999999999999999998 9999999999999999999 999999999999999999764   569


Q ss_pred             HHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         155 VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       155 l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                      ||+|+..|+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|||
T Consensus        82 L~~A~~~~~~~~v~~Ll~~ga~~~~~d~-----~g~tpl~~A~~~~~~~~~~~Ll~~Gad  136 (136)
T 1d9s_A           82 VHDAAREGFLDTLVVLHRAGARLDVCDA-----WGRLPVDLAEEQGHRDIARYLHAATGD  136 (136)
T ss_dssp             HHHHHHHTCHHHHHHHHHTCCCCCCCSS-----SSSCHHHHHHHHTCHHHHHHHHHHHCC
T ss_pred             HHHHHHcCCHHHHHHHHHcCCCCCccCC-----CCCCHHHHHHHcCCHHHHHHHHHcCCC
Confidence            9999999999999999999999987754     499999999999999999999999986

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=99.93  E-value=6.4e-25  Score=227.88  Aligned_cols=227  Identities=20%  Similarity=0.298  Sum_probs=189.5

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++..+..+...+.+....      ..++++.|++|+||+.+|+.++....+. ..+|+.+||+.+......+++||
T Consensus       138 ~~ig~s~~m~~l~~~i~~~a~~------~~~vli~Ge~GtGK~~lAr~ih~~s~r~-~~~fv~v~~~~~~~~~~~~elfg  210 (387)
T 1ny5_A          138 EYVFESPKMKEILEKIKKISCA------ECPVLITGESGVGKEVVARLIHKLSDRS-KEPFVALNVASIPRDIFEAELFG  210 (387)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTC------CSCEEEECSTTSSHHHHHHHHHHHSTTT-TSCEEEEETTTSCHHHHHHHHHC
T ss_pred             hhhhccHHhhHHHHHHHHhcCC------CCCeEEecCCCcCHHHHHHHHHHhcCCC-CCCeEEEecCCCCHHHHHHHhcC
Confidence            4678888888888877765422      2357999999999999999999988765 78999999999999888999999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +..| |+|...  ...+.++.+.+|++|||||+.+++++|..|++++++|.+...+|......++++|++||.+.....+
T Consensus       211 ~~~g~~tga~~--~~~g~~~~a~~gtlfldei~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~~~  288 (387)
T 1ny5_A          211 YEKGAFTGAVS--SKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVK  288 (387)
T ss_dssp             BCTTSSTTCCS--CBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHH
T ss_pred             CCCCCCCCccc--ccCCceeeCCCcEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCCCCHHHHHH
Confidence            9887 777543  2457788999999999999999999999999999999999888887778899999999977665432


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~~~~~i~~~  504 (607)
                                                                  .+.|+ ++|++|++.+.+..| |  +++|+..++..
T Consensus       289 --------------------------------------------~g~fr-~dl~~rl~~~~i~lPpLreR~~Di~~l~~~  323 (387)
T 1ny5_A          289 --------------------------------------------EGKFR-EDLYYRLGVIEIEIPPLRERKEDIIPLANH  323 (387)
T ss_dssp             --------------------------------------------TTSSC-HHHHHHHTTEEEECCCGGGCHHHHHHHHHH
T ss_pred             --------------------------------------------cCCcc-HHHHHhhcCCeecCCcchhccccHHHHHHH
Confidence                                                        35587 999999988755555 5  45899999999


Q ss_pred             HHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      ++..+.+++...   ...+++++++.|.. |+||+|+|+|+++|++.+.
T Consensus       324 ~l~~~~~~~~~~---~~~~~~~a~~~l~~-~~wpGNvreL~~~i~~~~~  368 (387)
T 1ny5_A          324 FLKKFSRKYAKE---VEGFTKSAQELLLS-YPWYGNVRELKNVIERAVL  368 (387)
T ss_dssp             HHHHHHHHTTCC---CCEECHHHHHHHHH-SCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCC---CCCCCHHHHHHHHh-CCCCcHHHHHHHHHHHHHH
Confidence            998877665322   34799999999986 9999999999999998765

>2vge_A RELA-associated inhibitor; iaspp, nucleus, apoptosis, repressor, cytoplasm, phosphorylation, P53 binding protein, ANK repeat, SH3 domain; 2.10A {Homo sapiens}

Probab=99.93  E-value=4.3e-26  Score=220.08  Aligned_cols=148  Identities=17%  Similarity=0.094  Sum_probs=130.9

Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHH
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRT  158 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A  158 (607)
                      ..+.+|.||||+||..|+.++|++|++.+ +++|.+|..|+||||+||..|+.+++++|+++|++++..|.  +||||+|
T Consensus        16 ~~~~~~~t~L~~A~~~g~~~~v~~Ll~~g-~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~n~~d~~g~tpLh~A   94 (229)
T 2vge_A           16 RARLNPLVLLLDAALTGELEVVQQAVKEM-NDPSQPNEEGITALHNAICGANYSIVDFLITAGANVNSPDSHGWTPLHCA   94 (229)
T ss_dssp             CTTSCHHHHHHHHHHHTCHHHHHHHHHHS-SCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHH
T ss_pred             ccccchhHHHHHHHHcCCHHHHHHHHhcC-CCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCCHHHHH
Confidence            45677889999999999999999999998 89999999999999999999999999999999999998764  6799999


Q ss_pred             HHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHH--HhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhh
Q psy1308         159 AAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYG--VVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN  233 (607)
Q Consensus       159 ~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A--~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~  233 (607)
                      +..|+.+++++|+++|++++..++    ..|+||||+|  +..|+.+++++|+++|++++.+|..|.||++.++...
T Consensus        95 ~~~g~~~~v~~Ll~~ga~~~~~~~----~~g~tpL~~A~a~~~~~~~~v~~Ll~~ga~~~~~~~~~~~~l~~~~~~~  167 (229)
T 2vge_A           95 ASCNDTVICMALVQHGAAIFATTL----SDGATAFEKCDPYREGYADCATYLADVEQSMGLMNSGAVYALWDYSAEF  167 (229)
T ss_dssp             HHTTCHHHHHHHHTTTCCTTCCCS----STTCCTGGGCCTTSTTHHHHHHHHHHHHHHTTTSGGGEEEESSCBCCSS
T ss_pred             HHcCCHHHHHHHHHcCCCcccccC----CCCCCHHHHHHHHhcChHHHHHHHHHcCCCcccccCCchHHHHHHhhcc
Confidence            999999999999999999887643    2499999999  8899999999999999999999999999998655443

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=99.92  E-value=1.3e-24  Score=223.64  Aligned_cols=226  Identities=22%  Similarity=0.307  Sum_probs=187.0

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++..+..+...+.+....      ...+++.|++|+||+.+++.++....+.  .+|+.+||+.++.....+++||
T Consensus       130 ~~ig~s~~~~~~~~~~~~~a~~------~~~vli~GesGtGKe~lAr~ih~~s~r~--~~fv~vnc~~~~~~~~~~~lfg  201 (368)
T 3dzd_A          130 EFVGEHPKILEIKRLIPKIAKS------KAPVLITGESGTGKEIVARLIHRYSGRK--GAFVDLNCASIPQELAESELFG  201 (368)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHTS------CSCEEEECCTTSSHHHHHHHHHHHHCCC--SCEEEEESSSSCTTTHHHHHHE
T ss_pred             cccccchHHHHHHhhhhhhhcc------chhheEEeCCCchHHHHHHHHHHhcccc--CCcEEEEcccCChHHHHHHhcC
Confidence            4678888888887777666533      3368899999999999999999988664  3499999999999999999999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +..| |+|....  ..+.++.+.+|+||||||+.+++++|..|++++++|.+...+|......++++|++||.+..... 
T Consensus       202 ~~~g~~tga~~~--~~g~~~~a~~gtlfldei~~l~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~v-  278 (368)
T 3dzd_A          202 HEKGAFTGALTR--KKGKLELADQGTLFLDEVGELDQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNKNLEEEI-  278 (368)
T ss_dssp             ECSCSSSSCCCC--EECHHHHTTTSEEEEETGGGSCHHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESSCHHHHH-
T ss_pred             ccccccCCcccc--cCChHhhcCCCeEEecChhhCCHHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCCCHHHHH-
Confidence            9887 7775433  35678889999999999999999999999999999999998887777789999999996655432 


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccccee-eeccCCH--HHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIV-YFLPFSK--SELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv-~f~pl~~--~~~~~i~~~  504 (607)
                                                                 ..+.|+ ++|++|++.+. ...||+.  +|+..++.+
T Consensus       279 -------------------------------------------~~g~fr-~dL~~rl~~~~i~lPpLreR~~Di~~l~~~  314 (368)
T 3dzd_A          279 -------------------------------------------KKGNFR-EDLYYRLSVFQIYLPPLRERGKDVILLAEY  314 (368)
T ss_dssp             -------------------------------------------HTTSSC-HHHHHHHTSEEEECCCGGGSTTHHHHHHHH
T ss_pred             -------------------------------------------HcCCcc-HHHHHHhCCeEEeCCChhhchhhHHHHHHH
Confidence                                                       235687 99999999874 4555644  899999999


Q ss_pred             HHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      ++.++..++..   -...++++|++.|.. |+||+|+|+|+++|++.+.
T Consensus       315 ~l~~~~~~~~~---~~~~~~~~a~~~L~~-~~wpGNvreL~n~i~~~~~  359 (368)
T 3dzd_A          315 FLKKFAKEYKK---NCFELSEETKEYLMK-QEWKGNVRELKNLIERAVI  359 (368)
T ss_dssp             HHHHHHHHTTC---CCCCBCHHHHHHHHT-CCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCC---CCCCcCHHHHHHHHh-CCCCcHHHHHHHHHHHHHH
Confidence            99988776532   246799999999996 9999999999999998664

>3t8k_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center F or structural genomics, MCSG; 1.77A {Leptotrichia buccalis}

Probab=99.92  E-value=6.7e-26  Score=211.03  Aligned_cols=160  Identities=13%  Similarity=0.031  Sum_probs=136.9

Q ss_pred             CchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccC-CCCCHHHHHHHHcCCH----HHHHH
Q psy1308          30 QSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQ-SIKDLTLFRAARYGSA----KELKT  104 (607)
Q Consensus        30 g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~-~~g~t~Lh~A~~~g~~----~~v~~  104 (607)
                      +.++||.|++.|+.+.+..++..+.                         +..+ ..|+||||+|+.+|+.    +++++
T Consensus         6 ~~~~l~~Aa~~g~~~~~~~l~~~~~-------------------------~~~~~~~g~T~Lh~A~~~~~~~~~~~iv~~   60 (186)
T 3t8k_A            6 EYRTVSAAAMLGTYEDFLELFEKGY-------------------------EDKESVLKSNILYDVLRNNNDEARYKISMF   60 (186)
T ss_dssp             HCSSHHHHHHHSCHHHHHHHHHHSS-------------------------SCHHHHHTTTHHHHHTTCSCHHHHHHHHHH
T ss_pred             cccHHHHHHHcCCHHHHHHHHhcCc-------------------------ccccccCCCCHHHHHHHcCCcchHHHHHHH
Confidence            4588999999999999988865421                         1223 5799999999999985    59999


Q ss_pred             HHhcCCCCCccCCCCCCcHHHHHHHcCC------HHHHHHHHHcCCCCCCCCC--C-chHHHHHHcCC-----ccHHHHH
Q psy1308         105 FIENSKLDVNMRHPLGWTPLHVAAINGK------VDNVRVLLEAGANPNLGDL--F-NTVHRTAAEKK-----MNPFEVL  170 (607)
Q Consensus       105 Ll~~~~~~~~~~d~~g~tpLh~A~~~g~------~~~v~~Ll~~ga~~~~~d~--~-~~l~~A~~~~~-----~~~~~~L  170 (607)
                      ||++| +++|.+|..|+||||+|+..|+      .+++++|+++|+++|.+|.  + ||||+|+..+.     .+++++|
T Consensus        61 Ll~~G-advn~~d~~g~TpLh~a~~~~~~~~~~~~~iv~~Ll~~Gadin~~d~~g~ttpLh~A~~~~~~~~~~~~iv~~L  139 (186)
T 3t8k_A           61 LINKG-ADIKSRTKEGTTLFFPLFQGGGNDITGTTELCKIFLEKGADITALYKPYKIVVFKNIFNYFVDENEMIPLYKLI  139 (186)
T ss_dssp             HHHTT-CCSSCCCTTCCCTHHHHHHHCTTCHHHHHHHHHHHHHTTCCSSSCBGGGTBCTTGGGGGCCSCHHHHHHHHHHH
T ss_pred             HHHCC-CCCCCCCCCCCcHHHHHHHcCCcchhhHHHHHHHHHHCCCCCCccCCCcCchHHHHHHHcCCChhhHHHHHHHH
Confidence            99999 9999999999999999999987      6889999999999999875  6 79999999554     4589999


Q ss_pred             Hh-cCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCC
Q psy1308         171 LK-REDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDN  220 (607)
Q Consensus       171 l~-~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~  220 (607)
                      ++ +|++++..+..     |+||||+|+..|+.++|++|.++..+.+.+++
T Consensus       140 l~~~gad~~~~d~~-----G~TpL~~A~~~~~~~~v~~L~~~~~~~~~~~~  185 (186)
T 3t8k_A          140 FSQSGLQLLIKDKW-----GLTALEFVKRCQKPIALKMMEDYIKKYNLKEN  185 (186)
T ss_dssp             HTSTTCCTTCCCTT-----SCCHHHHHHTTTCHHHHHHHHHHHHHHTCCC-
T ss_pred             HHhcCCCCcccCCC-----CCCHHHHHHHcCCHHHHHHHHHHHHHHhcccC
Confidence            99 99999988554     99999999999999999999987666655543

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.92  E-value=2.6e-24  Score=216.00  Aligned_cols=227  Identities=19%  Similarity=0.302  Sum_probs=181.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++.++..+...+......      +.+++++|++|+|||.+|+.++...... ..+|+.++|+........+++||
T Consensus         3 ~iig~s~~~~~~~~~~~~~a~~------~~~vLi~Ge~GtGKt~lAr~i~~~~~~~-~~~~v~v~~~~~~~~l~~~~lfg   75 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVAPS------DATVLIHGDSGTGKELVARALHACSARS-DRPLVTLNCAALNESLLESELFG   75 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHCST------TSCEEEESCTTSCHHHHHHHHHHHSSCS-SSCCCEEECSSCCHHHHHHHHTC
T ss_pred             CcEECCHHHHHHHHHHHHHhCC------CCcEEEECCCCchHHHHHHHHHHhCccc-CCCeEEEeCCCCChHHHHHHhcC
Confidence            4778899999888888776432      4478999999999999999999987665 67899999999988777889999


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +.+| |+|...  ...+.++.+.+++||||||+.+++++|..|+++++++.+...++......+++||++||........
T Consensus        76 ~~~g~~tg~~~--~~~g~~~~a~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~~l~~~v~  153 (304)
T 1ojl_A           76 HEKGAFTGADK--RREGRFVEADGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAEEVS  153 (304)
T ss_dssp             CCSSCCC---C--CCCCHHHHHTTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESSCHHHHHH
T ss_pred             ccccccCchhh--hhcCHHHhcCCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCccHHHHHH
Confidence            8776 665433  2345667778899999999999999999999999999988776665556788999999965443221


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccce-eeeccCC--HHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEI-VYFLPFS--KSELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~i-v~f~pl~--~~~~~~i~~~  504 (607)
                                                                  .+.|+ ++|++|++.+ +.+.||+  .+|+..++..
T Consensus       154 --------------------------------------------~g~fr-~~L~~Rl~~~~i~lPpL~eR~edi~~l~~~  188 (304)
T 1ojl_A          154 --------------------------------------------AGRFR-QDLYYRLNVVAIEMPSLRQRREDIPLLADH  188 (304)
T ss_dssp             --------------------------------------------HTSSC-HHHHHHHSSEEEECCCSGGGGGGHHHHHHH
T ss_pred             --------------------------------------------hCCcH-HHHHhhcCeeEEeccCHHHhHhhHHHHHHH
Confidence                                                        34576 9999999765 5667776  6899999999


Q ss_pred             HHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      ++..+..+...   -...+++++++.|.. |+|++|+|+|++.+++.+.
T Consensus       189 ~l~~~~~~~~~---~~~~~s~~a~~~L~~-~~wpGnvReL~~~l~~~~~  233 (304)
T 1ojl_A          189 FLRRFAERNRK---VVKGFTPQAMDLLIH-YDWPGNIRELENAIERAVV  233 (304)
T ss_dssp             HHHHHHHHTTC---CCCCBCHHHHHHHHH-CCCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcc---CccCCCHHHHHHHHc-CCCCCCHHHHHHHHHHHHH
Confidence            99877665432   135689999999986 9999999999999998765

>2aja_A Ankyrin repeat family protein; NESG, Q5ZSV0, structural genomics, PSI, protein structure initiative; 2.80A {Legionella pneumophila} SCOP: a.118.24.1

Probab=99.91  E-value=5e-27  Score=242.40  Aligned_cols=171  Identities=12%  Similarity=0.014  Sum_probs=133.3

Q ss_pred             CcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHH
Q psy1308          27 RGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFI  106 (607)
Q Consensus        27 ~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll  106 (607)
                      +..++||||+||+.|+.+++++|+..+.....                    ....+..|.||||+||..|+.++|++|+
T Consensus        89 g~~~~T~Lh~Aa~~G~~e~v~~Ll~~ga~~~~--------------------~~~~~~~~~tpL~~Aa~~G~~eiv~~Ll  148 (376)
T 2aja_A           89 GIKSEVICFVAAITGCSSALDTLCLLLTSDEI--------------------VKVIQAENYQAFRLAAENGHLHVLNRLC  148 (376)
T ss_dssp             TCCHHHHHHHHHHHCCHHHHHHHTTC--CCSS--------------------CC--CHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCCcCCHHHHHHHcCCHHHHHHHHHcCCcHHH--------------------HHHhccCCCCHHHHHHHcCCHHHHHHHH
Confidence            45567999999999999999999987652111                    0123345678999999999999999999


Q ss_pred             hcCCCCC---ccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCC--CC--CCchHHHHH-HcCCccHHHHHHhcCCCcc
Q psy1308         107 ENSKLDV---NMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL--GD--LFNTVHRTA-AEKKMNPFEVLLKREDEFN  178 (607)
Q Consensus       107 ~~~~~~~---~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~--~d--~~~~l~~A~-~~~~~~~~~~Ll~~g~~~~  178 (607)
                      ++| +++   +..+.+ +||||+||..|+.++|++|+++|++++.  .|  ++||||+|+ ..|+.+++++|+++|++  
T Consensus       149 ~~g-ad~~~~~i~~~~-~TpLh~Aa~~G~~eiv~~Ll~~ga~~~~~~~d~~g~TpL~~Aa~~~G~~eiv~~Ll~~ga~--  224 (376)
T 2aja_A          149 ELA-PTEIMAMIQAEN-YHAFRLAAENGHLHVLNRLCELAPTEATAMIQAENYYAFRWAAVGRGHHNVINFLLDCPVM--  224 (376)
T ss_dssp             HSC-TTTHHHHHSHHH-HHHHHHHHHTTCHHHHHHHHHSCGGGHHHHHHHHHHHHHHHHHSTTCCHHHHHHHTTSHHH--
T ss_pred             hCC-CCccccccCCCC-CCHHHHHHHCCCHHHHHHHHHcCCccchhccCCCCCCHHHHHHHHCCCHHHHHHHHhCCCc--
Confidence            998 652   333333 8999999999999999999999999765  44  467999999 99999999999997642  


Q ss_pred             ccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHH
Q psy1308         179 DVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIK  235 (607)
Q Consensus       179 ~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~  235 (607)
                                |.||||+|+.+|+.+++++|+++|++++..+.    +++.|+..|+.
T Consensus       225 ----------~~taL~~Aa~~g~~evv~lL~~~ga~~~~~~~----~l~~A~~~g~~  267 (376)
T 2aja_A          225 ----------LAYAEIHEFEYGEKYVNPFIARHVNRLKEMHD----AFKLSNPDGVF  267 (376)
T ss_dssp             ----------HHHHHHCTTTTTTTTHHHHHHHHHHHHHHHHT----TTTTTSSSSCC
T ss_pred             ----------cchHHHHHHHCCCHHHHHHHHhcCcccccccH----HHHHHHHCCCh
Confidence                      88999999999999999999999988766542    45555544433

>1n0r_A 4ANK, 4 ankyrin repeats; structural protein; 1.50A {} SCOP: k.37.1.1

Probab=99.91  E-value=5.9e-24  Score=184.22  Aligned_cols=124  Identities=36%  Similarity=0.478  Sum_probs=99.8

Q ss_pred             CCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcC
Q psy1308          85 IKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEK  162 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~  162 (607)
                      +|.||||+|+..|+.+++++|++++ ++++.+|..|.||||+|+..|+.+++++|+++|++++.+|.  +||||+|+..+
T Consensus         1 ~g~t~L~~A~~~~~~~~v~~Ll~~~-~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~g~t~l~~A~~~~   79 (126)
T 1n0r_A            1 NGRTPLHLAARNGHLEVVKLLLEAG-ADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGADVNAKDKNGRTPLHLAARNG   79 (126)
T ss_dssp             CCCCHHHHHHHHTCHHHHHHHHHHT-CCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTT
T ss_pred             CCccHHHHHHHcCcHHHHHHHHHcC-CCCCCcCCCCCcHHHHHHHcCcHHHHHHHHHcCCCCcccCCCCCcHHHHHHHcC
Confidence            5889999999999999999999998 89999999999999999999999999999999999887654  45777777777


Q ss_pred             CccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         163 KMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       163 ~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                      +.+++++|+++|++++..+.     .|.||||+|+..|+.+++++|+++|||
T Consensus        80 ~~~~~~~Ll~~g~~~~~~~~-----~g~t~l~~A~~~~~~~~~~~Ll~~Gad  126 (126)
T 1n0r_A           80 HLEVVKLLLEAGADVNAKDK-----NGRTPLHLAARNGHLEVVKLLLEAGAY  126 (126)
T ss_dssp             CHHHHHHHHHTTCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHHTCC
T ss_pred             hHHHHHHHHHcCCCCcccCC-----CCCCHHHHHHHcCcHHHHHHHHHcCCC
Confidence            77777777777776665433     377777777777777777777777765

>3c5r_A BARD-1, BRCA1-associated ring domain protein 1; ankyrin repeat, helix, extended loop, four repeat, PR ANK repeat, disease mutation, metal-binding; 2.00A {Homo sapiens} SCOP: k.37.1.1

Probab=99.91  E-value=2e-24  Score=190.69  Aligned_cols=125  Identities=29%  Similarity=0.470  Sum_probs=81.1

Q ss_pred             CCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchh
Q psy1308         116 RHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSAL  193 (607)
Q Consensus       116 ~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpL  193 (607)
                      +|..|+||||+|+..|+.+++++|+++|++++..|.  +||||+|+..|+.+++++|+++|++++..     |..|+|||
T Consensus         6 ~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~-----~~~g~t~L   80 (137)
T 3c5r_A            6 TNHRGETLLHIASIKGDIPSVEYLLQNGSDPNVKDHAGWTPLHEACNHGHLKVVELLLQHKALVNTT-----GYQNDSPL   80 (137)
T ss_dssp             CCTTCCCHHHHHHHHTCHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCC-----CGGGCCHH
T ss_pred             cCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCcCCCCCCCHHHHHHHcCCHHHHHHHHHcCCcccCc-----CCCCCCHH
Confidence            344444444444444444444444444444444332  33444444444444444444444444433     33499999


Q ss_pred             hHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhh
Q psy1308         194 HYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKY  245 (607)
Q Consensus       194 h~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~  245 (607)
                      |+|+..|+.+++++|+++|++++.+|..|+||+|+|+..+..+++.++.+..
T Consensus        81 ~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~tpl~~A~~~~~~~~l~~l~~~~  132 (137)
T 3c5r_A           81 HDAAKNGHVDIVKLLLSYGASRNAVNIFGLRPVDYTDDESMKSLLLLPEKNE  132 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCGGGGCCCHHHHHHHSCC----
T ss_pred             HHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHhhccHHHHHhhccccc
Confidence            9999999999999999999999999999999999999999999998776554

>2aja_A Ankyrin repeat family protein; NESG, Q5ZSV0, structural genomics, PSI, protein structure initiative; 2.80A {Legionella pneumophila} SCOP: a.118.24.1

Probab=99.91  E-value=4.4e-26  Score=235.33  Aligned_cols=156  Identities=15%  Similarity=0.137  Sum_probs=133.8

Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCC---CccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCC-----CCCCCCC
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSKLD---VNMRHPLGWTPLHVAAINGKVDNVRVLLEAGAN-----PNLGDLF  152 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~---~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~-----~~~~d~~  152 (607)
                      ..+.++.||||+||..|+.++|++|++++ +.   .+..+..|.||||+||..|+.++|++|+++|++     ++..+ +
T Consensus        87 ~~g~~~~T~Lh~Aa~~G~~e~v~~Ll~~g-a~~~~~~~~~~~~~tpL~~Aa~~G~~eiv~~Ll~~gad~~~~~i~~~~-~  164 (376)
T 2aja_A           87 KKGIKSEVICFVAAITGCSSALDTLCLLL-TSDEIVKVIQAENYQAFRLAAENGHLHVLNRLCELAPTEIMAMIQAEN-Y  164 (376)
T ss_dssp             HHTCCHHHHHHHHHHHCCHHHHHHHTTC---CCSSCC--CHHHHHHHHHHHHTTCHHHHHHHHHSCTTTHHHHHSHHH-H
T ss_pred             HcCCCcCCHHHHHHHcCCHHHHHHHHHcC-CcHHHHHHhccCCCCHHHHHHHcCCHHHHHHHHhCCCCccccccCCCC-C
Confidence            44556679999999999999999999998 42   223455688999999999999999999999975     44445 7


Q ss_pred             chHHHHHHcCCccHHHHHHhcCCCccc--cCCCCcCcCCcchhhHHH-hcCCHHHHHHHHhcCCCCCccCCCCCCCCcch
Q psy1308         153 NTVHRTAAEKKMNPFEVLLKREDEFND--VLNPNMTFLGFSALHYGV-VAGNTEVVELLLKSGADPTVKDNSGHIPSDYA  229 (607)
Q Consensus       153 ~~l~~A~~~~~~~~~~~Ll~~g~~~~~--~~~~~~d~~g~TpLh~A~-~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A  229 (607)
                      ||||+|+..|+.+++++|+++|++++.  .     |..|+||||+|+ ..|+.++|++|+++|++       |.||||+|
T Consensus       165 TpLh~Aa~~G~~eiv~~Ll~~ga~~~~~~~-----d~~g~TpL~~Aa~~~G~~eiv~~Ll~~ga~-------~~taL~~A  232 (376)
T 2aja_A          165 HAFRLAAENGHLHVLNRLCELAPTEATAMI-----QAENYYAFRWAAVGRGHHNVINFLLDCPVM-------LAYAEIHE  232 (376)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHSCGGGHHHHH-----HHHHHHHHHHHHSTTCCHHHHHHHTTSHHH-------HHHHHHCT
T ss_pred             CHHHHHHHCCCHHHHHHHHHcCCccchhcc-----CCCCCCHHHHHHHHCCCHHHHHHHHhCCCc-------cchHHHHH
Confidence            899999999999999999999999765  4     334999999999 99999999999998853       89999999


Q ss_pred             hhhhHHHHHHHHHHhhhhHHh
Q psy1308         230 EDANIKQILQKYAEKYADLQR  250 (607)
Q Consensus       230 ~~~~~~~~~~~ll~~~~~~~~  250 (607)
                      +..|+.+++++|++.+++...
T Consensus       233 a~~g~~evv~lL~~~ga~~~~  253 (376)
T 2aja_A          233 FEYGEKYVNPFIARHVNRLKE  253 (376)
T ss_dssp             TTTTTTTHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHhcCccccc
Confidence            999999999999999988653

>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat, chromodomain, aromatic CAGE, signal recognit particle, protein targeting; 3.18A {Arabidopsis thaliana} PDB: 1x3q_A 2hug_A

Probab=99.91  E-value=1.7e-25  Score=218.22  Aligned_cols=143  Identities=20%  Similarity=0.238  Sum_probs=128.6

Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC---CCchHHH
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD---LFNTVHR  157 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d---~~~~l~~  157 (607)
                      ..+..|.||||+||..|+.++|++|++ + +++|.+|..|+||||+||..|+.++|++|+++|++++..+   ++||||+
T Consensus        40 ~~~~~g~t~L~~A~~~g~~~~v~~Ll~-~-~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~~~~~~~~g~t~L~~  117 (244)
T 3ui2_A           40 DVVSEYETPWWTAARKADEQALSQLLE-D-RDVDAVDENGRTALLFVAGLGSDKCVRLLAEAGADLDHRDMRGGLTALHM  117 (244)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHTTT-T-CCTTCBCTTSCBHHHHHHHHTCHHHHHHHHHTTCCTTCCCSSSCCCHHHH
T ss_pred             ccccCCCCHHHHHHHcCCHHHHHHHHc-C-CCCCCcCCCCCCHHHHHHHCCCHHHHHHHHHcCCCCCcCCCCCCCCHHHH
Confidence            344678999999999999999999999 6 8999999999999999999999999999999999999877   5789999


Q ss_pred             HHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHH
Q psy1308         158 TAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQI  237 (607)
Q Consensus       158 A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~  237 (607)
                      |+..|+.+++++|+++|++++..+..     |+||||+|+..++                 +..+.||||+|+..|+.++
T Consensus       118 A~~~g~~~~v~~Ll~~ga~~~~~d~~-----g~t~l~~A~~~~~-----------------~~~~~~~l~~a~~~g~~~i  175 (244)
T 3ui2_A          118 AAGYVRPEVVEALVELGADIEVEDER-----GLTALELAREILK-----------------TTPKGNPMQFGRRIGLEKV  175 (244)
T ss_dssp             HHHTTCHHHHHHHHHTTCCTTCCCTT-----CCCHHHHHHHHHT-----------------TCCCSSHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHCCCCCCCCCCC-----CCcHHHHHHHHHh-----------------ccCCCCHHHHHHHcChHHH
Confidence            99999999999999999999877544     9999999986322                 2568999999999999999


Q ss_pred             HHHHHHhhhh
Q psy1308         238 LQKYAEKYAD  247 (607)
Q Consensus       238 ~~~ll~~~~~  247 (607)
                      +++|++.+.+
T Consensus       176 v~~L~~~~~~  185 (244)
T 3ui2_A          176 INVLEGQVFE  185 (244)
T ss_dssp             HHHHHHHHEE
T ss_pred             HHHHHHhccc
Confidence            9999887543

>2jab_A H10-2-G3; HER2, darpin, ankyrin repeat protein, membrane protein, human epidermal growth factor receptor 2, de novo protein; 1.70A {} PDB: 3hg0_D 2xzt_G 2xzd_G 2y0b_G 2v4h_C

Probab=99.91  E-value=6.6e-24  Score=187.14  Aligned_cols=125  Identities=33%  Similarity=0.445  Sum_probs=92.2

Q ss_pred             cCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHH
Q psy1308          82 CQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTA  159 (607)
Q Consensus        82 ~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~  159 (607)
                      ....+.||||+||..|+.+++++|++++ +++|.+|..|+||||+||..|+.+++++|+++|++++..|.  +||||+|+
T Consensus        10 ~~~~~~t~l~~A~~~g~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~d~~g~t~L~~A~   88 (136)
T 2jab_A           10 HGSDLGKKLLEAARAGQDDEVRILMANG-ADVNAKDEYGLTPLYLATAHGHLEIVEVLLKNGADVNAVDAIGFTPLHLAA   88 (136)
T ss_dssp             --CHHHHHHHHHHHHTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHH
T ss_pred             ccccccHHHHHHHHhCCHHHHHHHHHcC-CCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCcCCCCCCCHHHHHH
Confidence            4456789999999999999999999998 89999999999999999999999999999999999887654  34566666


Q ss_pred             HcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcC
Q psy1308         160 AEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG  212 (607)
Q Consensus       160 ~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~g  212 (607)
                      ..|+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|+++|
T Consensus        89 ~~~~~~~v~~Ll~~g~~~~~~~~-----~g~tpl~~A~~~~~~~~~~~Ll~~G  136 (136)
T 2jab_A           89 FIGHLEIAEVLLKHGADVNAQDK-----FGKTAFDISIGNGNEDLAEILQKLN  136 (136)
T ss_dssp             HHTCHHHHHHHHHTTCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHcCCCCcCcCC-----CCCCHHHHHHHCCCHHHHHHHHHcC
Confidence            55555555655555555554422     2555666655555555555555544

>3aaa_C Myotrophin, protein V-1; actin capping protein, barbed END capping, inhibition, prote binding, actin capping, actin-binding, cytoskeleton, ANK RE; 2.20A {Homo sapiens} PDB: 1myo_A 2kxp_C 2myo_A

Probab=99.90  E-value=5.3e-24  Score=184.23  Aligned_cols=119  Identities=33%  Similarity=0.429  Sum_probs=103.4

Q ss_pred             CCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcC
Q psy1308          83 QSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEK  162 (607)
Q Consensus        83 ~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~  162 (607)
                      +..|.||||+|+..|+.+++++|++.+ ++++.+|..|+||||+||..|+.+++++|+++|++++.+|.           
T Consensus         4 ~~~~~~~l~~A~~~~~~~~v~~ll~~~-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~d~-----------   71 (123)
T 3aaa_C            4 GSMCDKEFMWALKNGDLDEVKDYVAKG-EDVNRTLEGGRKPLHYAADCGQLEILEFLLLKGADINAPDK-----------   71 (123)
T ss_dssp             ---CHHHHHHHHHTTCHHHHHHHHHTT-CCTTSCCTTSSCHHHHHHHTTCHHHHHHHHTTTCCTTCCCT-----------
T ss_pred             ccccchHHHHHHHcCCHHHHHHHHHcC-CCcCccCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCcCCC-----------
Confidence            467889999999999999999999988 88999999999999999999999999999988888876542           


Q ss_pred             CccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHH
Q psy1308         163 KMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQIL  238 (607)
Q Consensus       163 ~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~  238 (607)
                                               .|+||||+|+..|+.+++++|+++|++++.+|..|+||||+|...+..+++
T Consensus        72 -------------------------~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~t~l~~A~~~~~~~ll  122 (123)
T 3aaa_C           72 -------------------------HHITPLLSAVYEGHVSCVKLLLSKGADKTVKGPDGLTAFEATDNQAIKALL  122 (123)
T ss_dssp             -------------------------TSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHCCCHHHHHHH
T ss_pred             -------------------------CCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCCCCCCHHHHhCCHHHHHHh
Confidence                                     389999999999999999999999999999999999999999888777765

>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium, SGC, metal binding protein; 2.06A {Homo sapiens}

Probab=99.90  E-value=1.8e-23  Score=210.10  Aligned_cols=198  Identities=15%  Similarity=0.097  Sum_probs=147.7

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcc----ccc--ccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcC
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIR----QSN--NTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYG   97 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~----~~~--~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g   97 (607)
                      ..-+.+..+.+..+.+.|+..+-+++.......    +..  .......+..+.+...  ........+.++||.|+..|
T Consensus        85 l~lD~w~~~~l~~~~~~GN~~~n~i~E~~l~~~~~~kP~~~s~~~~r~~~I~~Ky~~~--~f~~~~~~~~~~L~~A~~~g  162 (301)
T 2b0o_E           85 LTLDLLGPSELLLALNMGNTSFNEVMEAQLPSHGGPKPSAESDMGTRRDYIMAKYVEH--RFARRCTPEPQRLWTAICNR  162 (301)
T ss_dssp             TTTSCCCHHHHHHHHHCCHHHHHHHHTTTCCSSSCSCCCTTCCHHHHHHHHHHHHTSC--TTSCCCC-CHHHHHHHHHTT
T ss_pred             cCcCCCCHHHHHHHHHcCCHHHHHHHHHhhhhccCCCCCCcccHHHHHHHHHHHHHhh--hhhcccCchHHHHhhhhhcc
Confidence            445667788899999999987666654322111    110  0001111111222211  11223344568899999999


Q ss_pred             CHHHHHHHHhcCCCCCcc------CCCCCCcHHHHHHHc---CCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccH
Q psy1308          98 SAKELKTFIENSKLDVNM------RHPLGWTPLHVAAIN---GKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNP  166 (607)
Q Consensus        98 ~~~~v~~Ll~~~~~~~~~------~d~~g~tpLh~A~~~---g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~  166 (607)
                      +.+.|+.|++.+ ++++.      .+..|+||||+|+..   |+.+++++|+++|+++|.+|.  +||||+|+..|+.++
T Consensus       163 ~~~~v~~ll~~g-~d~~~~~~~~~~~~~g~t~Lh~A~~~~~~~~~~iv~~Ll~~gadvn~~d~~G~TpLh~A~~~g~~~~  241 (301)
T 2b0o_E          163 DLLSVLEAFANG-QDFGQPLPGPDAQAPEELVLHLAVKVANQASLPLVDFIIQNGGHLDAKAADGNTALHYAALYNQPDC  241 (301)
T ss_dssp             CHHHHHHHHHTT-CCTTSCEECSSSCSCEECHHHHHHHTCCTTTHHHHHHHHHHSSCTTCCCTTCCCHHHHHHHTTCHHH
T ss_pred             CHHHHHHHHhcC-CcccccCCCcccCCCCccHHHHHHHhcccCcHHHHHHHHhcCCCCCCCCCCCCCHHHHHHHcCCHHH
Confidence            999999999998 89998      689999999999997   899999999999999998765  679999999999999


Q ss_pred             HHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHH
Q psy1308         167 FEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIK  235 (607)
Q Consensus       167 ~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~  235 (607)
                      +++|+++|++++..+.     .|.||||+|+..|+.+++++|+++|++      .|.||||+|+..|+.
T Consensus       242 v~~Ll~~gad~~~~d~-----~G~TpL~~A~~~~~~~iv~~Ll~~ga~------~g~tpLh~A~~~g~~  299 (301)
T 2b0o_E          242 LKLLLKGRALVGTVNE-----AGETALDIARKKHHKECEELLEQAQAG------TFAFPLHVDYSWVIS  299 (301)
T ss_dssp             HHHHHHTTCCCSCCCT-----TSCCHHHHHHHHTCHHHHHHHHHHHHH------TTSSCCC--------
T ss_pred             HHHHHHcCCCCCCcCC-----CCCCHHHHHHHcCCHHHHHHHHHhcCC------CCCChhHHHHhcCCc
Confidence            9999999999987754     499999999999999999999999987      589999999988764

>1bi7_B P16INK4A, MTS1, multiple tumor suppressor; cyclin dependent kinase, cyclin dependent kinase inhibitory protein, CDK, cell cycle; 3.40A {Homo sapiens} SCOP: d.211.1.1 PDB: 1a5e_A 1dc2_A 2a5e_A

Probab=99.90  E-value=1.9e-24  Score=195.52  Aligned_cols=141  Identities=24%  Similarity=0.267  Sum_probs=115.9

Q ss_pred             CccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCc
Q psy1308         113 VNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGF  190 (607)
Q Consensus       113 ~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~  190 (607)
                      .+..+..|.||||+|+..|+.+++++|+++|++++..+.  +||||+|+ .|+.+++++|+++|++++..+..     |+
T Consensus         5 ~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~-~~~~~~v~~Ll~~g~~~~~~d~~-----g~   78 (156)
T 1bi7_B            5 AGSSMEPSADWLATAAARGRVEEVRALLEAGANPNAPNSYGRRPIQVMM-MGSARVAELLLLHGAEPNCADPA-----TL   78 (156)
T ss_dssp             -----CCSTTHHHHHHHHTCHHHHHHHHTTTCCTTCCCSSSCCTTTSSC-TTCHHHHHHHHTTTCCCCCCCTT-----TC
T ss_pred             ccCCCccchHHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHH-cCCHHHHHHHHHcCCCCCCcCCC-----CC
Confidence            455678899999999999999999999999999998765  67999985 99999999999999999887544     99


Q ss_pred             c-hhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccH
Q psy1308         191 S-ALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPL  262 (607)
Q Consensus       191 T-pLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L  262 (607)
                      | |||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|+++|++....   +..+.++.
T Consensus        79 ttpL~~A~~~~~~~~v~~Ll~~ga~~~~~d~~g~tpl~~A~~~~~~~~v~~Ll~~ga~~~~~---~~~g~t~~  148 (156)
T 1bi7_B           79 TRPVHDAAREGFLDTLVVLHRAGARLDVRDAWGRLPVDLAEELGHRDVARYLRAAAGGTRGS---NHARIDAA  148 (156)
T ss_dssp             CCHHHHHHHHTCHHHHHHHHHHTCCSSCCCTTCCCHHHHHHHHTCHHHHHHHSSCC-----------------
T ss_pred             cHHHHHHHHCCCHHHHHHHHHcCCCCcccCCCCCCHHHHHHHhCHHHHHHHHHHcCCCCCcc---CcCcCccc
Confidence            9 999999999999999999999999999999999999999999999999999999987643   34444443

>2jab_A H10-2-G3; HER2, darpin, ankyrin repeat protein, membrane protein, human epidermal growth factor receptor 2, de novo protein; 1.70A {} PDB: 3hg0_D 2xzt_G 2xzd_G 2y0b_G 2v4h_C

Probab=99.90  E-value=6.1e-24  Score=187.35  Aligned_cols=125  Identities=29%  Similarity=0.367  Sum_probs=115.3

Q ss_pred             CCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchh
Q psy1308         116 RHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSAL  193 (607)
Q Consensus       116 ~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpL  193 (607)
                      ....|.||||+|+..|+.+++++|+++|++++..|.  +||||+|+..++.+++++|+++|++++..+.     .|+|||
T Consensus        10 ~~~~~~t~l~~A~~~g~~~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~g~~~~~~d~-----~g~t~L   84 (136)
T 2jab_A           10 HGSDLGKKLLEAARAGQDDEVRILMANGADVNAKDEYGLTPLYLATAHGHLEIVEVLLKNGADVNAVDA-----IGFTPL   84 (136)
T ss_dssp             --CHHHHHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCT-----TCCCHH
T ss_pred             ccccccHHHHHHHHhCCHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCcCCC-----CCCCHH
Confidence            345688999999999999999999999999998765  6799999999999999999999999987754     499999


Q ss_pred             hHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhh
Q psy1308         194 HYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKY  245 (607)
Q Consensus       194 h~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~  245 (607)
                      |+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|++.|
T Consensus        85 ~~A~~~~~~~~v~~Ll~~g~~~~~~~~~g~tpl~~A~~~~~~~~~~~Ll~~G  136 (136)
T 2jab_A           85 HLAAFIGHLEIAEVLLKHGADVNAQDKFGKTAFDISIGNGNEDLAEILQKLN  136 (136)
T ss_dssp             HHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHC-
T ss_pred             HHHHHcCCHHHHHHHHHcCCCCcCcCCCCCCHHHHHHHCCCHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999999999999998764

>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system, signal sequence, ankyrin repeat, chromodomain, type I turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2 k.37.1.1 PDB: 3dep_A 1x32_A

Probab=99.90  E-value=5.6e-24  Score=197.88  Aligned_cols=140  Identities=21%  Similarity=0.247  Sum_probs=124.1

Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC---CCchHHH
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD---LFNTVHR  157 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d---~~~~l~~  157 (607)
                      ..+..|.||||+||..|+.+++++|++ + +++|.+|..|+||||+|+..|+.+++++|+++|++++..+   ++||||+
T Consensus        39 ~~~~~g~t~L~~A~~~g~~~~v~~Ll~-~-~~~~~~d~~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~~~~~g~tpL~~  116 (183)
T 3deo_A           39 DVVSEYETPWWTAARKADEQALSQLLE-D-RDVDAVDENGRTALLFVAGLGSDKCVRLLAEAGADLDHRDMRGGLTALHM  116 (183)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHTT-T-SCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCSSSSCCHHHH
T ss_pred             cCCCCCCCHHHHHHHcCCHHHHHHHHh-c-CCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCcCCCCCCCCHHHH
Confidence            446788999999999999999999999 6 8999999999999999999999999999999999999876   4679999


Q ss_pred             HHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHH
Q psy1308         158 TAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQI  237 (607)
Q Consensus       158 A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~  237 (607)
                      |+..|+.+++++|+++|++++..+.     .|+||||+|+..++.                 ..+.|||++|+..|+.++
T Consensus       117 A~~~~~~~~v~~Ll~~ga~~~~~d~-----~g~tpl~~A~~~~~~-----------------~~~~~~l~~a~~~~~~~i  174 (183)
T 3deo_A          117 AAGYVRPEVVEALVELGADIEVEDE-----RGLTALELAREILKT-----------------TPKGNPMQFGRRIGLEKV  174 (183)
T ss_dssp             HHHTTCHHHHHHHHHHTCCTTCCCT-----TSCCHHHHHHHHHHT-----------------CCCCSHHHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHcCCCCcCCCC-----CCCCHHHHHHHhccC-----------------cccccHHHHHHHcCHHHH
Confidence            9999999999999999999887644     499999999875432                 456899999999999999


Q ss_pred             HHHHHHh
Q psy1308         238 LQKYAEK  244 (607)
Q Consensus       238 ~~~ll~~  244 (607)
                      +++|.++
T Consensus       175 ~~~L~~~  181 (183)
T 3deo_A          175 INVLEGQ  181 (183)
T ss_dssp             HHHHHTC
T ss_pred             HHHHHHh
Confidence            9988654

>1n0r_A 4ANK, 4 ankyrin repeats; structural protein; 1.50A {} SCOP: k.37.1.1

Probab=99.90  E-value=2e-23  Score=180.80  Aligned_cols=124  Identities=35%  Similarity=0.468  Sum_probs=116.8

Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHH
Q psy1308         119 LGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYG  196 (607)
Q Consensus       119 ~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A  196 (607)
                      +|+||||+|+..|+.+++++|+++|++++..+.  +||||+|+..++.+++++|+++|++++..+.     .|+||||+|
T Consensus         1 ~g~t~L~~A~~~~~~~~v~~Ll~~~~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~-----~g~t~l~~A   75 (126)
T 1n0r_A            1 NGRTPLHLAARNGHLEVVKLLLEAGADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGADVNAKDK-----NGRTPLHLA   75 (126)
T ss_dssp             CCCCHHHHHHHHTCHHHHHHHHHHTCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCT-----TSCCHHHHH
T ss_pred             CCccHHHHHHHcCcHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHcCcHHHHHHHHHcCCCCcccCC-----CCCcHHHHH
Confidence            589999999999999999999999999998764  6799999999999999999999999887644     499999999


Q ss_pred             HhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhh
Q psy1308         197 VVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYAD  247 (607)
Q Consensus       197 ~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~  247 (607)
                      +..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|+++|++
T Consensus        76 ~~~~~~~~~~~Ll~~g~~~~~~~~~g~t~l~~A~~~~~~~~~~~Ll~~Gad  126 (126)
T 1n0r_A           76 ARNGHLEVVKLLLEAGADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGAY  126 (126)
T ss_dssp             HHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHTCC
T ss_pred             HHcChHHHHHHHHHcCCCCcccCCCCCCHHHHHHHcCcHHHHHHHHHcCCC
Confidence            999999999999999999999999999999999999999999999998864

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=99.89  E-value=1.5e-22  Score=199.83  Aligned_cols=226  Identities=19%  Similarity=0.278  Sum_probs=169.9

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++.++..+...+......      +.+++++|++|+|||.+++.++..+... ..+|+.++|+.+........++|
T Consensus         7 ~~ig~~~~~~~~~~~~~~~~~~------~~~vll~G~~GtGKt~la~~i~~~~~~~-~~~~~~v~~~~~~~~~~~~~l~g   79 (265)
T 2bjv_A            7 NLLGEANSFLEVLEQVSHLAPL------DKPVLIIGERGTGKELIASRLHYLSSRW-QGPFISLNCAALNENLLDSELFG   79 (265)
T ss_dssp             ---CCCHHHHHHHHHHHHHTTS------CSCEEEECCTTSCHHHHHHHHHHTSTTT-TSCEEEEEGGGSCHHHHHHHHHC
T ss_pred             cceeCCHHHHHHHHHHHHHhCC------CCCEEEECCCCCcHHHHHHHHHHhcCcc-CCCeEEEecCCCChhHHHHHhcC
Confidence            4789999998888777765432      3478999999999999999999987654 57899999999977666678888


Q ss_pred             CCCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         349 APPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       349 ~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ...| |.|....  ..+.+..+.+++||||||+++++++|..|+++++++.+.+.++......++++|+|||.......+
T Consensus        80 ~~~~~~~g~~~~--~~~~l~~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~~~~~~~~  157 (265)
T 2bjv_A           80 HEAGAFTGAQKR--HPGRFERADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVN  157 (265)
T ss_dssp             CC---------C--CCCHHHHTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESSCHHHHHH
T ss_pred             Cccccccccccc--ccchhhhcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCcCHHHHHH
Confidence            7665 5553221  235566777899999999999999999999999999888766655556788999999966544321


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccc-eeeeccCCH--HHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE-IVYFLPFSK--SELHTLVCR  504 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~-iv~f~pl~~--~~~~~i~~~  504 (607)
                                                                  .+.|+ ++|++|++. .+.+.|++.  +++..++..
T Consensus       158 --------------------------------------------~~~~~-~~L~~Rl~~~~i~lp~L~~R~~di~~l~~~  192 (265)
T 2bjv_A          158 --------------------------------------------EGTFR-ADLLDALAFDVVQLPPLRERESDIMLMAEY  192 (265)
T ss_dssp             --------------------------------------------HTSSC-HHHHHHHCSEEEECCCGGGCHHHHHHHHHH
T ss_pred             --------------------------------------------cCCcc-HHHHHhhcCcEEeCCChhhhhHHHHHHHHH
Confidence                                                        23466 999999975 466667754  789999998


Q ss_pred             HHHHHHHHHhhcCCcE--EEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNIN--IVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~--l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      ++..+.++.    +..  ..++++++++|.. |+|++|+|+|++.+++.+.
T Consensus       193 ~l~~~~~~~----~~~~~~~~~~~a~~~L~~-~~~~gn~reL~~~l~~~~~  238 (265)
T 2bjv_A          193 FAIQMCREI----KLPLFPGFTERARETLLN-YRWPGNIRELKNVVERSVY  238 (265)
T ss_dssp             HHHHHHHHT----TCSSCCCBCHHHHHHHHH-SCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh----CCCcccCcCHHHHHHHHh-CCCCCCHHHHHHHHHHHHH
Confidence            888766543    332  3689999999986 9999999999999998654

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=99.89  E-value=2.1e-22  Score=209.27  Aligned_cols=285  Identities=21%  Similarity=0.292  Sum_probs=177.7

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHH----HhhCCC------------------CCCCCCceeeeeccCCCChhHHHHHHH
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIK----RKENGW------------------TDDDHPLVFLFLGSSGIGKTELAKQLA  318 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~----~~~~~~------------------~~~~~p~~~ll~G~~G~GKt~la~~la  318 (607)
                      .+...+.+.++||+.+++.+..++.    +...+.                  .....+.+++|+||+|+|||.+|+.++
T Consensus        14 ~l~~~L~~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la   93 (376)
T 1um8_A           14 ELKAVLDNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLA   93 (376)
T ss_dssp             HHHHHHHTTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHH
T ss_pred             HHHHHHhhHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHH
Confidence            4667777889999999999988772    222111                  001123379999999999999999999


Q ss_pred             HHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHH-------hhCCCeEEEEecCCccCHH------
Q psy1308         319 FYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRL-------KKCPNAVVLFDEVDKAHPD------  385 (607)
Q Consensus       319 ~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~-------~~~~~~vl~lDEiek~~~~------  385 (607)
                      +.+.    .+|+.++++.+..           .+|.|....+.+...+       ..++++|+|||||+++++.      
T Consensus        94 ~~l~----~~~~~~~~~~~~~-----------~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~  158 (376)
T 1um8_A           94 KHLD----IPIAISDATSLTE-----------AGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSI  158 (376)
T ss_dssp             HHTT----CCEEEEEGGGCC-------------------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC---------
T ss_pred             HHhC----CCEEEecchhhhh-----------cCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCCCce
Confidence            9873    4699999887643           2444544444444443       3446899999999999998      


Q ss_pred             --------HHHHHHHhhcccee--ecCCCcE--------EecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcc
Q psy1308         386 --------VLTVLLQLFDEGRL--TDGKGKT--------IECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSIS  447 (607)
Q Consensus       386 --------~~~~Ll~~~~~~~~--~~~~g~~--------~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~  447 (607)
                              +|+.|+++++++.+  .+.+|..        +..+|++||+++|...  +..... .+     +....+...
T Consensus       159 ~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~--l~~~l~-~R-----~~~~~~g~~  230 (376)
T 1um8_A          159 TRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDG--LAEIIK-KR-----TTQNVLGFT  230 (376)
T ss_dssp             -----CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEECCTT--HHHHTT-TS-----CSSCCCSCC
T ss_pred             ecccchHHHHHHHHHHhhccceecccccccccCCcceEEEecCCeEEEecCCHHH--HHHHHH-HH-----hcccccCCC
Confidence                    99999999997753  4444443        4557777887777422  211110 00     000000000


Q ss_pred             cccCCCcchhcchhhhhhhhhHHH-HhccCChhhhccccceeeeccCCHHHHHHHHHH----HHHHHHHHHhhcCCcEEE
Q psy1308         448 KSQGSNLDVTISRHFKDHVVQPIL-KRHFRRDEFLGRINEIVYFLPFSKSELHTLVCR----ELNFWAKKALDKHNINIV  522 (607)
Q Consensus       448 ~~~~~~~~~~~~~~~~~~~~~~~l-~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~----~l~~~~~~~~~~~~i~l~  522 (607)
                      .+...   ......+........+ ...|+ |+|++|++.++.|.||+.+++..|+..    .+..+.+++.. .+..+.
T Consensus       231 ~~~~~---~~~~~~~~~~~~~~~l~~~~~~-p~l~~R~~~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~~~-~~~~~~  305 (376)
T 1um8_A          231 QEKMS---KKEQEAILHLVQTHDLVTYGLI-PELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKM-DEVDLI  305 (376)
T ss_dssp             CSSCC---TTTTTTSGGGCCHHHHHHTTCC-HHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHT-TTCEEE
T ss_pred             chhhh---ccchhHHHhhcCHHHHhhcCCC-hHHhcCCCceeeccCCCHHHHHHHHhhhHHHHHHHHHHHHhh-cCceEE
Confidence            00000   0000111122222233 34576 999999999999999999999999984    55555555433 477899


Q ss_pred             eCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEEEEEec
Q psy1308         523 WDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQW  577 (607)
Q Consensus       523 ~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~~~~  577 (607)
                      ++++++++|+. +|.+.+|+|+|++.+++.+.+++++....    .+..+.|+.+.
T Consensus       306 ~~~~a~~~l~~~~~~~~~~~R~L~~~le~~~~~~~~~~~~~----~~~~~~i~~~~  357 (376)
T 1um8_A          306 FEEEAIKEIAQLALERKTGARGLRAIIEDFCLDIMFDLPKL----KGSEVRITKDC  357 (376)
T ss_dssp             ECHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHHHHHTGGGG----TTSEEEECHHH
T ss_pred             ECHHHHHHHHHHhcccccCcHHHHHHHHHHHHHHHhhccCC----CCCEEEEeHHH
Confidence            99999999987 56677999999999999999988765422    34556665443

>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix, SH3, ankyrin repeat, signaling protein, ANK repeat, cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB: 3ehq_A

Probab=99.89  E-value=1.2e-23  Score=201.98  Aligned_cols=134  Identities=28%  Similarity=0.296  Sum_probs=107.2

Q ss_pred             hccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHc-CCCCCCCCCCchHHHH
Q psy1308          80 LECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEA-GANPNLGDLFNTVHRT  158 (607)
Q Consensus        80 ~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~-ga~~~~~d~~~~l~~A  158 (607)
                      ...+..|.||||+||..|+.++|++|++.+ +++|.+|..|+||||+||..|+.++|++|+++ |++++.+|.       
T Consensus        67 ~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~~g~~~~~~d~-------  138 (222)
T 3ehr_A           67 AEQAESIDNPLHEAAKRGNLSWLRECLDNR-VGVNGLDKAGSTALYWACHGGHKDIVEMLFTQPNIELNQQNK-------  138 (222)
T ss_dssp             HHHEEEESCHHHHHHHHTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHTTSTTCCCCCCCT-------
T ss_pred             cccccccccccccccccCcHHHHHHHHhCC-CCccccCCCCCCHHHHHHHcCCHHHHHHHHcCCCCCccccCC-------
Confidence            456778899999999999999999999988 99999999999999999999999999999988 888887653       


Q ss_pred             HHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHH
Q psy1308         159 AAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQIL  238 (607)
Q Consensus       159 ~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~  238 (607)
                                                   .|+||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++
T Consensus       139 -----------------------------~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~~~~~~g~t~l~~A~~~~~~~~l  189 (222)
T 3ehr_A          139 -----------------------------LGDTALHAAAWKGYADIVQLLLAKGARTDLRNIEKKLAFDMATNAACASLL  189 (222)
T ss_dssp             -----------------------------TSCCHHHHHHHHTCHHHHHHHHHHTCCSCCCCTTSCCHHHHCCSHHHHHHH
T ss_pred             -----------------------------CCCCHHHHHHHcCCHHHHHHHHHcCCCCccccCCCCCHHHHhcchhHHHHH
Confidence                                         278888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHhhhhHHh
Q psy1308         239 QKYAEKYADLQR  250 (607)
Q Consensus       239 ~~ll~~~~~~~~  250 (607)
                      +.|+..++....
T Consensus       190 ~~l~~~~~~~~~  201 (222)
T 3ehr_A          190 KKKQGTDAVRTL  201 (222)
T ss_dssp             C-----------
T ss_pred             HHHhccchhhhc
Confidence            888887776554

>3c5r_A BARD-1, BRCA1-associated ring domain protein 1; ankyrin repeat, helix, extended loop, four repeat, PR ANK repeat, disease mutation, metal-binding; 2.00A {Homo sapiens} SCOP: k.37.1.1

Probab=99.89  E-value=2.6e-23  Score=183.51  Aligned_cols=128  Identities=23%  Similarity=0.287  Sum_probs=115.1

Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHH
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRT  158 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A  158 (607)
                      ..|..|.||||+||..|+.+++++|++.+ ++++.+|..|+||||+|+..|+.+++++|+++|++++.+|.  +||||+|
T Consensus         5 ~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g-~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~g~t~L~~A   83 (137)
T 3c5r_A            5 FTNHRGETLLHIASIKGDIPSVEYLLQNG-SDPNVKDHAGWTPLHEACNHGHLKVVELLLQHKALVNTTGYQNDSPLHDA   83 (137)
T ss_dssp             CCCTTCCCHHHHHHHHTCHHHHHHHHHTT-CCSCCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCGGGCCHHHHH
T ss_pred             CcCCCCCCHHHHHHHcCCHHHHHHHHHcC-CCCCcCCCCCCCHHHHHHHcCCHHHHHHHHHcCCcccCcCCCCCCHHHHH
Confidence            56889999999999999999999999998 99999999999999999999999999999999999999875  6799999


Q ss_pred             HHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         159 AAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       159 ~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                      +..|+.+++++|+++|++++..+.     .|.||||+|+..++.+++++|.+.+..
T Consensus        84 ~~~~~~~~v~~Ll~~ga~~~~~~~-----~g~tpl~~A~~~~~~~~l~~l~~~~~s  134 (137)
T 3c5r_A           84 AKNGHVDIVKLLLSYGASRNAVNI-----FGLRPVDYTDDESMKSLLLLPEKNESS  134 (137)
T ss_dssp             HHTTCHHHHHHHHHTTCCTTCCCT-----TSCCGGGGCCCHHHHHHHSCC------
T ss_pred             HHcCCHHHHHHHHHcCCCCCCCCC-----CCCCHHHHHhhccHHHHHhhccccccC
Confidence            999999999999999999987754     499999999999999999888776543

>3ui2_A Signal recognition particle 43 kDa protein, chlor; ankyrin repeat, chromodomain, aromatic CAGE, signal recognit particle, protein targeting; 3.18A {Arabidopsis thaliana} PDB: 1x3q_A 2hug_A

Probab=99.87  E-value=2e-22  Score=196.49  Aligned_cols=142  Identities=19%  Similarity=0.154  Sum_probs=124.9

Q ss_pred             CCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHH
Q psy1308          26 KRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTF  105 (607)
Q Consensus        26 ~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~L  105 (607)
                      .+..|.||||+||..|+.+++++|+. +...                       +..|..|.||||+||..|+.++|++|
T Consensus        41 ~~~~g~t~L~~A~~~g~~~~v~~Ll~-~~~~-----------------------~~~d~~g~t~L~~A~~~g~~~~v~~L   96 (244)
T 3ui2_A           41 VVSEYETPWWTAARKADEQALSQLLE-DRDV-----------------------DAVDENGRTALLFVAGLGSDKCVRLL   96 (244)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHTTT-TCCT-----------------------TCBCTTSCBHHHHHHHHTCHHHHHHH
T ss_pred             cccCCCCHHHHHHHcCCHHHHHHHHc-CCCC-----------------------CCcCCCCCCHHHHHHHCCCHHHHHHH
Confidence            34578999999999999999999987 4322                       36778999999999999999999999


Q ss_pred             HhcCCCCCccCC-CCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCC
Q psy1308         106 IENSKLDVNMRH-PLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLN  182 (607)
Q Consensus       106 l~~~~~~~~~~d-~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~  182 (607)
                      +++| +++|.++ ..|+||||+|+..|+.++|++|+++|++++.+|.  +||||+|+..++.                  
T Consensus        97 l~~g-a~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~ga~~~~~d~~g~t~l~~A~~~~~~------------------  157 (244)
T 3ui2_A           97 AEAG-ADLDHRDMRGGLTALHMAAGYVRPEVVEALVELGADIEVEDERGLTALELAREILKT------------------  157 (244)
T ss_dssp             HHTT-CCTTCCCSSSCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHHHTT------------------
T ss_pred             HHcC-CCCCcCCCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCcHHHHHHHHHhc------------------
Confidence            9998 9999998 8899999999999999999999999999998775  6799999864321                  


Q ss_pred             CCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         183 PNMTFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       183 ~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                          ..+.||||+|+..|+.+++++|++++.+
T Consensus       158 ----~~~~~~l~~a~~~g~~~iv~~L~~~~~~  185 (244)
T 3ui2_A          158 ----TPKGNPMQFGRRIGLEKVINVLEGQVFE  185 (244)
T ss_dssp             ----CCCSSHHHHHHHHHHHHHHHHHHHHHEE
T ss_pred             ----cCCCCHHHHHHHcChHHHHHHHHHhccc
Confidence                1289999999999999999999987544

>1dcq_A PYK2-associated protein beta; zinc-binding module, ankyrin repeats, metal binding protein; 2.10A {Mus musculus} SCOP: d.211.1.1 g.45.1.1

Probab=99.87  E-value=2.3e-21  Score=192.55  Aligned_cols=185  Identities=15%  Similarity=0.097  Sum_probs=134.0

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccc----cccccCChH--HHHHHccCcc--chhccCCCCCHHHHHHHH
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQS----NNTCMYNNL--LFASACSLAL--TLLECQSIKDLTLFRAAR   95 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~----~~~~~~~~l--~~a~~~~~~~--~~~~~~~~g~t~Lh~A~~   95 (607)
                      ..-+.++.++|+.+...||..+.+++.........    ...+.....  ..+.......  ..........++|+.|+.
T Consensus        60 ~~~d~~~~~~l~~~~~~GN~~~n~i~e~~l~~~~~~kP~~~s~~~~~~~fI~aKYl~~~f~~~~~~~~~~~l~~l~~a~~  139 (278)
T 1dcq_A           60 LTLDVLGTSELLLAKNIGNAGFNEIMECCLPSEDPVKPNPGSDMIARKDYITAKYMERRYARKKHADTAAKLHSLCEAVK  139 (278)
T ss_dssp             TTTSCCCGGGGHHHHHSCHHHHHHHHTTTCCSSSCCSCCTTCCHHHHHHHHHHHHTTCTTSCCCSSSHHHHHHHHHHHHH
T ss_pred             eecCCCCHHHHHHHHHcCcHHHHHHHHhhCChhhcCCCCCCCCHHHHHHHHHHHHHHhhcccccccccchhhhhhhhHhh
Confidence            34577899999999999999888887654322111    111110001  1111111111  011111223578999999


Q ss_pred             cCCHHHHHHHHhcCCCC------CccCCCCCCcHHHHHHHc---CCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCc
Q psy1308          96 YGSAKELKTFIENSKLD------VNMRHPLGWTPLHVAAIN---GKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKM  164 (607)
Q Consensus        96 ~g~~~~v~~Ll~~~~~~------~~~~d~~g~tpLh~A~~~---g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~  164 (607)
                      .|+.+.++.+++.| ++      ++..|..|+||||+|+..   |+.+++++|+++|+++|.+|.  +||||+|+..|+.
T Consensus       140 ~~d~~~~~~ll~~g-~~~~~~~~l~~~~~~g~t~Lh~A~~~~~~~~~~~v~~Ll~~ga~in~~d~~g~TpLh~A~~~g~~  218 (278)
T 1dcq_A          140 TRDIFGLLQAYADG-VDLTEKIPLANGHEPDETALHLAVRSVDRTSLHIVDFLVQNSGNLDKQTGKGSTALHYCCLTDNA  218 (278)
T ss_dssp             TTCHHHHHHHHHTT-CCTTSBCCCSSCSSTTCBHHHHHHHHCCTTTHHHHHHHHHHCSCTTCCCTTCCCHHHHHHHTTCH
T ss_pred             hcccHHHHHHHHhh-cchhhhccccccccCCCCcchHHHHhcccchHHHHHHHHHCCCCccccCCCCCCHHHHHHHcCCH
Confidence            99999999999998 77      445588899999999999   899999999999999998764  6688888888888


Q ss_pred             cHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         165 NPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       165 ~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                      +++++|+++|++++..+..     |+||||+|+..|+.+++++|+++|++
T Consensus       219 ~~v~~Ll~~gad~~~~d~~-----g~tpL~~A~~~~~~~~v~~Ll~~ga~  263 (278)
T 1dcq_A          219 ECLKLLLRGKASIEIANES-----GETPLDIAKRLKHEHCEELLTQALSG  263 (278)
T ss_dssp             HHHHHHHHTTCCTTCCCTT-----SCCHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCCCCCccCC-----CCCHHHHHHHcCCHHHHHHHHHcCCC
Confidence            8888888888888776443     88888888888888888888888774

>3deo_A Signal recognition particle 43 kDa protein; chloroplast SRP system, signal sequence, ankyrin repeat, chromodomain, type I turn; 1.50A {Arabidopsis thaliana} SCOP: b.34.13.2 k.37.1.1 PDB: 3dep_A 1x32_A

Probab=99.86  E-value=5.9e-22  Score=184.14  Aligned_cols=138  Identities=20%  Similarity=0.178  Sum_probs=122.9

Q ss_pred             CcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHH
Q psy1308          27 RGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFI  106 (607)
Q Consensus        27 ~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll  106 (607)
                      +..|.||||+||..|+.+++++|+. +..                       ++..|..|.||||+|+..|+.+++++|+
T Consensus        41 ~~~g~t~L~~A~~~g~~~~v~~Ll~-~~~-----------------------~~~~d~~g~t~L~~A~~~~~~~~v~~Ll   96 (183)
T 3deo_A           41 VSEYETPWWTAARKADEQALSQLLE-DRD-----------------------VDAVDENGRTALLFVAGLGSDKCVRLLA   96 (183)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHTT-TSC-----------------------TTCCCTTSCCHHHHHHHHTCHHHHHHHH
T ss_pred             CCCCCCHHHHHHHcCCHHHHHHHHh-cCC-----------------------CCCcCCCCCCHHHHHHHcCCHHHHHHHH
Confidence            5578999999999999999999987 432                       2456889999999999999999999999


Q ss_pred             hcCCCCCccCC-CCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCC
Q psy1308         107 ENSKLDVNMRH-PLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNP  183 (607)
Q Consensus       107 ~~~~~~~~~~d-~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~  183 (607)
                      +++ +++|.+| ..|+||||+|+..|+.+++++|+++|++++.+|.  +||||+|+..++.                   
T Consensus        97 ~~g-a~~~~~~~~~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~~~d~~g~tpl~~A~~~~~~-------------------  156 (183)
T 3deo_A           97 EAG-ADLDHRDMRGGLTALHMAAGYVRPEVVEALVELGADIEVEDERGLTALELAREILKT-------------------  156 (183)
T ss_dssp             HTT-CCTTCCCSSSSCCHHHHHHHTTCHHHHHHHHHHTCCTTCCCTTSCCHHHHHHHHHHT-------------------
T ss_pred             HcC-CCCCcCCCCCCCCHHHHHHhcCcHHHHHHHHHcCCCCcCCCCCCCCHHHHHHHhccC-------------------
Confidence            998 9999998 8899999999999999999999999999998775  6799999985432                   


Q ss_pred             CcCcCCcchhhHHHhcCCHHHHHHHHhc
Q psy1308         184 NMTFLGFSALHYGVVAGNTEVVELLLKS  211 (607)
Q Consensus       184 ~~d~~g~TpLh~A~~~g~~~~v~~Ll~~  211 (607)
                         ..+.|||++|+..|+.+++++|.++
T Consensus       157 ---~~~~~~l~~a~~~~~~~i~~~L~~~  181 (183)
T 3deo_A          157 ---TPKGNPMQFGRRIGLEKVINVLEGQ  181 (183)
T ss_dssp             ---CCCCSHHHHHHHHHHHHHHHHHHTC
T ss_pred             ---cccccHHHHHHHcCHHHHHHHHHHh
Confidence               1278999999999999999999865

>3ehr_A Osteoclast-stimulating factor 1; beta barrel, helix-turn-helix, SH3, ankyrin repeat, signaling protein, ANK repeat, cytoplasm, phosphoprotein; 1.95A {Homo sapiens} PDB: 3ehq_A

Probab=99.86  E-value=3.4e-22  Score=191.82  Aligned_cols=137  Identities=18%  Similarity=0.156  Sum_probs=108.8

Q ss_pred             CcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHH
Q psy1308          27 RGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFI  106 (607)
Q Consensus        27 ~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll  106 (607)
                      +..|.||||+||..|+.+++++|+..+...                       +..|..|.||||+||..|+.++|++|+
T Consensus        70 ~~~g~t~L~~A~~~g~~~~v~~Ll~~g~~~-----------------------~~~~~~g~t~L~~A~~~~~~~~v~~Ll  126 (222)
T 3ehr_A           70 AESIDNPLHEAAKRGNLSWLRECLDNRVGV-----------------------NGLDKAGSTALYWACHGGHKDIVEMLF  126 (222)
T ss_dssp             EEEESCHHHHHHHHTCHHHHHHHHHTTCCT-----------------------TCCCTTSCCHHHHHHHTTCHHHHHHHT
T ss_pred             ccccccccccccccCcHHHHHHHHhCCCCc-----------------------cccCCCCCCHHHHHHHcCCHHHHHHHH
Confidence            456899999999999999999998775432                       356788999999999999999999999


Q ss_pred             hcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcC
Q psy1308         107 ENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMT  186 (607)
Q Consensus       107 ~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d  186 (607)
                      +.+++++|.+|..|+||||+|+..|+.+++++|+++|++++.+|.                                   
T Consensus       127 ~~~g~~~~~~d~~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~~~~~-----------------------------------  171 (222)
T 3ehr_A          127 TQPNIELNQQNKLGDTALHAAAWKGYADIVQLLLAKGARTDLRNI-----------------------------------  171 (222)
T ss_dssp             TSTTCCCCCCCTTSCCHHHHHHHHTCHHHHHHHHHHTCCSCCCCT-----------------------------------
T ss_pred             cCCCCCccccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCccccC-----------------------------------
Confidence            994499999999999999999999999999999999999987653                                   


Q ss_pred             cCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCC
Q psy1308         187 FLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSG  222 (607)
Q Consensus       187 ~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g  222 (607)
                       .|+||||+|+..|+.++++.|++.|++.+..|..|
T Consensus       172 -~g~t~l~~A~~~~~~~~l~~l~~~~~~~~~~~~~~  206 (222)
T 3ehr_A          172 -EKKLAFDMATNAACASLLKKKQGTDAVRTLSNAED  206 (222)
T ss_dssp             -TSCCHHHHCCSHHHHHHHC----------------
T ss_pred             -CCCCHHHHhcchhHHHHHHHHhccchhhhccchhh
Confidence             28999999999999999999999999888877665

>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium, SGC, metal binding protein; 2.06A {Homo sapiens}

Probab=99.86  E-value=1.9e-21  Score=195.41  Aligned_cols=144  Identities=15%  Similarity=0.033  Sum_probs=119.9

Q ss_pred             CchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHc---CCHHHHHHHH
Q psy1308          30 QSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARY---GSAKELKTFI  106 (607)
Q Consensus        30 g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~---g~~~~v~~Ll  106 (607)
                      ..++||.|+..|+.+.+..|+..+........                 ....+..|.||||+|+..   |+.+++++|+
T Consensus       151 ~~~~L~~A~~~g~~~~v~~ll~~g~d~~~~~~-----------------~~~~~~~g~t~Lh~A~~~~~~~~~~iv~~Ll  213 (301)
T 2b0o_E          151 EPQRLWTAICNRDLLSVLEAFANGQDFGQPLP-----------------GPDAQAPEELVLHLAVKVANQASLPLVDFII  213 (301)
T ss_dssp             CHHHHHHHHHTTCHHHHHHHHHTTCCTTSCEE-----------------CSSSCSCEECHHHHHHHTCCTTTHHHHHHHH
T ss_pred             hHHHHhhhhhccCHHHHHHHHhcCCcccccCC-----------------CcccCCCCccHHHHHHHhcccCcHHHHHHHH
Confidence            45789999999999999999887655432100                 012578899999999997   8999999999


Q ss_pred             hcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCC
Q psy1308         107 ENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPN  184 (607)
Q Consensus       107 ~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~  184 (607)
                      ++| +++|.+|..|+||||+|+..|+.++|++|+++|++++.+|.  +||||+|+..++.+++++|+++|++        
T Consensus       214 ~~g-advn~~d~~G~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~G~TpL~~A~~~~~~~iv~~Ll~~ga~--------  284 (301)
T 2b0o_E          214 QNG-GHLDAKAADGNTALHYAALYNQPDCLKLLLKGRALVGTVNEAGETALDIARKKHHKECEELLEQAQAG--------  284 (301)
T ss_dssp             HHS-SCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCCSCCCTTSCCHHHHHHHHTCHHHHHHHHHHHHH--------
T ss_pred             hcC-CCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCCCCCCHHHHHHHcCCHHHHHHHHHhcCC--------
Confidence            998 99999999999999999999999999999999999999875  6799999999999999999999876        


Q ss_pred             cCcCCcchhhHHHhcCCH
Q psy1308         185 MTFLGFSALHYGVVAGNT  202 (607)
Q Consensus       185 ~d~~g~TpLh~A~~~g~~  202 (607)
                         .|.||||+|+.+|+.
T Consensus       285 ---~g~tpLh~A~~~g~~  299 (301)
T 2b0o_E          285 ---TFAFPLHVDYSWVIS  299 (301)
T ss_dssp             ---TTSSCCC--------
T ss_pred             ---CCCChhHHHHhcCCc
Confidence               189999999998874

>3aaa_C Myotrophin, protein V-1; actin capping protein, barbed END capping, inhibition, prote binding, actin capping, actin-binding, cytoskeleton, ANK RE; 2.20A {Homo sapiens} PDB: 1myo_A 2kxp_C 2myo_A

Probab=99.85  E-value=1.9e-21  Score=168.11  Aligned_cols=101  Identities=19%  Similarity=0.167  Sum_probs=90.2

Q ss_pred             CcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHH
Q psy1308          27 RGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFI  106 (607)
Q Consensus        27 ~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll  106 (607)
                      ++.|.||||+|+..|+.+++++|+..+...                       +..+..|+||||+||..|+.+++++|+
T Consensus         4 ~~~~~~~l~~A~~~~~~~~v~~ll~~~~~~-----------------------~~~~~~g~t~L~~A~~~~~~~~v~~Ll   60 (123)
T 3aaa_C            4 GSMCDKEFMWALKNGDLDEVKDYVAKGEDV-----------------------NRTLEGGRKPLHYAADCGQLEILEFLL   60 (123)
T ss_dssp             ---CHHHHHHHHHTTCHHHHHHHHHTTCCT-----------------------TSCCTTSSCHHHHHHHTTCHHHHHHHH
T ss_pred             ccccchHHHHHHHcCCHHHHHHHHHcCCCc-----------------------CccCCCCCcHHHHHHHcCCHHHHHHHH
Confidence            467899999999999999999998876432                       356788999999999999999999999


Q ss_pred             hcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC
Q psy1308         107 ENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL  151 (607)
Q Consensus       107 ~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~  151 (607)
                      +.+ +++|.+|..|+||||+|+..|+.+++++|+++|++++.+|.
T Consensus        61 ~~g-~~~~~~d~~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~~~~~  104 (123)
T 3aaa_C           61 LKG-ADINAPDKHHITPLLSAVYEGHVSCVKLLLSKGADKTVKGP  104 (123)
T ss_dssp             TTT-CCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCT
T ss_pred             HcC-CCCCcCCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCC
Confidence            998 99999999999999999999999999999999999987654

>1n0q_A 3ANK, 3 ankyrin repeats; structural protein; 1.26A {} SCOP: k.37.1.1

Probab=99.84  E-value=8.8e-21  Score=155.08  Aligned_cols=93  Identities=43%  Similarity=0.566  Sum_probs=74.8

Q ss_pred             CCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCc
Q psy1308          85 IKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKM  164 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~  164 (607)
                      +|+||||+|+..|+.+++++|++.+ +++|.+|..|+||||+|+..|+.+++++|+++|++++.+|.             
T Consensus         1 ~g~t~L~~A~~~~~~~~v~~Ll~~g-~~~n~~d~~g~t~L~~A~~~~~~~~v~~Ll~~ga~~~~~d~-------------   66 (93)
T 1n0q_A            1 NGRTPLHLAARNGHLEVVKLLLEAG-ADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGADVNAKDK-------------   66 (93)
T ss_dssp             --CCHHHHHHHHTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCT-------------
T ss_pred             CCCcHHHHHHHcCCHHHHHHHHHcC-CCCcccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCccCC-------------
Confidence            4788888888888888888888887 88888888888888888888888888888888888776543             


Q ss_pred             cHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         165 NPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       165 ~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                                             .|+||||+|+..|+.+++++|+++||+
T Consensus        67 -----------------------~g~t~l~~A~~~~~~~~~~~Ll~~ga~   93 (93)
T 1n0q_A           67 -----------------------NGRTPLHLAARNGHLEVVKLLLEAGAY   93 (93)
T ss_dssp             -----------------------TSCCHHHHHHHTTCHHHHHHHHHTTCC
T ss_pred             -----------------------CCCCHHHHHHHcCCHHHHHHHHHcCCC
Confidence                                   277888888888888888888887775

>3jue_A Arfgap with coiled-coil, ANK repeat and PH domain containing protein 1; arfgap domain, zinc-binding module, GTPase activ metal-binding, nitration; 2.30A {Homo sapiens} PDB: 3t9k_A 4f1p_A

Probab=99.84  E-value=6.2e-21  Score=196.07  Aligned_cols=141  Identities=23%  Similarity=0.220  Sum_probs=97.6

Q ss_pred             CCCHHHHHHHHc-CCHHHHHHHHhcCCCCCccCC--CCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHH
Q psy1308          85 IKDLTLFRAARY-GSAKELKTFIENSKLDVNMRH--PLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTA  159 (607)
Q Consensus        85 ~g~t~Lh~A~~~-g~~~~v~~Ll~~~~~~~~~~d--~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~  159 (607)
                      .+.|+||.|+.. |+.+++++|+++| +++|..+  ..|+||||+|+..|+.++|++|+++|+++|..|.  +||||+|+
T Consensus       198 ~~~t~L~~Aa~~~g~~~~v~~LL~~G-advn~~~~~~~g~TpLh~Aa~~g~~~iv~~LL~~Gadvn~~d~~G~TpLh~A~  276 (368)
T 3jue_A          198 HPGALLFRASGHPPSLPTMADALAHG-ADVNWVNGGQDNATPLIQATAANSLLACEFLLQNGANVNQADSAGRGPLHHAT  276 (368)
T ss_dssp             CHHHHHHHHTSSSCCHHHHHHHHHTT-CCTTCCCTTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHH
T ss_pred             CCCcHHHHHHHccCCHHHHHHHHHcC-CCCCccccccCCCCHHHHHHHCCCHHHHHHHHHcCCCCCCCCCCCCCHHHHHH
Confidence            346788888888 8888888888887 8888887  7788888888888888888888888888887664  56888888


Q ss_pred             HcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcC---CCCCccCCCCCCCCcchhh
Q psy1308         160 AEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG---ADPTVKDNSGHIPSDYAED  231 (607)
Q Consensus       160 ~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~g---ad~~~~d~~g~Tpl~~A~~  231 (607)
                      ..|+.+++++|+++|++++..+..     |+||||+|+..|+.+++++|+..|   ++....+..+.|+++++..
T Consensus       277 ~~g~~~~v~~LL~~Gad~~~~d~~-----G~TpL~~A~~~g~~~iv~lLl~~~~~~~~~~~~~~~~~t~l~i~~~  346 (368)
T 3jue_A          277 ILGHTGLACLFLKRGADLGARDSE-----GRDPLTIAMETANADIVTLLRLAKMREAEAAQGQAGDETYLDIFRD  346 (368)
T ss_dssp             HHTCHHHHHHHHHTTCCTTCCCTT-----SCCHHHHHHHTTCHHHHHHHHHHHC---------------------
T ss_pred             HcCcHHHHHHHHHCcCCCCCcCCC-----CCCHHHHHHHCCCHHHHHHHHHcCCCcccccccCCCCCCHHHHHHH
Confidence            888888888888888877766443     788888888888888888887655   4444555667777776554

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=99.83  E-value=1e-19  Score=188.48  Aligned_cols=164  Identities=19%  Similarity=0.295  Sum_probs=120.0

Q ss_pred             HhhC-CCeEEEEecCCccCHH------------HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhh
Q psy1308         366 LKKC-PNAVVLFDEVDKAHPD------------VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQL  432 (607)
Q Consensus       366 ~~~~-~~~vl~lDEiek~~~~------------~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~  432 (607)
                      ++++ +++++++|||||+...            +|+.||+++|...... +-..++.++++||+|+.....         
T Consensus       245 i~~ae~~~il~~DEidki~~~~~~~~~D~s~egvq~aLL~~le~~~~~~-~~~~~d~~~ilfI~~gaf~~~---------  314 (444)
T 1g41_A          245 IDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVST-KHGMVKTDHILFIASGAFQVA---------  314 (444)
T ss_dssp             HHHHHHHCEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEE-TTEEEECTTCEEEEEECCSSC---------
T ss_pred             HHHhccCCeeeHHHHHHHhhccCCCCCCchHHHHHHHHHHHhccccccc-ccceecCCcEEEEeccccccC---------
Confidence            3444 6789999999998643            8999999999765554 335789999999999752200         


Q ss_pred             hhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHH---HHHHHH
Q psy1308         433 RKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVC---RELNFW  509 (607)
Q Consensus       433 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~---~~l~~~  509 (607)
                                        .+                    ..+. |+|.+||+.++.|.||+.+++.+|+.   ..+..-
T Consensus       315 ------------------~~--------------------~dli-pel~~R~~i~i~l~~lt~~e~~~Il~~~~~~l~~q  355 (444)
T 1g41_A          315 ------------------RP--------------------SDLI-PELQGRLPIRVELTALSAADFERILTEPHASLTEQ  355 (444)
T ss_dssp             ------------------CG--------------------GGSC-HHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHH
T ss_pred             ------------------Ch--------------------hhcc-hHHhcccceeeeCCCCCHHHHHHHHHHHHHhHHHH
Confidence                              00                    0133 99999999999999999999999994   333332


Q ss_pred             HHHHhhcCCcEEEeCHhHHHHHHc-c-----CCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEEEEEecCCccc
Q psy1308         510 AKKALDKHNINIVWDIDVETILAD-G-----YDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVS  582 (607)
Q Consensus       510 ~~~~~~~~~i~l~~~~~a~~~L~~-~-----~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~~~~~~~~~  582 (607)
                      ...+....++.+.++++|++.|++ +     |....|||.|++.|++.+.+...+.- ..   .+..++|+.+.-..++
T Consensus       356 ~~~~~~~~~~~l~~~~~al~~i~~~a~~~~~~t~~~GaR~L~~~ie~~~~~~~~~~~-~~---~~~~~~i~~~~v~~~l  430 (444)
T 1g41_A          356 YKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSAS-DM---NGQTVNIDAAYVADAL  430 (444)
T ss_dssp             HHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHHHHHHHHHHGG-GC---TTCEEEECHHHHHHHH
T ss_pred             HHHHhcccCceEEECHHHHHHHHHHHHHhccCCccCCchHHHHHHHHHHHHHHhhcc-cc---CCCeEEEeHHHHHHhc
Confidence            333344569999999999999985 3     45889999999999998888765542 21   3467777665544433

>2l6b_A NR1C; ankyrin, consensus, repeat protein, ising model, DE NOV; NMR {Escherichia coli}

Probab=99.83  E-value=5.3e-21  Score=163.05  Aligned_cols=108  Identities=33%  Similarity=0.417  Sum_probs=79.6

Q ss_pred             cCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHc
Q psy1308          82 CQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAE  161 (607)
Q Consensus        82 ~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~  161 (607)
                      .|.+|.||||+||..|+.+++++|++++ ++++.+|..|+||||+|+..|+.+++++|+++|++++.+|           
T Consensus         5 ~d~~g~t~L~~A~~~~~~~~~~~Ll~~g-~~~~~~d~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~d-----------   72 (115)
T 2l6b_A            5 GSKDGNTPLHNAAKNGHAEEVKKLLSKG-ADVNARSKDGNTPLHLAAKNGHAEIVKLLLAKGADVNARS-----------   72 (115)
T ss_dssp             CSCSSCCHHHHHHHHTCHHHHHHHTTTT-CCSSCCCSSSCCTTHHHHTTTCHHHHHHHTTTTCCTTCCC-----------
T ss_pred             cCCCCCCHHHHHHHcCCHHHHHHHHHcC-CCCCCcCCCCCCHHHHHHHcCcHHHHHHHHHcCCCCcccC-----------
Confidence            4566667777777777777777777666 6666666667777777776666666666666666665443           


Q ss_pred             CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCC
Q psy1308         162 KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPS  226 (607)
Q Consensus       162 ~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl  226 (607)
                                               ..|+||||+|+..|+.+++++|+++|+|++.++..|.||-
T Consensus        73 -------------------------~~g~tpl~~A~~~~~~~~~~~Ll~~ga~~n~~~~~~~~~~  112 (115)
T 2l6b_A           73 -------------------------KDGNTPEHLAKKNGHHEIVKLLDAKGADVNARSWGSSHHH  112 (115)
T ss_dssp             -------------------------TTCCCTTHHHHTTTCHHHHHHHHTTSSSHHHHSCCCC---
T ss_pred             -------------------------CCCCCHHHHHHHCCCHHHHHHHHHcCCCCCcCCccccccc
Confidence                                     2389999999999999999999999999999999998874

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=99.83  E-value=4.6e-20  Score=186.40  Aligned_cols=252  Identities=20%  Similarity=0.359  Sum_probs=181.4

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHHHhhC--CCC----CCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIKRKEN--GWT----DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~--~~~----~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      .+...+...++||+.+++.+...+.....  +..    ....|.+++|+||+|+|||.+++.+++.+.    .+++.+++
T Consensus         8 ~l~~~l~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~----~~~~~i~~   83 (310)
T 1ofh_A            8 EIVSELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN----APFIKVEA   83 (310)
T ss_dssp             HHHHHHHTTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT----CCEEEEEG
T ss_pred             HHHHHHhhhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC----CCEEEEcc
Confidence            45667778899999999999888876311  111    012345799999999999999999999884    35899999


Q ss_pred             ccccccchhHhhhcCCCCCccCCCCchhhHHHhhC--------CCeEEEEecCCccCHHH------------HHHHHHhh
Q psy1308         335 SEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKC--------PNAVVLFDEVDKAHPDV------------LTVLLQLF  394 (607)
Q Consensus       335 a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~--------~~~vl~lDEiek~~~~~------------~~~Ll~~~  394 (607)
                      +.+...           +|+|.+....+...+...        +++||||||+++++++.            ++.|++++
T Consensus        84 ~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~l  152 (310)
T 1ofh_A           84 TKFTEV-----------GYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLV  152 (310)
T ss_dssp             GGGSSC-----------CSGGGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHH
T ss_pred             hhcccC-----------CccCccHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHh
Confidence            876532           455544444444433322        36899999999998765            99999999


Q ss_pred             ccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhc
Q psy1308         395 DEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRH  474 (607)
Q Consensus       395 ~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  474 (607)
                      +++.+....| .....+++||++++.....                                               ...
T Consensus       153 e~~~~~~~~~-~~~~~~~~~i~~~~~~~~~-----------------------------------------------~~~  184 (310)
T 1ofh_A          153 EGSTVSTKHG-MVKTDHILFIASGAFQVAR-----------------------------------------------PSD  184 (310)
T ss_dssp             HCCEEEETTE-EEECTTCEEEEEECCSSSC-----------------------------------------------GGG
T ss_pred             cCCeEecccc-cccCCcEEEEEcCCcccCC-----------------------------------------------ccc
Confidence            9887766555 4567889999997632100                                               012


Q ss_pred             cCChhhhccccceeeeccCCHHHHHHHHH----HHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCC-------CCCccc
Q psy1308         475 FRRDEFLGRINEIVYFLPFSKSELHTLVC----RELNFWAKKALDKHNINIVWDIDVETILADGYDV-------HYGARS  543 (607)
Q Consensus       475 f~~~el~~ri~~iv~f~pl~~~~~~~i~~----~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~-------~~GaR~  543 (607)
                      +. |+|++|++.++.|.|++.+++.+|+.    .++..+.+.+.. .+..+.++++++++|++ +.|       .+|+|.
T Consensus       185 l~-~~l~~R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~-~~~~~~~~~~a~~~l~~-~~~~~~~~~~~g~~R~  261 (310)
T 1ofh_A          185 LI-PELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMAT-EGVNIAFTTDAVKKIAE-AAFRVNEKTENIGARR  261 (310)
T ss_dssp             SC-HHHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHH-TTCEEEECHHHHHHHHH-HHHHHHHHSCCCTTHH
T ss_pred             CC-HHHHhhCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHh-cCCeeccCHHHHHHHHH-HhhhhcccccccCcHH
Confidence            44 99999999889999999999999998    455555444433 47789999999999986 444       699999


Q ss_pred             hhHHHHHHHHHHHHHHHHhccCCCCCEEEEEEecCCccc
Q psy1308         544 IKHEVERQVVSQLAAAHEKSVIGKGSFVRLYVQWSKEVS  582 (607)
Q Consensus       544 L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~~~~~~~~~  582 (607)
                      +++.+++.+.....+.    ....+..+.|+.++-...+
T Consensus       262 l~~~l~~~~~~~~~~~----~~~~~~~~~i~~~~v~~~l  296 (310)
T 1ofh_A          262 LHTVMERLMDKISFSA----SDMNGQTVNIDAAYVADAL  296 (310)
T ss_dssp             HHHHHHHHSHHHHHHG----GGCTTCEEEECHHHHHHHT
T ss_pred             HHHHHHHHHHhhhcCC----ccccCCEEEEeeHHHHHHH
Confidence            9999998777654322    2245677777766544433

>1dcq_A PYK2-associated protein beta; zinc-binding module, ankyrin repeats, metal binding protein; 2.10A {Mus musculus} SCOP: d.211.1.1 g.45.1.1

Probab=99.83  E-value=3.5e-20  Score=183.93  Aligned_cols=163  Identities=16%  Similarity=0.162  Sum_probs=135.8

Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCC----CCccC--------------------------CCCCCcHHHHHHHc
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSKL----DVNMR--------------------------HPLGWTPLHVAAIN  130 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~----~~~~~--------------------------d~~g~tpLh~A~~~  130 (607)
                      ..|..+.++++.+...|+..+.+++-..-+.    .++..                          +....++|+.|+..
T Consensus        61 ~~d~~~~~~l~~~~~~GN~~~n~i~e~~l~~~~~~kP~~~s~~~~~~~fI~aKYl~~~f~~~~~~~~~~~l~~l~~a~~~  140 (278)
T 1dcq_A           61 TLDVLGTSELLLAKNIGNAGFNEIMECCLPSEDPVKPNPGSDMIARKDYITAKYMERRYARKKHADTAAKLHSLCEAVKT  140 (278)
T ss_dssp             TTSCCCGGGGHHHHHSCHHHHHHHHTTTCCSSSCCSCCTTCCHHHHHHHHHHHHTTCTTSCCCSSSHHHHHHHHHHHHHT
T ss_pred             ecCCCCHHHHHHHHHcCcHHHHHHHHhhCChhhcCCCCCCCCHHHHHHHHHHHHHHhhcccccccccchhhhhhhhHhhh
Confidence            4677788899999999987766655432110    01110                          00124689999999


Q ss_pred             CCHHHHHHHHHcCCCCCC--------CCCCchHHHHHHc---CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhc
Q psy1308         131 GKVDNVRVLLEAGANPNL--------GDLFNTVHRTAAE---KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA  199 (607)
Q Consensus       131 g~~~~v~~Ll~~ga~~~~--------~d~~~~l~~A~~~---~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~  199 (607)
                      |+.+.++.+++.|++++.        .+++||||+|+..   ++.+++++|+++|++++..+.     .|+||||+|+..
T Consensus       141 ~d~~~~~~ll~~g~~~~~~~~l~~~~~~g~t~Lh~A~~~~~~~~~~~v~~Ll~~ga~in~~d~-----~g~TpLh~A~~~  215 (278)
T 1dcq_A          141 RDIFGLLQAYADGVDLTEKIPLANGHEPDETALHLAVRSVDRTSLHIVDFLVQNSGNLDKQTG-----KGSTALHYCCLT  215 (278)
T ss_dssp             TCHHHHHHHHHTTCCTTSBCCCSSCSSTTCBHHHHHHHHCCTTTHHHHHHHHHHCSCTTCCCT-----TCCCHHHHHHHT
T ss_pred             cccHHHHHHHHhhcchhhhccccccccCCCCcchHHHHhcccchHHHHHHHHHCCCCccccCC-----CCCCHHHHHHHc
Confidence            999999999999999763        2457899999999   899999999999999987754     499999999999


Q ss_pred             CCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhH
Q psy1308         200 GNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADL  248 (607)
Q Consensus       200 g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~  248 (607)
                      |+.++|++|+++|+|++.+|..|+||||+|+..|+.+++++|++.+++.
T Consensus       216 g~~~~v~~Ll~~gad~~~~d~~g~tpL~~A~~~~~~~~v~~Ll~~ga~~  264 (278)
T 1dcq_A          216 DNAECLKLLLRGKASIEIANESGETPLDIAKRLKHEHCEELLTQALSGR  264 (278)
T ss_dssp             TCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHcCCCCCCccCCCCCHHHHHHHcCCHHHHHHHHHcCCCC
Confidence            9999999999999999999999999999999999999999999998864

>3jue_A Arfgap with coiled-coil, ANK repeat and PH domain containing protein 1; arfgap domain, zinc-binding module, GTPase activ metal-binding, nitration; 2.30A {Homo sapiens} PDB: 3t9k_A 4f1p_A

Probab=99.82  E-value=1.8e-20  Score=192.59  Aligned_cols=130  Identities=21%  Similarity=0.202  Sum_probs=116.4

Q ss_pred             ccCCCCCCcHHHHHHHc-CCHHHHHHHHHcCCCCCCCC----CCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcC
Q psy1308         114 NMRHPLGWTPLHVAAIN-GKVDNVRVLLEAGANPNLGD----LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFL  188 (607)
Q Consensus       114 ~~~d~~g~tpLh~A~~~-g~~~~v~~Ll~~ga~~~~~d----~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~  188 (607)
                      +..+..+.||||+|+.. |+.+++++|+++|++++..+    ++||||+|+..|+.+++++|+++|++++..+.     .
T Consensus       193 ~l~~~~~~t~L~~Aa~~~g~~~~v~~LL~~Gadvn~~~~~~~g~TpLh~Aa~~g~~~iv~~LL~~Gadvn~~d~-----~  267 (368)
T 3jue_A          193 DLGSLHPGALLFRASGHPPSLPTMADALAHGADVNWVNGGQDNATPLIQATAANSLLACEFLLQNGANVNQADS-----A  267 (368)
T ss_dssp             ----CCHHHHHHHHTSSSCCHHHHHHHHHTTCCTTCCCTTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCT-----T
T ss_pred             ccccCCCCcHHHHHHHccCCHHHHHHHHHcCCCCCccccccCCCCHHHHHHHCCCHHHHHHHHHcCCCCCCCCC-----C
Confidence            33445577999999999 99999999999999999876    46899999999999999999999999997754     4


Q ss_pred             CcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhH
Q psy1308         189 GFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADL  248 (607)
Q Consensus       189 g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~  248 (607)
                      |+||||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|+..+...
T Consensus       268 G~TpLh~A~~~g~~~~v~~LL~~Gad~~~~d~~G~TpL~~A~~~g~~~iv~lLl~~~~~~  327 (368)
T 3jue_A          268 GRGPLHHATILGHTGLACLFLKRGADLGARDSEGRDPLTIAMETANADIVTLLRLAKMRE  327 (368)
T ss_dssp             SCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHHC--
T ss_pred             CCCHHHHHHHcCcHHHHHHHHHCcCCCCCcCCCCCCHHHHHHHCCCHHHHHHHHHcCCCc
Confidence            999999999999999999999999999999999999999999999999999999877543

>1n0q_A 3ANK, 3 ankyrin repeats; structural protein; 1.26A {} SCOP: k.37.1.1

Probab=99.82  E-value=2.7e-20  Score=152.18  Aligned_cols=93  Identities=41%  Similarity=0.548  Sum_probs=79.8

Q ss_pred             CCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHh
Q psy1308         119 LGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVV  198 (607)
Q Consensus       119 ~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~  198 (607)
                      +|+||||+|+..|+.+++++|+++|++++.+|                                    ..|+||||+|+.
T Consensus         1 ~g~t~L~~A~~~~~~~~v~~Ll~~g~~~n~~d------------------------------------~~g~t~L~~A~~   44 (93)
T 1n0q_A            1 NGRTPLHLAARNGHLEVVKLLLEAGADVNAKD------------------------------------KNGRTPLHLAAR   44 (93)
T ss_dssp             --CCHHHHHHHHTCHHHHHHHHHTTCCTTCCC------------------------------------TTSCCHHHHHHH
T ss_pred             CCCcHHHHHHHcCCHHHHHHHHHcCCCCcccC------------------------------------CCCCCHHHHHHH
Confidence            36777777777777777777777777766543                                    239999999999


Q ss_pred             cCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhh
Q psy1308         199 AGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYAD  247 (607)
Q Consensus       199 ~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~  247 (607)
                      .|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|++.|++
T Consensus        45 ~~~~~~v~~Ll~~ga~~~~~d~~g~t~l~~A~~~~~~~~~~~Ll~~ga~   93 (93)
T 1n0q_A           45 NGHLEVVKLLLEAGADVNAKDKNGRTPLHLAARNGHLEVVKLLLEAGAY   93 (93)
T ss_dssp             TTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCC
T ss_pred             cCCHHHHHHHHHcCCCCCccCCCCCCHHHHHHHcCCHHHHHHHHHcCCC
Confidence            9999999999999999999999999999999999999999999998863

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=99.80  E-value=1.7e-19  Score=194.98  Aligned_cols=252  Identities=20%  Similarity=0.280  Sum_probs=163.8

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK  340 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~  340 (607)
                      ...+.+...++|++...+.+...+.........  .+..++|+||+|+|||.+++.++..+..    ++..++++.... 
T Consensus        74 ~~~~~l~~di~G~~~vk~~i~~~~~l~~~~~~~--~g~~vll~Gp~GtGKTtlar~ia~~l~~----~~~~i~~~~~~~-  146 (543)
T 3m6a_A           74 EAGRLLDEEHHGLEKVKERILEYLAVQKLTKSL--KGPILCLAGPPGVGKTSLAKSIAKSLGR----KFVRISLGGVRD-  146 (543)
T ss_dssp             TGGGTHHHHCSSCHHHHHHHHHHHHHHHHSSSC--CSCEEEEESSSSSSHHHHHHHHHHHHTC----EEEEECCCC----
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHhcccC--CCCEEEEECCCCCCHHHHHHHHHHhcCC----CeEEEEecccch-
Confidence            334456677899999888886665444322222  2348999999999999999999999843    488898877654 


Q ss_pred             chhHhhhcCCCCCccCCCCchhhHHHhhC--CCeEEEEecCCccCHH----HHHHHHHhhccce---eecC-CCcEEecC
Q psy1308         341 HEVAKLIGAPPGYLGHDDGGQLTKRLKKC--PNAVVLFDEVDKAHPD----VLTVLLQLFDEGR---LTDG-KGKTIECK  410 (607)
Q Consensus       341 ~~~~~llg~~~g~~g~~~~~~l~~~~~~~--~~~vl~lDEiek~~~~----~~~~Ll~~~~~~~---~~~~-~g~~~~~~  410 (607)
                        ...++|....|+|...+ .+...+..+  ..+|+|||||++++++    .++.|+++++.+.   +.+. .+..+++.
T Consensus       147 --~~~~~g~~~~~ig~~~~-~~~~~~~~a~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~  223 (543)
T 3m6a_A          147 --ESEIRGHRRTYVGAMPG-RIIQGMKKAGKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLS  223 (543)
T ss_dssp             --------------------CHHHHHHTTCSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCS
T ss_pred             --hhhhhhHHHHHhccCch-HHHHHHHHhhccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeeccc
Confidence              45566666667775443 333444444  5679999999999998    5699999998654   3332 35567789


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      +++||+|||..                                                   ..+. |.|++|++ ++.|
T Consensus       224 ~v~iI~ttN~~---------------------------------------------------~~l~-~aL~~R~~-vi~~  250 (543)
T 3m6a_A          224 KVLFIATANNL---------------------------------------------------ATIP-GPLRDRME-IINI  250 (543)
T ss_dssp             SCEEEEECSST---------------------------------------------------TTSC-HHHHHHEE-EEEC
T ss_pred             ceEEEeccCcc---------------------------------------------------ccCC-HHHHhhcc-eeee
Confidence            99999999931                                                   1243 89999994 7899


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCc---EEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHHHhccCCC
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNI---NIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGK  567 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i---~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~  567 (607)
                      .+++.++...|+...+.....+   .+++   .+.++++++..|+..|+|++|+|+|++.|++.+.....+. +.+   .
T Consensus       251 ~~~~~~e~~~Il~~~l~~~~~~---~~~~~~~~i~i~~~~l~~l~~~~~~~~~vR~L~~~i~~~~~~aa~~~-~~~---~  323 (543)
T 3m6a_A          251 AGYTEIEKLEIVKDHLLPKQIK---EHGLKKSNLQLRDQAILDIIRYYTREAGVRSLERQLAAICRKAAKAI-VAE---E  323 (543)
T ss_dssp             CCCCHHHHHHHHHHTHHHHHHH---HTTCCGGGCEECHHHHHHHHHHHCCCSSSHHHHHHHHHHHHHHHHHH-HTT---C
T ss_pred             CCCCHHHHHHHHHHHHHHHHHH---HcCCCcccccCCHHHHHHHHHhCChhhchhHHHHHHHHHHHHHHHHH-Hhc---C
Confidence            9999999999998877432222   2343   6789999999988779999999999999999776654333 332   2


Q ss_pred             CCEEEEEEecCCccc
Q psy1308         568 GSFVRLYVQWSKEVS  582 (607)
Q Consensus       568 ~~~v~i~~~~~~~~~  582 (607)
                      ...+.|+.++-..++
T Consensus       324 ~~~~~It~~~l~~~L  338 (543)
T 3m6a_A          324 RKRITVTEKNLQDFI  338 (543)
T ss_dssp             CSCCEECTTTTHHHH
T ss_pred             CcceecCHHHHHHHh
Confidence            234455554443333

>2l6b_A NR1C; ankyrin, consensus, repeat protein, ising model, DE NOV; NMR {Escherichia coli}

Probab=99.76  E-value=1.1e-18  Score=148.47  Aligned_cols=100  Identities=34%  Similarity=0.482  Sum_probs=90.0

Q ss_pred             cCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhh
Q psy1308         115 MRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALH  194 (607)
Q Consensus       115 ~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh  194 (607)
                      .+|..|+||||+||..|+.+++++|+++|++++..|.                                    .|+||||
T Consensus         4 ~~d~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~d~------------------------------------~g~t~L~   47 (115)
T 2l6b_A            4 WGSKDGNTPLHNAAKNGHAEEVKKLLSKGADVNARSK------------------------------------DGNTPLH   47 (115)
T ss_dssp             CCSCSSCCHHHHHHHHTCHHHHHHHTTTTCCSSCCCS------------------------------------SSCCTTH
T ss_pred             ccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCCCCcCC------------------------------------CCCCHHH
Confidence            4677888888888888888888888888887776532                                    3999999


Q ss_pred             HHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHh
Q psy1308         195 YGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQR  250 (607)
Q Consensus       195 ~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~  250 (607)
                      +|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|++.|++...
T Consensus        48 ~A~~~~~~~~~~~Ll~~g~~~~~~d~~g~tpl~~A~~~~~~~~~~~Ll~~ga~~n~  103 (115)
T 2l6b_A           48 LAAKNGHAEIVKLLLAKGADVNARSKDGNTPEHLAKKNGHHEIVKLLDAKGADVNA  103 (115)
T ss_dssp             HHHTTTCHHHHHHHTTTTCCTTCCCTTCCCTTHHHHTTTCHHHHHHHHTTSSSHHH
T ss_pred             HHHHcCcHHHHHHHHHcCCCCcccCCCCCCHHHHHHHCCCHHHHHHHHHcCCCCCc
Confidence            99999999999999999999999999999999999999999999999999998764

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.73  E-value=7.8e-17  Score=162.60  Aligned_cols=219  Identities=21%  Similarity=0.313  Sum_probs=159.9

Q ss_pred             HHHHHHhHhhhhHHHHHHHHHHHHHh-------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEE
Q psy1308         262 LEQRLKDRIVGQESAINIISAAIKRK-------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIR  331 (607)
Q Consensus       262 L~~~l~~~i~Gq~~ai~~l~~~i~~~-------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~  331 (607)
                      +...+...++|++.+++.+...+...       ..+...+..+.+++|+||+|+|||.+++.+++.+....   ..+++.
T Consensus        25 ~~~~l~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~  104 (309)
T 3syl_A           25 VLEELDRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVS  104 (309)
T ss_dssp             HHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEE
T ss_pred             HHHHHHHHccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEE
Confidence            44556667999999999887666432       23334344445899999999999999999999875431   336888


Q ss_pred             eecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc---------CHHHHHHHHHhhccceeecC
Q psy1308         332 LDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA---------HPDVLTVLLQLFDEGRLTDG  402 (607)
Q Consensus       332 l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~---------~~~~~~~Ll~~~~~~~~~~~  402 (607)
                      ++++.+..     .+       .|. ....+...+..+.+++|||||++.+         ++.+++.|+++++++.    
T Consensus       105 ~~~~~l~~-----~~-------~g~-~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~----  167 (309)
T 3syl_A          105 VTRDDLVG-----QY-------IGH-TAPKTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNR----  167 (309)
T ss_dssp             ECGGGTCC-----SS-------TTC-HHHHHHHHHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCT----
T ss_pred             EcHHHhhh-----hc-------ccc-cHHHHHHHHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCC----
Confidence            87665421     12       221 1223456677778899999999977         8999999999998642    


Q ss_pred             CCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc
Q psy1308         403 KGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG  482 (607)
Q Consensus       403 ~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~  482 (607)
                             .+++||+++|......  .                                            ... +|.|.+
T Consensus       168 -------~~~~~i~~~~~~~~~~--~--------------------------------------------~~~-~~~l~~  193 (309)
T 3syl_A          168 -------DDLVVILAGYADRMEN--F--------------------------------------------FQS-NPGFRS  193 (309)
T ss_dssp             -------TTCEEEEEECHHHHHH--H--------------------------------------------HHH-STTHHH
T ss_pred             -------CCEEEEEeCChHHHHH--H--------------------------------------------Hhh-CHHHHH
Confidence                   5678999998431110  0                                            001 288999


Q ss_pred             cccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc------cCCCCCCccchhHHHHHHHHHHH
Q psy1308         483 RINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD------GYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       483 ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~------~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                      |++.++.|.|++.+++..|+...+..        .+  +.+++++++.|..      .+.|++++|.+++.+++.+....
T Consensus       194 R~~~~i~~~~~~~~~~~~il~~~l~~--------~~--~~~~~~~~~~l~~~~~~~~~~~~~gn~r~l~~~l~~a~~~~~  263 (309)
T 3syl_A          194 RIAHHIEFPDYSDEELFEIAGHMLDD--------QN--YQMTPEAETALRAYIGLRRNQPHFANARSIRNALDRARLRQA  263 (309)
T ss_dssp             HEEEEEEECCCCHHHHHHHHHHHHHH--------TT--CEECHHHHHHHHHHHHHHTTSSSCCHHHHHHHHHHHHHHHHH
T ss_pred             hCCeEEEcCCcCHHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHHHHHHH
Confidence            99999999999999999998888764        12  4689999988875      13899999999999999988777


Q ss_pred             HHHHH
Q psy1308         557 AAAHE  561 (607)
Q Consensus       557 ~~~~l  561 (607)
                      .+.+.
T Consensus       264 ~r~~~  268 (309)
T 3syl_A          264 NRLFT  268 (309)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            66654

>2zgd_A 3 repeat synthetic ankyrin; ankyrin repeat, hydroxylated, de novo protein; 1.90A {Synthetic} PDB: 2zgg_A 2xen_A

Probab=99.72  E-value=2.3e-17  Score=139.26  Aligned_cols=71  Identities=38%  Similarity=0.496  Sum_probs=61.8

Q ss_pred             hccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC
Q psy1308          80 LECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL  151 (607)
Q Consensus        80 ~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~  151 (607)
                      ...+.+|.||||+||..|+.+++++|++.+ +++|.+|..|+||||+||..|+.+++++|+++|++++.+|.
T Consensus        18 ~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g-~~i~~~d~~g~tpLh~A~~~~~~~~v~~Ll~~ga~~~~~d~   88 (110)
T 2zgd_A           18 SHMGSDLGKKLLEAARAGQDDEVRILMANG-ADVAAKDKNGSTPLHLAARNGHLEVVKLLLEAGADVXAQDK   88 (110)
T ss_dssp             ----CCHHHHHHHHHHHTCHHHHHHHHHTT-CCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCT
T ss_pred             cccCCccchHHHHHHHcCCHHHHHHHHHcC-CCCCccCCCCCCHHHHHHHcCCHHHHHHHHHcCCCcccccc
Confidence            567889999999999999999999999998 89999999999999999999999999999999999887653

>2zgd_A 3 repeat synthetic ankyrin; ankyrin repeat, hydroxylated, de novo protein; 1.90A {Synthetic} PDB: 2zgg_A 2xen_A

Probab=99.70  E-value=1.8e-17  Score=139.93  Aligned_cols=93  Identities=30%  Similarity=0.319  Sum_probs=65.4

Q ss_pred             CccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcch
Q psy1308         113 VNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSA  192 (607)
Q Consensus       113 ~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~Tp  192 (607)
                      ++..|.+|.||||+||..|+.+++++|+++|++++.+|.                                    .|+||
T Consensus        17 ~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g~~i~~~d~------------------------------------~g~tp   60 (110)
T 2zgd_A           17 GSHMGSDLGKKLLEAARAGQDDEVRILMANGADVAAKDK------------------------------------NGSTP   60 (110)
T ss_dssp             -----CCHHHHHHHHHHHTCHHHHHHHHHTTCCTTCCCT------------------------------------TCCCH
T ss_pred             ccccCCccchHHHHHHHcCCHHHHHHHHHcCCCCCccCC------------------------------------CCCCH
Confidence            455677889999999999999999999999988877543                                    26666


Q ss_pred             hhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHH
Q psy1308         193 LHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKY  241 (607)
Q Consensus       193 Lh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~l  241 (607)
                      ||+|+..|+.+++++|+++|++++.+|..|+||||+|+..++.+++++|
T Consensus        61 Lh~A~~~~~~~~v~~Ll~~ga~~~~~d~~g~tpl~~A~~~~~~~~~~~L  109 (110)
T 2zgd_A           61 LHLAARNGHLEVVKLLLEAGADVXAQDKFGKTAFDISIDNGNEDLAEIL  109 (110)
T ss_dssp             HHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHcCCCccccccCCCcHHHHHHHcCCHHHHHHh
Confidence            6666666666666666666666666666666666666666666666554

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.63  E-value=8.2e-15  Score=149.71  Aligned_cols=196  Identities=17%  Similarity=0.198  Sum_probs=146.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++|++..++.+...+......-   ..+.+++++||+|+|||.+++.+++.+.    .+|+.++++........    
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~---~~~~~vll~G~~GtGKT~la~~ia~~~~----~~~~~~~~~~~~~~~~~----   97 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRN---ECLDHILFSGPAGLGKTTLANIISYEMS----ANIKTTAAPMIEKSGDL----   97 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTT---SCCCCEEEECSTTSSHHHHHHHHHHHTT----CCEEEEEGGGCCSHHHH----
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcC---CCCCeEEEECcCCCCHHHHHHHHHHHhC----CCeEEecchhccchhHH----
Confidence            358999999999988887664211   1233789999999999999999998863    45899998776433222    


Q ss_pred             cCCCCCccCCCCchhhHHHh-hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCC-------cEEecCceEEEEecC
Q psy1308         348 GAPPGYLGHDDGGQLTKRLK-KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKG-------KTIECKDAIFVMTSN  419 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~-~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g-------~~~~~~~~~iI~tsn  419 (607)
                                     ...+. .+.+++||||||+.++++.|..|++.++++.+....+       ..++..++++|++||
T Consensus        98 ---------------~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn  162 (338)
T 3pfi_A           98 ---------------AAILTNLSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATT  162 (338)
T ss_dssp             ---------------HHHHHTCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEES
T ss_pred             ---------------HHHHHhccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCC
Confidence                           22222 3567899999999999999999999999887654322       223334689999999


Q ss_pred             cchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHH
Q psy1308         420 LASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELH  499 (607)
Q Consensus       420 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~  499 (607)
                      ..                                                   ..+. |.|++|++.++.+.|++.+++.
T Consensus       163 ~~---------------------------------------------------~~l~-~~L~~R~~~~i~l~~~~~~e~~  190 (338)
T 3pfi_A          163 RA---------------------------------------------------GMLS-NPLRDRFGMQFRLEFYKDSELA  190 (338)
T ss_dssp             CG---------------------------------------------------GGSC-HHHHTTCSEEEECCCCCHHHHH
T ss_pred             Cc---------------------------------------------------cccC-HHHHhhcCEEeeCCCcCHHHHH
Confidence            31                                                   1143 8899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         500 TLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       500 ~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      .++...+..        .+  +.+++++++.|+.  .|++++|.+.+.+++.+.
T Consensus       191 ~il~~~~~~--------~~--~~~~~~~~~~l~~--~~~G~~r~l~~~l~~~~~  232 (338)
T 3pfi_A          191 LILQKAALK--------LN--KTCEEKAALEIAK--RSRSTPRIALRLLKRVRD  232 (338)
T ss_dssp             HHHHHHHHH--------TT--CEECHHHHHHHHH--TTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh--------cC--CCCCHHHHHHHHH--HHCcCHHHHHHHHHHHHH
Confidence            887765542        12  4689999999985  688999999999987643

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.59  E-value=4.5e-15  Score=131.72  Aligned_cols=119  Identities=13%  Similarity=0.195  Sum_probs=92.7

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++..+..+...+......      +.+++++||+|+|||.+|+.++...... ..+|+ ++|+.....        
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~------~~~vll~G~~GtGKt~lA~~i~~~~~~~-~~~~v-~~~~~~~~~--------   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSET------DIAVWLYGAPGTGRMTGARYLHQFGRNA-QGEFV-YRELTPDNA--------   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTC------CSCEEEESSTTSSHHHHHHHHHHSSTTT-TSCCE-EEECCTTTS--------
T ss_pred             CceeCCHHHHHHHHHHHHHhCC------CCCEEEECCCCCCHHHHHHHHHHhCCcc-CCCEE-EECCCCCcc--------
Confidence            4788999999998888776432      3468999999999999999999887654 66899 999876543        


Q ss_pred             CCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHH
Q psy1308         349 APPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEI  425 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i  425 (607)
                                 ....+.+..+.++++|||||+.++++.|..|+++++..           ..++++|+|||.+....
T Consensus        66 -----------~~~~~~~~~a~~g~l~ldei~~l~~~~q~~Ll~~l~~~-----------~~~~~~I~~t~~~~~~~  120 (145)
T 3n70_A           66 -----------PQLNDFIALAQGGTLVLSHPEHLTREQQYHLVQLQSQE-----------HRPFRLIGIGDTSLVEL  120 (145)
T ss_dssp             -----------SCHHHHHHHHTTSCEEEECGGGSCHHHHHHHHHHHHSS-----------SCSSCEEEEESSCHHHH
T ss_pred             -----------hhhhcHHHHcCCcEEEEcChHHCCHHHHHHHHHHHhhc-----------CCCEEEEEECCcCHHHH
Confidence                       12345566677899999999999999999999999422           24567999999766544

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.53  E-value=2.1e-14  Score=157.66  Aligned_cols=220  Identities=17%  Similarity=0.185  Sum_probs=140.0

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc---------
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ---------  338 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~---------  338 (607)
                      ..++||..+++.+...+....          .++|+||+|+|||.+++.++..+... ..+.+.+++....         
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g~----------~vll~Gp~GtGKTtlar~ia~~l~~~-~~~~~~~~~~~~~~~~p~i~~~  109 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQKR----------HVLLIGEPGTGKSMLGQAMAELLPTE-TLEDILVFPNPEDENMPRIKTV  109 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTTC----------CEEEECCTTSSHHHHHHHHHHTSCCS-SCEEEEEECCTTCTTSCEEEEE
T ss_pred             ceEECchhhHhhccccccCCC----------EEEEEeCCCCCHHHHHHHHhccCCcc-cCCeEEEeCCcccccCCcEEEE
Confidence            568999999988887776432          68999999999999999999987543 2223333221111         


Q ss_pred             -----------------------------------------------------ccchhHhhhcCC-------CCCccCCC
Q psy1308         339 -----------------------------------------------------EKHEVAKLIGAP-------PGYLGHDD  358 (607)
Q Consensus       339 -----------------------------------------------------~~~~~~~llg~~-------~g~~g~~~  358 (607)
                                                                           .......++|..       .+..+.+.
T Consensus       110 p~g~~~~~~e~~~~~~~~~~~~r~~~~~~~~~~~~~nl~v~~~~~~~~~~v~~~~~~~~~L~G~~~~~~~~~g~~~~g~~  189 (604)
T 3k1j_A          110 PACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGDVRHDPFQSGGLGTPAH  189 (604)
T ss_dssp             ETTHHHHHHHHHHHHHHHHTCC-----------CCCEEEECCTTCSSCCEEECTTCCHHHHHCEECCCCC----CCCCGG
T ss_pred             ecchHHHHHHHHHHhhccchhhhhhcccccccccccceeeccccCCCCCEEEcCCCCHHhcCceEEechhhcCCcccccc
Confidence                                                                 122234555532       11111111


Q ss_pred             CchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCC----------cEEecCceEEEEecCcchHHHHHH
Q psy1308         359 GGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKG----------KTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       359 ~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g----------~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                      .....+.+..+.++++||||++++++.+|+.|+++++++.+...++          ......+++||++||..       
T Consensus       190 ~~i~~g~~~~a~~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~~-------  262 (604)
T 3k1j_A          190 ERVEPGMIHRAHKGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNLD-------  262 (604)
T ss_dssp             GGEECCHHHHTTTSEEEETTGGGSCHHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECHH-------
T ss_pred             ccccCceeeecCCCEEEEechhhCCHHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCHH-------
Confidence            1123456777889999999999999999999999999999876533          22234578899999932       


Q ss_pred             HhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccc---eeeeccCCHHHHHHHHHHH
Q psy1308         429 ALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE---IVYFLPFSKSELHTLVCRE  505 (607)
Q Consensus       429 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~---iv~f~pl~~~~~~~i~~~~  505 (607)
                                                                +...|. |+|++||+.   .+.|.+ ..++....+..+
T Consensus       263 ------------------------------------------~~~~l~-~~l~~R~~v~~i~i~l~~-~~~~~~~~~~~~  298 (604)
T 3k1j_A          263 ------------------------------------------TVDKMH-PALRSRIRGYGYEVYMRT-TMPDTIENRRKL  298 (604)
T ss_dssp             ------------------------------------------HHHHSC-HHHHHHHHHHSEEEECCS-EEECCHHHHHHH
T ss_pred             ------------------------------------------HHhhcC-HHHHHHhhccceEeeccc-cccCCHHHHHHH
Confidence                                                      112255 999999973   344433 333344445555


Q ss_pred             HHHHHHHHhhcCCcEEEeCHhHHHHHHccCC-CCC-------CccchhHHHHH
Q psy1308         506 LNFWAKKALDKHNINIVWDIDVETILADGYD-VHY-------GARSIKHEVER  550 (607)
Q Consensus       506 l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~-~~~-------GaR~L~~~i~~  550 (607)
                      +..+.+++... +....++++++..|.+.|. |++       +.|.+.+.++.
T Consensus       299 l~~~~~~~~~~-~~~~~ls~eAl~~Li~~~~r~~g~r~~l~~~~R~l~~llr~  350 (604)
T 3k1j_A          299 VQFVAQEVKRD-GKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGIVRA  350 (604)
T ss_dssp             HHHHHHHHHHH-CSSCCBBHHHHHHHHHHHHHTTCSTTEEECCHHHHHHHHHH
T ss_pred             HHHHHHHHhhc-cCcccCCHHHHHHHHHHHhhhhccccccccCHHHHHHHHHH
Confidence            55555544322 2345789999999986232 333       47777777764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.53  E-value=1.8e-14  Score=151.54  Aligned_cols=192  Identities=17%  Similarity=0.262  Sum_probs=132.2

Q ss_pred             hHhhhhHHHH---HHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         268 DRIVGQESAI---NIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       268 ~~i~Gq~~ai---~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      ..++||+..+   ..+...+....        +.+++|+||+|+|||.+++.+++.+..    +|..+++.... ...+.
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~~--------~~~vLL~GppGtGKTtlAr~ia~~~~~----~f~~l~a~~~~-~~~ir   92 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAGH--------LHSMILWGPPGTGKTTLAEVIARYANA----DVERISAVTSG-VKEIR   92 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHTC--------CCEEEEECSTTSSHHHHHHHHHHHTTC----EEEEEETTTCC-HHHHH
T ss_pred             HHhCCcHHHHhchHHHHHHHHcCC--------CcEEEEECCCCCcHHHHHHHHHHHhCC----CeEEEEeccCC-HHHHH
Confidence            3589999998   67777776543        237899999999999999999998743    47777764432 12222


Q ss_pred             hhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHH
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNE  424 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~  424 (607)
                      .++.            ..........+++||||||+.++...|+.|++.++++.             ++||++|+.... 
T Consensus        93 ~~~~------------~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~~-------------v~lI~att~n~~-  146 (447)
T 3pvs_A           93 EAIE------------RARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDGT-------------ITFIGATTENPS-  146 (447)
T ss_dssp             HHHH------------HHHHHHHTTCCEEEEEETTTCC------CCHHHHHTTS-------------CEEEEEESSCGG-
T ss_pred             HHHH------------HHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcCc-------------eEEEecCCCCcc-
Confidence            2221            01111123567999999999999999999999999743             567777652110 


Q ss_pred             HHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHH
Q psy1308         425 IAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCR  504 (607)
Q Consensus       425 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~  504 (607)
                                                                      ..+. +.+++|+. ++.|.|++.+++..++..
T Consensus       147 ------------------------------------------------~~l~-~aL~sR~~-v~~l~~l~~edi~~il~~  176 (447)
T 3pvs_A          147 ------------------------------------------------FELN-SALLSRAR-VYLLKSLSTEDIEQVLTQ  176 (447)
T ss_dssp             ------------------------------------------------GSSC-HHHHTTEE-EEECCCCCHHHHHHHHHH
T ss_pred             ------------------------------------------------cccC-HHHhCcee-EEeeCCcCHHHHHHHHHH
Confidence                                                            1133 88999985 677999999999999888


Q ss_pred             HHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         505 ELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       505 ~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      .+......+.   +..+.++++++++|+. + |++++|.+.+.+++.+.
T Consensus       177 ~l~~~~~~~~---~~~~~i~~~al~~L~~-~-~~Gd~R~lln~Le~a~~  220 (447)
T 3pvs_A          177 AMEDKTRGYG---GQDIVLPDETRRAIAE-L-VNGDARRALNTLEMMAD  220 (447)
T ss_dssp             HHHCTTTSST---TSSEECCHHHHHHHHH-H-HCSCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhc---cccCcCCHHHHHHHHH-H-CCCCHHHHHHHHHHHHH
Confidence            8764322211   1467899999999986 5 88999999999987654

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=99.52  E-value=1.2e-13  Score=140.02  Aligned_cols=193  Identities=15%  Similarity=0.155  Sum_probs=141.2

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++..+..+...+.......   ..+.+++++||+|+|||.+++.+++.+.    .++..++++.........    
T Consensus        13 ~~ig~~~~~~~l~~~l~~~~~~~---~~~~~vll~G~~GtGKT~la~~i~~~~~----~~~~~~~~~~~~~~~~l~----   81 (324)
T 1hqc_A           13 EYIGQERLKQKLRVYLEAAKARK---EPLEHLLLFGPPGLGKTTLAHVIAHELG----VNLRVTSGPAIEKPGDLA----   81 (324)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHC---SCCCCCEEECCTTCCCHHHHHHHHHHHT----CCEEEECTTTCCSHHHHH----
T ss_pred             HhhCHHHHHHHHHHHHHHHHccC---CCCCcEEEECCCCCCHHHHHHHHHHHhC----CCEEEEeccccCChHHHH----
Confidence            58899999888887776543210   1134789999999999999999999874    358888887764432222    


Q ss_pred             CCCCCccCCCCchhhHHHhh--CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCC-------cEEecCceEEEEecC
Q psy1308         349 APPGYLGHDDGGQLTKRLKK--CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKG-------KTIECKDAIFVMTSN  419 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~~--~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g-------~~~~~~~~~iI~tsn  419 (607)
                                     +.+..  +.+++||||||+.+++..+..|+++++++.+....+       ......++++|++||
T Consensus        82 ---------------~~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~  146 (324)
T 1hqc_A           82 ---------------AILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATT  146 (324)
T ss_dssp             ---------------HHHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEES
T ss_pred             ---------------HHHHHhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCC
Confidence                           22222  457899999999999999999999999887654322       122345788999998


Q ss_pred             cchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHH
Q psy1308         420 LASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELH  499 (607)
Q Consensus       420 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~  499 (607)
                      ..                                                   ..|. +.|++|++.++.+.|++.+++.
T Consensus       147 ~~---------------------------------------------------~~~~-~~l~~R~~~~i~l~~~~~~e~~  174 (324)
T 1hqc_A          147 RP---------------------------------------------------GLIT-APLLSRFGIVEHLEYYTPEELA  174 (324)
T ss_dssp             CC---------------------------------------------------SSCS-CSTTTTCSCEEECCCCCHHHHH
T ss_pred             Cc---------------------------------------------------ccCC-HHHHhcccEEEecCCCCHHHHH
Confidence            32                                                   1143 8899999888999999999988


Q ss_pred             HHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         500 TLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       500 ~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      .++...+..        .+  +.+++++++.|+. + ++++.|.+++.+++.
T Consensus       175 ~~l~~~~~~--------~~--~~~~~~~~~~l~~-~-~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          175 QGVMRDARL--------LG--VRITEEAALEIGR-R-SRGTMRVAKRLFRRV  214 (324)
T ss_dssp             HHHHHHHHT--------TT--CCCCHHHHHHHHH-H-SCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHh--------cC--CCCCHHHHHHHHH-H-ccCCHHHHHHHHHHH
Confidence            876655431        23  3588999999986 5 368889888887764

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.46  E-value=2.3e-14  Score=126.80  Aligned_cols=112  Identities=12%  Similarity=0.157  Sum_probs=86.9

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++..++.+...+......      +.+++++|++|+|||.+|+.++....     +|+.++|+......       
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~------~~~vll~G~~GtGKt~lA~~i~~~~~-----~~~~~~~~~~~~~~-------   66 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKR------TSPVFLTGEAGSPFETVARYFHKNGT-----PWVSPARVEYLIDM-------   66 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTC------SSCEEEEEETTCCHHHHHGGGCCTTS-----CEECCSSTTHHHHC-------
T ss_pred             CceeCCHHHHHHHHHHHHHhCC------CCcEEEECCCCccHHHHHHHHHHhCC-----CeEEechhhCChHh-------
Confidence            4788999999888888765432      34689999999999999999986543     78889988754321       


Q ss_pred             CCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcc
Q psy1308         349 APPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLA  421 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~  421 (607)
                                   ..+.++.+.++++|||||+.++++.|..|+++++++.          ..++++|+|||..
T Consensus        67 -------------~~~~~~~a~~~~l~lDei~~l~~~~q~~Ll~~l~~~~----------~~~~~iI~~tn~~  116 (143)
T 3co5_A           67 -------------PMELLQKAEGGVLYVGDIAQYSRNIQTGITFIIGKAE----------RCRVRVIASCSYA  116 (143)
T ss_dssp             -------------HHHHHHHTTTSEEEEEECTTCCHHHHHHHHHHHHHHT----------TTTCEEEEEEEEC
T ss_pred             -------------hhhHHHhCCCCeEEEeChHHCCHHHHHHHHHHHHhCC----------CCCEEEEEecCCC
Confidence                         2345666778999999999999999999999999763          2567899999954

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=99.44  E-value=2.7e-13  Score=139.10  Aligned_cols=218  Identities=14%  Similarity=0.109  Sum_probs=129.2

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc---CCceEEeecccccccch---
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK---KEAFIRLDMSEYQEKHE---  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~---~~~~~~l~~a~~~~~~~---  342 (607)
                      .++|++..+..+........        +.+++|+||+|+|||.+++.+++.+....   ..+   ++|........   
T Consensus        25 ~i~G~~~~~~~l~~~~~~~~--------~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~---~~~~~~~~~~~~~~   93 (350)
T 1g8p_A           25 AIVGQEDMKLALLLTAVDPG--------IGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCP---VSSPNVEMIPDWAT   93 (350)
T ss_dssp             GSCSCHHHHHHHHHHHHCGG--------GCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCT---TCCSSGGGSCTTCC
T ss_pred             hccChHHHHHHHHHHhhCCC--------CceEEEECCCCccHHHHHHHHHHhCcccccccccc---ccccccccccchhh
Confidence            48898887665433322111        12599999999999999999999875310   111   23332221111   


Q ss_pred             ---------------------hHhhhcCCC---CCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccce
Q psy1308         343 ---------------------VAKLIGAPP---GYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGR  398 (607)
Q Consensus       343 ---------------------~~~llg~~~---g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~  398 (607)
                                           ...++|...   .+.+. ......+.+..+.++++|||||++++++.|+.|+++++++.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~l~g~~~~~~~~~~~-~~~~~~g~~~~a~~~vl~iDEi~~l~~~~~~~Ll~~le~~~  172 (350)
T 1g8p_A           94 VLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKG-EKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGE  172 (350)
T ss_dssp             CSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHC-GGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSE
T ss_pred             hhccccccCCCcccccCCCcchhhheeechhhhhhcCC-ceeecCceeeecCCCEEEEeChhhCCHHHHHHHHHHHhcCc
Confidence                                 123333100   00000 00001123344568999999999999999999999999875


Q ss_pred             --eecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccC
Q psy1308         399 --LTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFR  476 (607)
Q Consensus       399 --~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~  476 (607)
                        +...++......++++|+|+|...                                                  ..+.
T Consensus       173 ~~~~~~g~~~~~~~~~~li~~~n~~~--------------------------------------------------~~l~  202 (350)
T 1g8p_A          173 NVVERDGLSIRHPARFVLVGSGNPEE--------------------------------------------------GDLR  202 (350)
T ss_dssp             EEECCTTCCEEEECCEEEEEEECSCS--------------------------------------------------CCCC
T ss_pred             eEEEecceEEeeCCceEEEEEeCCCC--------------------------------------------------CCCC
Confidence              444444433445889999999310                                                  1144


Q ss_pred             ChhhhccccceeeeccC-CHHHHHHHHHHHHHHH-----------------HHHH---hhcCCcEEEeCHhHHHHHHccC
Q psy1308         477 RDEFLGRINEIVYFLPF-SKSELHTLVCRELNFW-----------------AKKA---LDKHNINIVWDIDVETILADGY  535 (607)
Q Consensus       477 ~~el~~ri~~iv~f~pl-~~~~~~~i~~~~l~~~-----------------~~~~---~~~~~i~l~~~~~a~~~L~~~~  535 (607)
                       +.|++||+..+.+.|+ +.++..+|+...+...                 ..++   ... .-.+.++++++++|.+ +
T Consensus       203 -~~L~~R~~~~~~l~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~~~ls~~~~~~l~~-~  279 (350)
T 1g8p_A          203 -PQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILEARER-LPKVEAPNTALYDCAA-L  279 (350)
T ss_dssp             -HHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHH-GGGCBCCHHHHHHHHH-H
T ss_pred             -HHHHhhcceEEEcCCCCcHHHHHHHHHHHHhcccCchhhccccccchHHHHHHHHHHHHh-CCCCCCCHHHHHHHHH-H
Confidence             8999999877888888 4555557776532110                 0111   111 1134799999999986 5


Q ss_pred             CCCCC---ccchhHHHHHH
Q psy1308         536 DVHYG---ARSIKHEVERQ  551 (607)
Q Consensus       536 ~~~~G---aR~L~~~i~~~  551 (607)
                      .|.+|   .|.+.+.++..
T Consensus       280 ~~~~~~~~~R~~~~ll~~a  298 (350)
T 1g8p_A          280 CIALGSDGLRGELTLLRSA  298 (350)
T ss_dssp             HHHSSSCSHHHHHHHHHHH
T ss_pred             HHHhCCCCccHHHHHHHHH
Confidence            55544   47777666543

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=99.43  E-value=7.4e-13  Score=133.97  Aligned_cols=210  Identities=16%  Similarity=0.206  Sum_probs=143.8

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhC---CCCCCCC-CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKEN---GWTDDDH-PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~---~~~~~~~-p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..++|++.+++.+...+.....   ....... +..++|+||+|+|||.+++.++..+.    .+|+.++++.+..    
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~----~~~~~v~~~~l~~----   89 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN----STFFSVSSSDLVS----   89 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHT----CEEEEEEHHHHHT----
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHC----CCEEEEchHHHhh----
Confidence            4688999999998877743211   1112222 34899999999999999999999874    3588888765422    


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCH-----------HHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHP-----------DVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~-----------~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                       .+.|....     .-..+....+....+|||||||+.+.+           .+++.|+..++.-.        ....++
T Consensus        90 -~~~g~~~~-----~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~~~v  155 (322)
T 3eie_A           90 -KWMGESEK-----LVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVG--------NDSQGV  155 (322)
T ss_dssp             -TTGGGHHH-----HHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGG--------TSCCCE
T ss_pred             -cccchHHH-----HHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhcccc--------ccCCce
Confidence             11111000     011234445566779999999998865           46788888886321        112468


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP  492 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p  492 (607)
                      +||+|||...                                                   .+. |.+.+||+..+.+.+
T Consensus       156 ~vi~atn~~~---------------------------------------------------~ld-~al~~Rf~~~i~~~~  183 (322)
T 3eie_A          156 LVLGATNIPW---------------------------------------------------QLD-SAIRRRFERRIYIPL  183 (322)
T ss_dssp             EEEEEESCGG---------------------------------------------------GSC-HHHHHHCCEEEECCC
T ss_pred             EEEEecCChh---------------------------------------------------hCC-HHHHcccCeEEEeCC
Confidence            8999998311                                                   122 778889998888888


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHHHh
Q psy1308         493 FSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEK  562 (607)
Q Consensus       493 l~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l~  562 (607)
                      ++.++..+|+...+.          +....+++..++.|+. ....+..+.|+..+.+....++.+....
T Consensus       184 p~~~~r~~il~~~~~----------~~~~~~~~~~l~~la~-~t~g~sg~di~~l~~~a~~~a~r~~~~~  242 (322)
T 3eie_A          184 PDLAARTTMFEINVG----------DTPCVLTKEDYRTLGA-MTEGYSGSDIAVVVKDALMQPIRKIQSA  242 (322)
T ss_dssp             CCHHHHHHHHHHHHT----------TCCCCCCHHHHHHHHH-TTTTCCHHHHHHHHHHHTTHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHhc----------cCCCCCCHHHHHHHHH-HcCCCCHHHHHHHHHHHHHHHHHHHhhh
Confidence            999999998876553          1234567888899986 5566677889999998888888776543

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=99.41  E-value=3e-12  Score=129.82  Aligned_cols=188  Identities=14%  Similarity=0.149  Sum_probs=138.3

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++..++.+...+....       .|-.+++.||+|+|||.+++.+++.+..    .++.++++... ...+...+ 
T Consensus        27 ~ivg~~~~~~~l~~~l~~~~-------~~~~~L~~G~~G~GKT~la~~la~~l~~----~~~~i~~~~~~-~~~i~~~~-   93 (324)
T 3u61_B           27 ECILPAFDKETFKSITSKGK-------IPHIILHSPSPGTGKTTVAKALCHDVNA----DMMFVNGSDCK-IDFVRGPL-   93 (324)
T ss_dssp             TSCCCHHHHHHHHHHHHTTC-------CCSEEEECSSTTSSHHHHHHHHHHHTTE----EEEEEETTTCC-HHHHHTHH-
T ss_pred             HHhCcHHHHHHHHHHHHcCC-------CCeEEEeeCcCCCCHHHHHHHHHHHhCC----CEEEEcccccC-HHHHHHHH-
Confidence            58899999998888877321       2346888999999999999999998743    48888876643 22222211 


Q ss_pred             CCCCCccCCCCchhhHHHhh----CCCeEEEEecCCccC-HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchH
Q psy1308         349 APPGYLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAH-PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASN  423 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~-~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~  423 (607)
                                    ......    ....+++|||++.++ ++.++.|++++++..           .+++||++||... 
T Consensus        94 --------------~~~~~~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~-----------~~~~iI~~~n~~~-  147 (324)
T 3u61_B           94 --------------TNFASAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYS-----------SNCSIIITANNID-  147 (324)
T ss_dssp             --------------HHHHHBCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHG-----------GGCEEEEEESSGG-
T ss_pred             --------------HHHHhhcccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCC-----------CCcEEEEEeCCcc-
Confidence                          111111    146899999999999 999999999998532           5678999998211 


Q ss_pred             HHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHH
Q psy1308         424 EIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVC  503 (607)
Q Consensus       424 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~  503 (607)
                                                                        .+. +.+.+|+ .++.|.|++.++..+|+.
T Consensus       148 --------------------------------------------------~l~-~~l~sR~-~~i~~~~~~~~e~~~il~  175 (324)
T 3u61_B          148 --------------------------------------------------GII-KPLQSRC-RVITFGQPTDEDKIEMMK  175 (324)
T ss_dssp             --------------------------------------------------GSC-TTHHHHS-EEEECCCCCHHHHHHHHH
T ss_pred             --------------------------------------------------ccC-HHHHhhC-cEEEeCCCCHHHHHHHHH
Confidence                                                              133 7888999 478999999999999988


Q ss_pred             HHHHHHHHHHhhcCCcEEEeCH-hHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         504 RELNFWAKKALDKHNINIVWDI-DVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       504 ~~l~~~~~~~~~~~~i~l~~~~-~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      ..+..+...+... +  +.+++ ++++.|+. + +.+++|.+.+.++...
T Consensus       176 ~~~~~l~~~~~~~-~--~~~~~~~~~~~l~~-~-~~gd~R~a~~~L~~~~  220 (324)
T 3u61_B          176 QMIRRLTEICKHE-G--IAIADMKVVAALVK-K-NFPDFRKTIGELDSYS  220 (324)
T ss_dssp             HHHHHHHHHHHHH-T--CCBSCHHHHHHHHH-H-TCSCTTHHHHHHHHHG
T ss_pred             HHHHHHHHHHHHc-C--CCCCcHHHHHHHHH-h-CCCCHHHHHHHHHHHh
Confidence            8887776665544 3  46777 99999985 3 6688998887777643

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.39  E-value=8e-13  Score=131.64  Aligned_cols=128  Identities=16%  Similarity=0.189  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCc
Q psy1308         275 SAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYL  354 (607)
Q Consensus       275 ~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~  354 (607)
                      ..++.+...+.+..........|..++++||+|||||.+++.+++.+..    +++.++++.+...            |+
T Consensus        14 ~~~~~~~~~~~k~~l~~~~~~~p~~lLl~GppGtGKT~la~aiA~~l~~----~~i~v~~~~l~~~------------~~   77 (293)
T 3t15_A           14 AFMDKLVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGI----NPIMMSAGELESG------------NA   77 (293)
T ss_dssp             HHHHHHHHHHHHTTSCCTTCCCCSEEEEEECTTSCHHHHHHHHHHHHTC----CCEEEEHHHHHCC--------------
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhCC----CEEEEeHHHhhhc------------cC
Confidence            3444554455555444555566778999999999999999999999844    5899988765321            22


Q ss_pred             cCCCCchhhHHH-------hhCCCeEEEEecCCccCH-------------HHHHHHHHhhccceeecCCC--cEEecCce
Q psy1308         355 GHDDGGQLTKRL-------KKCPNAVVLFDEVDKAHP-------------DVLTVLLQLFDEGRLTDGKG--KTIECKDA  412 (607)
Q Consensus       355 g~~~~~~l~~~~-------~~~~~~vl~lDEiek~~~-------------~~~~~Ll~~~~~~~~~~~~g--~~~~~~~~  412 (607)
                      |. ..+.+...+       +...++||||||||++.+             .+++.|+++++........|  ......++
T Consensus        78 g~-~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v  156 (293)
T 3t15_A           78 GE-PAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARV  156 (293)
T ss_dssp             -H-HHHHHHHHHHHHHHHHTTSSCCCEEEECCC--------------CHHHHHHHHHHHHHCCC-----------CCCCC
T ss_pred             ch-hHHHHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCc
Confidence            21 112233334       344789999999998865             46799999999666544333  33456789


Q ss_pred             EEEEecC
Q psy1308         413 IFVMTSN  419 (607)
Q Consensus       413 ~iI~tsn  419 (607)
                      +||+|||
T Consensus       157 ~vI~ttN  163 (293)
T 3t15_A          157 PIIVTGN  163 (293)
T ss_dssp             CEEEECS
T ss_pred             EEEEecC
Confidence            9999999

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.39  E-value=4.5e-12  Score=127.92  Aligned_cols=208  Identities=16%  Similarity=0.210  Sum_probs=141.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhh---CCCCCCCCC-ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKE---NGWTDDDHP-LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~---~~~~~~~~p-~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..+.|++.+++.+.+.+....   .-+.....| ..++|+||+|+|||.+++.++..+.   ..+|+.++++....    
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~---~~~~~~i~~~~l~~----   84 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN---NSTFFSISSSDLVS----   84 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT---SCEEEEEECCSSCC----
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC---CCcEEEEEhHHHHh----
Confidence            468889999888887775321   111111223 4899999999999999999998872   34688888875532    


Q ss_pred             HhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccC-----------HHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         344 AKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAH-----------PDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~-----------~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                              .|.|....  ..+....+....+||||||||.+.           ..+++.|+..++.-.        ....
T Consensus        85 --------~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~--------~~~~  148 (322)
T 1xwi_A           85 --------KWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVG--------VDND  148 (322)
T ss_dssp             --------SSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSS--------SCCT
T ss_pred             --------hhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhccc--------ccCC
Confidence                    12221111  123344455678999999999883           245677777776321        1235


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      +++||+|||...                                                   .+. +.+++|++..+.+
T Consensus       149 ~v~vI~atn~~~---------------------------------------------------~ld-~al~rRf~~~i~i  176 (322)
T 1xwi_A          149 GILVLGATNIPW---------------------------------------------------VLD-SAIRRRFEKRIYI  176 (322)
T ss_dssp             TEEEEEEESCTT---------------------------------------------------TSC-HHHHHTCCEEEEC
T ss_pred             CEEEEEecCCcc---------------------------------------------------cCC-HHHHhhcCeEEEe
Confidence            788999999321                                                   022 7788899888888


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHHH
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHE  561 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l  561 (607)
                      .+++.++..+|+...+.          +....+++..++.|++ ....+..+.|+..+.+....++.+.+.
T Consensus       177 ~~P~~~~r~~il~~~l~----------~~~~~l~~~~l~~la~-~t~G~sgadl~~l~~~A~~~a~r~~~~  236 (322)
T 1xwi_A          177 PLPEPHARAAMFKLHLG----------TTQNSLTEADFRELGR-KTDGYSGADISIIVRDALMQPVRKVQS  236 (322)
T ss_dssp             CCCCHHHHHHHHHHHHT----------TCCBCCCHHHHHHHHH-TCTTCCHHHHHHHHHHHHTHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHh----------cCCCCCCHHHHHHHHH-HcCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence            88899998888776553          1223457888899986 556666788999999988888876654

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=99.39  E-value=3.1e-12  Score=130.98  Aligned_cols=207  Identities=16%  Similarity=0.228  Sum_probs=139.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHhh---CCCCCCCC-CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKE---NGWTDDDH-PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~---~~~~~~~~-p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..++|++.+++.+...+....   ..+..... +..++|+||+|+|||.+|+.++..+.    .+|+.++++.+..    
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~----~~~~~v~~~~l~~----  122 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN----STFFSVSSSDLVS----  122 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHT----CEEEEEEHHHHHS----
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhC----CCEEEeeHHHHhh----
Confidence            458899999999887774321   00111122 33789999999999999999999884    3588887764321    


Q ss_pred             HhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccCH-----------HHHHHHHHhhccceeecCCCcEEecC
Q psy1308         344 AKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAHP-----------DVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~~-----------~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                              .|.|....  ..+....+....+|||||||+.+.+           .+++.|+..++.-.        ....
T Consensus       123 --------~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~--------~~~~  186 (355)
T 2qp9_X          123 --------KWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVG--------NDSQ  186 (355)
T ss_dssp             --------CC---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC-----------C
T ss_pred             --------hhcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhccc--------ccCC
Confidence                    12221110  1223334455789999999999874           36778888876321        1235


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      +++||+|||...                                                   .+. +.+++||+..+.+
T Consensus       187 ~v~vI~atn~~~---------------------------------------------------~ld-~al~rRf~~~i~i  214 (355)
T 2qp9_X          187 GVLVLGATNIPW---------------------------------------------------QLD-SAIRRRFERRIYI  214 (355)
T ss_dssp             CEEEEEEESCGG---------------------------------------------------GSC-HHHHHTCCEEEEC
T ss_pred             CeEEEeecCCcc---------------------------------------------------cCC-HHHHcccCEEEEe
Confidence            688999999321                                                   122 7778899888888


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHHH
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHE  561 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l  561 (607)
                      .+++.++..+|+...+.          +....+++..++.|+. ....+..|.|+..+.+.+..++.+...
T Consensus       215 ~~P~~~~r~~il~~~l~----------~~~~~~~~~~l~~la~-~t~G~sg~dl~~l~~~A~~~a~~~~~~  274 (355)
T 2qp9_X          215 PLPDLAARTTMFEINVG----------DTPSVLTKEDYRTLGA-MTEGYSGSDIAVVVKDALMQPIRKIQS  274 (355)
T ss_dssp             CCCCHHHHHHHHHHHHT----------TSCBCCCHHHHHHHHH-HTTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHh----------hCCCCCCHHHHHHHHH-HcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            88899999888776553          1123467888888885 445567789999999998888876653

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=99.39  E-value=7.6e-12  Score=131.97  Aligned_cols=210  Identities=15%  Similarity=0.171  Sum_probs=141.1

Q ss_pred             hHhhhhHHHHHHHHHHHHHhh---CCCCCCCC-CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKE---NGWTDDDH-PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~---~~~~~~~~-p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..++|++.+++.+...+....   ..+..... +..++|+||+|+|||.+|+.++..+.   ..+|+.++++.+.     
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~---~~~~~~v~~~~l~-----  205 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN---NSTFFSISSSDLV-----  205 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCC---SSEEEEECCC--------
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcC---CCCEEEEeHHHHH-----
Confidence            458899999998887774321   11111122 34899999999999999999999872   3468888887543     


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccC-----------HHHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAH-----------PDVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~-----------~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                      ..+.|....     ....+....+....+|||||||+.+.           ..+++.|+..++.-.        ....++
T Consensus       206 ~~~~g~~~~-----~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~--------~~~~~v  272 (444)
T 2zan_A          206 SKWLGESEK-----LVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVG--------VDNDGI  272 (444)
T ss_dssp             ------CCC-----THHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSS--------CCCSSC
T ss_pred             hhhcchHHH-----HHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcc--------cCCCCE
Confidence            222332111     11234444556678999999999883           357778888776321        123578


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP  492 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p  492 (607)
                      +||+|||...                                                   .+. |.+++||+.++.+.+
T Consensus       273 ~vI~atn~~~---------------------------------------------------~ld-~al~rRf~~~i~i~~  300 (444)
T 2zan_A          273 LVLGATNIPW---------------------------------------------------VLD-SAIRRRFEKRIYIPL  300 (444)
T ss_dssp             EEEEEESCGG---------------------------------------------------GSC-HHHHTTCCEEEECCC
T ss_pred             EEEecCCCcc---------------------------------------------------ccC-HHHHhhcceEEEeCC
Confidence            9999999320                                                   022 778889988888888


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHHH
Q psy1308         493 FSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHE  561 (607)
Q Consensus       493 l~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l  561 (607)
                      ++.++...|+...+.          +....+++..++.|+. ....+..+.|+..+.+.+..++.+.+.
T Consensus       301 P~~~~r~~il~~~l~----------~~~~~l~~~~l~~la~-~t~G~sgadl~~l~~~a~~~a~r~~~~  358 (444)
T 2zan_A          301 PEAHARAAMFRLHLG----------STQNSLTEADFQELGR-KTDGYSGADISIIVRDALMQPVRKVQS  358 (444)
T ss_dssp             CCHHHHHHHHHHHHT----------TSCEECCHHHHHHHHH-HTTTCCHHHHHHHHHHHHTHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHh----------cCCCCCCHHHHHHHHH-HcCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence            888888888766543          2234578888899986 445566789999999998888876654

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.37  E-value=2.9e-13  Score=147.44  Aligned_cols=237  Identities=12%  Similarity=0.114  Sum_probs=141.8

Q ss_pred             cccHHHHHHhHhhhhHHHHHHHHHHHHHhhCC-C--CCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEE----
Q psy1308         259 KYPLEQRLKDRIVGQESAINIISAAIKRKENG-W--TDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIR----  331 (607)
Q Consensus       259 ~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~-~--~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~----  331 (607)
                      ...+...+...++||+.+.+.+..++...... .  .......+++|+||+|+|||.+|+.+++.+...    +..    
T Consensus       286 ~~~l~~~l~~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~----~~~~~~~  361 (595)
T 3f9v_A          286 RDRIISSIAPSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRA----VYTTGKG  361 (595)
T ss_dssp             GGTHHHHTSSTTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTCSCE----ECCCTTC
T ss_pred             HHHHHHhhcchhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhCCCc----eecCCCc
Confidence            44566777788999998776664433221000 0  111223379999999999999999999876432    111    


Q ss_pred             eecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeec-CCCcEE-ec
Q psy1308         332 LDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTD-GKGKTI-EC  409 (607)
Q Consensus       332 l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~-~~g~~~-~~  409 (607)
                      ..++.+.+.......       .|  ......+.+..+.+||+|||||++++++.|+.|+++|+++.++. ..|... ..
T Consensus       362 ~~~~~l~~~~~~~~~-------~g--~~~~~~G~l~~A~~gil~IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~  432 (595)
T 3f9v_A          362 STAAGLTAAVVREKG-------TG--EYYLEAGALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLN  432 (595)
T ss_dssp             STTTTSEEECSSGGG-------TS--SCSEEECHHHHHSSSEECCTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEEC
T ss_pred             cccccccceeeeccc-------cc--cccccCCeeEecCCCcEEeehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEec
Confidence            111222111100000       11  11112344556678999999999999999999999999999873 334333 34


Q ss_pred             CceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceee
Q psy1308         410 KDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVY  489 (607)
Q Consensus       410 ~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~  489 (607)
                      .+++||+|||.....               ..    ....        ..    ..       -.+. +.|++|||.++.
T Consensus       433 ~~~~vIaatNp~~G~---------------~~----~~~~--------~~----~n-------i~l~-~aLl~RFDl~~~  473 (595)
T 3f9v_A          433 ARAAVIAAGNPKFGR---------------YI----SERP--------VS----DN-------INLP-PTILSRFDLIFI  473 (595)
T ss_dssp             CCCEEEEEECCTTCC---------------SC----TTSC--------SC----TT-------TCSC-SSSGGGCSCCEE
T ss_pred             CceEEEEEcCCcCCc---------------cC----cccC--------ch----hc-------cCCC-HHHHhhCeEEEE
Confidence            678999999943100               00    0000        00    00       0243 899999998888


Q ss_pred             eccCCHHHHHHHHHHHHH-----------------HHHHHHhhcCCcEEEeCHhHHHHHHccC-------------CCCC
Q psy1308         490 FLPFSKSELHTLVCRELN-----------------FWAKKALDKHNINIVWDIDVETILADGY-------------DVHY  539 (607)
Q Consensus       490 f~pl~~~~~~~i~~~~l~-----------------~~~~~~~~~~~i~l~~~~~a~~~L~~~~-------------~~~~  539 (607)
                      +.++..++-..|+.+.+.                 .+....+.  .+...+++++.+.|...|             .++.
T Consensus       474 ~~~~~~~e~~~i~~~il~~~~~~~~~~~l~~~~l~~~i~~ar~--~~~p~ls~ea~~~l~~~y~~lR~~~~~~~~~~~~~  551 (595)
T 3f9v_A          474 LKDQPGEQDRELANYILDVHSGKSTKNIIDIDTLRKYIAYARK--YVTPKITSEAKNLITDFFVEMRKKSSETPDSPILI  551 (595)
T ss_dssp             ECCTTHHHHHHHHHHHHTTTCCCSSSSTTCCTTTHHHHHHHHH--HHCCCCCCCTHHHHHHHHTTSSCSCCBCSSSCBCS
T ss_pred             eCCCCCHHHHHHHHHHHHHhhccccccCCCHHHHHHHHHHHHH--hCCCCCCHHHHHHHHHHHHHHHHhhccCCCccccc
Confidence            888766554455554432                 22222111  123368888888887522             4788


Q ss_pred             CccchhHHHH
Q psy1308         540 GARSIKHEVE  549 (607)
Q Consensus       540 GaR~L~~~i~  549 (607)
                      .+|.+.+.++
T Consensus       552 s~R~l~~lir  561 (595)
T 3f9v_A          552 TPRQLEALIR  561 (595)
T ss_dssp             STTTTTHHHH
T ss_pred             cHHHHHHHHH
Confidence            9999998886

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.36  E-value=4.4e-12  Score=134.39  Aligned_cols=141  Identities=23%  Similarity=0.295  Sum_probs=96.0

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK  340 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~  340 (607)
                      .+...+...++|++..++.+..++...          .+++|+||||+|||.+|+.++..+..  ..+|..+.+....  
T Consensus        15 ~l~~~l~~~ivGq~~~i~~l~~al~~~----------~~VLL~GpPGtGKT~LAraLa~~l~~--~~~f~~~~~~~~t--   80 (500)
T 3nbx_X           15 RLSSSLEKGLYERSHAIRLCLLAALSG----------ESVFLLGPPGIAKSLIARRLKFAFQN--ARAFEYLMTRFST--   80 (500)
T ss_dssp             HHHHHHHTTCSSCHHHHHHHHHHHHHT----------CEEEEECCSSSSHHHHHHHGGGGBSS--CCEEEEECCTTCC--
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHhcC----------CeeEeecCchHHHHHHHHHHHHHHhh--hhHHHHHHHhcCC--
Confidence            456677788999999998887766533          27899999999999999999988743  4456666665322  


Q ss_pred             chhHhhhcCCCCCccCCCCchhhHHHhhC--CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEec
Q psy1308         341 HEVAKLIGAPPGYLGHDDGGQLTKRLKKC--PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTS  418 (607)
Q Consensus       341 ~~~~~llg~~~g~~g~~~~~~l~~~~~~~--~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~ts  418 (607)
                        ...++|...++... ..+.+.......  ..+|+|||||+++++.+|+.|+++++++.++. .|........++|++|
T Consensus        81 --~~dL~G~~~~~~~~-~~g~~~~~~~g~l~~~~IL~IDEI~r~~~~~q~~LL~~lee~~v~i-~G~~~~~~~~~iI~AT  156 (500)
T 3nbx_X           81 --PEEVFGPLSIQALK-DEGRYERLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERQFRN-GAHVEKIPMRLLVAAS  156 (500)
T ss_dssp             --HHHHHCCBC-----------CBCCTTSGGGCSEEEEESGGGCCHHHHHHHHHHHHSSEEEC-SSSEEECCCCEEEEEE
T ss_pred             --HHHhcCcccHHHHh-hchhHHhhhccCCCcceeeeHHhHhhhcHHHHHHHHHHHHHHhccC-CCCcCCcchhhhhhcc
Confidence              35777743322110 111111100000  24689999999999999999999999999887 4555555555668888


Q ss_pred             C
Q psy1308         419 N  419 (607)
Q Consensus       419 n  419 (607)
                      |
T Consensus       157 N  157 (500)
T 3nbx_X          157 N  157 (500)
T ss_dssp             S
T ss_pred             c
Confidence            8

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.35  E-value=1e-11  Score=118.11  Aligned_cols=190  Identities=19%  Similarity=0.254  Sum_probs=131.5

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      .++|++..++.+...+....        +..++++||+|+|||.+++.+++.+.... ...++.++++...+.......+
T Consensus        18 ~~~g~~~~~~~l~~~l~~~~--------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (226)
T 2chg_A           18 EVVGQDEVIQRLKGYVERKN--------IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKI   89 (226)
T ss_dssp             GCCSCHHHHHHHHHHHHTTC--------CCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHH
T ss_pred             HHcCcHHHHHHHHHHHhCCC--------CCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHH
Confidence            47889999988888776431        22489999999999999999998864321 3457777776554433222222


Q ss_pred             cCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ......          .........+|+|||++.+++..++.|++++++.           ..++++|++||..      
T Consensus        90 ~~~~~~----------~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i~~~~~~------  142 (226)
T 2chg_A           90 KEFART----------APIGGAPFKIIFLDEADALTADAQAALRRTMEMY-----------SKSCRFILSCNYV------  142 (226)
T ss_dssp             HHHHTS----------CCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHT-----------TTTEEEEEEESCG------
T ss_pred             HHHhcc----------cCCCccCceEEEEeChhhcCHHHHHHHHHHHHhc-----------CCCCeEEEEeCCh------
Confidence            100000          0011245789999999999999999999999853           2467788888721      


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELN  507 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~  507 (607)
                                                                   ..+. +.+.+|+. .+.|.|++.+++.+++...+.
T Consensus       143 ---------------------------------------------~~~~-~~l~~r~~-~i~~~~~~~~~~~~~l~~~~~  175 (226)
T 2chg_A          143 ---------------------------------------------SRII-EPIQSRCA-VFRFKPVPKEAMKKRLLEICE  175 (226)
T ss_dssp             ---------------------------------------------GGSC-HHHHTTSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             ---------------------------------------------hhcC-HHHHHhCc-eeecCCCCHHHHHHHHHHHHH
Confidence                                                         0122 77888886 789999999999888776553


Q ss_pred             HHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         508 FWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       508 ~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      .    .    +  +.+++++++.|..  .+.++.|.+.+.+++..
T Consensus       176 ~----~----~--~~~~~~~~~~l~~--~~~g~~r~l~~~l~~~~  208 (226)
T 2chg_A          176 K----E----G--VKITEDGLEALIY--ISGGDFRKAINALQGAA  208 (226)
T ss_dssp             H----H----T--CCBCHHHHHHHHH--HHTTCHHHHHHHHHHHH
T ss_pred             H----c----C--CCCCHHHHHHHHH--HcCCCHHHHHHHHHHHH
Confidence            2    1    2  2378999998874  35788898888887654

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.32  E-value=5.6e-12  Score=130.18  Aligned_cols=218  Identities=16%  Similarity=0.195  Sum_probs=134.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc-----h
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH-----E  342 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~-----~  342 (607)
                      ..++|++..++.+.........+...   +..++|+||+|+|||.+++.+++.+..  ..+|..+.+..+....     .
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~---~~~vLl~GppGtGKT~la~~la~~l~~--~~~~~~~~~~~~~~~~~~~~~~  118 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIA---GRAVLIAGQPGTGKTAIAMGMAQALGP--DTPFTAIAGSEIFSLEMSKTEA  118 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCT---TCEEEEEESTTSSHHHHHHHHHHHHCS--SCCEEEEEGGGGSCSSSCHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCC---CCEEEEECCCCCCHHHHHHHHHHHhcc--cCCcccccchhhhhcccchhHH
Confidence            35889999988776665555443221   247999999999999999999999853  4578887765522111     0


Q ss_pred             hHhhh--------------------------------cCCCCCccCCCCchhhHHHhh--------CC----CeEEEEec
Q psy1308         343 VAKLI--------------------------------GAPPGYLGHDDGGQLTKRLKK--------CP----NAVVLFDE  378 (607)
Q Consensus       343 ~~~ll--------------------------------g~~~g~~g~~~~~~l~~~~~~--------~~----~~vl~lDE  378 (607)
                      ..+.+                                +...++.|. -...+...+..        ..    .+||||||
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~-~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDE  197 (368)
T 3uk6_A          119 LTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGE-IKSEVREQINAKVAEWREEGKAEIIPGVLFIDE  197 (368)
T ss_dssp             HHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC--------CHHHHHHHHHHHHHHHHHTC---CBCEEEEES
T ss_pred             HHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccc-cHHHHHHHHHHHHHHhhhhccccccCceEEEhh
Confidence            00000                                000111110 01112221111        11    36999999


Q ss_pred             CCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhc
Q psy1308         379 VDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTI  458 (607)
Q Consensus       379 iek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  458 (607)
                      |+.++++.++.|++.+++..           .. ++|++++.+...+                   .... ..       
T Consensus       198 i~~l~~~~~~~L~~~le~~~-----------~~-~~ii~t~~~~~~i-------------------~~t~-~~-------  238 (368)
T 3uk6_A          198 VHMLDIESFSFLNRALESDM-----------AP-VLIMATNRGITRI-------------------RGTS-YQ-------  238 (368)
T ss_dssp             GGGSBHHHHHHHHHHTTCTT-----------CC-EEEEEESCSEEEC-------------------BTSS-CE-------
T ss_pred             ccccChHHHHHHHHHhhCcC-----------CC-eeeeecccceeee-------------------eccC-CC-------
Confidence            99999999999999998532           22 3444444221100                   0000 00       


Q ss_pred             chhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCC
Q psy1308         459 SRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVH  538 (607)
Q Consensus       459 ~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~  538 (607)
                                  ....+. |.+++|+.. +.|.|++.+++.+|+...+..        .+  +.++++++++|++ +.++
T Consensus       239 ------------~~~~l~-~~l~sR~~~-i~~~~~~~~e~~~il~~~~~~--------~~--~~~~~~~l~~l~~-~~~~  293 (368)
T 3uk6_A          239 ------------SPHGIP-IDLLDRLLI-VSTTPYSEKDTKQILRIRCEE--------ED--VEMSEDAYTVLTR-IGLE  293 (368)
T ss_dssp             ------------EETTCC-HHHHTTEEE-EEECCCCHHHHHHHHHHHHHH--------TT--CCBCHHHHHHHHH-HHHH
T ss_pred             ------------CcccCC-HHHHhhccE-EEecCCCHHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-HhcC
Confidence                        001133 889999965 799999999999998876542        12  3589999999986 6666


Q ss_pred             CCccchhHHHHHHHHHH
Q psy1308         539 YGARSIKHEVERQVVSQ  555 (607)
Q Consensus       539 ~GaR~L~~~i~~~i~~~  555 (607)
                      ++.|.+.+.+++.+..+
T Consensus       294 G~~r~~~~ll~~a~~~A  310 (368)
T 3uk6_A          294 TSLRYAIQLITAASLVC  310 (368)
T ss_dssp             SCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHH
Confidence            88999998888766543

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.32  E-value=5.3e-12  Score=128.50  Aligned_cols=196  Identities=21%  Similarity=0.293  Sum_probs=124.8

Q ss_pred             hHhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc
Q psy1308         268 DRIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~  339 (607)
                      ..+.|.+.+++.+.+.+...        ..+..   .|.-+||+||||||||.+|+++|..+..    +|+.++.+....
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~---~prGvLL~GPPGTGKTllAkAiA~e~~~----~f~~v~~s~l~s  220 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIA---QPKGVILYGPPGTGKTLLARAVAHHTDC----KFIRVSGAELVQ  220 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCC---CCCCEEEESCSSSSHHHHHHHHHHHHTC----EEEEEEGGGGSC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCC---CCCceEEeCCCCCCHHHHHHHHHHhhCC----CceEEEhHHhhc
Confidence            35778888888877666432        22322   2447999999999999999999998754    599998876532


Q ss_pred             cchhHhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccCH-----------H---HHHHHHHhhccceeecCC
Q psy1308         340 KHEVAKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAHP-----------D---VLTVLLQLFDEGRLTDGK  403 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~~-----------~---~~~~Ll~~~~~~~~~~~~  403 (607)
                           +       |+|....  ..+....+....+||||||||.+-+           .   +...||..++.-.     
T Consensus       221 -----k-------~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~-----  283 (405)
T 4b4t_J          221 -----K-------YIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFE-----  283 (405)
T ss_dssp             -----S-------STTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTT-----
T ss_pred             -----c-------ccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccC-----
Confidence                 1       2221111  2344555666789999999998632           2   3455666665211     


Q ss_pred             CcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc-
Q psy1308         404 GKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG-  482 (607)
Q Consensus       404 g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~-  482 (607)
                          ...++++|+|||...                                           .        + .|.|+. 
T Consensus       284 ----~~~~V~vIaATNrpd-------------------------------------------~--------L-DpAllRp  307 (405)
T 4b4t_J          284 ----TSKNIKIIMATNRLD-------------------------------------------I--------L-DPALLRP  307 (405)
T ss_dssp             ----CCCCEEEEEEESCSS-------------------------------------------S--------S-CHHHHST
T ss_pred             ----CCCCeEEEeccCChh-------------------------------------------h--------C-CHhHcCC
Confidence                125788999999311                                           1        1 155654 


Q ss_pred             -cccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCCccchhHHHHHHHHHHH
Q psy1308         483 -RINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       483 -ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                       |||..+.|.+++.++..+|++..+..          +.  +++++ ++.|++ -...+.+..|++.+..+...++
T Consensus       308 GRfD~~I~i~lPd~~~R~~Il~~~~~~----------~~--l~~dvdl~~lA~-~t~G~SGADi~~l~~eA~~~Ai  370 (405)
T 4b4t_J          308 GRIDRKIEFPPPSVAARAEILRIHSRK----------MN--LTRGINLRKVAE-KMNGCSGADVKGVCTEAGMYAL  370 (405)
T ss_dssp             TSSCCEEECCCCCHHHHHHHHHHHHTT----------SB--CCSSCCHHHHHH-HCCSCCHHHHHHHHHHHHHHHH
T ss_pred             CcCceEEEcCCcCHHHHHHHHHHHhcC----------CC--CCccCCHHHHHH-HCCCCCHHHHHHHHHHHHHHHH
Confidence             99999999999999999997655431          11  22222 456664 2333455668877776655444

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=99.31  E-value=2.4e-11  Score=121.57  Aligned_cols=204  Identities=19%  Similarity=0.245  Sum_probs=133.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc
Q psy1308         268 DRIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~  339 (607)
                      ..++|++.+++.+...+...        ..+.   ..+..++|+||+|+|||.+++.++..+.    .+|+.++++.+  
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~---~~~~~vLL~Gp~GtGKT~la~ala~~~~----~~~i~v~~~~l--   85 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGM---TPSKGVLFYGPPGCGKTLLAKAIANECQ----ANFISIKGPEL--   85 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCC---CCCSEEEEECSSSSSHHHHHHHHHHHTT----CEEEEECHHHH--
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCC---CCCceEEEECCCCcCHHHHHHHHHHHhC----CCEEEEEhHHH--
Confidence            35888888888888777543        1111   1234799999999999999999998873    45888887654  


Q ss_pred             cchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHH--------------HHHHHHHhhccceeecCCCc
Q psy1308         340 KHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPD--------------VLTVLLQLFDEGRLTDGKGK  405 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~--------------~~~~Ll~~~~~~~~~~~~g~  405 (607)
                         ...++|.....     ...+.........+++|||||+.+.+.              ++..|+..++.-.       
T Consensus        86 ---~~~~~g~~~~~-----~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~-------  150 (301)
T 3cf0_A           86 ---LTMWFGESEAN-----VREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS-------  150 (301)
T ss_dssp             ---HHHHHTTCTTH-----HHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSC-------
T ss_pred             ---HhhhcCchHHH-----HHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhccc-------
Confidence               23455532211     112333344456799999999986543              5788888887321       


Q ss_pred             EEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--c
Q psy1308         406 TIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--R  483 (607)
Q Consensus       406 ~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--r  483 (607)
                        ...+++||+|||....                                                   +. |.++.  |
T Consensus       151 --~~~~v~vi~atn~~~~---------------------------------------------------ld-~al~r~gR  176 (301)
T 3cf0_A          151 --TKKNVFIIGATNRPDI---------------------------------------------------ID-PAILRPGR  176 (301)
T ss_dssp             --TTSSEEEEEEESCGGG---------------------------------------------------SC-GGGGSTTS
T ss_pred             --CCCCEEEEEecCCccc---------------------------------------------------cC-hHHhcCCc
Confidence              1257899999993210                                                   11 55555  8


Q ss_pred             ccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHh
Q psy1308         484 INEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEK  562 (607)
Q Consensus       484 i~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~  562 (607)
                      |+..+.+.+++.++..+|+...+..        .+....++   ++.|+. .+.|++  +.|++.+++.+..++.+.+..
T Consensus       177 f~~~i~i~~p~~~~r~~il~~~l~~--------~~~~~~~~---~~~la~~~~g~sg--~dl~~l~~~a~~~a~~~~~~~  243 (301)
T 3cf0_A          177 LDQLIYIPLPDEKSRVAILKANLRK--------SPVAKDVD---LEFLAKMTNGFSG--ADLTEICQRACKLAIRESIES  243 (301)
T ss_dssp             SCEEEECCCCCHHHHHHHHHHHHTT--------SCBCSSCC---HHHHHHTCSSCCH--HHHHHHHHHHHHHHHHHHHHH
T ss_pred             cceEEecCCcCHHHHHHHHHHHHcc--------CCCCccch---HHHHHHHcCCCCH--HHHHHHHHHHHHHHHHHHHHh
Confidence            9888888889999988887665532        12211122   344543 333433  489999999988888776643

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.30  E-value=2.2e-11  Score=121.05  Aligned_cols=243  Identities=11%  Similarity=0.012  Sum_probs=153.4

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~  342 (607)
                      .+.+.+.-+..+...+.....+.    +|..++++||||||||.+++.+++.+....      .-.++.++|........
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~----~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~   96 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSS----QNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDA   96 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTT----CCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCC----CCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHH
Confidence            47778888888887777665432    356889999999999999999999885421      12467788877655433


Q ss_pred             h-----HhhhcCCCCCccCCCCchhhHHHh-----hCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         343 V-----AKLIGAPPGYLGHDDGGQLTKRLK-----KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       343 ~-----~~llg~~~g~~g~~~~~~l~~~~~-----~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                      +     ..+.|....  .......+...+.     .....|++|||+|.+.  -|+.|+.+++-..        ...+++
T Consensus        97 ~~~~I~~~L~g~~~~--~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~--------~~~s~~  164 (318)
T 3te6_A           97 LYEKIWFAISKENLC--GDISLEALNFYITNVPKAKKRKTLILIQNPENLL--SEKILQYFEKWIS--------SKNSKL  164 (318)
T ss_dssp             HHHHHHHHHSCCC----CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC--CTHHHHHHHHHHH--------CSSCCE
T ss_pred             HHHHHHHHhcCCCCC--chHHHHHHHHHHHHhhhccCCceEEEEecHHHhh--cchHHHHHHhccc--------ccCCcE
Confidence            2     233343211  1011122333333     2346899999999998  5677777775211        122567


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccc-ceeeec
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRIN-EIVYFL  491 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~-~iv~f~  491 (607)
                      +||+++|.-.                                           .....    + ++.+.+|+. .++.|.
T Consensus       165 ~vI~i~n~~d-------------------------------------------~~~~~----L-~~~v~SR~~~~~i~F~  196 (318)
T 3te6_A          165 SIICVGGHNV-------------------------------------------TIREQ----I-NIMPSLKAHFTEIKLN  196 (318)
T ss_dssp             EEEEECCSSC-------------------------------------------CCHHH----H-HTCHHHHTTEEEEECC
T ss_pred             EEEEEecCcc-------------------------------------------cchhh----c-chhhhccCCceEEEeC
Confidence            8999998210                                           00000    1 144567775 579999


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHh-------------------------hcCCcEEEeCHhHHHHHHc-cCCCCCCccchh
Q psy1308         492 PFSKSELHTLVCRELNFWAKKAL-------------------------DKHNINIVWDIDVETILAD-GYDVHYGARSIK  545 (607)
Q Consensus       492 pl~~~~~~~i~~~~l~~~~~~~~-------------------------~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~  545 (607)
                      |++.+++.+|+...+......+.                         .-.++.+.++++|++++++ .-...+.+|--=
T Consensus       197 pYt~~el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ai~~~A~~vA~~~GD~R~Al  276 (318)
T 3te6_A          197 KVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPDNVIVINHKINNKITQLIAKNVANVSGSTEKAF  276 (318)
T ss_dssp             CCCHHHHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------CTTEEEECEECCHHHHHHHHHHHHHHHCSHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhhccccccccccccccccccccccccccccccccccccccCHHHHHHHHHHHHhhCChHHHHH
Confidence            99999999999988876432100                         0001245789999999985 234578899888


Q ss_pred             HHHHHHHHHHHHHHHHhccCCCCCEEEEEEe
Q psy1308         546 HEVERQVVSQLAAAHEKSVIGKGSFVRLYVQ  576 (607)
Q Consensus       546 ~~i~~~i~~~l~~~~l~~~~~~~~~v~i~~~  576 (607)
                      +.+++.+...-.+.+.+..... ..++|+..
T Consensus       277 ~ilr~A~~~ae~e~~~k~~~~~-~~~~i~~~  306 (318)
T 3te6_A          277 KICEAAVEISKKDFVRKGGLQK-GKLVVSQE  306 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHTTEET-TEECCSEE
T ss_pred             HHHHHHHHHHHHHHHhccCCCC-CcEEeeHH
Confidence            8888888877777776655432 34444443

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=99.30  E-value=2.7e-12  Score=126.66  Aligned_cols=195  Identities=17%  Similarity=0.221  Sum_probs=118.8

Q ss_pred             HhhhhHHHHHHHHHH----HHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         269 RIVGQESAINIISAA----IKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~----i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      .++|++.+++.+...    .......  ....+..++|+||+|+|||.+|+.+++.+.    .+|+.++++.        
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~--~~~~~~~vLl~G~~GtGKT~la~~ia~~~~----~~~~~i~~~~--------   99 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNS--DRTPLVSVLLEGPPHSGKTALAAKIAEESN----FPFIKICSPD--------   99 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHC--SSCSEEEEEEECSTTSSHHHHHHHHHHHHT----CSEEEEECGG--------
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhcc--CCCCCeEEEEECCCCCcHHHHHHHHHHHhC----CCEEEEeCHH--------
Confidence            456666666655542    2221110  112234899999999999999999999863    4588888764        


Q ss_pred             hhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc----------CHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA----------HPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                      .++|...+.. ...-..+.........++||||||+.+          ...+++.|..+++...        ....+++|
T Consensus       100 ~~~g~~~~~~-~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~--------~~~~~~~i  170 (272)
T 1d2n_A          100 KMIGFSETAK-CQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAP--------PQGRKLLI  170 (272)
T ss_dssp             GCTTCCHHHH-HHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCC--------STTCEEEE
T ss_pred             HhcCCchHHH-HHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCcc--------CCCCCEEE
Confidence            2222111000 000011222233456899999999987          4556666666665211        11245778


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |+|||... .+                                              ..    ..+.+|++..+.+.|++
T Consensus       171 i~ttn~~~-~l----------------------------------------------~~----~~l~~rf~~~i~~p~l~  199 (272)
T 1d2n_A          171 IGTTSRKD-VL----------------------------------------------QE----MEMLNAFSTTIHVPNIA  199 (272)
T ss_dssp             EEEESCHH-HH----------------------------------------------HH----TTCTTTSSEEEECCCEE
T ss_pred             EEecCChh-hc----------------------------------------------ch----hhhhcccceEEcCCCcc
Confidence            99998321 11                                              00    14567888888888886


Q ss_pred             H-HHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH---ccCCCCCCccchhHHHHHHH
Q psy1308         495 K-SELHTLVCRELNFWAKKALDKHNINIVWDIDVETILA---DGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       495 ~-~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~---~~~~~~~GaR~L~~~i~~~i  552 (607)
                      . +++..++...           .    .++++++..|+   .+|+|++++|.+.+.+++..
T Consensus       200 ~r~~i~~i~~~~-----------~----~~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~  246 (272)
T 1d2n_A          200 TGEQLLEALELL-----------G----NFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSL  246 (272)
T ss_dssp             EHHHHHHHHHHH-----------T----CSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhc-----------C----CCCHHHHHHHHHHhcCCCccccHHHHHHHHHHHh
Confidence            6 6666665431           1    25788888776   37999999999999998754

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.30  E-value=1.3e-11  Score=128.25  Aligned_cols=203  Identities=18%  Similarity=0.182  Sum_probs=130.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCC---CCC-CCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKENG---WTD-DDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~---~~~-~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..++|++.+++.+...+......   +.. ...+..++|+||+|+|||.+|+.++..+.    .+|+.++++.+...   
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~----~~~~~v~~~~l~~~---  187 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESN----ATFFNISAASLTSK---  187 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTT----CEEEEECSCCC------
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhc----CcEEEeeHHHhhcc---
Confidence            46899999999998877543211   011 11234899999999999999999998864    45999998776432   


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                        +.|....     ....+....+....+||||||||.+           ...++..|+..++...-.       ...++
T Consensus       188 --~~g~~~~-----~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-------~~~~v  253 (389)
T 3vfd_A          188 --YVGEGEK-----LVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSA-------GDDRV  253 (389)
T ss_dssp             ------CHH-----HHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC------------CE
T ss_pred             --ccchHHH-----HHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhccccc-------CCCCE
Confidence              1111100     0112334445566799999999988           456778888888732211       12468


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP  492 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p  492 (607)
                      +||+|||...                                                   .+. +.+++||+.++.+.+
T Consensus       254 ~vI~atn~~~---------------------------------------------------~l~-~~l~~R~~~~i~i~~  281 (389)
T 3vfd_A          254 LVMGATNRPQ---------------------------------------------------ELD-EAVLRRFIKRVYVSL  281 (389)
T ss_dssp             EEEEEESCGG---------------------------------------------------GCC-HHHHTTCCEEEECCC
T ss_pred             EEEEecCCch---------------------------------------------------hcC-HHHHcCcceEEEcCC
Confidence            8999999311                                                   122 778889988888888


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         493 FSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       493 l~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      ++.++...|+...+..          ....+++++++.|+. ....+..+.++..+......
T Consensus       282 p~~~~r~~il~~~~~~----------~~~~l~~~~~~~la~-~~~g~~~~~l~~L~~~a~~~  332 (389)
T 3vfd_A          282 PNEETRLLLLKNLLCK----------QGSPLTQKELAQLAR-MTDGYSGSDLTALAKDAALG  332 (389)
T ss_dssp             CCHHHHHHHHHHHHTT----------SCCCSCHHHHHHHHH-HTTTCCHHHHHHHHHHHTTH
T ss_pred             cCHHHHHHHHHHHHHh----------cCCCCCHHHHHHHHH-HcCCCCHHHHHHHHHHHHHH
Confidence            8999999887665532          123467888888875 44444555666655544333

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=99.30  E-value=4.2e-11  Score=122.77  Aligned_cols=203  Identities=17%  Similarity=0.196  Sum_probs=132.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCC---CC-CCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKENG---WT-DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~---~~-~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..++|++.+++.+...+......   +. ....+..++|+||+|+|||.+++.++..+.    .+|+.++++.+...   
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~----~~~~~i~~~~l~~~---  156 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSG----ATFFSISASSLTSK---  156 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTT----CEEEEEEGGGGCCS---
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcC----CeEEEEehHHhhcc---
Confidence            35889999999998877643111   00 012345899999999999999999998873    45888888765332   


Q ss_pred             HhhhcCCCCCccCCC--CchhhHHHhhCCCeEEEEecCCccCH-----------HHHHHHHHhhccceeecCCCcEEecC
Q psy1308         344 AKLIGAPPGYLGHDD--GGQLTKRLKKCPNAVVLFDEVDKAHP-----------DVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       344 ~~llg~~~g~~g~~~--~~~l~~~~~~~~~~vl~lDEiek~~~-----------~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                               |.|...  ...+....+....+||||||||.+.+           .+++.|+..++.....       ...
T Consensus       157 ---------~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~-------~~~  220 (357)
T 3d8b_A          157 ---------WVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTS-------SED  220 (357)
T ss_dssp             ---------STTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC-----------CCC
T ss_pred             ---------ccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhccccc-------CCC
Confidence                     111100  11233444556789999999988733           4677788887743211       124


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      +++||+|||...                                                   .+. +.+++|++..+.+
T Consensus       221 ~v~vI~atn~~~---------------------------------------------------~l~-~~l~~Rf~~~i~i  248 (357)
T 3d8b_A          221 RILVVGATNRPQ---------------------------------------------------EID-EAARRRLVKRLYI  248 (357)
T ss_dssp             CEEEEEEESCGG---------------------------------------------------GBC-HHHHTTCCEEEEC
T ss_pred             CEEEEEecCChh---------------------------------------------------hCC-HHHHhhCceEEEe
Confidence            678999998311                                                   022 6777899888888


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHH
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                      .+++.++..+|+...+..        .  .+.+++++++.|++ ....+..+.|+..+.+.....+
T Consensus       249 ~~p~~~~r~~il~~~~~~--------~--~~~l~~~~l~~la~-~t~G~s~~dl~~l~~~a~~~~i  303 (357)
T 3d8b_A          249 PLPEASARKQIVINLMSK--------E--QCCLSEEEIEQIVQ-QSDAFSGADMTQLCREASLGPI  303 (357)
T ss_dssp             CCCCHHHHHHHHHHHHHT--------S--CBCCCHHHHHHHHH-HTTTCCHHHHHHHHHHHHTHHH
T ss_pred             CCcCHHHHHHHHHHHHhh--------c--CCCccHHHHHHHHH-HcCCCCHHHHHHHHHHHHHHHH
Confidence            888999888887665531        1  23467888888875 3333445677777766555444

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.29  E-value=7.3e-12  Score=127.75  Aligned_cols=196  Identities=24%  Similarity=0.288  Sum_probs=123.9

Q ss_pred             hHhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc
Q psy1308         268 DRIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~  339 (607)
                      ..+.|.+.+++.+.+.+...        ..+..   .|.-+||+||||||||.+|+++|..+..    +|+.++.+.+..
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~---~prGvLLyGPPGTGKTlLAkAiA~e~~~----~fi~v~~s~l~s  254 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIK---PPKGVILYGAPGTGKTLLAKAVANQTSA----TFLRIVGSELIQ  254 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCC---CCSEEEEESSTTTTHHHHHHHHHHHHTC----EEEEEESGGGCC
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCC---CCCCCceECCCCchHHHHHHHHHHHhCC----CEEEEEHHHhhh
Confidence            35778888888887776542        12222   2458999999999999999999998854    588888776532


Q ss_pred             cchhHhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccC-----------HHHHH---HHHHhhccceeecCC
Q psy1308         340 KHEVAKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAH-----------PDVLT---VLLQLFDEGRLTDGK  403 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~-----------~~~~~---~Ll~~~~~~~~~~~~  403 (607)
                                  .|+|....  ..+....+....+||||||||.+-           ..+..   .||..++.-   +  
T Consensus       255 ------------k~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~---~--  317 (437)
T 4b4t_I          255 ------------KYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGF---D--  317 (437)
T ss_dssp             ------------SSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHC---C--
T ss_pred             ------------ccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCc---C--
Confidence                        23332111  123445556678999999999762           23344   444444411   1  


Q ss_pred             CcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc-
Q psy1308         404 GKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG-  482 (607)
Q Consensus       404 g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~-  482 (607)
                          ...+++||+|||....                                                   +- |.|+. 
T Consensus       318 ----~~~~ViVIaATNrpd~---------------------------------------------------LD-pALlRp  341 (437)
T 4b4t_I          318 ----DRGDVKVIMATNKIET---------------------------------------------------LD-PALIRP  341 (437)
T ss_dssp             ----CSSSEEEEEEESCSTT---------------------------------------------------CC-TTSSCT
T ss_pred             ----CCCCEEEEEeCCChhh---------------------------------------------------cC-HHHhcC
Confidence                1257899999993110                                                   11 66664 


Q ss_pred             -cccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCCccchhHHHHHHHHHHH
Q psy1308         483 -RINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       483 -ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                       |||..|.|.+++.++..+|++..+..        ..    +++++ ++.|++ ....+.++.|++.+..+...++
T Consensus       342 GRfD~~I~v~lPd~~~R~~Il~~~l~~--------~~----l~~dvdl~~LA~-~T~GfSGADI~~l~~eA~~~Ai  404 (437)
T 4b4t_I          342 GRIDRKILFENPDLSTKKKILGIHTSK--------MN----LSEDVNLETLVT-TKDDLSGADIQAMCTEAGLLAL  404 (437)
T ss_dssp             TTEEEEECCCCCCHHHHHHHHHHHHTT--------SC----BCSCCCHHHHHH-HCCSCCHHHHHHHHHHHHHHHH
T ss_pred             CceeEEEEcCCcCHHHHHHHHHHHhcC--------CC----CCCcCCHHHHHH-hCCCCCHHHHHHHHHHHHHHHH
Confidence             99998888888999999997765531        11    22222 456654 3334455678887776655544

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=99.28  E-value=6.9e-12  Score=126.66  Aligned_cols=185  Identities=21%  Similarity=0.283  Sum_probs=129.5

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      .++|++..++.+...+...        +..+++|+||+|+|||.+++.+++.+.... ..+++.++++...+...+...+
T Consensus        18 ~~~g~~~~~~~l~~~l~~~--------~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (319)
T 2chq_A           18 EVVGQDEVIQRLKGYVERK--------NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKI   89 (319)
T ss_dssp             GSCSCHHHHHHHHTTTTTT--------CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTSSHHH
T ss_pred             HHhCCHHHHHHHHHHHhCC--------CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHHHHHH
Confidence            4789998888776655431        122489999999999999999999875432 2357777776543322211111


Q ss_pred             cCCCCCccCCCCchhhHHH-----hhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcch
Q psy1308         348 GAPPGYLGHDDGGQLTKRL-----KKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLAS  422 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~-----~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~  422 (607)
                                     ....     ...++.++++||++.++++.++.|++++++.           ..+++||+++|...
T Consensus        90 ---------------~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~i~~~~~~~  143 (319)
T 2chq_A           90 ---------------KEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMY-----------SKSCRFILSCNYVS  143 (319)
T ss_dssp             ---------------HHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSS-----------SSSEEEEEEESCGG
T ss_pred             ---------------HHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhc-----------CCCCeEEEEeCChh
Confidence                           1111     1245789999999999999999999999852           24678899888210


Q ss_pred             HHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHH
Q psy1308         423 NEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLV  502 (607)
Q Consensus       423 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~  502 (607)
                                                                         .+. +.+.+|+. ++.|.|++.+++..++
T Consensus       144 ---------------------------------------------------~l~-~~l~sr~~-~i~~~~~~~~~~~~~l  170 (319)
T 2chq_A          144 ---------------------------------------------------RII-EPIQSRCA-VFRFKPVPKEAMKKRL  170 (319)
T ss_dssp             ---------------------------------------------------GSC-HHHHTTCE-EEECCCCCHHHHHHHH
T ss_pred             ---------------------------------------------------hcc-hHHHhhCe-EEEecCCCHHHHHHHH
Confidence                                                               122 77888885 7899999999998887


Q ss_pred             HHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         503 CRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       503 ~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      ...+.        ..+  +.+++++++.|+.  .++++.|.+.+.+++..
T Consensus       171 ~~~~~--------~~~--~~i~~~~l~~l~~--~~~G~~r~~~~~l~~~~  208 (319)
T 2chq_A          171 LEICE--------KEG--VKITEDGLEALIY--ISGGDFRKAINALQGAA  208 (319)
T ss_dssp             HHHHH--------TTC--CCBCHHHHHHHHH--TTTTCHHHHHHHHHHHH
T ss_pred             HHHHH--------HcC--CCCCHHHHHHHHH--HcCCCHHHHHHHHHHHH
Confidence            65543        123  3589999999983  45788898888887643

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=99.25  E-value=2e-11  Score=123.73  Aligned_cols=189  Identities=18%  Similarity=0.246  Sum_probs=128.7

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      .++|++..++.+...+....        +.+++|+||+|+|||.+++.+++.+.... ...++.++++...+...+...+
T Consensus        26 ~~~g~~~~~~~l~~~l~~~~--------~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (327)
T 1iqp_A           26 DIVGQEHIVKRLKHYVKTGS--------MPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKV   97 (327)
T ss_dssp             TCCSCHHHHHHHHHHHHHTC--------CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHH
T ss_pred             HhhCCHHHHHHHHHHHHcCC--------CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHHHHHH
Confidence            58899999999888776532        22599999999999999999999875431 2346667765432221111111


Q ss_pred             cCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ...   .       ....+....+.++++||++.++++.++.|++++++.           ..+++||+++|...     
T Consensus        98 ~~~---~-------~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~i~~~~~~~-----  151 (327)
T 1iqp_A           98 KEF---A-------RTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMF-----------SSNVRFILSCNYSS-----  151 (327)
T ss_dssp             HHH---H-------HSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHT-----------TTTEEEEEEESCGG-----
T ss_pred             HHH---H-------hhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhc-----------CCCCeEEEEeCCcc-----
Confidence            100   0       000012245789999999999999999999999853           14677888887211     


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELN  507 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~  507 (607)
                                                                    .+. +.+.+|+. .+.|.|++.+++..++...+.
T Consensus       152 ----------------------------------------------~l~-~~l~sr~~-~~~~~~l~~~~~~~~l~~~~~  183 (327)
T 1iqp_A          152 ----------------------------------------------KII-EPIQSRCA-IFRFRPLRDEDIAKRLRYIAE  183 (327)
T ss_dssp             ----------------------------------------------GSC-HHHHHTEE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             ----------------------------------------------ccC-HHHHhhCc-EEEecCCCHHHHHHHHHHHHH
Confidence                                                          122 67777875 789999999999888665543


Q ss_pred             HHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         508 FWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       508 ~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                              ..++  .++++++++|+. + +.++.|.+.+.++..
T Consensus       184 --------~~~~--~~~~~~~~~l~~-~-~~g~~r~~~~~l~~~  215 (327)
T 1iqp_A          184 --------NEGL--ELTEEGLQAILY-I-AEGDMRRAINILQAA  215 (327)
T ss_dssp             --------TTTC--EECHHHHHHHHH-H-HTTCHHHHHHHHHHH
T ss_pred             --------hcCC--CCCHHHHHHHHH-H-CCCCHHHHHHHHHHH
Confidence                    1233  589999999975 2 367788877777654

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.24  E-value=9.2e-12  Score=127.75  Aligned_cols=200  Identities=16%  Similarity=0.151  Sum_probs=128.6

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccC--cCCceEEeecccccccchhHhh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRD--KKEAFIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~--~~~~~~~l~~a~~~~~~~~~~l  346 (607)
                      .++|++..++.+...+....        +.+++|+||+|+|||.+++.+++.+...  ....+..++++...+...+...
T Consensus        38 ~i~g~~~~~~~l~~~l~~~~--------~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (353)
T 1sxj_D           38 EVTAQDHAVTVLKKTLKSAN--------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREK  109 (353)
T ss_dssp             TCCSCCTTHHHHHHHTTCTT--------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTH
T ss_pred             HhhCCHHHHHHHHHHHhcCC--------CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHHHH
Confidence            58899998888776664321        2248999999999999999999987531  1345667777654332222221


Q ss_pred             hcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHH
Q psy1308         347 IGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA  426 (607)
Q Consensus       347 lg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~  426 (607)
                      +.......................+.+|+|||++.+++..++.|++++++..           .+++||+++|...    
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~-----------~~~~~il~~~~~~----  174 (353)
T 1sxj_D          110 VKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYS-----------GVTRFCLICNYVT----  174 (353)
T ss_dssp             HHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTT-----------TTEEEEEEESCGG----
T ss_pred             HHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcC-----------CCceEEEEeCchh----
Confidence            1100000000000000001112346799999999999999999999998642           3567888877211    


Q ss_pred             HHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHH
Q psy1308         427 QHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCREL  506 (607)
Q Consensus       427 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l  506 (607)
                                                                     .+. |.+.+|+. .+.|.|++.+++..++...+
T Consensus       175 -----------------------------------------------~l~-~~l~sR~~-~i~~~~~~~~~~~~~l~~~~  205 (353)
T 1sxj_D          175 -----------------------------------------------RII-DPLASQCS-KFRFKALDASNAIDRLRFIS  205 (353)
T ss_dssp             -----------------------------------------------GSC-HHHHHHSE-EEECCCCCHHHHHHHHHHHH
T ss_pred             -----------------------------------------------hCc-chhhccCc-eEEeCCCCHHHHHHHHHHHH
Confidence                                                           022 67788885 78899999999988876654


Q ss_pred             HHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         507 NFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       507 ~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      ..        .+  +.++++++++|+. +.+ ++.|.+.+.++...
T Consensus       206 ~~--------~~--~~i~~~~l~~l~~-~~~-G~~r~~~~~l~~~~  239 (353)
T 1sxj_D          206 EQ--------EN--VKCDDGVLERILD-ISA-GDLRRGITLLQSAS  239 (353)
T ss_dssp             HT--------TT--CCCCHHHHHHHHH-HTS-SCHHHHHHHHHHTH
T ss_pred             HH--------hC--CCCCHHHHHHHHH-HcC-CCHHHHHHHHHHHH
Confidence            31        13  3578999999986 444 67888777776543

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.22  E-value=1.6e-11  Score=127.04  Aligned_cols=196  Identities=19%  Similarity=0.220  Sum_probs=124.4

Q ss_pred             hHhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc
Q psy1308         268 DRIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~  339 (607)
                      ..+.|.+.+++.+.+.+...        ..+..   .|..+||+||||||||.+|+++|..+..    +|+.++++.+..
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~---~prGvLLyGPPGTGKTllAkAiA~e~~~----~f~~v~~s~l~~  253 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIR---APKGALMYGPPGTGKTLLARACAAQTNA----TFLKLAAPQLVQ  253 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCC---CCCEEEEESCTTSSHHHHHHHHHHHHTC----EEEEEEGGGGCS
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCC---CCCeeEEECcCCCCHHHHHHHHHHHhCC----CEEEEehhhhhh
Confidence            45788888888877665432        12222   2458999999999999999999998744    588888876532


Q ss_pred             cchhHhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCcc-----------CHHH---HHHHHHhhccceeecCC
Q psy1308         340 KHEVAKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKA-----------HPDV---LTVLLQLFDEGRLTDGK  403 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~-----------~~~~---~~~Ll~~~~~~~~~~~~  403 (607)
                                  .|+|....  ..+....+....+||||||||.+           +..+   ...||..++.-.     
T Consensus       254 ------------~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~-----  316 (434)
T 4b4t_M          254 ------------MYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFS-----  316 (434)
T ss_dssp             ------------SCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSC-----
T ss_pred             ------------cccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccC-----
Confidence                        23332111  12334445556799999999875           1223   345666665211     


Q ss_pred             CcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc-
Q psy1308         404 GKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG-  482 (607)
Q Consensus       404 g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~-  482 (607)
                          ...+++||+|||...                                                   .+- |.|+. 
T Consensus       317 ----~~~~ViVIaaTNrp~---------------------------------------------------~LD-~AllRp  340 (434)
T 4b4t_M          317 ----SDDRVKVLAATNRVD---------------------------------------------------VLD-PALLRS  340 (434)
T ss_dssp             ----SSCSSEEEEECSSCC---------------------------------------------------CCC-TTTCST
T ss_pred             ----CCCCEEEEEeCCCch---------------------------------------------------hcC-HhHhcC
Confidence                124678999999310                                                   011 66655 


Q ss_pred             -cccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCCccchhHHHHHHHHHHH
Q psy1308         483 -RINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       483 -ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                       |||..+.|.+++.++..+|++..+..    +    .    +++++ ++.|++ ....+.++.|++.+..+...++
T Consensus       341 GRfD~~I~i~lPd~~~R~~Il~~~~~~----~----~----~~~dvdl~~lA~-~t~G~sGADi~~l~~eA~~~a~  403 (434)
T 4b4t_M          341 GRLDRKIEFPLPSEDSRAQILQIHSRK----M----T----TDDDINWQELAR-STDEFNGAQLKAVTVEAGMIAL  403 (434)
T ss_dssp             TSEEEEEECCCCCHHHHHHHHHHHHHH----S----C----BCSCCCHHHHHH-HCSSCCHHHHHHHHHHHHHHHH
T ss_pred             CceeEEEEeCCcCHHHHHHHHHHHhcC----C----C----CCCcCCHHHHHH-hCCCCCHHHHHHHHHHHHHHHH
Confidence             99999999888999999998766542    1    1    12222 455664 3334456678888877665554

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.22  E-value=3.2e-11  Score=124.26  Aligned_cols=196  Identities=16%  Similarity=0.192  Sum_probs=121.5

Q ss_pred             HhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc
Q psy1308         269 RIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK  340 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~  340 (607)
                      .+.|.+.+++.+.+.+...        ..+..   .|.-+||+||||||||.+|+++|..+..    +|+.++++.+.. 
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~---pprGILLyGPPGTGKTlLAkAiA~e~~~----~fi~vs~s~L~s-  281 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGID---PPKGILLYGPPGTGKTLCARAVANRTDA----TFIRVIGSELVQ-  281 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCC---CCSEEEECSCTTSSHHHHHHHHHHHHTC----EEEEEEGGGGCC-
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCC---CCCceEeeCCCCCcHHHHHHHHHhccCC----CeEEEEhHHhhc-
Confidence            4777777777776655321        22222   2458999999999999999999998854    588888876532 


Q ss_pred             chhHhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccCH-----------H---HHHHHHHhhccceeecCCC
Q psy1308         341 HEVAKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAHP-----------D---VLTVLLQLFDEGRLTDGKG  404 (607)
Q Consensus       341 ~~~~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~~-----------~---~~~~Ll~~~~~~~~~~~~g  404 (607)
                                 .|+|....  ..+....+....+||||||+|.+-+           .   +...||..++..       
T Consensus       282 -----------k~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~-------  343 (467)
T 4b4t_H          282 -----------KYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGF-------  343 (467)
T ss_dssp             -----------CSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSS-------
T ss_pred             -----------ccCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhcc-------
Confidence                       22332111  1234455666789999999997632           2   334455555421       


Q ss_pred             cEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--
Q psy1308         405 KTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--  482 (607)
Q Consensus       405 ~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--  482 (607)
                        ....++++|+|||...                                           .        +- |.|+.  
T Consensus       344 --~~~~~ViVIaATNrpd-------------------------------------------~--------LD-pALlRpG  369 (467)
T 4b4t_H          344 --DPRGNIKVMFATNRPN-------------------------------------------T--------LD-PALLRPG  369 (467)
T ss_dssp             --CCTTTEEEEEECSCTT-------------------------------------------S--------BC-HHHHSTT
T ss_pred             --CCCCcEEEEeCCCCcc-------------------------------------------c--------CC-hhhhccc
Confidence              1235788999999311                                           1        11 55554  


Q ss_pred             cccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHH
Q psy1308         483 RINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       483 ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                      |||..+.|.+++.++..+|++..+..        ..+.-.++   ++.|++ ....+.++.|++.+..+...++
T Consensus       370 RFD~~I~i~lPd~~~R~~Ilk~~l~~--------~~l~~dvd---l~~LA~-~T~GfSGADI~~l~~eAa~~Ai  431 (467)
T 4b4t_H          370 RIDRKVEFSLPDLEGRANIFRIHSKS--------MSVERGIR---WELISR-LCPNSTGAELRSVCTEAGMFAI  431 (467)
T ss_dssp             TCCEEECCCCCCHHHHHHHHHHHHTT--------SCBCSSCC---HHHHHH-HCCSCCHHHHHHHHHHHHHHHH
T ss_pred             cccEEEEeCCcCHHHHHHHHHHHhcC--------CCCCCCCC---HHHHHH-HCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999888999999998765531        11111122   345553 2233445668877776655444

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.21  E-value=3.5e-11  Score=124.56  Aligned_cols=196  Identities=20%  Similarity=0.206  Sum_probs=124.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc
Q psy1308         268 DRIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~  339 (607)
                      ..+.|.+.+++.+.+.+...        ..+..   .|.-+||+||||||||.+|+++|..+..    +|+.++++.+..
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~---~prGvLL~GPPGtGKTllAkAiA~e~~~----~~~~v~~s~l~s  253 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIK---PPKGVLLYGPPGTGKTLLAKAVAATIGA----NFIFSPASGIVD  253 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCC---CCCEEEEESCTTSSHHHHHHHHHHHHTC----EEEEEEGGGTCC
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCC---CCCeEEEECCCCCcHHHHHHHHHHHhCC----CEEEEehhhhcc
Confidence            35778888888877766432        12222   2448999999999999999999998854    488888876532


Q ss_pred             cchhHhhhcCCCCCccCCC--CchhhHHHhhCCCeEEEEecCCccC-----------HH---HHHHHHHhhccceeecCC
Q psy1308         340 KHEVAKLIGAPPGYLGHDD--GGQLTKRLKKCPNAVVLFDEVDKAH-----------PD---VLTVLLQLFDEGRLTDGK  403 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~~--~~~l~~~~~~~~~~vl~lDEiek~~-----------~~---~~~~Ll~~~~~~~~~~~~  403 (607)
                                  .|+|...  -..+....+....+||||||||.+-           ..   +...||..++.-.     
T Consensus       254 ------------k~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~-----  316 (437)
T 4b4t_L          254 ------------KYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFD-----  316 (437)
T ss_dssp             ------------SSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSS-----
T ss_pred             ------------ccchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhccc-----
Confidence                        1222111  1123445566678999999999752           12   3455666665211     


Q ss_pred             CcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--
Q psy1308         404 GKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--  481 (607)
Q Consensus       404 g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--  481 (607)
                          ...+++||+|||...                                                   .+- |.|+  
T Consensus       317 ----~~~~vivI~ATNrp~---------------------------------------------------~LD-pAllRp  340 (437)
T 4b4t_L          317 ----NLGQTKIIMATNRPD---------------------------------------------------TLD-PALLRP  340 (437)
T ss_dssp             ----CTTSSEEEEEESSTT---------------------------------------------------SSC-TTTTST
T ss_pred             ----CCCCeEEEEecCCch---------------------------------------------------hhC-HHHhCC
Confidence                125688999999310                                                   011 5554  


Q ss_pred             ccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCCccchhHHHHHHHHHHH
Q psy1308         482 GRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       482 ~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                      +|||..|.|.+++.++..+|++..+...        .    .++++ ++.|++ ....+.++.|++.+..+...++
T Consensus       341 GRfD~~I~i~lPd~~~R~~Il~~~~~~~--------~----~~~d~dl~~lA~-~t~G~sGADi~~l~~eA~~~ai  403 (437)
T 4b4t_L          341 GRLDRKVEIPLPNEAGRLEIFKIHTAKV--------K----KTGEFDFEAAVK-MSDGFNGADIRNCATEAGFFAI  403 (437)
T ss_dssp             TSEEEEECCCCCCHHHHHHHHHHHHHTS--------C----BCSCCCHHHHHH-TCCSCCHHHHHHHHHHHHHHHH
T ss_pred             CccceeeecCCcCHHHHHHHHHHHhcCC--------C----CCcccCHHHHHH-hCCCCCHHHHHHHHHHHHHHHH
Confidence            4699999988889999999987665421        1    11111 455664 3344556678887776655443

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.21  E-value=2.2e-10  Score=114.44  Aligned_cols=204  Identities=19%  Similarity=0.233  Sum_probs=130.7

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCC---CCC-CCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKENG---WTD-DDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~---~~~-~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..++|++.+++.+...+......   +.. ...+..++|+||+|+|||.+++.++..+.    .+|+.++++.....   
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~----~~~~~i~~~~l~~~---   93 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECS----ATFLNISAASLTSK---   93 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTT----CEEEEEESTTTSSS---
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhC----CCeEEeeHHHHhhc---
Confidence            35889999999988877543210   000 11244899999999999999999998873    45888888665321   


Q ss_pred             HhhhcCCCCCccCC--CCchhhHHHhhCCCeEEEEecCCccC-----------HHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         344 AKLIGAPPGYLGHD--DGGQLTKRLKKCPNAVVLFDEVDKAH-----------PDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       344 ~~llg~~~g~~g~~--~~~~l~~~~~~~~~~vl~lDEiek~~-----------~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                               +.|..  ....+.........++|||||++.+.           ..+++.|+..++.....      ....
T Consensus        94 ---------~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~------~~~~  158 (297)
T 3b9p_A           94 ---------YVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGN------PDGD  158 (297)
T ss_dssp             ---------SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------------
T ss_pred             ---------ccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhccccc------CCCC
Confidence                     12210  01123344555678999999998873           45677788777643211      1124


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      +++||++||...                                                   .+. +.+.+|++..+.+
T Consensus       159 ~v~vi~~tn~~~---------------------------------------------------~l~-~~l~~R~~~~i~~  186 (297)
T 3b9p_A          159 RIVVLAATNRPQ---------------------------------------------------ELD-EAALRRFTKRVYV  186 (297)
T ss_dssp             CEEEEEEESCGG---------------------------------------------------GBC-HHHHHHCCEEEEC
T ss_pred             cEEEEeecCChh---------------------------------------------------hCC-HHHHhhCCeEEEe
Confidence            578999998321                                                   122 6777788888888


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHH
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                      .+++.++...|+...+..        .+  ..+++++++.|+. ....+..+.|+..+++....++
T Consensus       187 ~~p~~~~r~~il~~~~~~--------~~--~~~~~~~~~~la~-~~~g~~~~~l~~l~~~a~~~a~  241 (297)
T 3b9p_A          187 SLPDEQTRELLLNRLLQK--------QG--SPLDTEALRRLAK-ITDGYSGSDLTALAKDAALEPI  241 (297)
T ss_dssp             CCCCHHHHHHHHHHHHGG--------GS--CCSCHHHHHHHHH-HTTTCCHHHHHHHHHHHTTHHH
T ss_pred             CCcCHHHHHHHHHHHHHh--------cC--CCCCHHHHHHHHH-HcCCCCHHHHHHHHHHHHHHHH
Confidence            888888888776655431        12  3467888888885 5555556678777766554443

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=99.20  E-value=1.5e-10  Score=113.30  Aligned_cols=202  Identities=19%  Similarity=0.219  Sum_probs=115.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCC----CCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         269 RIVGQESAINIISAAIKRKENGWT----DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~----~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      .++|++.+++.+...+........    ....|..++|+||+|+|||.+++.++..+.    .+++.++++.+....   
T Consensus         7 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~----~~~~~~~~~~~~~~~---   79 (262)
T 2qz4_A            7 DVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQ----VPFLAMAGAEFVEVI---   79 (262)
T ss_dssp             SSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHT----CCEEEEETTTTSSSS---
T ss_pred             HhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhC----CCEEEechHHHHhhc---
Confidence            477888888888776654321100    112345789999999999999999999874    358888887753211   


Q ss_pred             hhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCcc------------CHHHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKA------------HPDVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~------------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                            .+. +...-..+.........++|||||+|.+            +...+..|.++++.-.  ...    ...++
T Consensus        80 ------~~~-~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~--~~~----~~~~~  146 (262)
T 2qz4_A           80 ------GGL-GAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMD--GMG----TTDHV  146 (262)
T ss_dssp             ------TTH-HHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHH--TCC----TTCCE
T ss_pred             ------cCh-hHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhh--CcC----CCCCE
Confidence                  000 0000011223334445799999999998            3344444444443110  000    12478


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--cccceeee
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RINEIVYF  490 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~~iv~f  490 (607)
                      ++|+|||....                                                   + .+.+..  |++..+.+
T Consensus       147 ~vi~~tn~~~~---------------------------------------------------l-d~~l~~~~R~~~~i~i  174 (262)
T 2qz4_A          147 IVLASTNRADI---------------------------------------------------L-DGALMRPGRLDRHVFI  174 (262)
T ss_dssp             EEEEEESCGGG---------------------------------------------------G-GSGGGSTTSCCEEEEC
T ss_pred             EEEecCCChhh---------------------------------------------------c-CHHHhcCCcCCeEEEe
Confidence            89999983210                                                   1 145555  89888899


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      .+++.++..+|+...+...        +  +..+++. ...|+. ....+..|.|++.+.+...
T Consensus       175 ~~p~~~~r~~il~~~~~~~--------~--~~~~~~~~~~~l~~-~~~g~~~~~l~~l~~~a~~  227 (262)
T 2qz4_A          175 DLPTLQERREIFEQHLKSL--------K--LTQSSTFYSQRLAE-LTPGFSGADIANICNEAAL  227 (262)
T ss_dssp             CSCCHHHHHHHHHHHHHHT--------T--CCBTHHHHHHHHHH-TCTTCCHHHHHHHHHHHHT
T ss_pred             CCcCHHHHHHHHHHHHHhC--------C--CCcchhhHHHHHHH-HCCCCCHHHHHHHHHHHHH
Confidence            9999999999888777532        1  2233333 355654 3333334667766665443

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.20  E-value=2.1e-10  Score=119.20  Aligned_cols=216  Identities=16%  Similarity=0.210  Sum_probs=140.6

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCc--eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh---
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPL--VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV---  343 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~--~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~---  343 (607)
                      .++|++..++.+...+.....+.    .+.  .++++||+|+|||.+++.++..+.......++.++|+........   
T Consensus        18 ~l~gr~~~~~~l~~~l~~~~~~~----~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   93 (389)
T 1fnn_A           18 RLPHREQQLQQLDILLGNWLRNP----GHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGE   93 (389)
T ss_dssp             CCTTCHHHHHHHHHHHHHHHHST----TSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCC----CCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHH
Confidence            58899999999988887654331    133  688999999999999999999875432346788887765433222   


Q ss_pred             -HhhhcCCCCCccCCCC---chhhHHHhh-CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEec
Q psy1308         344 -AKLIGAPPGYLGHDDG---GQLTKRLKK-CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTS  418 (607)
Q Consensus       344 -~~llg~~~g~~g~~~~---~~l~~~~~~-~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~ts  418 (607)
                       ...+|......+....   ..+...+.. ....+|+|||++.++++.+..|+.++++..-.       ...++.||++|
T Consensus        94 l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~-------~~~~~~iI~~~  166 (389)
T 1fnn_A           94 IARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKL-------GAFRIALVIVG  166 (389)
T ss_dssp             HHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHH-------SSCCEEEEEEE
T ss_pred             HHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCC-------CcCCEEEEEEE
Confidence             2233332211111110   012222333 33679999999999999999999999743100       01367788888


Q ss_pred             CcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccc-eeeeccCCHHH
Q psy1308         419 NLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE-IVYFLPFSKSE  497 (607)
Q Consensus       419 n~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~-iv~f~pl~~~~  497 (607)
                      |...  .                                              ...+. +.+.+|+.. .+.|.|++.++
T Consensus       167 ~~~~--~----------------------------------------------~~~l~-~~~~~r~~~~~i~~~pl~~~~  197 (389)
T 1fnn_A          167 HNDA--V----------------------------------------------LNNLD-PSTRGIMGKYVIRFSPYTKDQ  197 (389)
T ss_dssp             SSTH--H----------------------------------------------HHTSC-HHHHHHHTTCEEECCCCBHHH
T ss_pred             CCch--H----------------------------------------------HHHhC-HHhhhcCCCceEEeCCCCHHH
Confidence            7321  0                                              11133 666777765 78999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCC--------CCCccchhHHHHHHHH
Q psy1308         498 LHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDV--------HYGARSIKHEVERQVV  553 (607)
Q Consensus       498 ~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~--------~~GaR~L~~~i~~~i~  553 (607)
                      +.+++...+...    ...    ..+++++++.+.. +.|        +++.|.+.+.+++...
T Consensus       198 ~~~~l~~~~~~~----~~~----~~~~~~~~~~l~~-~~~~~~~~~~~~G~~r~~~~~l~~a~~  252 (389)
T 1fnn_A          198 IFDILLDRAKAG----LAE----GSYSEDILQMIAD-ITGAQTPLDTNRGDARLAIDILYRSAY  252 (389)
T ss_dssp             HHHHHHHHHHHH----BCT----TSSCHHHHHHHHH-HHSBSSTTCTTSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh----cCC----CCCCHHHHHHHHH-HHhhcccCCCCCCcHHHHHHHHHHHHH
Confidence            999987766421    111    1578999999875 333        6778888888876544

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.20  E-value=7.6e-11  Score=119.75  Aligned_cols=201  Identities=19%  Similarity=0.207  Sum_probs=129.7

Q ss_pred             HHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc
Q psy1308         262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH  341 (607)
Q Consensus       262 L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~  341 (607)
                      +...+...++||+..++.+...+...          .+++|+||+|+|||.+++.++..+..    ++..++++....  
T Consensus        21 ~~~~~~~~i~g~~~~~~~l~~~l~~~----------~~vll~G~pGtGKT~la~~la~~~~~----~~~~i~~~~~~~--   84 (331)
T 2r44_A           21 VIDEVGKVVVGQKYMINRLLIGICTG----------GHILLEGVPGLAKTLSVNTLAKTMDL----DFHRIQFTPDLL--   84 (331)
T ss_dssp             HHHHHTTTCCSCHHHHHHHHHHHHHT----------CCEEEESCCCHHHHHHHHHHHHHTTC----CEEEEECCTTCC--
T ss_pred             HHHHhccceeCcHHHHHHHHHHHHcC----------CeEEEECCCCCcHHHHHHHHHHHhCC----CeEEEecCCCCC--
Confidence            34445567899999998887776542          25899999999999999999998743    478888753322  


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhhC--CCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEe-cCceEEEEec
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKKC--PNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIE-CKDAIFVMTS  418 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~~--~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~-~~~~~iI~ts  418 (607)
                       ...++|...-  +. ..+...  +...  ..+++||||++++++..++.|++.++++.++.. |.... ..++++|+|+
T Consensus        85 -~~~l~g~~~~--~~-~~~~~~--~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~-g~~~~~~~~~~viat~  157 (331)
T 2r44_A           85 -PSDLIGTMIY--NQ-HKGNFE--VKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIG-DTTYPLDNPFLVLATQ  157 (331)
T ss_dssp             -HHHHHEEEEE--ET-TTTEEE--EEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEET-TEEEECCSSCEEEEEE
T ss_pred             -hhhcCCceee--cC-CCCceE--eccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeC-CEEEECCCCEEEEEec
Confidence             2233432110  00 001100  0111  147999999999999999999999999988774 44333 3467788887


Q ss_pred             CcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHH
Q psy1308         419 NLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSEL  498 (607)
Q Consensus       419 n~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~  498 (607)
                      |-...                       ..                       ...+. +.|++||+..+.+.+++.++.
T Consensus       158 np~~~-----------------------~~-----------------------~~~l~-~~l~~Rf~~~i~i~~p~~~~~  190 (331)
T 2r44_A          158 NPVEQ-----------------------EG-----------------------TYPLP-EAQVDRFMMKIHLTYLDKESE  190 (331)
T ss_dssp             CTTCC-----------------------SC-----------------------CCCCC-HHHHTTSSEEEECCCCCHHHH
T ss_pred             CCCcc-----------------------cC-----------------------cccCC-HHHHhheeEEEEcCCCCHHHH
Confidence            72100                       00                       00133 889999987788888999999


Q ss_pred             HHHHHHHHHHH-------------HHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         499 HTLVCRELNFW-------------AKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       499 ~~i~~~~l~~~-------------~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .+|+.......             ..++... ...+.+++++++++++
T Consensus       191 ~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~v~~~~~~~~~i~~  237 (331)
T 2r44_A          191 LEVMRRVSNMNFNYQVQKIVSKNDVLEIRNE-INKVTISESLEKYIIE  237 (331)
T ss_dssp             HHHHHHHHCTTCCCCCCCCSCHHHHHHHHHH-HHTCBCCHHHHHHHHH
T ss_pred             HHHHHhccccCcchhccccCCHHHHHHHHHH-hccCCCCHHHHHHHHH
Confidence            99987764320             0000000 1135688999988863

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.19  E-value=1.4e-10  Score=115.12  Aligned_cols=201  Identities=20%  Similarity=0.208  Sum_probs=123.6

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCC-----CCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch
Q psy1308         268 DRIVGQESAINIISAAIKRKENGW-----TDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~-----~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~  342 (607)
                      ..++|++..++.+...+.......     .....+..++|+||+|+|||.+++.++..+.    .+++.++++.+...  
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~----~~~~~v~~~~~~~~--   90 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETN----ATFIRVVGSELVKK--   90 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTT----CEEEEEEGGGGCCC--
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhC----CCEEEEehHHHHHh--
Confidence            357888888888877765431110     0011244799999999999999999998874    35888887655322  


Q ss_pred             hHhhhcCCCCCccCCC--CchhhHHHhhCCCeEEEEecCCcc-----------CHHHHHHHHHhhccceeecCCCcEEec
Q psy1308         343 VAKLIGAPPGYLGHDD--GGQLTKRLKKCPNAVVLFDEVDKA-----------HPDVLTVLLQLFDEGRLTDGKGKTIEC  409 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~--~~~l~~~~~~~~~~vl~lDEiek~-----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~  409 (607)
                                +.|...  ...+.........++|||||++.+           .+..+..|+++++...-...      .
T Consensus        91 ----------~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~------~  154 (285)
T 3h4m_A           91 ----------FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA------R  154 (285)
T ss_dssp             ----------STTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS------S
T ss_pred             ----------ccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC------C
Confidence                      111100  112334455566789999999997           66778888887764211111      1


Q ss_pred             CceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--cccce
Q psy1308         410 KDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RINEI  487 (607)
Q Consensus       410 ~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~~i  487 (607)
                      .+++||+|||...                                                   .+. +.++.  |++.+
T Consensus       155 ~~~~vI~ttn~~~---------------------------------------------------~l~-~~l~~~~Rf~~~  182 (285)
T 3h4m_A          155 GDVKIIGATNRPD---------------------------------------------------ILD-PAILRPGRFDRI  182 (285)
T ss_dssp             SSEEEEEECSCGG---------------------------------------------------GBC-HHHHSTTSEEEE
T ss_pred             CCEEEEEeCCCch---------------------------------------------------hcC-HHHcCCCcCCeE
Confidence            4688999998310                                                   011 55555  88888


Q ss_pred             eeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         488 VYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       488 v~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      +.+.+++.++..+|+...+..        .+..   ++..+..|+. ....+..|.++..+.+....
T Consensus       183 i~~~~p~~~~r~~il~~~~~~--------~~~~---~~~~~~~l~~-~~~g~~~~~i~~l~~~a~~~  237 (285)
T 3h4m_A          183 IEVPAPDEKGRLEILKIHTRK--------MNLA---EDVNLEEIAK-MTEGCVGAELKAICTEAGMN  237 (285)
T ss_dssp             EECCCCCHHHHHHHHHHHHTT--------SCBC---TTCCHHHHHH-HCTTCCHHHHHHHHHHHHHH
T ss_pred             EEECCCCHHHHHHHHHHHHhc--------CCCC---CcCCHHHHHH-HcCCCCHHHHHHHHHHHHHH
Confidence            999999999999998655431        1111   2222444543 23334556677666554443

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.18  E-value=3.7e-11  Score=124.19  Aligned_cols=196  Identities=20%  Similarity=0.258  Sum_probs=122.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc
Q psy1308         268 DRIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~  339 (607)
                      ..+.|.+..++.+.+.+...        ..|..   .|--+||+||||||||.+|+++|..+..    +|+.++++.+..
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~---~prGiLL~GPPGtGKT~lakAiA~~~~~----~~~~v~~~~l~~  244 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGID---PPRGVLLYGPPGTGKTMLVKAVANSTKA----AFIRVNGSEFVH  244 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCC---CCCEEEEESCTTTTHHHHHHHHHHHHTC----EEEEEEGGGTCC
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCC---CCceEEEECCCCCCHHHHHHHHHHHhCC----CeEEEecchhhc
Confidence            35778888888777666432        12322   2447999999999999999999998854    599998876532


Q ss_pred             cchhHhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccC-----------H---HHHHHHHHhhccceeecCC
Q psy1308         340 KHEVAKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAH-----------P---DVLTVLLQLFDEGRLTDGK  403 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~-----------~---~~~~~Ll~~~~~~~~~~~~  403 (607)
                                  .|+|....  ..+....+....+|+||||+|.+-           .   .+...||..++.-.     
T Consensus       245 ------------~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~-----  307 (428)
T 4b4t_K          245 ------------KYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFD-----  307 (428)
T ss_dssp             ------------SSCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSC-----
T ss_pred             ------------cccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCC-----
Confidence                        12221111  123444556678999999998641           1   24566777666211     


Q ss_pred             CcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc-
Q psy1308         404 GKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG-  482 (607)
Q Consensus       404 g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~-  482 (607)
                          ...+++||+|||...                                           .        + .|.|+. 
T Consensus       308 ----~~~~v~vI~aTN~~~-------------------------------------------~--------L-D~AllRp  331 (428)
T 4b4t_K          308 ----QSTNVKVIMATNRAD-------------------------------------------T--------L-DPALLRP  331 (428)
T ss_dssp             ----SSCSEEEEEEESCSS-------------------------------------------S--------C-CHHHHSS
T ss_pred             ----CCCCEEEEEecCChh-------------------------------------------h--------c-ChhhhcC
Confidence                125689999999311                                           0        1 155554 


Q ss_pred             -cccceeeec-cCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCCccchhHHHHHHHHHHH
Q psy1308         483 -RINEIVYFL-PFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       483 -ri~~iv~f~-pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                       |||..|.|. +.+.++...|+...+..        ..    +++++ ++.|+. -...+.++.|++.+..+...++
T Consensus       332 GRfd~~I~~p~lPd~~~R~~Il~~~~~~--------~~----l~~~~dl~~lA~-~t~G~sgadi~~l~~eA~~~a~  395 (428)
T 4b4t_K          332 GRLDRKIEFPSLRDRRERRLIFGTIASK--------MS----LAPEADLDSLII-RNDSLSGAVIAAIMQEAGLRAV  395 (428)
T ss_dssp             SSEEEEEECCSSCCHHHHHHHHHHHHHS--------SC----BCTTCCHHHHHH-HTTTCCHHHHHHHHHHHHHHHH
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHhcC--------CC----CCcccCHHHHHH-HCCCCCHHHHHHHHHHHHHHHH
Confidence             899888885 45888888887655531        11    22222 566664 2333455678888876655544

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=99.18  E-value=4.9e-11  Score=126.52  Aligned_cols=202  Identities=16%  Similarity=0.166  Sum_probs=128.3

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCC-----CCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         269 RIVGQESAINIISAAIKRKENG-----WTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~-----~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      .++|++..++.+...+......     ......|..++|+||+|+|||.++++++..+    ..+|+.++|+.+..    
T Consensus       205 ~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~----~~~fv~vn~~~l~~----  276 (489)
T 3hu3_A          205 DIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMS----  276 (489)
T ss_dssp             GCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC----SSEEEEEEHHHHHT----
T ss_pred             HcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh----CCCEEEEEchHhhh----
Confidence            5889999999888777543110     0001124579999999999999999999876    44699999876542    


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCH-----------HHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHP-----------DVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~-----------~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                       .++|...+     .-..+.........++|||||||.+.+           .++..|+.+++...         ...++
T Consensus       277 -~~~g~~~~-----~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~---------~~~~v  341 (489)
T 3hu3_A          277 -KLAGESES-----NLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLK---------QRAHV  341 (489)
T ss_dssp             -SCTTHHHH-----HHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSC---------TTSCE
T ss_pred             -hhcchhHH-----HHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccc---------cCCce
Confidence             12221100     001122233444568999999966543           78999999998431         12578


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--cccceeee
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RINEIVYF  490 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~~iv~f  490 (607)
                      +||+|||....                                                   +. +.+..  ||+..+.+
T Consensus       342 ~vIaaTn~~~~---------------------------------------------------Ld-~al~r~gRf~~~i~i  369 (489)
T 3hu3_A          342 IVMAATNRPNS---------------------------------------------------ID-PALRRFGRFDREVDI  369 (489)
T ss_dssp             EEEEEESCGGG---------------------------------------------------BC-GGGGSTTSSCEEEEC
T ss_pred             EEEEecCCccc---------------------------------------------------cC-HHHhCCCcCceEEEe
Confidence            99999993210                                                   11 45554  78888999


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHH
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLA  557 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~  557 (607)
                      .+++.++..+|+...+..          ..+. .+..++.|+. ....+..+.|+..+.+....++.
T Consensus       370 ~~P~~~eR~~IL~~~~~~----------~~l~-~~~~l~~la~-~t~g~s~~dL~~L~~~A~~~a~r  424 (489)
T 3hu3_A          370 GIPDATGRLEILQIHTKN----------MKLA-DDVDLEQVAN-ETHGHVGADLAALCSEAALQAIR  424 (489)
T ss_dssp             CCCCHHHHHHHHHHHTTT----------SCBC-TTCCHHHHHH-TCTTCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHhc----------CCCc-chhhHHHHHH-HccCCcHHHHHHHHHHHHHHHHH
Confidence            999999999987655431          1111 2223455654 44455567788777766555543

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.17  E-value=2.6e-10  Score=109.86  Aligned_cols=195  Identities=16%  Similarity=0.192  Sum_probs=122.2

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++..++.+...+....       .|..++++||+|+|||.+++.+++.+....  ......+....   ....+..
T Consensus        24 ~~~g~~~~~~~l~~~l~~~~-------~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~--~~~~~~~~~~~---~~~~~~~   91 (250)
T 1njg_A           24 DVVGQEHVLTALANGLSLGR-------IHHAYLFSGTRGVGKTSIARLLAKGLNCET--GITATPCGVCD---NCREIEQ   91 (250)
T ss_dssp             GCCSCHHHHHHHHHHHHHTC-------CCSEEEEECSTTSCHHHHHHHHHHHHHCTT--CSCSSCCSCSH---HHHHHHT
T ss_pred             HHhCcHHHHHHHHHHHHcCC-------CCeEEEEECCCCCCHHHHHHHHHHHhcCCC--CCCCCCCcccH---HHHHHhc
Confidence            58899999998888876532       133789999999999999999998875421  11100111000   0000000


Q ss_pred             -CCCCCccC-----CCCchhhHHHhh-------CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEE
Q psy1308         349 -APPGYLGH-----DDGGQLTKRLKK-------CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFV  415 (607)
Q Consensus       349 -~~~g~~g~-----~~~~~l~~~~~~-------~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI  415 (607)
                       ..+.....     .....+...++.       ....+|+|||++.++++.++.|++.+++.           ..++++|
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~-----------~~~~~~i  160 (250)
T 1njg_A           92 GRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEP-----------PEHVKFL  160 (250)
T ss_dssp             TCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSC-----------CTTEEEE
T ss_pred             cCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcC-----------CCceEEE
Confidence             00000000     000112222222       23589999999999999999999999742           2467888


Q ss_pred             EecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCH
Q psy1308         416 MTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSK  495 (607)
Q Consensus       416 ~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~  495 (607)
                      ++|+...                                                   .+. +.+.+|+ ..+.+.|++.
T Consensus       161 ~~t~~~~---------------------------------------------------~~~-~~l~~r~-~~i~l~~l~~  187 (250)
T 1njg_A          161 LATTDPQ---------------------------------------------------KLP-VTILSRC-LQFHLKALDV  187 (250)
T ss_dssp             EEESCGG---------------------------------------------------GSC-HHHHTTS-EEEECCCCCH
T ss_pred             EEeCChH---------------------------------------------------hCC-HHHHHHh-hhccCCCCCH
Confidence            8887210                                                   022 5666775 5788999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         496 SELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       496 ~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      +++.+++...+..        .+  +.+++++++.|++ +. .++.|.+.+.+++.
T Consensus       188 ~e~~~~l~~~~~~--------~~--~~~~~~~~~~l~~-~~-~G~~~~~~~~~~~~  231 (250)
T 1njg_A          188 EQIRHQLEHILNE--------EH--IAHEPRALQLLAR-AA-EGSLRDALSLTDQA  231 (250)
T ss_dssp             HHHHHHHHHHHHH--------TT--CCBCHHHHHHHHH-HH-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--------cC--CCCCHHHHHHHHH-Hc-CCCHHHHHHHHHHH
Confidence            9999987766542        12  3578899988875 32 56788888777654

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.17  E-value=1.4e-10  Score=113.31  Aligned_cols=200  Identities=17%  Similarity=0.218  Sum_probs=122.7

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCC--CC--CCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKENG--WT--DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~--~~--~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..++|++.+++.+...+......  +.  ....|..++++||+|+|||.+++.++..+.    .+++.++++.+...   
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~----~~~~~i~~~~~~~~---   84 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK----VPFFTISGSDFVEM---   84 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT----CCEEEECSCSSTTS---
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcC----CCEEEEeHHHHHHH---
Confidence            35788888888887665432210  11  112244789999999999999999998874    35888888765321   


Q ss_pred             HhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCH--------------HHHHHHHHhhccceeecCCCcEEec
Q psy1308         344 AKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHP--------------DVLTVLLQLFDEGRLTDGKGKTIEC  409 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~--------------~~~~~Ll~~~~~~~~~~~~g~~~~~  409 (607)
                        ++|...     ..-..+.........+++||||||.+.+              ..++.++..++.-.         ..
T Consensus        85 --~~~~~~-----~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~  148 (257)
T 1lv7_A           85 --FVGVGA-----SRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFE---------GN  148 (257)
T ss_dssp             --CCCCCH-----HHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCC---------SS
T ss_pred             --hhhhhH-----HHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcc---------cC
Confidence              111100     0001122233334568999999987643              35566776665311         12


Q ss_pred             CceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--cccce
Q psy1308         410 KDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RINEI  487 (607)
Q Consensus       410 ~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~~i  487 (607)
                      .++++|+|||....                                                   +. +.++.  |++..
T Consensus       149 ~~~~vI~~tn~~~~---------------------------------------------------l~-~~l~r~~rf~~~  176 (257)
T 1lv7_A          149 EGIIVIAATNRPDV---------------------------------------------------LD-PALLRPGRFDRQ  176 (257)
T ss_dssp             SCEEEEEEESCTTT---------------------------------------------------SC-GGGGSTTSSCEE
T ss_pred             CCEEEEEeeCCchh---------------------------------------------------CC-HHHcCCCcCCeE
Confidence            46789999993210                                                   11 33433  78888


Q ss_pred             eeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCC-CccchhHHHHHHHHHHH
Q psy1308         488 VYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHY-GARSIKHEVERQVVSQL  556 (607)
Q Consensus       488 v~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~-GaR~L~~~i~~~i~~~l  556 (607)
                      +.+.+++.++..+|+...+..        .    .+++++ ...++  +.|++ ++|.|++.+++....+.
T Consensus       177 i~i~~P~~~~r~~il~~~~~~--------~----~l~~~~~~~~la--~~~~G~~~~dl~~l~~~a~~~a~  233 (257)
T 1lv7_A          177 VVVGLPDVRGREQILKVHMRR--------V----PLAPDIDAAIIA--RGTPGFSGADLANLVNEAALFAA  233 (257)
T ss_dssp             EECCCCCHHHHHHHHHHHHTT--------S----CBCTTCCHHHHH--HTCTTCCHHHHHHHHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHHHHhc--------C----CCCccccHHHHH--HHcCCCCHHHHHHHHHHHHHHHH
Confidence            888888988888887655431        1    133343 45555  45665 99999999988766543

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.16  E-value=1.2e-10  Score=120.89  Aligned_cols=210  Identities=20%  Similarity=0.221  Sum_probs=134.9

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccC------c-CCceEEeeccccc-c
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRD------K-KEAFIRLDMSEYQ-E  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~------~-~~~~~~l~~a~~~-~  339 (607)
                      ..++|++..++.+...+.....+    ..|..++++||+|+|||.+++.+++.+...      . ...++.++|.... .
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~----~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~   95 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKN----EVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGT   95 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTT----CCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSC
T ss_pred             CCCCChHHHHHHHHHHHHHHHcC----CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCC
Confidence            46899999999998888776543    224489999999999999999999887332      1 3457888877654 2


Q ss_pred             cch-----hHhhhcCCCCCccCCCCchh---hHHHhhCCCeEEEEecCCccCHHH-HHH-HHHhhccceeecCCCcEEec
Q psy1308         340 KHE-----VAKLIGAPPGYLGHDDGGQL---TKRLKKCPNAVVLFDEVDKAHPDV-LTV-LLQLFDEGRLTDGKGKTIEC  409 (607)
Q Consensus       340 ~~~-----~~~llg~~~g~~g~~~~~~l---~~~~~~~~~~vl~lDEiek~~~~~-~~~-Ll~~~~~~~~~~~~g~~~~~  409 (607)
                      ...     ...+.|...++.|......+   ...+... ..+|+|||++.+...- ++. |..+++..            
T Consensus        96 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~-~~vlilDEi~~l~~~~~~~~~l~~l~~~~------------  162 (384)
T 2qby_B           96 PQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNI-RAIIYLDEVDTLVKRRGGDIVLYQLLRSD------------  162 (384)
T ss_dssp             HHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSS-CEEEEEETTHHHHHSTTSHHHHHHHHTSS------------
T ss_pred             HHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccC-CCEEEEECHHHhccCCCCceeHHHHhcCC------------
Confidence            211     23344555544443222222   2222222 3399999999987542 455 44444421            


Q ss_pred             CceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceee
Q psy1308         410 KDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVY  489 (607)
Q Consensus       410 ~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~  489 (607)
                      .+++||+|||....                                                ...+. +.+.+|+...+.
T Consensus       163 ~~~~iI~~t~~~~~------------------------------------------------~~~l~-~~l~sr~~~~i~  193 (384)
T 2qby_B          163 ANISVIMISNDINV------------------------------------------------RDYME-PRVLSSLGPSVI  193 (384)
T ss_dssp             SCEEEEEECSSTTT------------------------------------------------TTTSC-HHHHHTCCCEEE
T ss_pred             cceEEEEEECCCch------------------------------------------------HhhhC-HHHHhcCCCeEE
Confidence            57789999982110                                                01122 677788877999


Q ss_pred             eccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHH
Q psy1308         490 FLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       490 f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~  551 (607)
                      |.|++.+++.+|+...+..   .+ .    ...+++++++.+++ ....++++|.+.+.+++.
T Consensus       194 l~~l~~~~~~~il~~~~~~---~~-~----~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a  248 (384)
T 2qby_B          194 FKPYDAEQLKFILSKYAEY---GL-I----KGTYDDEILSYIAAISAKEHGDARKAVNLLFRA  248 (384)
T ss_dssp             ECCCCHHHHHHHHHHHHHH---TS-C----TTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHH
T ss_pred             ECCCCHHHHHHHHHHHHHh---hc-c----cCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            9999999999998877642   01 0    12467888888875 222357788776666554

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=99.15  E-value=9.1e-11  Score=118.81  Aligned_cols=174  Identities=14%  Similarity=0.180  Sum_probs=116.1

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      +.+++++||+|+|||.+++.++..+... ..+++.+++..+.... ...+..        .....+...+.  ..++|||
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~~~~~-~~~~~~i~~~~~~~~~-~~~~~~--------~~~~~~~~~~~--~~~vL~i  104 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNEAKKR-GYRVIYSSADDFAQAM-VEHLKK--------GTINEFRNMYK--SVDLLLL  104 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHT-TCCEEEEEHHHHHHHH-HHHHHH--------TCHHHHHHHHH--TCSEEEE
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHC-CCEEEEEEHHHHHHHH-HHHHHc--------CcHHHHHHHhc--CCCEEEE
Confidence            3478999999999999999999988654 4568888876652211 111110        00111222222  3679999


Q ss_pred             ecCCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCc
Q psy1308         377 DEVDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNL  454 (607)
Q Consensus       377 DEiek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  454 (607)
                      ||++.++.  ..|..|+.+++.-.  +        .+..+|++|+.....+                             
T Consensus       105 DEi~~l~~~~~~~~~l~~~l~~~~--~--------~~~~iii~~~~~~~~l-----------------------------  145 (324)
T 1l8q_A          105 DDVQFLSGKERTQIEFFHIFNTLY--L--------LEKQIILASDRHPQKL-----------------------------  145 (324)
T ss_dssp             ECGGGGTTCHHHHHHHHHHHHHHH--H--------TTCEEEEEESSCGGGC-----------------------------
T ss_pred             cCcccccCChHHHHHHHHHHHHHH--H--------CCCeEEEEecCChHHH-----------------------------
Confidence            99999886  77888888776321  1        1234566655222110                             


Q ss_pred             chhcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         455 DVTISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       455 ~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                                        ..+. +.|.+|+.  .++.+.| +.++...|+...+..        .+  +.++++++++|+
T Consensus       146 ------------------~~l~-~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~--------~~--~~l~~~~l~~l~  195 (324)
T 1l8q_A          146 ------------------DGVS-DRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKE--------FN--LELRKEVIDYLL  195 (324)
T ss_dssp             ------------------TTSC-HHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHH--------TT--CCCCHHHHHHHH
T ss_pred             ------------------HHhh-hHhhhcccCceEEEeCC-CHHHHHHHHHHHHHh--------cC--CCCCHHHHHHHH
Confidence                              0133 78888886  5788999 999999998776642        23  368899999998


Q ss_pred             ccCCCCCCccchhHHHHHHHHH
Q psy1308         533 DGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       533 ~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      . +.  +++|.+.+.+++.+..
T Consensus       196 ~-~~--g~~r~l~~~l~~~~~~  214 (324)
T 1l8q_A          196 E-NT--KNVREIEGKIKLIKLK  214 (324)
T ss_dssp             H-HC--SSHHHHHHHHHHHHHH
T ss_pred             H-hC--CCHHHHHHHHHHHHHc
Confidence            6 54  8999999999876654

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=99.14  E-value=4e-10  Score=118.48  Aligned_cols=198  Identities=20%  Similarity=0.237  Sum_probs=124.6

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCC----CCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         269 RIVGQESAINIISAAIKRKENG----WTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~----~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      .++|++.+++.+...+......    ......|..++|+||+|+|||.+++.++....    .+|+.++++.+...    
T Consensus        17 di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~----~~f~~is~~~~~~~----   88 (476)
T 2ce7_A           17 DVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEAN----VPFFHISGSDFVEL----   88 (476)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHT----CCEEEEEGGGTTTC----
T ss_pred             HhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcC----CCeeeCCHHHHHHH----
Confidence            5889999988887776543211    00112244689999999999999999998763    46888888766431    


Q ss_pred             hhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCH--------------HHHHHHHHhhccceeecCCCcEEecC
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHP--------------DVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~--------------~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                       +.|.     +......+.........+||||||||.+.+              .+++.|+..++.-  .       ...
T Consensus        89 -~~g~-----~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~--~-------~~~  153 (476)
T 2ce7_A           89 -FVGV-----GAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGF--D-------SKE  153 (476)
T ss_dssp             -CTTH-----HHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHS--C-------GGG
T ss_pred             -Hhcc-----cHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhcc--C-------CCC
Confidence             1110     000011223334445678999999998754              3567777777621  0       124


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--cccccee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRINEIV  488 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~~iv  488 (607)
                      +++||++||....                                                   +. |.++  +||+..+
T Consensus       154 ~viVIaaTn~~~~---------------------------------------------------Ld-~allR~gRFd~~i  181 (476)
T 2ce7_A          154 GIIVMAATNRPDI---------------------------------------------------LD-PALLRPGRFDKKI  181 (476)
T ss_dssp             TEEEEEEESCGGG---------------------------------------------------SC-GGGGSTTSSCEEE
T ss_pred             CEEEEEecCChhh---------------------------------------------------hc-hhhcccCcceeEe
Confidence            7889999993210                                                   11 3444  4888888


Q ss_pred             eeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCCc-cchhHHHHHHHHHH
Q psy1308         489 YFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGA-RSIKHEVERQVVSQ  555 (607)
Q Consensus       489 ~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~Ga-R~L~~~i~~~i~~~  555 (607)
                      .+.+++.++..+|++..+..        ..    +++++ ++.|+  ..|++.. |.|++.+.+.....
T Consensus       182 ~i~~Pd~~~R~~Il~~~~~~--------~~----l~~~v~l~~la--~~t~G~sgadL~~lv~~Aal~A  236 (476)
T 2ce7_A          182 VVDPPDMLGRKKILEIHTRN--------KP----LAEDVNLEIIA--KRTPGFVGADLENLVNEAALLA  236 (476)
T ss_dssp             ECCCCCHHHHHHHHHHHHTT--------SC----BCTTCCHHHHH--HTCTTCCHHHHHHHHHHHHHHH
T ss_pred             ecCCCCHHHHHHHHHHHHHh--------CC----CcchhhHHHHH--HhcCCCcHHHHHHHHHHHHHHH
Confidence            88888998888887654431        11    23333 56665  3455555 88998888765543

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=99.11  E-value=1.3e-09  Score=112.51  Aligned_cols=196  Identities=17%  Similarity=0.210  Sum_probs=125.6

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh-
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI-  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll-  347 (607)
                      .++|++..++.+...+.....       |-.++|+||+|+|||.+++.+++.+....  +.....|....   ....+. 
T Consensus        17 ~~vg~~~~~~~L~~~l~~~~~-------~~~~ll~G~~G~GKT~la~~la~~l~~~~--~~~~~~~~~~~---~~~~~~~   84 (373)
T 1jr3_A           17 DVVGQEHVLTALANGLSLGRI-------HHAYLFSGTRGVGKTSIARLLAKGLNCET--GITATPCGVCD---NCREIEQ   84 (373)
T ss_dssp             TSCSCHHHHHHHHHHHHHTCC-------CSEEEEESCTTSSHHHHHHHHHHHHSCTT--CSCSSCCSSSH---HHHHHHT
T ss_pred             hccCcHHHHHHHHHHHHhCCC-------CeEEEEECCCCCCHHHHHHHHHHHhCCCC--CCCCCCCcccH---HHHHHhc
Confidence            488999999999888865321       23689999999999999999999875431  11111111110   011110 


Q ss_pred             cCCCC--------CccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEE
Q psy1308         348 GAPPG--------YLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFV  415 (607)
Q Consensus       348 g~~~g--------~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI  415 (607)
                      +..+.        ..+.+.-..+...+..    ..+.+++|||++.++++.++.|++.+++.           ..+++||
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~-----------~~~~~~I  153 (373)
T 1jr3_A           85 GRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEP-----------PEHVKFL  153 (373)
T ss_dssp             SCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSC-----------CSSEEEE
T ss_pred             cCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcC-----------CCceEEE
Confidence            00000        1111111122222222    23679999999999999999999999852           2467888


Q ss_pred             EecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCH
Q psy1308         416 MTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSK  495 (607)
Q Consensus       416 ~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~  495 (607)
                      ++|+...                                                   .+. +.+.+|+ ..+.|.|++.
T Consensus       154 l~~~~~~---------------------------------------------------~l~-~~l~sr~-~~i~~~~l~~  180 (373)
T 1jr3_A          154 LATTDPQ---------------------------------------------------KLP-VTILSRC-LQFHLKALDV  180 (373)
T ss_dssp             EEESCGG---------------------------------------------------GSC-HHHHTTS-EEEECCCCCH
T ss_pred             EEeCChH---------------------------------------------------hCc-HHHHhhe-eEeeCCCCCH
Confidence            8877210                                                   122 6677787 6789999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         496 SELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       496 ~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      +++.+++...+...        +  +.+++++++.|+. +. .++.|.+.+.+++.+
T Consensus       181 ~~~~~~l~~~~~~~--------~--~~~~~~a~~~l~~-~~-~G~~r~~~~~l~~~~  225 (373)
T 1jr3_A          181 EQIRHQLEHILNEE--------H--IAHEPRALQLLAR-AA-EGSLRDALSLTDQAI  225 (373)
T ss_dssp             HHHHHHHHHHHHHH--------T--CCBCHHHHHHHHH-HS-SSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc--------C--CCCCHHHHHHHHH-HC-CCCHHHHHHHHHHHH
Confidence            99998887765421        2  3578999998875 32 677888887777653

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.10  E-value=2.9e-10  Score=117.89  Aligned_cols=218  Identities=17%  Similarity=0.187  Sum_probs=137.1

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-----CCceEEeecccccccch-
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-----KEAFIRLDMSEYQEKHE-  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-----~~~~~~l~~a~~~~~~~-  342 (607)
                      .++|++..++.+...+.....+    ..+..++++||+|+|||.+++.+++.+....     ...++.+++........ 
T Consensus        20 ~~~gr~~~~~~l~~~l~~~~~~----~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   95 (387)
T 2v1u_A           20 VLPHREAELRRLAEVLAPALRG----EKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRV   95 (387)
T ss_dssp             CCTTCHHHHHHHHHTTGGGTSS----CCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcC----CCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHH
Confidence            5889999999888777554222    2244789999999999999999998874321     34678888876554332 


Q ss_pred             ---hHhhhcCCCCCccCCCCc---hhhHHHhhC-CCeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceE
Q psy1308         343 ---VAKLIGAPPGYLGHDDGG---QLTKRLKKC-PNAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAI  413 (607)
Q Consensus       343 ---~~~llg~~~g~~g~~~~~---~l~~~~~~~-~~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~  413 (607)
                         +...+|......|.....   .+...+... ...+|+|||++.+...  .++.|..+++.......      ..+++
T Consensus        96 ~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~------~~~~~  169 (387)
T 2v1u_A           96 ASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGD------RVWVS  169 (387)
T ss_dssp             HHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----------CE
T ss_pred             HHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCC------CceEE
Confidence               223334332233321111   122222222 2569999999999876  77777777653211000      24678


Q ss_pred             EEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccc-eeeecc
Q psy1308         414 FVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE-IVYFLP  492 (607)
Q Consensus       414 iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~-iv~f~p  492 (607)
                      +|++||...                                                +...+. +.+.+|+.. .+.|.|
T Consensus       170 ~I~~t~~~~------------------------------------------------~~~~l~-~~l~~r~~~~~i~l~~  200 (387)
T 2v1u_A          170 LVGITNSLG------------------------------------------------FVENLE-PRVKSSLGEVELVFPP  200 (387)
T ss_dssp             EEEECSCST------------------------------------------------TSSSSC-HHHHTTTTSEECCBCC
T ss_pred             EEEEECCCc------------------------------------------------hHhhhC-HHHHhcCCCeEEeeCC
Confidence            999988320                                                001132 677788875 789999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHH
Q psy1308         493 FSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       493 l~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~  553 (607)
                      ++.+++.+|+...+...   + .    ...+++++++.++. ....++++|.+.+.+++...
T Consensus       201 l~~~~~~~il~~~~~~~---~-~----~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~  254 (387)
T 2v1u_A          201 YTAPQLRDILETRAEEA---F-N----PGVLDPDVVPLCAALAAREHGDARRALDLLRVAGE  254 (387)
T ss_dssp             CCHHHHHHHHHHHHHHH---B-C----TTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhh---c-c----CCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            99999999988777421   1 0    12468889998875 22336888888888776543

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.10  E-value=2.7e-10  Score=115.12  Aligned_cols=191  Identities=16%  Similarity=0.229  Sum_probs=127.6

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      .++|++..++.+...+....       .| +++|+||+|+|||.+++.+++.+.... ...++.++++...+...+..++
T Consensus        22 ~~~g~~~~~~~l~~~l~~~~-------~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~~   93 (323)
T 1sxj_B           22 DIVGNKETIDRLQQIAKDGN-------MP-HMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQI   93 (323)
T ss_dssp             GCCSCTHHHHHHHHHHHSCC-------CC-CEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHH
T ss_pred             HHHCCHHHHHHHHHHHHcCC-------CC-eEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHHHHHH
Confidence            58899999998888775421       12 489999999999999999999874421 2346666665533222222222


Q ss_pred             cCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ..-..     .    ...+....+.+++|||++.++++.++.|++++++.           ..+++||++||...     
T Consensus        94 ~~~~~-----~----~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~-----------~~~~~~il~~~~~~-----  148 (323)
T 1sxj_B           94 KHFAQ-----K----KLHLPPGKHKIVILDEADSMTAGAQQALRRTMELY-----------SNSTRFAFACNQSN-----  148 (323)
T ss_dssp             HHHHH-----B----CCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHT-----------TTTEEEEEEESCGG-----
T ss_pred             HHHHh-----c----cccCCCCCceEEEEECcccCCHHHHHHHHHHHhcc-----------CCCceEEEEeCChh-----
Confidence            10000     0    00000223679999999999999999999999853           14677888887210     


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELN  507 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~  507 (607)
                                                                    .+. +.+.+|+. ++.|.|++.+++.+++...+.
T Consensus       149 ----------------------------------------------~l~-~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~  180 (323)
T 1sxj_B          149 ----------------------------------------------KII-EPLQSQCA-ILRYSKLSDEDVLKRLLQIIK  180 (323)
T ss_dssp             ----------------------------------------------GSC-HHHHTTSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             ----------------------------------------------hch-hHHHhhce-EEeecCCCHHHHHHHHHHHHH
Confidence                                                          122 67778875 789999999999998776654


Q ss_pred             HHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHH
Q psy1308         508 FWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       508 ~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i  552 (607)
                      .       . +  +.+++++++.|+. + ..++.|.+.+.++...
T Consensus       181 ~-------~-~--~~~~~~~~~~l~~-~-~~G~~r~a~~~l~~~~  213 (323)
T 1sxj_B          181 L-------E-D--VKYTNDGLEAIIF-T-AEGDMRQAINNLQSTV  213 (323)
T ss_dssp             H-------H-T--CCBCHHHHHHHHH-H-HTTCHHHHHHHHHHHH
T ss_pred             H-------c-C--CCCCHHHHHHHHH-H-cCCCHHHHHHHHHHHH
Confidence            2       1 2  2478999998875 2 2567787777777654

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=99.07  E-value=2.9e-10  Score=109.54  Aligned_cols=169  Identities=13%  Similarity=0.168  Sum_probs=115.0

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      +..++++||+|+|||.+++.+++.+... ...+..++++.+....  .+.+                ..+  ...++|+|
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~~~~~~-~~~~~~~~~~~~~~~~--~~~~----------------~~~--~~~~vlii  110 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACARANEL-ERRSFYIPLGIHASIS--TALL----------------EGL--EQFDLICI  110 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHT-TCCEEEEEGGGGGGSC--GGGG----------------TTG--GGSSEEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEEEHHHHHHHH--HHHH----------------Hhc--cCCCEEEE
Confidence            3478999999999999999999988654 4556777776543211  1111                111  23579999


Q ss_pred             ecCCccCHHH--HHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCc
Q psy1308         377 DEVDKAHPDV--LTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNL  454 (607)
Q Consensus       377 DEiek~~~~~--~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  454 (607)
                      ||++.++...  ++.|+.+++.-.         ......+|++|+.....+                             
T Consensus       111 De~~~~~~~~~~~~~l~~~l~~~~---------~~~~~~ii~~~~~~~~~~-----------------------------  152 (242)
T 3bos_A          111 DDVDAVAGHPLWEEAIFDLYNRVA---------EQKRGSLIVSASASPMEA-----------------------------  152 (242)
T ss_dssp             ETGGGGTTCHHHHHHHHHHHHHHH---------HHCSCEEEEEESSCTTTT-----------------------------
T ss_pred             eccccccCCHHHHHHHHHHHHHHH---------HcCCCeEEEEcCCCHHHH-----------------------------
Confidence            9999998766  888888876321         111234677776322110                             


Q ss_pred             chhcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         455 DVTISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       455 ~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                                        ..+. +.+.+|+.  .++.|.|++.+++.+++...+..        .+  +.++++++++|+
T Consensus       153 ------------------~~~~-~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~--------~~--~~~~~~~~~~l~  203 (242)
T 3bos_A          153 ------------------GFVL-PDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAM--------RG--LQLPEDVGRFLL  203 (242)
T ss_dssp             ------------------TCCC-HHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHH--------TT--CCCCHHHHHHHH
T ss_pred             ------------------HHhh-hhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHH--------cC--CCCCHHHHHHHH
Confidence                              0011 66777775  78899999999999988776642        23  357899999998


Q ss_pred             ccCCCCCCccchhHHHHHHHHHH
Q psy1308         533 DGYDVHYGARSIKHEVERQVVSQ  555 (607)
Q Consensus       533 ~~~~~~~GaR~L~~~i~~~i~~~  555 (607)
                      . + ++++.|.+.+.+++.....
T Consensus       204 ~-~-~~g~~r~l~~~l~~~~~~a  224 (242)
T 3bos_A          204 N-R-MARDLRTLFDVLDRLDKAS  224 (242)
T ss_dssp             H-H-TTTCHHHHHHHHHHHHHHH
T ss_pred             H-H-ccCCHHHHHHHHHHHHHHH
Confidence            5 3 4789999999998766544

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=99.04  E-value=7e-11  Score=116.20  Aligned_cols=199  Identities=18%  Similarity=0.192  Sum_probs=115.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCC--C--CCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         269 RIVGQESAINIISAAIKRKENG--W--TDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~--~--~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      .++|++.+++.+...+......  +  .....|..++|+||+|+|||.+++.++..+..    +++.++++.+...    
T Consensus        12 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~----~~~~v~~~~~~~~----   83 (268)
T 2r62_A           12 DMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV----PFFSMGGSSFIEM----   83 (268)
T ss_dssp             TSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTC----CCCCCCSCTTTTS----
T ss_pred             HhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCC----CEEEechHHHHHh----
Confidence            4677777777776655432100  0  00111335889999999999999999998743    4777777655321    


Q ss_pred             hhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHH---------------HHHHHHHhhccceeecCCCcEEec
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPD---------------VLTVLLQLFDEGRLTDGKGKTIEC  409 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~---------------~~~~Ll~~~~~~~~~~~~g~~~~~  409 (607)
                       +.|...     ..-..+.........++|||||+|.+.+.               .++.|+..++.-.        ...
T Consensus        84 -~~~~~~-----~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~  149 (268)
T 2r62_A           84 -FVGLGA-----SRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFG--------SEN  149 (268)
T ss_dssp             -CSSSCS-----SSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSS--------CSC
T ss_pred             -hcchHH-----HHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcc--------cCC
Confidence             222111     11123344445556789999999998764               3455555554210        122


Q ss_pred             CceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--cccce
Q psy1308         410 KDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RINEI  487 (607)
Q Consensus       410 ~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~~i  487 (607)
                      .++++|+|||....                                                   +. +.+..  |++..
T Consensus       150 ~~v~vi~ttn~~~~---------------------------------------------------ld-~~l~r~~Rf~~~  177 (268)
T 2r62_A          150 APVIVLAATNRPEI---------------------------------------------------LD-PALMRPGRFDRQ  177 (268)
T ss_dssp             SCCEEEECBSCCTT---------------------------------------------------SC-GGGGSSSSSCCC
T ss_pred             CCEEEEEecCCchh---------------------------------------------------cC-HhHcCCCCCCeE
Confidence            45789999993210                                                   11 44555  88888


Q ss_pred             eeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         488 VYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       488 v~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      +.+.+++.++..+|+...+..        ....   ++..++.|+. ....+..|.|++.+++...
T Consensus       178 i~i~~p~~~~r~~il~~~~~~--------~~~~---~~~~~~~la~-~~~g~~g~dl~~l~~~a~~  231 (268)
T 2r62_A          178 VLVDKPDFNGRVEILKVHIKG--------VKLA---NDVNLQEVAK-LTAGLAGADLANIINEAAL  231 (268)
T ss_dssp             CBCCCCCTTTHHHHHHHHTSS--------SCCC---SSCCTTTTTS-SSCSSCHHHHHHHHHHHHH
T ss_pred             EEecCcCHHHHHHHHHHHHhc--------CCCC---CccCHHHHHH-HcCCCCHHHHHHHHHHHHH
Confidence            889999999998887654431        1111   2222445554 2222223777777766543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.00  E-value=7.4e-10  Score=117.54  Aligned_cols=195  Identities=15%  Similarity=0.218  Sum_probs=114.7

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~  342 (607)
                      .++|++..++.+...+.+..        +.+++|+||+|+|||.+++.++..+...+      ..+++.++++       
T Consensus       181 ~iiGr~~~i~~l~~~l~r~~--------~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~-------  245 (468)
T 3pxg_A          181 PVIGRSKEIQRVIEVLSRRT--------KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG-------  245 (468)
T ss_dssp             CCCCCHHHHHHHHHHHHCSS--------SCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------
T ss_pred             CccCcHHHHHHHHHHHhccC--------CCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC-------
Confidence            48999999999888876522        23678999999999999999999875421      3457777776       


Q ss_pred             hHhhhcCCCCCccCC--CCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         343 VAKLIGAPPGYLGHD--DGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       343 ~~~llg~~~g~~g~~--~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                       .       .|.|.-  .-..+...+....++|+|+|    ...+.++.|++.++.|             ++++|++||.
T Consensus       246 -~-------~~~g~~e~~~~~~~~~~~~~~~~iLfiD----~~~~a~~~L~~~L~~g-------------~v~vI~at~~  300 (468)
T 3pxg_A          246 -T-------KYRGEFEDRLKKVMDEIRQAGNIILFID----AAIDASNILKPSLARG-------------ELQCIGATTL  300 (468)
T ss_dssp             ---------------CTTHHHHHHHHHTCCCCEEEEC----C--------CCCTTSS-------------SCEEEEECCT
T ss_pred             -c-------cccchHHHHHHHHHHHHHhcCCeEEEEe----CchhHHHHHHHhhcCC-------------CEEEEecCCH
Confidence             1       122211  11234455566678899999    6778889999998754             4678999884


Q ss_pred             chHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHH
Q psy1308         421 ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT  500 (607)
Q Consensus       421 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~  500 (607)
                      ..-.  +                                     .       -.. .|.|.+||+ ++.+.+++.++...
T Consensus       301 ~e~~--~-------------------------------------~-------~~~-~~al~~Rf~-~i~v~~p~~e~~~~  332 (468)
T 3pxg_A          301 DEYR--K-------------------------------------Y-------IEK-DAALERRFQ-PIQVDQPSVDESIQ  332 (468)
T ss_dssp             TTTH--H-------------------------------------H-------HTT-CSHHHHSEE-EEECCCCCHHHHHH
T ss_pred             HHHH--H-------------------------------------H-------hhc-CHHHHHhCc-cceeCCCCHHHHHH
Confidence            3210  0                                     0       001 278888996 58888899999999


Q ss_pred             HHHHHHHHHH---------------HHHhhcCCcEEEeCHhHHHHHH--------ccCCCCCCccchhHHHHHH
Q psy1308         501 LVCRELNFWA---------------KKALDKHNINIVWDIDVETILA--------DGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       501 i~~~~l~~~~---------------~~~~~~~~i~l~~~~~a~~~L~--------~~~~~~~GaR~L~~~i~~~  551 (607)
                      |+...+..+.               .++..++-....+++.+++.|.        ..+.++...+.|++.+++.
T Consensus       333 iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~ll~~a~~~~~~~~~~~p~~i~~l~~~i~~l  406 (468)
T 3pxg_A          333 ILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAGSKVRLRSFTTPPNLKELEQKLDEV  406 (468)
T ss_dssp             HHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHHHHHHHHTTSCCSSTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHHHHHHHHHHHHhccCCCchHHHHHHHHHHHH
Confidence            9875443211               0111111111223334444431        1355778888888888763

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.98  E-value=1.2e-09  Score=111.35  Aligned_cols=173  Identities=18%  Similarity=0.259  Sum_probs=112.6

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      .++||..+++.+...+....        ..+++|+||+|+|||.+++.++..+.... ...+..++.+...+...+.+.+
T Consensus        26 ~~~g~~~~~~~L~~~i~~g~--------~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~~~ir~~i   97 (340)
T 1sxj_C           26 EVYGQNEVITTVRKFVDEGK--------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQI   97 (340)
T ss_dssp             GCCSCHHHHHHHHHHHHTTC--------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHH
T ss_pred             HhcCcHHHHHHHHHHHhcCC--------CceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccHHHHHHHH
Confidence            47899999998887776432        12489999999999999999999886431 1234555554432222222221


Q ss_pred             cCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      +....     ..     ......+.++++||++.++.+.++.|++++++..           .+++||+++|...     
T Consensus        98 ~~~~~-----~~-----~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~-----------~~~~~il~~n~~~-----  151 (340)
T 1sxj_C           98 KDFAS-----TR-----QIFSKGFKLIILDEADAMTNAAQNALRRVIERYT-----------KNTRFCVLANYAH-----  151 (340)
T ss_dssp             HHHHH-----BC-----CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTT-----------TTEEEEEEESCGG-----
T ss_pred             HHHHh-----hc-----ccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCC-----------CCeEEEEEecCcc-----
Confidence            10000     00     0001236799999999999999999999998532           4567888888210     


Q ss_pred             HHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHH
Q psy1308         428 HALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELN  507 (607)
Q Consensus       428 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~  507 (607)
                                                                    .+. |.+.+|+. .+.|.|++.+++.+++...+.
T Consensus       152 ----------------------------------------------~i~-~~i~sR~~-~~~~~~l~~~~~~~~l~~~~~  183 (340)
T 1sxj_C          152 ----------------------------------------------KLT-PALLSQCT-RFRFQPLPQEAIERRIANVLV  183 (340)
T ss_dssp             ----------------------------------------------GSC-HHHHTTSE-EEECCCCCHHHHHHHHHHHHH
T ss_pred             ----------------------------------------------ccc-hhHHhhce-eEeccCCCHHHHHHHHHHHHH
Confidence                                                          122 77888885 688999999998887765543


Q ss_pred             HHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         508 FWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       508 ~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .        .+  +.+++++.+.++.
T Consensus       184 ~--------~~--~~i~~~~~~~i~~  199 (340)
T 1sxj_C          184 H--------EK--LKLSPNAEKALIE  199 (340)
T ss_dssp             T--------TT--CCBCHHHHHHHHH
T ss_pred             H--------cC--CCCCHHHHHHHHH
Confidence            1        12  3467777777653

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=98.95  E-value=1.1e-08  Score=108.33  Aligned_cols=194  Identities=18%  Similarity=0.229  Sum_probs=122.5

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCC--CC--CCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         269 RIVGQESAINIISAAIKRKENG--WT--DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~--~~--~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      .++|++.++..+...+......  +.  ...-|..++|+||+|+|||.++++++..+.    .+|+.++++.+...    
T Consensus        32 dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~----~~~i~i~g~~~~~~----  103 (499)
T 2dhr_A           32 DVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR----VPFITASGSDFVEM----  103 (499)
T ss_dssp             SSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT----CCEEEEEGGGGTSS----
T ss_pred             HcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC----CCEEEEehhHHHHh----
Confidence            5888888888887766543211  11  112234689999999999999999998763    56999988765431    


Q ss_pred             hhhcCCCCCccCCCCchhhHHHhhC---CCeEEEEecCCccCH--------------HHHHHHHHhhccceeecCCCcEE
Q psy1308         345 KLIGAPPGYLGHDDGGQLTKRLKKC---PNAVVLFDEVDKAHP--------------DVLTVLLQLFDEGRLTDGKGKTI  407 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~~l~~~~~~~---~~~vl~lDEiek~~~--------------~~~~~Ll~~~~~~~~~~~~g~~~  407 (607)
                              ++|.. ...+...++.+   ..+++|||||+.+.+              ..++.|+..++.+.         
T Consensus       104 --------~~g~~-~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~---------  165 (499)
T 2dhr_A          104 --------FVGVG-AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE---------  165 (499)
T ss_dssp             --------CTTHH-HHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCC---------
T ss_pred             --------hhhhH-HHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccc---------
Confidence                    11110 01122333333   348999999987642              34566666666432         


Q ss_pred             ecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--ccc
Q psy1308         408 ECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RIN  485 (607)
Q Consensus       408 ~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~  485 (607)
                      ....+++|+++|....                                                   +. |.++.  ||+
T Consensus       166 ~~~~viviAatn~p~~---------------------------------------------------LD-~aLlr~gRfd  193 (499)
T 2dhr_A          166 KDTAIVVMAATNRPDI---------------------------------------------------LD-PALLRPGRFD  193 (499)
T ss_dssp             SSCCCEEEECCSCGGG---------------------------------------------------SC-TTTSSTTSSC
T ss_pred             cCccEEEEEecCChhh---------------------------------------------------cC-cccccccccc
Confidence            1245788888883100                                                   11 44444  788


Q ss_pred             ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCCc-cchhHHHHHHHHH
Q psy1308         486 EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGA-RSIKHEVERQVVS  554 (607)
Q Consensus       486 ~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~Ga-R~L~~~i~~~i~~  554 (607)
                      ..+.+.+++.++..+|+...+.          +  +.+++++ +..|+  +.|+++. |.|++.+.+....
T Consensus       194 r~i~i~~Pd~~~R~~IL~~~~~----------~--~~l~~dv~l~~lA--~~t~G~~gadL~~lv~~Aa~~  250 (499)
T 2dhr_A          194 RQIAIDAPDVKGREQILRIHAR----------G--KPLAEDVDLALLA--KRTPGFVGADLENLLNEAALL  250 (499)
T ss_dssp             CEEECCCCCHHHHHHHHHHTTS----------S--SCCCCSSTTHHHH--TTSCSCCHHHHHHHHHHHHHH
T ss_pred             eEEecCCCCHHHHHHHHHHHHh----------c--CCCChHHHHHHHH--HhcCCCCHHHHHHHHHHHHHH
Confidence            8888888899988888754321          1  1344454 56665  5677776 9999999876553

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.94  E-value=2e-09  Score=110.26  Aligned_cols=195  Identities=16%  Similarity=0.194  Sum_probs=116.1

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc----------
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ----------  338 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~----------  338 (607)
                      .++||+.+++.+...+.      .....| +++|+||+|+|||.+++.++..+...+ .+.+.++...+.          
T Consensus        15 ~~vg~~~~~~~l~~~~~------~~~~~~-~~ll~Gp~G~GKTtl~~~la~~l~~~~-~g~i~~~~~~~~~~~~~~~~~~   86 (354)
T 1sxj_E           15 ALSHNEELTNFLKSLSD------QPRDLP-HLLLYGPNGTGKKTRCMALLESIFGPG-VYRLKIDVRQFVTASNRKLELN   86 (354)
T ss_dssp             GCCSCHHHHHHHHTTTT------CTTCCC-CEEEECSTTSSHHHHHHTHHHHHSCTT-CCC------------------C
T ss_pred             HhcCCHHHHHHHHHHHh------hCCCCC-eEEEECCCCCCHHHHHHHHHHHHcCCC-CCeEEecceeecccccccceee
Confidence            47889888877655541      111123 389999999999999999999664431 111111100000          


Q ss_pred             ---ccchhHhhhcCCCCCccCCCCchhhHHHh-----------------hCCCeEEEEecCCccCHHHHHHHHHhhccce
Q psy1308         339 ---EKHEVAKLIGAPPGYLGHDDGGQLTKRLK-----------------KCPNAVVLFDEVDKAHPDVLTVLLQLFDEGR  398 (607)
Q Consensus       339 ---~~~~~~~llg~~~g~~g~~~~~~l~~~~~-----------------~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~  398 (607)
                         ... ...+....   .+......+.+.+.                 ..++.+++|||++.+++..++.|++.+++. 
T Consensus        87 ~~~~~~-~~~~~~~~---~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~-  161 (354)
T 1sxj_E           87 VVSSPY-HLEITPSD---MGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKY-  161 (354)
T ss_dssp             CEECSS-EEEECCC-------CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHS-
T ss_pred             eecccc-eEEecHhh---cCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHHHHHHHHhh-
Confidence               000 00000000   00000001111111                 124569999999999999999999999852 


Q ss_pred             eecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCCh
Q psy1308         399 LTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRD  478 (607)
Q Consensus       399 ~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~  478 (607)
                                ..++.||++|+...                                                   .+. |
T Consensus       162 ----------~~~~~~Il~t~~~~---------------------------------------------------~l~-~  179 (354)
T 1sxj_E          162 ----------SKNIRLIMVCDSMS---------------------------------------------------PII-A  179 (354)
T ss_dssp             ----------TTTEEEEEEESCSC---------------------------------------------------SSC-H
T ss_pred             ----------cCCCEEEEEeCCHH---------------------------------------------------HHH-H
Confidence                      13567888887210                                                   022 6


Q ss_pred             hhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeC-HhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         479 EFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWD-IDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       479 el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~-~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      .+.+|+ ..+.|.|++.+++.+++...+..        .+  +.++ +++++.|+. . ..++.|.+.+.+++.
T Consensus       180 ~l~sR~-~~~~~~~~~~~~~~~~l~~~~~~--------~~--~~~~~~~~l~~i~~-~-~~G~~r~a~~~l~~~  240 (354)
T 1sxj_E          180 PIKSQC-LLIRCPAPSDSEISTILSDVVTN--------ER--IQLETKDILKRIAQ-A-SNGNLRVSLLMLESM  240 (354)
T ss_dssp             HHHTTS-EEEECCCCCHHHHHHHHHHHHHH--------HT--CEECCSHHHHHHHH-H-HTTCHHHHHHHHTHH
T ss_pred             HHHhhc-eEEecCCcCHHHHHHHHHHHHHH--------cC--CCCCcHHHHHHHHH-H-cCCCHHHHHHHHHHH
Confidence            788888 77899999999988887765532        13  3578 889998875 2 257777777777653

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=98.93  E-value=5.5e-09  Score=110.63  Aligned_cols=65  Identities=28%  Similarity=0.279  Sum_probs=50.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY  337 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~  337 (607)
                      ..++||+.+++.+...+.....+..   .|..++|+||+|+|||.+|+.++..+..  ..+|+.++++..
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~---~~~~iLl~GppGtGKT~la~ala~~l~~--~~~~~~~~~~~~  101 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKM---AGRAVLLAGPPGTGKTALALAIAQELGS--KVPFCPMVGSEV  101 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCC---TTCEEEEECCTTSSHHHHHHHHHHHHCT--TSCEEEEEGGGG
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCC---CCCeEEEECCCcCCHHHHHHHHHHHhCC--CceEEEEeHHHH
Confidence            4689999999988877766655432   2347999999999999999999999853  356888777644

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=98.92  E-value=6.8e-09  Score=103.29  Aligned_cols=145  Identities=14%  Similarity=0.255  Sum_probs=98.2

Q ss_pred             hhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhcc--CcCCceEEeeccc-ccccchhHhhhc
Q psy1308         272 GQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR--DKKEAFIRLDMSE-YQEKHEVAKLIG  348 (607)
Q Consensus       272 Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~--~~~~~~~~l~~a~-~~~~~~~~~llg  348 (607)
                      ||+++++.+...++...        +.+++|+||+|+|||.+++.+++....  .....+..++.+. ..+-..+.+   
T Consensus         1 g~~~~~~~L~~~i~~~~--------~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~---   69 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSE--------GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRT---   69 (305)
T ss_dssp             ---CHHHHHHHHHHTCS--------SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHH---
T ss_pred             ChHHHHHHHHHHHHCCC--------CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHH---
Confidence            67788888887776543        237999999999999999999985311  1123455555432 111111122   


Q ss_pred             CCCCCccCCCCchhhHHHhhCC----CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHH
Q psy1308         349 APPGYLGHDDGGQLTKRLKKCP----NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNE  424 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~~~~----~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~  424 (607)
                                   +.+.+...|    +.|+++||+|.++.+.++.|++.+|+..           .+++||++|+..   
T Consensus        70 -------------li~~~~~~p~~~~~kvviIdead~lt~~a~naLLk~LEep~-----------~~t~fIl~t~~~---  122 (305)
T 2gno_A           70 -------------IKDFLNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEPP-----------EYAVIVLNTRRW---  122 (305)
T ss_dssp             -------------HHHHHTSCCSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCC-----------TTEEEEEEESCG---
T ss_pred             -------------HHHHHhhccccCCceEEEeccHHHhCHHHHHHHHHHHhCCC-----------CCeEEEEEECCh---
Confidence                         222233332    5799999999999999999999999642           577888888721   


Q ss_pred             HHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHH
Q psy1308         425 IAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCR  504 (607)
Q Consensus       425 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~  504 (607)
                                                                      ..+. |.+.+|   ++.|.|++.+++.+++..
T Consensus       123 ------------------------------------------------~kl~-~tI~SR---~~~f~~l~~~~i~~~L~~  150 (305)
T 2gno_A          123 ------------------------------------------------HYLL-PTIKSR---VFRVVVNVPKEFRDLVKE  150 (305)
T ss_dssp             ------------------------------------------------GGSC-HHHHTT---SEEEECCCCHHHHHHHHH
T ss_pred             ------------------------------------------------HhCh-HHHHce---eEeCCCCCHHHHHHHHHH
Confidence                                                            0122 788889   899999999999998877


Q ss_pred             HH
Q psy1308         505 EL  506 (607)
Q Consensus       505 ~l  506 (607)
                      .+
T Consensus       151 ~~  152 (305)
T 2gno_A          151 KI  152 (305)
T ss_dssp             HH
T ss_pred             Hh
Confidence            64

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.92  E-value=7.6e-09  Score=111.27  Aligned_cols=201  Identities=14%  Similarity=0.116  Sum_probs=123.9

Q ss_pred             hHhhhhHHHHHHHHHHHHHhh----CCCCCC-----CCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc
Q psy1308         268 DRIVGQESAINIISAAIKRKE----NGWTDD-----DHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ  338 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~----~~~~~~-----~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~  338 (607)
                      ..++|++..++.+...+....    .++..+     ..+..++|+||+|+|||.+++.+++.+.    ..++.++++...
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~----~~~i~in~s~~~  114 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----YDILEQNASDVR  114 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----CEEEEECTTSCC
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC----CCEEEEeCCCcc
Confidence            358899999999988876532    122111     1234899999999999999999999873    358888888776


Q ss_pred             ccchhHhhhcCCCCCccCCCCchhhHH----HhhCCCeEEEEecCCccCHHHH---HHHHHhhccceeecCCCcEEecCc
Q psy1308         339 EKHEVAKLIGAPPGYLGHDDGGQLTKR----LKKCPNAVVLFDEVDKAHPDVL---TVLLQLFDEGRLTDGKGKTIECKD  411 (607)
Q Consensus       339 ~~~~~~~llg~~~g~~g~~~~~~l~~~----~~~~~~~vl~lDEiek~~~~~~---~~Ll~~~~~~~~~~~~g~~~~~~~  411 (607)
                      ....+...+....+..  ...+.+...    .......+|||||++.+....+   ..|++++++.             +
T Consensus       115 ~~~~~~~~i~~~~~~~--~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~-------------~  179 (516)
T 1sxj_A          115 SKTLLNAGVKNALDNM--SVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT-------------S  179 (516)
T ss_dssp             CHHHHHHTGGGGTTBC--CSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC-------------S
T ss_pred             hHHHHHHHHHHHhccc--cHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhc-------------C
Confidence            5443333332100000  000000000    1224578999999999977544   7788888742             2


Q ss_pred             eEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeec
Q psy1308         412 AIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFL  491 (607)
Q Consensus       412 ~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~  491 (607)
                      ..||+++|....                                                 ..+  +.|.+| ...+.|.
T Consensus       180 ~~iIli~~~~~~-------------------------------------------------~~l--~~l~~r-~~~i~f~  207 (516)
T 1sxj_A          180 TPLILICNERNL-------------------------------------------------PKM--RPFDRV-CLDIQFR  207 (516)
T ss_dssp             SCEEEEESCTTS-------------------------------------------------STT--GGGTTT-SEEEECC
T ss_pred             CCEEEEEcCCCC-------------------------------------------------ccc--hhhHhc-eEEEEeC
Confidence            235555551000                                                 001  234333 4578999


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         492 PFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       492 pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      |++.+++.+++...+..       . +  +.+++++++.|++ +. .++.|.+.+.++..
T Consensus       208 ~~~~~~~~~~L~~i~~~-------~-~--~~i~~~~l~~la~-~s-~GdiR~~i~~L~~~  255 (516)
T 1sxj_A          208 RPDANSIKSRLMTIAIR-------E-K--FKLDPNVIDRLIQ-TT-RGDIRQVINLLSTI  255 (516)
T ss_dssp             CCCHHHHHHHHHHHHHH-------H-T--CCCCTTHHHHHHH-HT-TTCHHHHHHHHTHH
T ss_pred             CCCHHHHHHHHHHHHHH-------c-C--CCCCHHHHHHHHH-Hc-CCcHHHHHHHHHHH
Confidence            99999988887554431       1 2  3478999999985 32 56688888777654

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=98.91  E-value=2.1e-09  Score=110.46  Aligned_cols=142  Identities=13%  Similarity=0.161  Sum_probs=95.3

Q ss_pred             ccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHH-HHHhccCcCCceEEeeccccc
Q psy1308         260 YPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQL-AFYIHRDKKEAFIRLDMSEYQ  338 (607)
Q Consensus       260 ~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~l-a~~l~~~~~~~~~~l~~a~~~  338 (607)
                      ..+...+.. ++||+.+...+.-++....   .......++|+.|++|+ ||.+++.+ +..+.+.   .|++..++.  
T Consensus       206 ~~l~~sIap-I~G~e~vK~aLll~L~GG~---~k~rgdihVLL~G~PGt-KS~Lar~i~~~i~pR~---~ft~g~~ss--  275 (506)
T 3f8t_A          206 TTFARAIAP-LPGAEEVGKMLALQLFSCV---GKNSERLHVLLAGYPVV-CSEILHHVLDHLAPRG---VYVDLRRTE--  275 (506)
T ss_dssp             HHHHHHHCC-STTCHHHHHHHHHHHTTCC---SSGGGCCCEEEESCHHH-HHHHHHHHHHHTCSSE---EEEEGGGCC--
T ss_pred             HHHHHHhcc-cCCCHHHHHHHHHHHcCCc---cccCCceeEEEECCCCh-HHHHHHHHHHHhCCCe---EEecCCCCC--
Confidence            346677778 9999987665554443221   11122347999999999 99999999 8776442   244333221  


Q ss_pred             ccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEec
Q psy1308         339 EKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTS  418 (607)
Q Consensus       339 ~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~ts  418 (607)
                          ...+.+...+-.|   -..-.+.+..+++|++|+|||+++++..|..|++.|+++.++.. |. .-..++.+|+|+
T Consensus       276 ----~~gLt~s~r~~tG---~~~~~G~l~LAdgGvl~lDEIn~~~~~~qsaLlEaMEe~~VtI~-G~-~lparf~VIAA~  346 (506)
T 3f8t_A          276 ----LTDLTAVLKEDRG---WALRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVD-GI-ALNARCAVLAAI  346 (506)
T ss_dssp             ----HHHHSEEEEESSS---EEEEECHHHHTTTSEEEEECCTTCCHHHHHHHHHHHHHSEEEET-TE-EEECCCEEEEEE
T ss_pred             ----ccCceEEEEcCCC---cccCCCeeEEcCCCeeehHhhhhCCHHHHHHHHHHHhCCcEEEC-CE-EcCCCeEEEEEe
Confidence                1112221000011   11123556678899999999999999999999999999999877 66 455788999999


Q ss_pred             Cc
Q psy1308         419 NL  420 (607)
Q Consensus       419 n~  420 (607)
                      |-
T Consensus       347 NP  348 (506)
T 3f8t_A          347 NP  348 (506)
T ss_dssp             CC
T ss_pred             Cc
Confidence            94

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=98.90  E-value=5.8e-10  Score=123.73  Aligned_cols=203  Identities=19%  Similarity=0.289  Sum_probs=114.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCC---C--CCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         269 RIVGQESAINIISAAIKRKENG---W--TDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~---~--~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      .+.|.+.+.+.+.+.+......   +  .....|..+||+||+|||||.+|+++|..+.    .+|+.++.+..     +
T Consensus       478 diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~----~~f~~v~~~~l-----~  548 (806)
T 3cf2_A          478 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ----ANFISIKGPEL-----L  548 (806)
T ss_dssp             TCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTT----CEEEECCHHHH-----H
T ss_pred             HhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhC----CceEEeccchh-----h
Confidence            4667778887776666432111   0  1122344789999999999999999998774    34777765443     2


Q ss_pred             HhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccCH--------------HHHHHHHHhhccceeecCCCcEE
Q psy1308         344 AKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAHP--------------DVLTVLLQLFDEGRLTDGKGKTI  407 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~~--------------~~~~~Ll~~~~~~~~~~~~g~~~  407 (607)
                      .+       |+|..+.  ..+....++...+||||||||.+-+              .+.+.||..|+.-.         
T Consensus       549 s~-------~vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~---------  612 (806)
T 3cf2_A          549 TM-------WFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS---------  612 (806)
T ss_dssp             TT-------TCSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSC---------
T ss_pred             cc-------ccchHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCC---------
Confidence            22       3332211  2234445566789999999998632              26788888887321         


Q ss_pred             ecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--ccc
Q psy1308         408 ECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RIN  485 (607)
Q Consensus       408 ~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~  485 (607)
                      ...++++|.|||...                                           .        + .|.++.  |||
T Consensus       613 ~~~~V~vi~aTN~p~-------------------------------------------~--------l-D~AllRpgRfd  640 (806)
T 3cf2_A          613 TKKNVFIIGATNRPD-------------------------------------------I--------I-DPAILRPGRLD  640 (806)
T ss_dssp             SSSSEEEECC-CCSS-------------------------------------------S--------S-CHHHHSTTTSC
T ss_pred             CCCCEEEEEeCCCch-------------------------------------------h--------C-CHhHcCCCcce
Confidence            124678899999321                                           0        1 155655  899


Q ss_pred             ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCCccchhHHHHHHHHHHHHHHHH
Q psy1308         486 EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYGARSIKHEVERQVVSQLAAAHE  561 (607)
Q Consensus       486 ~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l  561 (607)
                      ..+.+.+++.++..+|++..+..          ..+  ++++ ++.|++ ....+-...|++.+..+...++-+.+.
T Consensus       641 ~~i~v~lPd~~~R~~il~~~l~~----------~~~--~~~~dl~~la~-~t~g~SGadi~~l~~~A~~~a~r~~~~  704 (806)
T 3cf2_A          641 QLIYIPLPDEKSRVAILKANLRK----------SPV--AKDVDLEFLAK-MTNGFSGADLTEICQRACKLAIRESIE  704 (806)
T ss_dssp             CEEEC-----CHHHHTTTTTSSC----------C----CCC-----------------CHHHHHHHHHHHHHHHHHC
T ss_pred             EEEEECCcCHHHHHHHHHHHhcC----------CCC--CCCCCHHHHHH-hCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            98888777888888887655421          111  1222 345554 222334456999998888888766553

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.89  E-value=1.7e-08  Score=102.28  Aligned_cols=161  Identities=16%  Similarity=0.207  Sum_probs=96.3

Q ss_pred             hhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc--------cchh
Q psy1308         272 GQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE--------KHEV  343 (607)
Q Consensus       272 Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~--------~~~~  343 (607)
                      .+...++.+...+.....       |-.++|+||+|+|||.+++.+++.+.........  -|.....        +.++
T Consensus         6 w~~~~~~~l~~~i~~~~~-------~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~--~c~~c~~c~~~~~~~~~d~   76 (334)
T 1a5t_A            6 WLRPDFEKLVASYQAGRG-------HHALLIQALPGMGDDALIYALSRYLLCQQPQGHK--SCGHCRGCQLMQAGTHPDY   76 (334)
T ss_dssp             GGHHHHHHHHHHHHTTCC-------CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTB--CCSCSHHHHHHHHTCCTTE
T ss_pred             chHHHHHHHHHHHHcCCc-------ceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCC--CCCCCHHHHHHhcCCCCCE
Confidence            355666666666654321       2369999999999999999999988653211100  0110000        0000


Q ss_pred             HhhhcCC-CCCccCCCCchhhHHHhh----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEec
Q psy1308         344 AKLIGAP-PGYLGHDDGGQLTKRLKK----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTS  418 (607)
Q Consensus       344 ~~llg~~-~g~~g~~~~~~l~~~~~~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~ts  418 (607)
                      ..+-+.. ....+.++-..+.+.+..    ..+.|+++||+|+++.+.++.|++.+|+.           ..+++||++|
T Consensus        77 ~~~~~~~~~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep-----------~~~~~~Il~t  145 (334)
T 1a5t_A           77 YTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEP-----------PAETWFFLAT  145 (334)
T ss_dssp             EEECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSC-----------CTTEEEEEEE
T ss_pred             EEEeccccCCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCC-----------CCCeEEEEEe
Confidence            0010000 001111101112222222    23689999999999999999999999863           2567899888


Q ss_pred             CcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHH
Q psy1308         419 NLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSEL  498 (607)
Q Consensus       419 n~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~  498 (607)
                      +..                                                   ..+. |.+.+|. ..+.|.|++.+++
T Consensus       146 ~~~---------------------------------------------------~~l~-~ti~SRc-~~~~~~~~~~~~~  172 (334)
T 1a5t_A          146 REP---------------------------------------------------ERLL-ATLRSRC-RLHYLAPPPEQYA  172 (334)
T ss_dssp             SCG---------------------------------------------------GGSC-HHHHTTS-EEEECCCCCHHHH
T ss_pred             CCh---------------------------------------------------HhCc-HHHhhcc-eeeeCCCCCHHHH
Confidence            721                                                   0122 7788888 4789999999998


Q ss_pred             HHHHHHH
Q psy1308         499 HTLVCRE  505 (607)
Q Consensus       499 ~~i~~~~  505 (607)
                      .+++...
T Consensus       173 ~~~L~~~  179 (334)
T 1a5t_A          173 VTWLSRE  179 (334)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            8876543

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=98.89  E-value=3.2e-09  Score=111.65  Aligned_cols=178  Identities=16%  Similarity=0.285  Sum_probs=115.9

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVL  375 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~  375 (607)
                      +.+++|+||+|+|||.+++.++..+.... ...+..+++..+..  .....+..       .....+...+ .....+||
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~--~~~~~~~~-------~~~~~~~~~~-~~~~~vL~  199 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLN--DLVDSMKE-------GKLNEFREKY-RKKVDILL  199 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHH--HHHHHHHT-------TCHHHHHHHH-TTTCSEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHH--HHHHHHHc-------ccHHHHHHHh-cCCCCEEE
Confidence            34789999999999999999999874321 34577777765421  11111110       0001111111 11567999


Q ss_pred             EecCCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCC
Q psy1308         376 FDEVDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSN  453 (607)
Q Consensus       376 lDEiek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~  453 (607)
                      |||++.+..  ..|..|+..++.-.  .        .+..+|++|+.....+                            
T Consensus       200 IDEi~~l~~~~~~q~~l~~~l~~l~--~--------~~~~iIitt~~~~~~l----------------------------  241 (440)
T 2z4s_A          200 IDDVQFLIGKTGVQTELFHTFNELH--D--------SGKQIVICSDREPQKL----------------------------  241 (440)
T ss_dssp             EECGGGGSSCHHHHHHHHHHHHHHH--T--------TTCEEEEEESSCGGGC----------------------------
T ss_pred             EeCcccccCChHHHHHHHHHHHHHH--H--------CCCeEEEEECCCHHHH----------------------------
Confidence            999999886  78888888876321  1        1234666666322211                            


Q ss_pred             cchhcchhhhhhhhhHHHHhccCChhhhcccc--ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHH
Q psy1308         454 LDVTISRHFKDHVVQPILKRHFRRDEFLGRIN--EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETIL  531 (607)
Q Consensus       454 ~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~--~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L  531 (607)
                                         ..+. +.+.+|+.  .++.+.|++.++...|+...+..       . +  +.++++++++|
T Consensus       242 -------------------~~l~-~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~-------~-~--~~i~~e~l~~l  291 (440)
T 2z4s_A          242 -------------------SEFQ-DRLVSRFQMGLVAKLEPPDEETRKSIARKMLEI-------E-H--GELPEEVLNFV  291 (440)
T ss_dssp             -------------------SSCC-HHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHH-------H-T--CCCCTTHHHHH
T ss_pred             -------------------HHHH-HHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHH-------c-C--CCCCHHHHHHH
Confidence                               0122 77888885  67889999999999988776642       1 2  35789999999


Q ss_pred             HccCCCCCCccchhHHHHHHHHH
Q psy1308         532 ADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       532 ~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      +. + +++++|.+.+.+++.+..
T Consensus       292 a~-~-~~gn~R~l~~~L~~~~~~  312 (440)
T 2z4s_A          292 AE-N-VDDNLRRLRGAIIKLLVY  312 (440)
T ss_dssp             HH-H-CCSCHHHHHHHHHHHHHH
T ss_pred             HH-h-cCCCHHHHHHHHHHHHHH
Confidence            85 2 368999999999887654

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.86  E-value=3.2e-09  Score=109.96  Aligned_cols=212  Identities=19%  Similarity=0.245  Sum_probs=128.1

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc--CCceEEeecccccccchh-Hh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK--KEAFIRLDMSEYQEKHEV-AK  345 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~--~~~~~~l~~a~~~~~~~~-~~  345 (607)
                      .++|++..++.+...+.....+    ..+..++++||+|+|||.+++.++..+....  ..+++.+++......... ..
T Consensus        21 ~~~gr~~e~~~l~~~l~~~~~~----~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   96 (386)
T 2qby_A           21 ELPHREDQIRKIASILAPLYRE----EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLAD   96 (386)
T ss_dssp             CCTTCHHHHHHHHHSSGGGGGT----CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcC----CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHH
Confidence            5889999988887776544222    2244788999999999999999998874321  345777777654332221 12


Q ss_pred             h---hcCCCCCccCCCC---chhhHHHhhCC-CeEEEEecCCccC----HHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         346 L---IGAPPGYLGHDDG---GQLTKRLKKCP-NAVVLFDEVDKAH----PDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       346 l---lg~~~g~~g~~~~---~~l~~~~~~~~-~~vl~lDEiek~~----~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                      +   +|......|....   ..+...+.... ..+|+|||++.+.    .+.+..|+..+++.          ...++.+
T Consensus        97 i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~----------~~~~~~~  166 (386)
T 2qby_A           97 LLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEV----------NKSKISF  166 (386)
T ss_dssp             HTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSC----------CC--EEE
T ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhc----------CCCeEEE
Confidence            2   2222111221111   11223333333 6799999999875    56777777777532          1135678


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccc-eeeeccC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE-IVYFLPF  493 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~-iv~f~pl  493 (607)
                      |++|+....                                                ...+. +.+.+|+.. .+.|.|+
T Consensus       167 I~~~~~~~~------------------------------------------------~~~~~-~~~~~r~~~~~i~l~~l  197 (386)
T 2qby_A          167 IGITNDVKF------------------------------------------------VDLLD-PRVKSSLSEEEIIFPPY  197 (386)
T ss_dssp             EEEESCGGG------------------------------------------------GGGCT-THHHHTTTTEEEEECCC
T ss_pred             EEEECCCCh------------------------------------------------HhhhC-HHHhccCCCeeEEeCCC
Confidence            888872110                                                00122 555666653 7899999


Q ss_pred             CHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCC--CCCccchhHHHHHHH
Q psy1308         494 SKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDV--HYGARSIKHEVERQV  552 (607)
Q Consensus       494 ~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~--~~GaR~L~~~i~~~i  552 (607)
                      +.+++.+++...+..    ...    ...+++++.+++.. +.+  .++.|.+.+.+++..
T Consensus       198 ~~~~~~~il~~~~~~----~~~----~~~~~~~~~~~l~~-~~~~~~G~~r~~~~ll~~a~  249 (386)
T 2qby_A          198 NAEELEDILTKRAQM----AFK----PGVLPDNVIKLCAA-LAAREHGDARRALDLLRVSG  249 (386)
T ss_dssp             CHHHHHHHHHHHHHH----HBC----SSCSCHHHHHHHHH-HHHHTTCCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh----hcc----CCCCCHHHHHHHHH-HHHHhcCCHHHHHHHHHHHH
Confidence            999999998876532    111    23578888888875 333  267777766665543

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=98.84  E-value=6.9e-08  Score=97.81  Aligned_cols=193  Identities=18%  Similarity=0.242  Sum_probs=120.0

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++||..+++.+...+......   ...+-+++|+||+|+|||.+++.++..+...    +..........         
T Consensus        26 ~~~g~~~~~~~l~~~i~~~~~~---~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~----~~~~sg~~~~~---------   89 (334)
T 1in4_A           26 EFIGQENVKKKLSLALEAAKMR---GEVLDHVLLAGPPGLGKTTLAHIIASELQTN----IHVTSGPVLVK---------   89 (334)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHHH---TCCCCCEEEESSTTSSHHHHHHHHHHHHTCC----EEEEETTTCCS---------
T ss_pred             HccCcHHHHHHHHHHHHHHHhc---CCCCCeEEEECCCCCcHHHHHHHHHHHhCCC----EEEEechHhcC---------
Confidence            4678888888887777654211   0113378999999999999999999987432    33332222111         


Q ss_pred             CCCCCccCCCCchhhHHHhh-CCCeEEEEecCCccCHHHHHHHHHhhccceeec--CCC---cE--EecCceEEEEecCc
Q psy1308         349 APPGYLGHDDGGQLTKRLKK-CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTD--GKG---KT--IECKDAIFVMTSNL  420 (607)
Q Consensus       349 ~~~g~~g~~~~~~l~~~~~~-~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~--~~g---~~--~~~~~~~iI~tsn~  420 (607)
                                ++.+...... ....|+++||++.+.+.+++.|+..+++.....  ..+   ..  .....+.+|.+++.
T Consensus        90 ----------~~~l~~~~~~~~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~  159 (334)
T 1in4_A           90 ----------QGDMAAILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTR  159 (334)
T ss_dssp             ----------HHHHHHHHHHCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESC
T ss_pred             ----------HHHHHHHHHHccCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCC
Confidence                      1122222222 346799999999999999999988887543210  000   00  11123344444441


Q ss_pred             chHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHH
Q psy1308         421 ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT  500 (607)
Q Consensus       421 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~  500 (607)
                      .                                                   ..+. +.+.+|+...+.|.|++.+++.+
T Consensus       160 ~---------------------------------------------------~~Ls-~~l~sR~~l~~~Ld~~~~~~l~~  187 (334)
T 1in4_A          160 S---------------------------------------------------GLLS-SPLRSRFGIILELDFYTVKELKE  187 (334)
T ss_dssp             G---------------------------------------------------GGSC-HHHHTTCSEEEECCCCCHHHHHH
T ss_pred             c---------------------------------------------------ccCC-HHHHHhcCceeeCCCCCHHHHHH
Confidence            0                                                   1132 67888887778899999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         501 LVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       501 i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      |+......        .+  +.++++++.+|+. . ..+..|.+.+.+++.
T Consensus       188 iL~~~~~~--------~~--~~~~~~~~~~ia~-~-~~G~~R~a~~ll~~~  226 (334)
T 1in4_A          188 IIKRAASL--------MD--VEIEDAAAEMIAK-R-SRGTPRIAIRLTKRV  226 (334)
T ss_dssp             HHHHHHHH--------TT--CCBCHHHHHHHHH-T-STTCHHHHHHHHHHH
T ss_pred             HHHHHHHH--------cC--CCcCHHHHHHHHH-h-cCCChHHHHHHHHHH
Confidence            98765431        13  3588999999985 2 246777777777654

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=98.82  E-value=8.6e-09  Score=114.41  Aligned_cols=202  Identities=17%  Similarity=0.179  Sum_probs=126.1

Q ss_pred             hHhhhhHHHHHHHHHHHHHhh-----CCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccch
Q psy1308         268 DRIVGQESAINIISAAIKRKE-----NGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~-----~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~  342 (607)
                      ..+.|.+..++.+.+.+....     ........|..+||+||+|||||.+||++|..+.    .+|+.++++....   
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg----~~~~~v~~~~l~s---  276 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG----AFFFLINGPEIMS---  276 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTT----CEEEEEEHHHHHS---
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC----CeEEEEEhHHhhc---
Confidence            357777777777776664321     1111123355899999999999999999998764    3588888765422   


Q ss_pred             hHhhhcCCCCCccCCCCchh---hHHHhhCCCeEEEEecCCccCH-----------HHHHHHHHhhccceeecCCCcEEe
Q psy1308         343 VAKLIGAPPGYLGHDDGGQL---TKRLKKCPNAVVLFDEVDKAHP-----------DVLTVLLQLFDEGRLTDGKGKTIE  408 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l---~~~~~~~~~~vl~lDEiek~~~-----------~~~~~Ll~~~~~~~~~~~~g~~~~  408 (607)
                               .|.|. ....+   ....+....+||||||||.+-+           .+.+.|+..|+.-.         .
T Consensus       277 ---------k~~ge-se~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~---------~  337 (806)
T 3cf2_A          277 ---------KLAGE-SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLK---------Q  337 (806)
T ss_dssp             ---------SCTTH-HHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCC---------G
T ss_pred             ---------ccchH-HHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhccc---------c
Confidence                     12221 11122   3333445689999999998743           36677887776321         1


Q ss_pred             cCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--cccc
Q psy1308         409 CKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RINE  486 (607)
Q Consensus       409 ~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~~  486 (607)
                      ..++++|++||....                                                   + .|.|..  ||+.
T Consensus       338 ~~~V~VIaaTN~~d~---------------------------------------------------L-D~ALrR~GRFd~  365 (806)
T 3cf2_A          338 RAHVIVMAATNRPNS---------------------------------------------------I-DPALRRFGRFDR  365 (806)
T ss_dssp             GGCEEEEEECSSTTT---------------------------------------------------S-CTTTTSTTSSCE
T ss_pred             cCCEEEEEecCChhh---------------------------------------------------c-CHHHhCCcccce
Confidence            246889999992100                                                   1 145554  8999


Q ss_pred             eeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHh-HHHHHHccCCCCCCccchhHHHHHHHHHHHHHHH
Q psy1308         487 IVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDID-VETILADGYDVHYGARSIKHEVERQVVSQLAAAH  560 (607)
Q Consensus       487 iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~-a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~  560 (607)
                      .+.+.+++.++-.+|++..+.          +..+  +++ -+..|+. -...+-...|...+.+....++.+..
T Consensus       366 ~I~i~~Pd~~~R~~IL~~~l~----------~~~~--~~dvdl~~lA~-~T~GfsgaDL~~Lv~eA~~~A~~r~~  427 (806)
T 3cf2_A          366 EVDIGIPDATGRLEILQIHTK----------NMKL--ADDVDLEQVAN-ETHGHVGADLAALCSEAALQAIRKKM  427 (806)
T ss_dssp             EEECCCCCHHHHHHHHHHTCS----------SSEE--CTTCCHHHHHH-HCCSCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEecCCCCHHHHHHHHHHHhc----------CCCC--CcccCHHHHHH-hcCCCCHHHHHHHHHHHHHHHHHhcc
Confidence            999888899988888764432          2222  222 2556664 23334456788888777776665544

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.79  E-value=1.3e-08  Score=94.07  Aligned_cols=154  Identities=21%  Similarity=0.268  Sum_probs=95.7

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccC------cCCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRD------KKEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~------~~~~~~~l~~a~~~~~~~  342 (607)
                      .++|++..++.+...+..        ..+..++++||+|+|||.+++.+++.+...      ...+++.++++.....  
T Consensus        23 ~~~g~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--   92 (195)
T 1jbk_A           23 PVIGRDEEIRRTIQVLQR--------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAG--   92 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTS--------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTT--
T ss_pred             ccccchHHHHHHHHHHhc--------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhcc--
Confidence            478898888888776643        124468999999999999999999987431      1234555655432110  


Q ss_pred             hHhhhcCCCCCccCCCCchhhHH---H-hhCCCeEEEEecCCccC--------HHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         343 VAKLIGAPPGYLGHDDGGQLTKR---L-KKCPNAVVLFDEVDKAH--------PDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~l~~~---~-~~~~~~vl~lDEiek~~--------~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                              ..+.|. ....+...   + +.....+|+|||++.+.        ..+++.|..+++.+             
T Consensus        93 --------~~~~~~-~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~~-------------  150 (195)
T 1jbk_A           93 --------AKYRGE-FEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG-------------  150 (195)
T ss_dssp             --------TCSHHH-HHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTT-------------
T ss_pred             --------CCcccc-HHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhccC-------------
Confidence                    001110 00111122   2 23446799999999995        44577888777643             


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      ++.+|++||.....  +.                                            -... +.+.+|++ .+.+
T Consensus       151 ~~~~i~~~~~~~~~--~~--------------------------------------------~~~~-~~l~~r~~-~i~~  182 (195)
T 1jbk_A          151 ELHCVGATTLDEYR--QY--------------------------------------------IEKD-AALERRFQ-KVFV  182 (195)
T ss_dssp             SCCEEEEECHHHHH--HH--------------------------------------------TTTC-HHHHTTEE-EEEC
T ss_pred             CeEEEEeCCHHHHH--HH--------------------------------------------HhcC-HHHHHHhc-eeec
Confidence            45688888722110  00                                            0012 78888997 5788


Q ss_pred             ccCCHHHHHHHH
Q psy1308         491 LPFSKSELHTLV  502 (607)
Q Consensus       491 ~pl~~~~~~~i~  502 (607)
                      .|++.++..+|+
T Consensus       183 ~~p~~~~~~~il  194 (195)
T 1jbk_A          183 AEPSVEDTIAIL  194 (195)
T ss_dssp             CCCCHHHHHTTC
T ss_pred             CCCCHHHHHHHh
Confidence            999999887664

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.77  E-value=4.8e-08  Score=111.59  Aligned_cols=178  Identities=15%  Similarity=0.226  Sum_probs=105.2

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~  342 (607)
                      .++|++..+..+...+.+..        +..++|+||+|+|||.+++.++..+...+      ...++.++++.....  
T Consensus       171 ~viGr~~~i~~l~~~l~~~~--------~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g--  240 (854)
T 1qvr_A          171 PVIGRDEEIRRVIQILLRRT--------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAG--  240 (854)
T ss_dssp             CCCSCHHHHHHHHHHHHCSS--------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------
T ss_pred             ccCCcHHHHHHHHHHHhcCC--------CCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhcc--
Confidence            37899999988888775421        23578999999999999999999874311      345777777654211  


Q ss_pred             hHhhhcCCCCCccCCCCch---hhHHHhhC-CCeEEEEecCCccC--------HHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         343 VAKLIGAPPGYLGHDDGGQ---LTKRLKKC-PNAVVLFDEVDKAH--------PDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~~~---l~~~~~~~-~~~vl~lDEiek~~--------~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                              ..|.|. ....   +...+... ...||||||++.+.        .++.+.|..+++.+             
T Consensus       241 --------~~~~g~-~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~-------------  298 (854)
T 1qvr_A          241 --------AKYRGE-FEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG-------------  298 (854)
T ss_dssp             -------------C-HHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT-------------
T ss_pred             --------CccchH-HHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhCC-------------
Confidence                    112221 0111   22223333 46799999999987        56677888888654             


Q ss_pred             ceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeee
Q psy1308         411 DAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYF  490 (607)
Q Consensus       411 ~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f  490 (607)
                      ++++|+++|.....-    +                                           .. .+.|.+|++. +.+
T Consensus       299 ~i~~I~at~~~~~~~----~-------------------------------------------~~-d~aL~rRf~~-i~l  329 (854)
T 1qvr_A          299 ELRLIGATTLDEYRE----I-------------------------------------------EK-DPALERRFQP-VYV  329 (854)
T ss_dssp             CCCEEEEECHHHHHH----H-------------------------------------------TT-CTTTCSCCCC-EEE
T ss_pred             CeEEEEecCchHHhh----h-------------------------------------------cc-CHHHHhCCce-EEe
Confidence            345888887321100    0                                           01 2788889975 788


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .|++.++..+|++..+..+..    .++  +.++++++..++.
T Consensus       330 ~~p~~~e~~~iL~~~~~~~~~----~~~--~~i~~~al~~~~~  366 (854)
T 1qvr_A          330 DEPTVEETISILRGLKEKYEV----HHG--VRISDSAIIAAAT  366 (854)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHH----HTT--CEECHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhhhhhhhh----hcC--CCCCHHHHHHHHH
Confidence            999999999998776665432    223  4578998888764

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=98.73  E-value=1.4e-07  Score=93.03  Aligned_cols=168  Identities=18%  Similarity=0.221  Sum_probs=99.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .++++||+|+|||.+++.++..+.    .+++.+++..+...     ..+    ... ..-+.+.........+++++||
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~~~~----~~~i~~~~~~~~~~-----~~~----~~~-~~i~~~~~~~~~~~~~i~~iDe  140 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAGEAR----VPFITASGSDFVEM-----FVG----VGA-ARVRDLFETAKRHAPCIVFIDE  140 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTT----CCEEEEEHHHHHHS-----TTT----HHH-HHHHHHHHHHHTSCSEEEEEET
T ss_pred             eEEEECCCcChHHHHHHHHHHHcC----CCEEEecHHHHHHH-----Hhh----HHH-HHHHHHHHHHHhcCCcEEehhh
Confidence            489999999999999999998773    46788776543211     000    000 0001122222334468999999


Q ss_pred             CCccC-----------HH---HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCC
Q psy1308         379 VDKAH-----------PD---VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTP  444 (607)
Q Consensus       379 iek~~-----------~~---~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~  444 (607)
                      |+.+.           ..   ..+.++..++.+.         ....+++++++|.. +                     
T Consensus       141 id~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~---------~~~~~i~~a~t~~p-~---------------------  189 (278)
T 1iy2_A          141 IDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE---------KDTAIVVMAATNRP-D---------------------  189 (278)
T ss_dssp             HHHHHCC--------CHHHHHHHHHHHHHHTTCC---------TTCCEEEEEEESCT-T---------------------
T ss_pred             hHhhhcccccccCCcchHHHHHHHHHHHHHhCCC---------CCCCEEEEEecCCc-h---------------------
Confidence            98642           12   3334444444332         12346777787721 0                     


Q ss_pred             CcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--cccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEE
Q psy1308         445 SISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIV  522 (607)
Q Consensus       445 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~  522 (607)
                                           .        +. |.++.  |++..+.+.+++.++..+|+...+.          +  +.
T Consensus       190 ---------------------~--------ld-~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~----------~--~~  227 (278)
T 1iy2_A          190 ---------------------I--------LD-PALLRPGRFDRQIAIDAPDVKGREQILRIHAR----------G--KP  227 (278)
T ss_dssp             ---------------------S--------SC-HHHHSTTSSCCEEECCCCCHHHHHHHHHHHHT----------T--SC
T ss_pred             ---------------------h--------CC-HhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHc----------c--CC
Confidence                                 0        11 44444  7888899999999999988764431          1  12


Q ss_pred             eCHhH-HHHHHccCCCCCCc-cchhHHHHHHHHHH
Q psy1308         523 WDIDV-ETILADGYDVHYGA-RSIKHEVERQVVSQ  555 (607)
Q Consensus       523 ~~~~a-~~~L~~~~~~~~Ga-R~L~~~i~~~i~~~  555 (607)
                      +++++ +..|+  +.|++.. |.|++.+++....+
T Consensus       228 ~~~~~~~~~la--~~~~G~~~~dl~~l~~~a~~~a  260 (278)
T 1iy2_A          228 LAEDVDLALLA--KRTPGFVGADLENLLNEAALLA  260 (278)
T ss_dssp             BCTTCCHHHHH--HTCTTCCHHHHHHHHHHHHHHH
T ss_pred             CCcccCHHHHH--HHcCCCCHHHHHHHHHHHHHHH
Confidence            44444 56665  4455555 88998888765543

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.73  E-value=4.1e-08  Score=111.01  Aligned_cols=179  Identities=18%  Similarity=0.286  Sum_probs=113.2

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~  342 (607)
                      .++|++..+..+...+.+.        ++..++|+||+|+|||.+++.++..+....      ...+..++++....   
T Consensus       187 ~~iGr~~~i~~l~~~l~~~--------~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~---  255 (758)
T 1r6b_X          187 PLIGREKELERAIQVLCRR--------RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLA---  255 (758)
T ss_dssp             CCCSCHHHHHHHHHHHTSS--------SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---C---
T ss_pred             CccCCHHHHHHHHHHHhcc--------CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhc---
Confidence            4789999999887776543        234689999999999999999999874321      22344455443321   


Q ss_pred             hHhhhcCCCCCccCCC--CchhhHHHhhCCCeEEEEecCCcc---------CHHHHHHHHHhhccceeecCCCcEEecCc
Q psy1308         343 VAKLIGAPPGYLGHDD--GGQLTKRLKKCPNAVVLFDEVDKA---------HPDVLTVLLQLFDEGRLTDGKGKTIECKD  411 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~--~~~l~~~~~~~~~~vl~lDEiek~---------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~  411 (607)
                           |  ..|.|.-.  -..+...+.....++|||||++.+         ..+.++.|.++++.+             +
T Consensus       256 -----~--~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~~-------------~  315 (758)
T 1r6b_X          256 -----G--TKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-------------K  315 (758)
T ss_dssp             -----C--CCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC-------------C
T ss_pred             -----c--ccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhCC-------------C
Confidence                 0  11222100  011223334456799999999988         455666777777643             4


Q ss_pred             eEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccC-Chhhhccccceeee
Q psy1308         412 AIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFR-RDEFLGRINEIVYF  490 (607)
Q Consensus       412 ~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~-~~el~~ri~~iv~f  490 (607)
                      +++|++|+...  .                                              .+.|. .|.|.+||+ .+.+
T Consensus       316 ~~~I~at~~~~--~----------------------------------------------~~~~~~d~aL~~Rf~-~i~v  346 (758)
T 1r6b_X          316 IRVIGSTTYQE--F----------------------------------------------SNIFEKDRALARRFQ-KIDI  346 (758)
T ss_dssp             CEEEEEECHHH--H----------------------------------------------HCCCCCTTSSGGGEE-EEEC
T ss_pred             eEEEEEeCchH--H----------------------------------------------hhhhhcCHHHHhCce-EEEc
Confidence            56888887211  0                                              01111 266888997 6888


Q ss_pred             ccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         491 LPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       491 ~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .+++.++..+|+...+..+....      .+.+++++++.++.
T Consensus       347 ~~p~~~e~~~il~~l~~~~~~~~------~v~~~~~al~~~~~  383 (758)
T 1r6b_X          347 TEPSIEETVQIINGLKPKYEAHH------DVRYTAKAVRAAVE  383 (758)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHHH------TCCCCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhc------CCCCCHHHHHHHHH
Confidence            89999999999887665543311      24578888887763

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=98.73  E-value=1.4e-07  Score=91.61  Aligned_cols=195  Identities=18%  Similarity=0.213  Sum_probs=111.5

Q ss_pred             HhhhhHHHHHHHHHHHHHhh-------CCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc
Q psy1308         269 RIVGQESAINIISAAIKRKE-------NGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH  341 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~-------~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~  341 (607)
                      .++|++.++..+........       .+..   -|..++++||+|+|||.+++.++..+.    .+++.++...+... 
T Consensus        17 ~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~---~~~g~ll~G~~G~GKTtl~~~i~~~~~----~~~i~~~~~~~~~~-   88 (254)
T 1ixz_A           17 DVAGAEEAKEELKEIVEFLKNPSRFHEMGAR---IPKGVLLVGPPGVGKTHLARAVAGEAR----VPFITASGSDFVEM-   88 (254)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHCHHHHHHTTCC---CCSEEEEECCTTSSHHHHHHHHHHHTT----CCEEEEEHHHHHHS-
T ss_pred             HhCCcHHHHHHHHHHHHHHHCHHHHHHcCCC---CCCeEEEECCCCCCHHHHHHHHHHHhC----CCEEEeeHHHHHHH-
Confidence            45666666665554443221       1111   123489999999999999999998763    45777776543211 


Q ss_pred             hhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCH--------------HHHHHHHHhhccceeecCCCcEE
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHP--------------DVLTVLLQLFDEGRLTDGKGKTI  407 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~--------------~~~~~Ll~~~~~~~~~~~~g~~~  407 (607)
                          +.+    ... ..-+.+.........+++++|||+.+.+              ..++.|+..++.+.         
T Consensus        89 ----~~~----~~~-~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~---------  150 (254)
T 1ixz_A           89 ----FVG----VGA-ARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE---------  150 (254)
T ss_dssp             ----CTT----HHH-HHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCC---------
T ss_pred             ----Hhh----HHH-HHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCC---------
Confidence                010    000 0001122222223458999999976521              23456666665432         


Q ss_pred             ecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--ccc
Q psy1308         408 ECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RIN  485 (607)
Q Consensus       408 ~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~  485 (607)
                      ....+++++++|.. +                                                  .+. |.++.  |++
T Consensus       151 ~~~~~i~~a~t~~p-~--------------------------------------------------~ld-~~l~r~~rf~  178 (254)
T 1ixz_A          151 KDTAIVVMAATNRP-D--------------------------------------------------ILD-PALLRPGRFD  178 (254)
T ss_dssp             TTCCEEEEEEESCG-G--------------------------------------------------GSC-GGGGSTTSSC
T ss_pred             CCCCEEEEEccCCc-h--------------------------------------------------hCC-HHHcCCCcCC
Confidence            11345677777721 0                                                  011 55554  788


Q ss_pred             ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhH-HHHHHccCCCCCC-ccchhHHHHHHHHHH
Q psy1308         486 EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDV-ETILADGYDVHYG-ARSIKHEVERQVVSQ  555 (607)
Q Consensus       486 ~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a-~~~L~~~~~~~~G-aR~L~~~i~~~i~~~  555 (607)
                      ..+.+.+++.++..+|++....          +.  .+++++ +..|+.  .|++. +|.|++.+++....+
T Consensus       179 ~~i~i~~p~~~~r~~il~~~~~----------~~--~~~~~~~~~~la~--~~~G~~~~dl~~~~~~a~~~a  236 (254)
T 1ixz_A          179 RQIAIDAPDVKGREQILRIHAR----------GK--PLAEDVDLALLAK--RTPGFVGADLENLLNEAALLA  236 (254)
T ss_dssp             EEEECCSCCHHHHHHHHHHHHT----------TS--CBCTTCCHHHHHH--TCTTCCHHHHHHHHHHHHHHH
T ss_pred             eEEeeCCcCHHHHHHHHHHHHc----------CC--CCCcccCHHHHHH--HcCCCCHHHHHHHHHHHHHHH
Confidence            8899999999998888754331          11  234444 666764  34443 488999888766544

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.72  E-value=4.9e-08  Score=110.22  Aligned_cols=170  Identities=18%  Similarity=0.259  Sum_probs=102.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~  342 (607)
                      .++|++..++.+...+.+..        +.+++|+||+|||||.+++.++..+...+      ...++.+++        
T Consensus       181 ~iiG~~~~i~~l~~~l~~~~--------~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~--------  244 (758)
T 3pxi_A          181 PVIGRSKEIQRVIEVLSRRT--------KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM--------  244 (758)
T ss_dssp             CCCCCHHHHHHHHHHHHCSS--------SCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------
T ss_pred             CccCchHHHHHHHHHHhCCC--------CCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc--------
Confidence            48999999999988876522        33689999999999999999999974421      334555555        


Q ss_pred             hHhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         343 VAKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       343 ~~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                           |  ..|.|.-..  ..+...+....++|||||    ...+.++.|+..++.|             ++++|++||.
T Consensus       245 -----g--~~~~G~~e~~l~~~~~~~~~~~~~iLfiD----~~~~~~~~L~~~l~~~-------------~v~~I~at~~  300 (758)
T 3pxi_A          245 -----G--TKYRGEFEDRLKKVMDEIRQAGNIILFID----AAIDASNILKPSLARG-------------ELQCIGATTL  300 (758)
T ss_dssp             ---------------CTTHHHHHHHHHTCCCCEEEEC----C--------CCCTTSS-------------SCEEEEECCT
T ss_pred             -----c--ccccchHHHHHHHHHHHHHhcCCEEEEEc----CchhHHHHHHHHHhcC-------------CEEEEeCCCh
Confidence                 1  112221111  234445556678999999    6677888999888854             4678999883


Q ss_pred             chHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHH
Q psy1308         421 ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT  500 (607)
Q Consensus       421 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~  500 (607)
                      ..-.  +.                                            -.. .|.|.+|| ..+.|.+++.++..+
T Consensus       301 ~~~~--~~--------------------------------------------~~~-d~al~rRf-~~i~v~~p~~~~~~~  332 (758)
T 3pxi_A          301 DEYR--KY--------------------------------------------IEK-DAALERRF-QPIQVDQPSVDESIQ  332 (758)
T ss_dssp             TTTH--HH--------------------------------------------HTT-CSHHHHSE-EEEECCCCCHHHHHH
T ss_pred             HHHH--HH--------------------------------------------hhc-cHHHHhhC-cEEEeCCCCHHHHHH
Confidence            3210  00                                            001 27888899 568889999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         501 LVCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       501 i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                      |+...+..+    ...++  +.++++++..++
T Consensus       333 il~~~~~~~----~~~~~--~~i~~~al~~~~  358 (758)
T 3pxi_A          333 ILQGLRDRY----EAHHR--VSITDDAIEAAV  358 (758)
T ss_dssp             HHHHTTTTS----GGGSS--CSCCHHHHHHHH
T ss_pred             HHHHHHHHH----HHhcC--CCCCHHHHHHHH
Confidence            987544321    11122  346677766654

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=98.50  E-value=2.1e-06  Score=84.11  Aligned_cols=203  Identities=22%  Similarity=0.247  Sum_probs=116.7

Q ss_pred             HhhhhHHHHHHHHHHHHHh--------hCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccccc
Q psy1308         269 RIVGQESAINIISAAIKRK--------ENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEK  340 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~--------~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~  340 (607)
                      .+.|.+...+.+.+.+...        ..++.-   |..++++||+|+|||.+++.++..+..    +++.++.......
T Consensus        11 di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~---~~GvlL~Gp~GtGKTtLakala~~~~~----~~i~i~g~~l~~~   83 (274)
T 2x8a_A           11 DIGALEDIREELTMAILAPVRNPDQFKALGLVT---PAGVLLAGPPGCGKTLLAKAVANESGL----NFISVKGPELLNM   83 (274)
T ss_dssp             -CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCC---CSEEEEESSTTSCHHHHHHHHHHHTTC----EEEEEETTTTCSS
T ss_pred             HhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCC---CCeEEEECCCCCcHHHHHHHHHHHcCC----CEEEEEcHHHHhh
Confidence            4566666666665543211        122221   224899999999999999999987633    4777776554321


Q ss_pred             chhHhhhcCCCCCccCC--CCchhhHHHhhCCCeEEEEecCCccCH-----------HHHHHHHHhhccceeecCCCcEE
Q psy1308         341 HEVAKLIGAPPGYLGHD--DGGQLTKRLKKCPNAVVLFDEVDKAHP-----------DVLTVLLQLFDEGRLTDGKGKTI  407 (607)
Q Consensus       341 ~~~~~llg~~~g~~g~~--~~~~l~~~~~~~~~~vl~lDEiek~~~-----------~~~~~Ll~~~~~~~~~~~~g~~~  407 (607)
                                  |.|..  .-+.+....+....+++++||++.+.+           .+.+.++..++.|.         
T Consensus        84 ------------~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~---------  142 (274)
T 2x8a_A           84 ------------YVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLE---------  142 (274)
T ss_dssp             ------------TTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCC---------
T ss_pred             ------------hhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhccc---------
Confidence                        11100  001122223344578999999997532           34566666666443         


Q ss_pred             ecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--ccc
Q psy1308         408 ECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RIN  485 (607)
Q Consensus       408 ~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri~  485 (607)
                      ....+++++++|..                                           +.        +- |.++.  |||
T Consensus       143 ~~~~~i~ia~tn~p-------------------------------------------~~--------LD-~al~r~gRfd  170 (274)
T 2x8a_A          143 ARQQVFIMAATNRP-------------------------------------------DI--------ID-PAILRPGRLD  170 (274)
T ss_dssp             STTCEEEEEEESCG-------------------------------------------GG--------SC-HHHHSTTSSC
T ss_pred             ccCCEEEEeecCCh-------------------------------------------hh--------CC-HhhcCcccCC
Confidence            12456777888721                                           01        11 55554  899


Q ss_pred             ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHh-HHHHHHccC-CCCCCccchhHHHHHHHHHHHHHHH
Q psy1308         486 EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDID-VETILADGY-DVHYGARSIKHEVERQVVSQLAAAH  560 (607)
Q Consensus       486 ~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~-a~~~L~~~~-~~~~GaR~L~~~i~~~i~~~l~~~~  560 (607)
                      ..+.+.+++.++..+|++..+..       ....  .++++ -++.|+... ...+-...|...+.+....++.+.+
T Consensus       171 ~~i~~~~P~~~~r~~il~~~~~~-------~~~~--~~~~~~~~~~la~~~~~~g~sgadl~~l~~~a~~~a~~~~~  238 (274)
T 2x8a_A          171 KTLFVGLPPPADRLAILKTITKN-------GTKP--PLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEM  238 (274)
T ss_dssp             EEEECCSCCHHHHHHHHHHHTTT-------TBTT--BBCTTCCHHHHHTCSGGGSCCHHHHHHHHHHHHHHHHHHHC
T ss_pred             eEEEeCCcCHHHHHHHHHHHHhc-------ccCC--CCccccCHHHHHHhhccCCcCHHHHHHHHHHHHHHHHHHHH
Confidence            99998888999999887765431       0011  11222 245565311 1244556788888887777765543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.50  E-value=1.3e-07  Score=86.74  Aligned_cols=120  Identities=19%  Similarity=0.326  Sum_probs=75.5

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~  342 (607)
                      .++|++..++.+...+...        .+..++++||+|+|||.+++.+++.+....      ..++..++++...... 
T Consensus        23 ~~~g~~~~~~~l~~~l~~~--------~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-   93 (187)
T 2p65_A           23 PVIGRDTEIRRAIQILSRR--------TKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGA-   93 (187)
T ss_dssp             CCCSCHHHHHHHHHHHTSS--------SSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHHHHHHC-
T ss_pred             hhhcchHHHHHHHHHHhCC--------CCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHHhhcCC-
Confidence            4788988888877766431        134679999999999999999999875421      2345555543321100 


Q ss_pred             hHhhhcCCCCCccCC--CCchhhHHHhhC-CCeEEEEecCCccC---------HHHHHHHHHhhccceeecCCCcEEecC
Q psy1308         343 VAKLIGAPPGYLGHD--DGGQLTKRLKKC-PNAVVLFDEVDKAH---------PDVLTVLLQLFDEGRLTDGKGKTIECK  410 (607)
Q Consensus       343 ~~~llg~~~g~~g~~--~~~~l~~~~~~~-~~~vl~lDEiek~~---------~~~~~~Ll~~~~~~~~~~~~g~~~~~~  410 (607)
                               .+.+..  .-..+...+... ...+|+|||++.+.         .++++.|..++++             .
T Consensus        94 ---------~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~~-------------~  151 (187)
T 2p65_A           94 ---------KYRGDFEERLKSILKEVQDAEGQVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLAR-------------G  151 (187)
T ss_dssp             ---------CSHHHHHHHHHHHHHHHHHTTTSEEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHHT-------------T
T ss_pred             ---------CchhHHHHHHHHHHHHHHhcCCceEEEEeCHHHhcccccccccchHHHHHHHHHHhc-------------C
Confidence                     000000  001122223333 45799999999997         6677888888764             2


Q ss_pred             ceEEEEecC
Q psy1308         411 DAIFVMTSN  419 (607)
Q Consensus       411 ~~~iI~tsn  419 (607)
                      ++++|+++|
T Consensus       152 ~~~ii~~~~  160 (187)
T 2p65_A          152 ELRCIGATT  160 (187)
T ss_dssp             CSCEEEEEC
T ss_pred             CeeEEEecC
Confidence            456888888

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=98.39  E-value=9.9e-07  Score=92.00  Aligned_cols=220  Identities=15%  Similarity=0.169  Sum_probs=123.2

Q ss_pred             HhhhhHHHHHHHHHHH-HHhhCCCCCCCCCceeee--eccCCCChhHHHHHHHHHhccC-----cCCceEEeeccccccc
Q psy1308         269 RIVGQESAINIISAAI-KRKENGWTDDDHPLVFLF--LGSSGIGKTELAKQLAFYIHRD-----KKEAFIRLDMSEYQEK  340 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i-~~~~~~~~~~~~p~~~ll--~G~~G~GKt~la~~la~~l~~~-----~~~~~~~l~~a~~~~~  340 (607)
                      .++|.+..++.+...+ .....+..  ..+..+++  +|++|+|||.+++.+++.+...     ....++.+++......
T Consensus        23 ~l~gR~~el~~l~~~l~~~~~~~~~--~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           23 ELRVRRGEAEALARIYLNRLLSGAG--LSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             SCSSSCHHHHHHHHHHHHHHHTSSC--BCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCChHHHHHHHHHHHhHHHhcCCC--CCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCH
Confidence            5888999899888887 65543310  12446777  9999999999999999876431     0234566776543322


Q ss_pred             chh----HhhhcCCCCCccCCCC---chhhHHHhh-CCCeEEEEecCCccC------HHHHHHHHHhhccceeecCCCcE
Q psy1308         341 HEV----AKLIGAPPGYLGHDDG---GQLTKRLKK-CPNAVVLFDEVDKAH------PDVLTVLLQLFDEGRLTDGKGKT  406 (607)
Q Consensus       341 ~~~----~~llg~~~g~~g~~~~---~~l~~~~~~-~~~~vl~lDEiek~~------~~~~~~Ll~~~~~~~~~~~~g~~  406 (607)
                      ...    ...+|......+....   ..+...+.. ....+|+|||++.+.      .+.+..|+..+++...   .+. 
T Consensus       101 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~---~~~-  176 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPS---RDG-  176 (412)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCC---TTS-
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhccc---CCC-
Confidence            222    1223332111111000   112223332 346799999999974      4777777777764210   010 


Q ss_pred             EecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccc
Q psy1308         407 IECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE  486 (607)
Q Consensus       407 ~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~  486 (607)
                        ..++.+|++|+...  +.+.                                          +...+  +.+.+++..
T Consensus       177 --~~~v~lI~~~~~~~--~~~~------------------------------------------l~~~~--~~~~~~~~~  208 (412)
T 1w5s_A          177 --VNRIGFLLVASDVR--ALSY------------------------------------------MREKI--PQVESQIGF  208 (412)
T ss_dssp             --CCBEEEEEEEEETH--HHHH------------------------------------------HHHHC--HHHHTTCSE
T ss_pred             --CceEEEEEEecccc--HHHH------------------------------------------Hhhhc--chhhhhcCC
Confidence              14567888876321  1000                                          00000  233334433


Q ss_pred             eeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCC--C---CCccchhHHHHHH
Q psy1308         487 IVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDV--H---YGARSIKHEVERQ  551 (607)
Q Consensus       487 iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~--~---~GaR~L~~~i~~~  551 (607)
                      .+.|.||+.+++.+++...+...    ..    ...+++++++.+.. +..  .   ++.|.+...+...
T Consensus       209 ~i~l~~l~~~e~~~ll~~~~~~~----~~----~~~~~~~~~~~i~~-~~~~~~~~~G~p~~~~~l~~~a  269 (412)
T 1w5s_A          209 KLHLPAYKSRELYTILEQRAELG----LR----DTVWEPRHLELISD-VYGEDKGGDGSARRAIVALKMA  269 (412)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHH----BC----TTSCCHHHHHHHHH-HHCGGGTSCCCHHHHHHHHHHH
T ss_pred             eeeeCCCCHHHHHHHHHHHHHhc----CC----CCCCChHHHHHHHH-HHHHhccCCCcHHHHHHHHHHH
Confidence            48899999999999987665421    11    11367888888864 222  2   5666666665543

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.17  E-value=3.3e-06  Score=77.04  Aligned_cols=106  Identities=17%  Similarity=0.181  Sum_probs=63.4

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      -.++++||+|+|||.+++.++..+..........+++..+...  ....+..       .....+...+.  ...+++||
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~~~~--~~~~~~~-------~~~~~~~~~~~--~~~llilD  107 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFR--LKHLMDE-------GKDTKFLKTVL--NSPVLVLD  107 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHHHHH--HHHHHHH-------TCCSHHHHHHH--TCSEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHHHHH--HHHHhcC-------chHHHHHHHhc--CCCEEEEe
Confidence            3689999999999999999998875221223333443332111  1111110       00112223332  35699999


Q ss_pred             cCC--ccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHH
Q psy1308         378 EVD--KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNE  424 (607)
Q Consensus       378 Eie--k~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~  424 (607)
                      |++  .+++..+..|.++++...          -.+..+|+|||...+.
T Consensus       108 E~~~~~~~~~~~~~l~~ll~~~~----------~~~~~ii~tsn~~~~~  146 (180)
T 3ec2_A          108 DLGSERLSDWQRELISYIITYRY----------NNLKSTIITTNYSLQR  146 (180)
T ss_dssp             TCSSSCCCHHHHHHHHHHHHHHH----------HTTCEEEEECCCCSCC
T ss_pred             CCCCCcCCHHHHHHHHHHHHHHH----------HcCCCEEEEcCCChhH
Confidence            998  577888888888886321          1235688999966543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.13  E-value=3.4e-06  Score=78.55  Aligned_cols=109  Identities=17%  Similarity=0.190  Sum_probs=65.3

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      |..++++||+|+|||.+++.++..+... ..++..++++.+.     ..+.....    ......+...+...  .+|+|
T Consensus        54 ~~~~~l~G~~GtGKT~la~~i~~~~~~~-~~~~~~~~~~~~~-----~~~~~~~~----~~~~~~~~~~~~~~--~~lil  121 (202)
T 2w58_A           54 MKGLYLHGSFGVGKTYLLAAIANELAKR-NVSSLIVYVPELF-----RELKHSLQ----DQTMNEKLDYIKKV--PVLML  121 (202)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHTT-TCCEEEEEHHHHH-----HHHHHC-------CCCHHHHHHHHHS--SEEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEEEhHHHH-----HHHHHHhc----cchHHHHHHHhcCC--CEEEE
Confidence            3578999999999999999999988654 4456666665432     22221100    00112233344433  49999


Q ss_pred             ecCCcc--CHHHHHHHH-HhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         377 DEVDKA--HPDVLTVLL-QLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       377 DEiek~--~~~~~~~Ll-~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ||++..  ++..+..|+ .+++...          ..+..+|+|||...+.+..
T Consensus       122 Dei~~~~~~~~~~~~ll~~~l~~~~----------~~~~~~i~tsn~~~~~l~~  165 (202)
T 2w58_A          122 DDLGAEAMSSWVRDDVFGPILQYRM----------FENLPTFFTSNFDMQQLAH  165 (202)
T ss_dssp             EEECCC---CCGGGTTHHHHHHHHH----------HTTCCEEEEESSCHHHHHH
T ss_pred             cCCCCCcCCHHHHHHHHHHHHHHHH----------hCCCCEEEEcCCCHHHHHH
Confidence            999664  333455344 3554221          1234689999988887754

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.08  E-value=4.7e-06  Score=103.55  Aligned_cols=159  Identities=16%  Similarity=0.182  Sum_probs=101.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      +++|+||+|||||.+++.+....   ....+..++++.......+.+.+...-..... ..|...+-.......|+|+||
T Consensus      1269 ~vLL~GPpGtGKT~la~~~l~~~---~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~-~~g~~~~P~~~gk~~VlFiDE 1344 (2695)
T 4akg_A         1269 GIILCGPPGSGKTMIMNNALRNS---SLYDVVGINFSKDTTTEHILSALHRHTNYVTT-SKGLTLLPKSDIKNLVLFCDE 1344 (2695)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC---SSCEEEEEECCTTCCHHHHHHHHHHHBCCEEE-TTTEEEEEBSSSSCEEEEEET
T ss_pred             eEEEECCCCCCHHHHHHHHHhcC---CCCceEEEEeecCCCHHHHHHHHHHHhhhccc-cCCccccCCCCCceEEEEecc
Confidence            68999999999999996655433   24467888988887766655554321111000 001100000012246999999


Q ss_pred             CCccCHH------HHHHHHHhhccceeecC-CCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccC
Q psy1308         379 VDKAHPD------VLTVLLQLFDEGRLTDG-KGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQG  451 (607)
Q Consensus       379 iek~~~~------~~~~Ll~~~~~~~~~~~-~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~  451 (607)
                      ++....+      .+..|.++++.|.+.+. .+..+...++.+|+|+|-...           .|+              
T Consensus      1345 inmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~-----------gGR-------------- 1399 (2695)
T 4akg_A         1345 INLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTD-----------PGR-------------- 1399 (2695)
T ss_dssp             TTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTS-----------TTC--------------
T ss_pred             cccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCcc-----------CCC--------------
Confidence            8765443      78899999998877764 344556688999999993210           000              


Q ss_pred             CCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHH
Q psy1308         452 SNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFW  509 (607)
Q Consensus       452 ~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~  509 (607)
                                           ... +|.|++|+ .++.+.+++.+++..|....+...
T Consensus      1400 ---------------------~~l-~~rllRrf-~vi~i~~P~~~~l~~I~~~il~~~ 1434 (2695)
T 4akg_A         1400 ---------------------IPM-SERFTRHA-AILYLGYPSGKSLSQIYEIYYKAI 1434 (2695)
T ss_dssp             ---------------------CCC-CHHHHTTE-EEEECCCCTTTHHHHHHHHHHHHH
T ss_pred             ---------------------ccC-Chhhhhee-eEEEeCCCCHHHHHHHHHHHHHHH
Confidence                                 001 27778888 567777789999999988877643

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.00  E-value=4.1e-06  Score=104.65  Aligned_cols=160  Identities=19%  Similarity=0.182  Sum_probs=101.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      +++++||+|||||.+++.....+   .+..++.++++..+....+...+...-.+.....+|.+..........|+|+||
T Consensus      1306 pvLL~GptGtGKT~li~~~L~~l---~~~~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~~~~p~~~Gk~~VlFiDD 1382 (3245)
T 3vkg_A         1306 PLILCGPPGSGKTMTLTSTLRAF---PDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLVVFCDE 1382 (3245)
T ss_dssp             CCEEESSTTSSHHHHHHHHGGGC---TTEEEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCEEEEESSTTCEEEEEETT
T ss_pred             cEEEECCCCCCHHHHHHHHHHhC---CCCceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCcccCCCcCCceEEEEecc
Confidence            68999999999998875544332   134578899998887766655553111010000001221111112346999999


Q ss_pred             CCccCHH------HHHHHHHhhccceeecC-CCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccC
Q psy1308         379 VDKAHPD------VLTVLLQLFDEGRLTDG-KGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQG  451 (607)
Q Consensus       379 iek~~~~------~~~~Ll~~~~~~~~~~~-~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~  451 (607)
                      +....++      ++..|.+++|.|.+.|. ++..+...++.||+|.|-...           .|     +         
T Consensus      1383 iNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~-----------gG-----r--------- 1437 (3245)
T 3vkg_A         1383 INLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTD-----------AG-----R--------- 1437 (3245)
T ss_dssp             TTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTS-----------TT-----C---------
T ss_pred             cCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCC-----------CC-----C---------
Confidence            9987765      88999999998888885 344556688999999883210           00     0         


Q ss_pred             CCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHH
Q psy1308         452 SNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFW  509 (607)
Q Consensus       452 ~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~  509 (607)
                                           ... +|-|.+|+.. +.+..++.+++..|....+..+
T Consensus      1438 ---------------------~~l-~~Rf~r~F~v-i~i~~ps~esL~~If~til~~~ 1472 (3245)
T 3vkg_A         1438 ---------------------VQL-THRFLRHAPI-LLVDFPSTSSLTQIYGTFNRAL 1472 (3245)
T ss_dssp             ---------------------CCC-CHHHHTTCCE-EECCCCCHHHHHHHHHHHHHHH
T ss_pred             ---------------------ccC-CHHHHhhceE-EEeCCCCHHHHHHHHHHHHHHH
Confidence                                 001 2667777744 5556678999999977766543

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=97.97  E-value=8.9e-05  Score=92.32  Aligned_cols=101  Identities=19%  Similarity=0.228  Sum_probs=72.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      ..++.||+|+|||++++.+|+.+..    ++++++|+.-.+.....++|               .++...  ++.++|||
T Consensus       647 ~~~l~GpaGtGKTe~vk~LA~~lg~----~~v~~nc~e~ld~~~lg~~~---------------~g~~~~--Gaw~~~DE  705 (2695)
T 4akg_A          647 GGCFFGPAGTGKTETVKAFGQNLGR----VVVVFNCDDSFDYQVLSRLL---------------VGITQI--GAWGCFDE  705 (2695)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTTC----CCEEEETTSSCCHHHHHHHH---------------HHHHHH--TCEEEEET
T ss_pred             CCcccCCCCCCcHHHHHHHHHHhCC----cEEEEECCCCCChhHhhHHH---------------HHHHhc--CCEeeehh
Confidence            5778999999999999999999855    49999999877665554443               233332  47999999


Q ss_pred             CCccCHHHHHHHH-------Hhhccce-eecCCCcEEec-CceEEEEecCc
Q psy1308         379 VDKAHPDVLTVLL-------QLFDEGR-LTDGKGKTIEC-KDAIFVMTSNL  420 (607)
Q Consensus       379 iek~~~~~~~~Ll-------~~~~~~~-~~~~~g~~~~~-~~~~iI~tsn~  420 (607)
                      +++++++++..|.       ..+.++. .....|.++.. .++.+++|.|-
T Consensus       706 ~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NP  756 (2695)
T 4akg_A          706 FNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNP  756 (2695)
T ss_dssp             TTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECC
T ss_pred             hhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCC
Confidence            9999999999883       3343333 22234555554 45667888884

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=97.89  E-value=0.00011  Score=74.50  Aligned_cols=164  Identities=13%  Similarity=0.119  Sum_probs=105.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHh----hCCCeEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLK----KCPNAVV  374 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~----~~~~~vl  374 (607)
                      .++|+||.|.||+..++.+++.+...+..++..+.+.   +...+.+++                +.+.    .+++-++
T Consensus        20 ~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~---~~~~~~~l~----------------~~~~~~plf~~~kvv   80 (343)
T 1jr3_D           20 AYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSID---PNTDWNAIF----------------SLCQAMSLFASRQTL   80 (343)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECC---TTCCHHHHH----------------HHHHHHHHCCSCEEE
T ss_pred             EEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEec---CCCCHHHHH----------------HHhcCcCCccCCeEE
Confidence            7899999999999999999987653322222222221   112222222                2222    1346799


Q ss_pred             EEecCCc-cCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC-cchHHHHHHHhhhhhcccccccCCCCcccccCC
Q psy1308         375 LFDEVDK-AHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN-LASNEIAQHALQLRKEGEEFSKRTPSISKSQGS  452 (607)
Q Consensus       375 ~lDEiek-~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~  452 (607)
                      ++||++. ++.+.++.|++.+++-           ..+++||++++ .+...-                           
T Consensus        81 ii~~~~~kl~~~~~~aLl~~le~p-----------~~~~~~il~~~~~~~~~~---------------------------  122 (343)
T 1jr3_D           81 LLLLPENGPNAAINEQLLTLTGLL-----------HDDLLLIVRGNKLSKAQE---------------------------  122 (343)
T ss_dssp             EEECCSSCCCTTHHHHHHHHHTTC-----------BTTEEEEEEESCCCTTTT---------------------------
T ss_pred             EEECCCCCCChHHHHHHHHHHhcC-----------CCCeEEEEEcCCCChhhH---------------------------
Confidence            9999999 9999999999999852           13566666654 211000                           


Q ss_pred             CcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         453 NLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       453 ~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                                         ...+. +.+.+|. .++.|.|++.+++..++...+..        .|  +.++++++++|+
T Consensus       123 -------------------~~k~~-~~i~sr~-~~~~~~~l~~~~l~~~l~~~~~~--------~g--~~i~~~a~~~l~  171 (343)
T 1jr3_D          123 -------------------NAAWF-TALANRS-VQVTCQTPEQAQLPRWVAARAKQ--------LN--LELDDAANQVLC  171 (343)
T ss_dssp             -------------------TSHHH-HHHTTTC-EEEEECCCCTTHHHHHHHHHHHH--------TT--CEECHHHHHHHH
T ss_pred             -------------------hhHHH-HHHHhCc-eEEEeeCCCHHHHHHHHHHHHHH--------cC--CCCCHHHHHHHH
Confidence                               00011 4555666 57899999999998887665531        23  468999999998


Q ss_pred             ccCCCCCCccchhHHHHHHH
Q psy1308         533 DGYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       533 ~~~~~~~GaR~L~~~i~~~i  552 (607)
                      . . ..++.|.+.+.+++..
T Consensus       172 ~-~-~~gdl~~~~~elekl~  189 (343)
T 1jr3_D          172 Y-C-YEGNLLALAQALERLS  189 (343)
T ss_dssp             H-S-STTCHHHHHHHHHHHH
T ss_pred             H-H-hchHHHHHHHHHHHHH
Confidence            5 2 2467788888877654

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.79  E-value=4.4e-05  Score=75.94  Aligned_cols=108  Identities=18%  Similarity=0.245  Sum_probs=62.3

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhc-cCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIH-RDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~-~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      ..++|+||+|+|||.++++++..+. .. ..++..++++.+     ...+......  |  ....+...+..  ..+|+|
T Consensus       153 ~~lll~G~~GtGKT~La~aia~~~~~~~-g~~v~~~~~~~l-----~~~l~~~~~~--~--~~~~~~~~~~~--~~lLii  220 (308)
T 2qgz_A          153 KGLYLYGDMGIGKSYLLAAMAHELSEKK-GVSTTLLHFPSF-----AIDVKNAISN--G--SVKEEIDAVKN--VPVLIL  220 (308)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHHS-CCCEEEEEHHHH-----HHHHHCCCC--------CCTTHHHHT--SSEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHhc-CCcEEEEEHHHH-----HHHHHHHhcc--c--hHHHHHHHhcC--CCEEEE
Confidence            4789999999999999999999886 54 344555555433     2233221100  0  11122333443  359999


Q ss_pred             ecCCcc--CHHHHHHHHH-hhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         377 DEVDKA--HPDVLTVLLQ-LFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       377 DEiek~--~~~~~~~Ll~-~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ||++..  ++..++.|+. +++...          ..+..+|+|||...+.+..
T Consensus       221 Ddig~~~~~~~~~~~ll~~ll~~r~----------~~~~~~IitSN~~~~~l~~  264 (308)
T 2qgz_A          221 DDIGAEQATSWVRDEVLQVILQYRM----------LEELPTFFTSNYSFADLER  264 (308)
T ss_dssp             ETCCC------CTTTTHHHHHHHHH----------HHTCCEEEEESSCHHHHHT
T ss_pred             cCCCCCCCCHHHHHHHHHHHHHHHH----------HCCCcEEEECCCCHHHHHH
Confidence            999654  3334443443 554221          0233589999998887754

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.78  E-value=3.7e-05  Score=67.56  Aligned_cols=89  Identities=15%  Similarity=0.229  Sum_probs=59.2

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .+.++||+|+|||.+++.++..+... ....+.++...+...                       ..+.  ...+++|||
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~~~~~-g~~~~~~~~~~~~~~-----------------------~~~~--~~~lLilDE   91 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQALEA-GKNAAYIDAASMPLT-----------------------DAAF--EAEYLAVDQ   91 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHHHHTT-TCCEEEEETTTSCCC-----------------------GGGG--GCSEEEEES
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhc-CCcEEEEcHHHhhHH-----------------------HHHh--CCCEEEEeC
Confidence            68899999999999999999987543 222455554433221                       1111  246999999


Q ss_pred             CCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcch
Q psy1308         379 VDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLAS  422 (607)
Q Consensus       379 iek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~  422 (607)
                      ++.+.+..+..|+++++.-.  .       ....++|+||+...
T Consensus        92 ~~~~~~~~~~~l~~li~~~~--~-------~g~~~iiits~~~p  126 (149)
T 2kjq_A           92 VEKLGNEEQALLFSIFNRFR--N-------SGKGFLLLGSEYTP  126 (149)
T ss_dssp             TTCCCSHHHHHHHHHHHHHH--H-------HTCCEEEEEESSCT
T ss_pred             ccccChHHHHHHHHHHHHHH--H-------cCCcEEEEECCCCH
Confidence            99998877888888886321  1       11234777888543

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.67  E-value=0.00039  Score=87.29  Aligned_cols=102  Identities=22%  Similarity=0.199  Sum_probs=72.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      ...+.||+|||||++++.+|+.+.+    +++.++|+.-.+...+.++|               .+++.  .++-.+|||
T Consensus       606 gg~~~GPaGtGKTet~k~La~~lgr----~~~vfnC~~~~d~~~~g~i~---------------~G~~~--~GaW~cfDE  664 (3245)
T 3vkg_A          606 GGNPFGPAGTGKTETVKALGSQLGR----FVLVFCCDEGFDLQAMSRIF---------------VGLCQ--CGAWGCFDE  664 (3245)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTC----CEEEEECSSCCCHHHHHHHH---------------HHHHH--HTCEEEEET
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHhCC----eEEEEeCCCCCCHHHHHHHH---------------hhHhh--cCcEEEehh
Confidence            3467899999999999999999965    48999998877666665554               23333  256789999


Q ss_pred             CCccCHHHHHHHHHhhc---------cceeecCCCcEEec-CceEEEEecCcc
Q psy1308         379 VDKAHPDVLTVLLQLFD---------EGRLTDGKGKTIEC-KDAIFVMTSNLA  421 (607)
Q Consensus       379 iek~~~~~~~~Ll~~~~---------~~~~~~~~g~~~~~-~~~~iI~tsn~~  421 (607)
                      +.+++++++..+.+.+.         ..++.-..|.++.. .++.|++|.|-|
T Consensus       665 fNrl~~~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpg  717 (3245)
T 3vkg_A          665 FNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPG  717 (3245)
T ss_dssp             TTSSCHHHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCC
T ss_pred             hhcCCHHHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCC
Confidence            99999999999887554         33333333555544 456788888854

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.52  E-value=0.00095  Score=67.32  Aligned_cols=52  Identities=21%  Similarity=0.272  Sum_probs=39.9

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSE  336 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~  336 (607)
                      .++|.+..++.+...+...          ..+++.|++|+|||.+++.+++..      +++.+++..
T Consensus        13 ~~~gR~~el~~L~~~l~~~----------~~v~i~G~~G~GKT~Ll~~~~~~~------~~~~~~~~~   64 (350)
T 2qen_A           13 DIFDREEESRKLEESLENY----------PLTLLLGIRRVGKSSLLRAFLNER------PGILIDCRE   64 (350)
T ss_dssp             GSCSCHHHHHHHHHHHHHC----------SEEEEECCTTSSHHHHHHHHHHHS------SEEEEEHHH
T ss_pred             hcCChHHHHHHHHHHHhcC----------CeEEEECCCcCCHHHHHHHHHHHc------CcEEEEeec
Confidence            5788888888888777541          268899999999999999998764      156666654

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=97.38  E-value=0.0014  Score=66.22  Aligned_cols=53  Identities=23%  Similarity=0.424  Sum_probs=38.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY  337 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~  337 (607)
                      .++|.+..++.+.. +..          + .+++.|++|+|||.+++.+++....    ..+.+++...
T Consensus        14 ~~~gR~~el~~L~~-l~~----------~-~v~i~G~~G~GKT~L~~~~~~~~~~----~~~~~~~~~~   66 (357)
T 2fna_A           14 DFFDREKEIEKLKG-LRA----------P-ITLVLGLRRTGKSSIIKIGINELNL----PYIYLDLRKF   66 (357)
T ss_dssp             GSCCCHHHHHHHHH-TCS----------S-EEEEEESTTSSHHHHHHHHHHHHTC----CEEEEEGGGG
T ss_pred             HhcChHHHHHHHHH-hcC----------C-cEEEECCCCCCHHHHHHHHHHhcCC----CEEEEEchhh
Confidence            47788777777655 422          2 6889999999999999999887632    2566776654

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.16  E-value=0.00021  Score=65.11  Aligned_cols=96  Identities=17%  Similarity=0.136  Sum_probs=48.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc--cccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS--EYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLF  376 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a--~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~l  376 (607)
                      ..+++|++|+|||+++..++..+...+.. ...+..+  ...+...+...+|.............+...+. .+..+|++
T Consensus         5 i~vi~G~~gsGKTT~ll~~~~~~~~~g~~-v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~~~~~~~~~~~~-~~~dvviI   82 (184)
T 2orw_A            5 LTVITGPMYSGKTTELLSFVEIYKLGKKK-VAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKYIE-EDTRGVFI   82 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCE-EEEEEEC-----CCCEECC----CEECEEESSGGGGGGGCC-TTEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCe-EEEEeeccccccCcccEEecCCCceeeEEECCHHHHHHHhc-CCCCEEEE
Confidence            57899999999999985555443222111 1111111  00001111111121111111111112222221 24679999


Q ss_pred             ecCCccCHHHHHHHHHhhcc
Q psy1308         377 DEVDKAHPDVLTVLLQLFDE  396 (607)
Q Consensus       377 DEiek~~~~~~~~Ll~~~~~  396 (607)
                      ||+..+++++++.|..+.++
T Consensus        83 DE~Q~~~~~~~~~l~~l~~~  102 (184)
T 2orw_A           83 DEVQFFNPSLFEVVKDLLDR  102 (184)
T ss_dssp             CCGGGSCTTHHHHHHHHHHT
T ss_pred             ECcccCCHHHHHHHHHHHHC
Confidence            99999998888888888764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.02  E-value=0.0016  Score=59.49  Aligned_cols=25  Identities=20%  Similarity=0.501  Sum_probs=22.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .++++||+|+|||.++..+++.+..
T Consensus        60 ~ili~GPPGtGKTt~a~ala~~l~g   84 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIHFIQG   84 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            6899999999999999999998743

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=97.00  E-value=0.003  Score=60.44  Aligned_cols=93  Identities=15%  Similarity=0.215  Sum_probs=50.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .++|+||+|+|||.++++|+..+...     -.++.+..   .                  ..+.+   ....-+++.||
T Consensus       106 ~~~l~GppgtGKt~~a~ala~~~~l~-----G~vn~~~~---~------------------f~l~~---~~~k~i~l~Ee  156 (267)
T 1u0j_A          106 TIWLFGPATTGKTNIAEAIAHTVPFY-----GCVNWTNE---N------------------FPFND---CVDKMVIWWEE  156 (267)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCE-----EECCTTCS---S------------------CTTGG---GSSCSEEEECS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhhccc-----ceeecccc---c------------------ccccc---ccccEEEEecc
Confidence            69999999999999999999863211     11122110   0                  01111   01123455555


Q ss_pred             CCccCHHHHHHHHHhhccceee-cCC-CcEEecCceEEEEecCcc
Q psy1308         379 VDKAHPDVLTVLLQLFDEGRLT-DGK-GKTIECKDAIFVMTSNLA  421 (607)
Q Consensus       379 iek~~~~~~~~Ll~~~~~~~~~-~~~-g~~~~~~~~~iI~tsn~~  421 (607)
                      .. +..+.+..+-.+++-+.+. |.. ........+-+|+|||.+
T Consensus       157 ~~-~~~d~~~~lr~i~~G~~~~id~K~k~~~~v~~tPvIitsN~~  200 (267)
T 1u0j_A          157 GK-MTAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTN  200 (267)
T ss_dssp             CC-EETTTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSC
T ss_pred             cc-chhHHHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCC
Confidence            44 5556667777777633333 221 112244667899999953

>1qzm_A ATP-dependent protease LA; oligomerization domain, AAA+ protein, hydrolase; 1.90A {Escherichia coli} SCOP: c.37.1.20

Probab=96.97  E-value=0.0019  Score=50.81  Aligned_cols=88  Identities=9%  Similarity=-0.006  Sum_probs=62.9

Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHHHh-ccCCCCCE
Q psy1308         492 PFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEK-SVIGKGSF  570 (607)
Q Consensus       492 pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l~-~~~~~~~~  570 (607)
                      .++.+|-..|+.++|-.-+-+-.....-.+.++++|+..|...|..+.|+|.|++.|....... +..++. +.   ...
T Consensus         2 GYt~~EK~~IAk~~LiPkql~~~GL~~~~~~i~d~al~~iI~~YTREaGVRnLer~i~~i~RK~-a~~i~~~~~---~~~   77 (94)
T 1qzm_A            2 GYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAGVRGLEREISKLCRKA-VKQLLLDKS---LKH   77 (94)
T ss_dssp             CCCHHHHHHHHHHTHHHHHHHHTTCCTTTEEECHHHHHHHHHHHCCCSSSHHHHHHHHHHHHHH-HHHHHTCTT---CCC
T ss_pred             CCCHHHHHHHHHHhccHHHHHHhCCChhhceECHHHHHHHHHHhcccccchHHHHHHHHHHHHH-HHHHHHcCC---CCC
Confidence            4678999999999997544332222233699999999999878999999999999999866554 445553 32   245


Q ss_pred             EEEEEecCCcccc
Q psy1308         571 VRLYVQWSKEVSE  583 (607)
Q Consensus       571 v~i~~~~~~~~~~  583 (607)
                      ++|+.++-..+++
T Consensus        78 v~v~~~~l~~~LG   90 (94)
T 1qzm_A           78 IEINGDNLHDYLG   90 (94)
T ss_dssp             EEECTTTTHHHHC
T ss_pred             eeECHHHHHHHcC
Confidence            6776666655553

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=96.59  E-value=0.0038  Score=58.43  Aligned_cols=96  Identities=11%  Similarity=0.072  Sum_probs=53.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc-ccchhHhhhcCCCCCccCCCCchhhHHHhh----CCCeE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ-EKHEVAKLIGAPPGYLGHDDGGQLTKRLKK----CPNAV  373 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~-~~~~~~~llg~~~g~~g~~~~~~l~~~~~~----~~~~v  373 (607)
                      ..+++|++|+|||+++..++..+...+.. ...+....-. +...+..-+|-............+...++.    .+..+
T Consensus        14 i~litG~mGsGKTT~ll~~~~r~~~~g~k-Vli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~~~~~dv   92 (223)
T 2b8t_A           14 IEFITGPMFAGKTAELIRRLHRLEYADVK-YLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKV   92 (223)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCC-EEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCE-EEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHhhCCCCCE
Confidence            67889999999999988777665443222 2222211111 111222222321111111122234455554    24679


Q ss_pred             EEEecCCccCHHHHHHHHHhhc
Q psy1308         374 VLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       374 l~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      |++||+.-+++++...+..+.+
T Consensus        93 ViIDEaQ~l~~~~ve~l~~L~~  114 (223)
T 2b8t_A           93 IGIDEVQFFDDRICEVANILAE  114 (223)
T ss_dssp             EEECSGGGSCTHHHHHHHHHHH
T ss_pred             EEEecCccCcHHHHHHHHHHHh
Confidence            9999999999887777766554

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=96.22  E-value=0.0056  Score=64.41  Aligned_cols=113  Identities=21%  Similarity=0.266  Sum_probs=65.3

Q ss_pred             hhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc----------cccc
Q psy1308         272 GQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY----------QEKH  341 (607)
Q Consensus       272 Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~----------~~~~  341 (607)
                      +|..++..+...+....        + .+++.|++|||||.++..++..+...+......+-.+..          ....
T Consensus        29 ~Q~~av~~~~~~i~~~~--------~-~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a~T~~Aa~~l~~~~~~~~~   99 (459)
T 3upu_A           29 GQKNAFNIVMKAIKEKK--------H-HVTINGPAGTGATTLTKFIIEALISTGETGIILAAPTHAAKKILSKLSGKEAS   99 (459)
T ss_dssp             HHHHHHHHHHHHHHSSS--------C-EEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEESSHHHHHHHHHHHSSCEE
T ss_pred             HHHHHHHHHHHHHhcCC--------C-EEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEecCcHHHHHHHHhhhccchh
Confidence            57788887766665321        1 789999999999999999998886542222322211110          0111


Q ss_pred             hhHhhhcCCCCCccCCCCchh--hHHHhhCCCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         342 EVAKLIGAPPGYLGHDDGGQL--TKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~~~l--~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      .+.++++..+...+  ....+  ...-......++++||+..+++..+..|++.+.
T Consensus       100 T~h~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~iiiDE~~~~~~~~~~~l~~~~~  153 (459)
T 3upu_A          100 TIHSILKINPVTYE--ENVLFEQKEVPDLAKCRVLICDEVSMYDRKLFKILLSTIP  153 (459)
T ss_dssp             EHHHHHTEEEEECS--SCEEEEECSCCCCSSCSEEEESCGGGCCHHHHHHHHHHSC
T ss_pred             hHHHHhccCccccc--ccchhcccccccccCCCEEEEECchhCCHHHHHHHHHhcc
Confidence            12233331111000  00000  000011246799999999999999999999886

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=96.07  E-value=0.018  Score=51.88  Aligned_cols=24  Identities=29%  Similarity=0.533  Sum_probs=21.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.||+|+|||++.+.|+..+.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999998863

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=95.92  E-value=0.025  Score=55.53  Aligned_cols=69  Identities=17%  Similarity=0.278  Sum_probs=39.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCC---chhhHHHhhCCCeEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDG---GQLTKRLKKCPNAVVL  375 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~---~~l~~~~~~~~~~vl~  375 (607)
                      .+++.||+|+|||.++..++.. ... .-.|+.+...+.     + ..      +. .+..   ..+.+.+...+  +|+
T Consensus       125 viLI~GpPGsGKTtLAlqlA~~-~G~-~VlyIs~~~eE~-----v-~~------~~-~~le~~l~~i~~~l~~~~--LLV  187 (331)
T 2vhj_A          125 MVIVTGKGNSGKTPLVHALGEA-LGG-KDKYATVRFGEP-----L-SG------YN-TDFNVFVDDIARAMLQHR--VIV  187 (331)
T ss_dssp             EEEEECSCSSSHHHHHHHHHHH-HHT-TSCCEEEEBSCS-----S-TT------CB-CCHHHHHHHHHHHHHHCS--EEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHh-CCC-CEEEEEecchhh-----h-hh------hh-cCHHHHHHHHHHHHhhCC--EEE
Confidence            5689999999999999999876 211 234555522211     0 00      00 0000   01334455544  999


Q ss_pred             EecCCccCH
Q psy1308         376 FDEVDKAHP  384 (607)
Q Consensus       376 lDEiek~~~  384 (607)
                      |||+..+.+
T Consensus       188 IDsI~aL~~  196 (331)
T 2vhj_A          188 IDSLKNVIG  196 (331)
T ss_dssp             EECCTTTC-
T ss_pred             Eeccccccc
Confidence            999998754

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=95.91  E-value=0.0059  Score=55.67  Aligned_cols=95  Identities=15%  Similarity=0.232  Sum_probs=48.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEee--c-ccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD--M-SEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVL  375 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~--~-a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~  375 (607)
                      ..+++|+.|+|||+.+..++......+.. ...+.  . ..+.. ..+..-+|......+......+...+. .+..+|+
T Consensus        10 i~v~~G~mgsGKTT~ll~~a~r~~~~g~k-V~v~k~~~d~r~~~-~~i~s~~g~~~~a~~~~~~~~i~~~~~-~~~dvVi   86 (191)
T 1xx6_A           10 VEVIVGPMYSGKSEELIRRIRRAKIAKQK-IQVFKPEIDNRYSK-EDVVSHMGEKEQAVAIKNSREILKYFE-EDTEVIA   86 (191)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCC-EEEEEEC--------CEEECTTSCEEECEEESSSTHHHHHCC-TTCSEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCE-EEEEEeccCccchH-HHHHhhcCCceeeEeeCCHHHHHHHHh-ccCCEEE
Confidence            67899999999997776666554332222 22221  1 11211 112222221111111111222322222 2468999


Q ss_pred             EecCCccCHHHHHHHHHhhcc
Q psy1308         376 FDEVDKAHPDVLTVLLQLFDE  396 (607)
Q Consensus       376 lDEiek~~~~~~~~Ll~~~~~  396 (607)
                      +||+.-++++.+..|..+.+.
T Consensus        87 IDEaqfl~~~~v~~l~~l~~~  107 (191)
T 1xx6_A           87 IDEVQFFDDEIVEIVNKIAES  107 (191)
T ss_dssp             ECSGGGSCTHHHHHHHHHHHT
T ss_pred             EECCCCCCHHHHHHHHHHHhC
Confidence            999999988888777666553

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=95.76  E-value=0.011  Score=54.56  Aligned_cols=94  Identities=19%  Similarity=0.162  Sum_probs=46.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc---cccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS---EYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVL  375 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a---~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~  375 (607)
                      ..+++|+.|+|||+.+..++......+.. ...+..+   .+. ...+..-+|......+......+...+. .+..+|+
T Consensus        30 l~vitG~MgsGKTT~lL~~a~r~~~~g~k-Vli~k~~~d~R~g-e~~i~s~~g~~~~a~~~~~~~~~~~~~~-~~~dvVi  106 (214)
T 2j9r_A           30 IEVICGSMFSGKSEELIRRVRRTQFAKQH-AIVFKPCIDNRYS-EEDVVSHNGLKVKAVPVSASKDIFKHIT-EEMDVIA  106 (214)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCC-EEEEECC------------------CCEEECSSGGGGGGGCC-SSCCEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCE-EEEEEeccCCcch-HHHHHhhcCCeeEEeecCCHHHHHHHHh-cCCCEEE
Confidence            66789999999997776665554333222 2222211   111 1122222232221111112222322222 2468999


Q ss_pred             EecCCccCHHHHHHHHHhhc
Q psy1308         376 FDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       376 lDEiek~~~~~~~~Ll~~~~  395 (607)
                      +||+.-++++.++.|..+.+
T Consensus       107 IDEaQF~~~~~V~~l~~l~~  126 (214)
T 2j9r_A          107 IDEVQFFDGDIVEVVQVLAN  126 (214)
T ss_dssp             ECCGGGSCTTHHHHHHHHHH
T ss_pred             EECcccCCHHHHHHHHHHhh
Confidence            99999999888877666554

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=95.10  E-value=0.024  Score=57.14  Aligned_cols=93  Identities=18%  Similarity=0.343  Sum_probs=50.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEe-ecccccccchhHhhhcCCCCCccCCC---CchhhHHHhhCCCeEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRL-DMSEYQEKHEVAKLIGAPPGYLGHDD---GGQLTKRLKKCPNAVV  374 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l-~~a~~~~~~~~~~llg~~~g~~g~~~---~~~l~~~~~~~~~~vl  374 (607)
                      .+++.||+|+|||++.+.+...+........+.+ |-.++...... .++..  ..++...   ...+...++. ...++
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~-~~v~q--~~~~~~~~~~~~~La~aL~~-~Pdvi  200 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKK-CLVNQ--REVHRDTLGFSEALRSALRE-DPDII  200 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSS-SEEEE--EEBTTTBSCHHHHHHHHTTS-CCSEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccc-cceee--eeeccccCCHHHHHHHHhhh-CcCEE
Confidence            6899999999999999999988754312222222 22222111000 00000  0001000   1123344443 45799


Q ss_pred             EEecCCccCHHHHHHHHHhhccc
Q psy1308         375 LFDEVDKAHPDVLTVLLQLFDEG  397 (607)
Q Consensus       375 ~lDEiek~~~~~~~~Ll~~~~~~  397 (607)
                      ++||+-  +++....+++..+.|
T Consensus       201 llDEp~--d~e~~~~~~~~~~~G  221 (356)
T 3jvv_A          201 LVGEMR--DLETIRLALTAAETG  221 (356)
T ss_dssp             EESCCC--SHHHHHHHHHHHHTT
T ss_pred             ecCCCC--CHHHHHHHHHHHhcC
Confidence            999997  577788888876543

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=94.96  E-value=0.02  Score=52.66  Aligned_cols=98  Identities=17%  Similarity=0.197  Sum_probs=50.7

Q ss_pred             ceeeeeccCCCChhH-HHHHHHHHhccCcCCceEEeecc--cccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEE
Q psy1308         298 LVFLFLGSSGIGKTE-LAKQLAFYIHRDKKEAFIRLDMS--EYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVV  374 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~-la~~la~~l~~~~~~~~~~l~~a--~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl  374 (607)
                      ...+++|+.|+|||+ +.+.+.++.... .. ...+..+  .-.+...+..=+|......-......+...+ ..+..+|
T Consensus        29 ~I~vitG~M~sGKTT~Llr~~~r~~~~g-~k-vli~kp~~D~R~~~~~I~Sr~G~~~~a~~v~~~~di~~~i-~~~~dvV  105 (219)
T 3e2i_A           29 WIECITGSMFSGKSEELIRRLRRGIYAK-QK-VVVFKPAIDDRYHKEKVVSHNGNAIEAINISKASEIMTHD-LTNVDVI  105 (219)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHHTT-CC-EEEEEEC-----------CBTTBCCEEEEESSGGGGGGSC-CTTCSEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcC-Cc-eEEEEeccCCcchhhhHHHhcCCceeeEEeCCHHHHHHHH-hcCCCEE
Confidence            467889999999998 667766655432 22 2222111  1111111221122111100011112232222 2356799


Q ss_pred             EEecCCccCHHHHHHHHHhhccce
Q psy1308         375 LFDEVDKAHPDVLTVLLQLFDEGR  398 (607)
Q Consensus       375 ~lDEiek~~~~~~~~Ll~~~~~~~  398 (607)
                      ++||+.=+++++.+.|..+.+.|.
T Consensus       106 ~IDEaQFf~~~~v~~l~~la~~gi  129 (219)
T 3e2i_A          106 GIDEVQFFDDEIVSIVEKLSADGH  129 (219)
T ss_dssp             EECCGGGSCTHHHHHHHHHHHTTC
T ss_pred             EEechhcCCHHHHHHHHHHHHCCC
Confidence            999999999999998888876443

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=94.86  E-value=0.43  Score=51.12  Aligned_cols=44  Identities=16%  Similarity=0.223  Sum_probs=34.7

Q ss_pred             hhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHH
Q psy1308         271 VGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAF  319 (607)
Q Consensus       271 ~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~  319 (607)
                      +|.+..++.+...+.....     ..+.++.++|+.|+|||.||+.++.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~-----~~~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCD-----LDSFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTT-----SSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccC-----CCceEEEEEcCCCCCHHHHHHHHHH
Confidence            5888889988888854421     1234788999999999999999986

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.55  E-value=0.14  Score=47.52  Aligned_cols=83  Identities=24%  Similarity=0.234  Sum_probs=47.7

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCC----C---CccCCCC-chhhHHHhh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPP----G---YLGHDDG-GQLTKRLKK  368 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~----g---~~g~~~~-~~l~~~~~~  368 (607)
                      .+.+++.|++|+|||.++-.++..+... ......+++... +......++..-+    +   |.|.... ..+...+..
T Consensus         6 ~l~I~~~~kgGvGKTt~a~~la~~l~~~-G~~V~v~d~D~q-~~~~~~al~~gl~~~~~~~~~~~~~~~~e~~l~~~L~~   83 (228)
T 2r8r_A            6 RLKVFLGAAPGVGKTYAMLQAAHAQLRQ-GVRVMAGVVETH-GRAETEALLNGLPQQPLLRTEYRGMTLEEMDLDALLKA   83 (228)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHHHHHT-TCCEEEEECCCT-TCHHHHHHHTTSCBCCCEEEEETTEEEEECCHHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHHC-CCCEEEEEeCCC-CChhHHHHhcCccccCcceeecCCcccccccHHHHHhc
Confidence            4578899999999999999888887554 233444455442 2333333332111    1   1111111 233443444


Q ss_pred             CCCeEEEEecCCcc
Q psy1308         369 CPNAVVLFDEVDKA  382 (607)
Q Consensus       369 ~~~~vl~lDEiek~  382 (607)
                       ...++++||+...
T Consensus        84 -~pdlvIVDElG~~   96 (228)
T 2r8r_A           84 -APSLVLVDELAHT   96 (228)
T ss_dssp             -CCSEEEESCTTCB
T ss_pred             -CCCEEEEeCCCCC
Confidence             4579999998865

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=94.49  E-value=0.046  Score=58.89  Aligned_cols=89  Identities=20%  Similarity=0.270  Sum_probs=53.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccc----------ccccchhHhhhcCCCCCccCCCCchhhHHHhh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSE----------YQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK  368 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~----------~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~  368 (607)
                      .+++.|++|||||.+++.++..+... ......+-.+.          -.....+.++++..+.  ++...     .-..
T Consensus       206 ~~~I~G~pGTGKTt~i~~l~~~l~~~-g~~Vl~~ApT~~Aa~~L~e~~~~~a~Tih~ll~~~~~--~~~~~-----~~~~  277 (574)
T 3e1s_A          206 LVVLTGGPGTGKSTTTKAVADLAESL-GLEVGLCAPTGKAARRLGEVTGRTASTVHRLLGYGPQ--GFRHN-----HLEP  277 (574)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHT-TCCEEEEESSHHHHHHHHHHHTSCEEEHHHHTTEETT--EESCS-----SSSC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhc-CCeEEEecCcHHHHHHhHhhhcccHHHHHHHHcCCcc--hhhhh-----hccc
Confidence            68899999999999999999887554 22222111100          0011223445543220  11000     0011


Q ss_pred             CCCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         369 CPNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       369 ~~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      .+..+|++||+..++......|++.+.
T Consensus       278 ~~~dvlIIDEasml~~~~~~~Ll~~~~  304 (574)
T 3e1s_A          278 APYDLLIVDEVSMMGDALMLSLLAAVP  304 (574)
T ss_dssp             CSCSEEEECCGGGCCHHHHHHHHTTSC
T ss_pred             ccCCEEEEcCccCCCHHHHHHHHHhCc
Confidence            246799999999999999999988775

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=94.41  E-value=0.09  Score=48.09  Aligned_cols=25  Identities=24%  Similarity=0.223  Sum_probs=20.3

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +...+++|++|+|||.++..++...
T Consensus         5 ~mi~l~tG~pGsGKT~~a~~~~~~~   29 (199)
T 2r2a_A            5 AEICLITGTPGSGKTLKMVSMMAND   29 (199)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             eeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4578899999999999998765443

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=94.34  E-value=0.028  Score=50.93  Aligned_cols=91  Identities=15%  Similarity=0.126  Sum_probs=49.5

Q ss_pred             eeeeeccCCCChh-HHHHHHHHHhccCcCCceEEeecc---cccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEE
Q psy1308         299 VFLFLGSSGIGKT-ELAKQLAFYIHRDKKEAFIRLDMS---EYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVV  374 (607)
Q Consensus       299 ~~ll~G~~G~GKt-~la~~la~~l~~~~~~~~~~l~~a---~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl  374 (607)
                      ..+++|+.|+||| +|.+.+..+....  .....+..+   .+. .. ++.-+|.............+....+  +..+|
T Consensus        22 l~fiyG~MgsGKTt~Ll~~i~n~~~~~--~kvl~~kp~~D~R~~-~~-i~S~~g~~~~A~~~~~~~d~~~~~~--~~DvI   95 (195)
T 1w4r_A           22 IQVILGPMFSGKSTELMRRVRRFQIAQ--YKCLVIKYAKDTRYS-SS-FCTHDRNTMEALPACLLRDVAQEAL--GVAVI   95 (195)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTT--CCEEEEEETTCCCGG-GS-CCHHHHHHSEEEEESSGGGGHHHHH--TCSEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHcC--CeEEEEccccCccch-hh-hhhccCCcccceecCCHHHHHHhcc--CCCEE
Confidence            6788999999999 9999998886553  222223222   222 11 2222221100000112223333332  35799


Q ss_pred             EEecCCccCHHHHHHHHHhhcc
Q psy1308         375 LFDEVDKAHPDVLTVLLQLFDE  396 (607)
Q Consensus       375 ~lDEiek~~~~~~~~Ll~~~~~  396 (607)
                      ++||+.=+ ++....+-.+.+.
T Consensus        96 lIDEaQFf-k~~ve~~~~L~~~  116 (195)
T 1w4r_A           96 GIDEGQFF-PDIVEFCEAMANA  116 (195)
T ss_dssp             EESSGGGC-TTHHHHHHHHHHT
T ss_pred             EEEchhhh-HHHHHHHHHHHHC
Confidence            99999999 7755555444443

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=94.22  E-value=0.097  Score=51.00  Aligned_cols=39  Identities=28%  Similarity=0.369  Sum_probs=29.8

Q ss_pred             CCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         292 TDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       292 ~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      ....+|..+++.|++|+|||++++.+++.+.    .++..++.
T Consensus        28 ~~~~~~~livl~G~sGsGKSTla~~L~~~~~----~~~~~Is~   66 (287)
T 1gvn_B           28 KAVESPTAFLLGGQPGSGKTSLRSAIFEETQ----GNVIVIDN   66 (287)
T ss_dssp             CCCSSCEEEEEECCTTSCTHHHHHHHHHHTT----TCCEEECT
T ss_pred             cCCCCCeEEEEECCCCCCHHHHHHHHHHHhC----CCeEEEec
Confidence            4445677899999999999999999998653    23555654

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=94.17  E-value=0.47  Score=48.89  Aligned_cols=118  Identities=14%  Similarity=0.216  Sum_probs=62.9

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc-----hhHhhhcCC--CCCccCCCCchhhH---H
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH-----EVAKLIGAP--PGYLGHDDGGQLTK---R  365 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~-----~~~~llg~~--~g~~g~~~~~~l~~---~  365 (607)
                      +|.+++++|++|+|||+++..|+..+... ......+++..+....     ...+..|.+  ..+.+.+.......   .
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~-G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~  177 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR-GYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDY  177 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT-TCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC-CCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHH
Confidence            46799999999999999999999888654 3334445554443211     011112211  00111111111112   2


Q ss_pred             HhhCCCeEEEEecCCccCH--HHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHH
Q psy1308         366 LKKCPNAVVLFDEVDKAHP--DVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNE  424 (607)
Q Consensus       366 ~~~~~~~vl~lDEiek~~~--~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~  424 (607)
                      ++...+.++++|.....+.  .....|..+...          +....+++++-+..+...
T Consensus       178 a~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~----------~~pd~vlLVvDA~~gq~a  228 (443)
T 3dm5_A          178 FKSKGVDIIIVDTAGRHKEDKALIEEMKQISNV----------IHPHEVILVIDGTIGQQA  228 (443)
T ss_dssp             HHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHH----------HCCSEEEEEEEGGGGGGH
T ss_pred             HHhCCCCEEEEECCCcccchHHHHHHHHHHHHh----------hcCceEEEEEeCCCchhH
Confidence            3334578999999988763  344444333221          012346677766656544

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=93.94  E-value=0.23  Score=53.75  Aligned_cols=45  Identities=22%  Similarity=0.305  Sum_probs=34.9

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHH
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAF  319 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~  319 (607)
                      .++|.+..++.+...+....      ..+-.+.++|+.|+|||.+++.++.
T Consensus       125 ~~vGR~~~l~~L~~~L~~~~------~~~~~v~I~G~~GiGKTtLa~~~~~  169 (591)
T 1z6t_A          125 VFVTRKKLVNAIQQKLSKLK------GEPGWVTIHGMAGCGKSVLAAEAVR  169 (591)
T ss_dssp             SCCCCHHHHHHHHHHHTTST------TSCEEEEEECCTTSSHHHHHHHHHC
T ss_pred             eecccHHHHHHHHHHHhccc------CCCceEEEEcCCCCCHHHHHHHHHh
Confidence            48899999888887775321      1234788999999999999998864

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=93.77  E-value=0.11  Score=48.23  Aligned_cols=92  Identities=13%  Similarity=0.025  Sum_probs=43.0

Q ss_pred             eeeeeccCCCChhH-HHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTE-LAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~-la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      ..+++|+.|+|||+ +.+.+.++.....+--++......-.+ ..+..-+|......+......+...+  .+..+|++|
T Consensus        21 l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D~Ryg-~~i~sr~G~~~~a~~i~~~~di~~~~--~~~dvViID   97 (234)
T 2orv_A           21 IQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDRNTMEALPACLLRDVAQEA--LGVAVIGID   97 (234)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCCC------------CEEEEESSGGGGHHHH--TTCSEEEES
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCCccch-HHHHhhcCCeeEEEecCCHHHHHHHh--ccCCEEEEE
Confidence            67889999999994 455555554332111112211211111 22222223221111111222233333  456899999


Q ss_pred             cCCccCHHHHHHHHHhhc
Q psy1308         378 EVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       378 Eiek~~~~~~~~Ll~~~~  395 (607)
                      |+.-+..  ...+.+.++
T Consensus        98 EaQF~~~--v~el~~~l~  113 (234)
T 2orv_A           98 EGQFFPD--IVEFCEAMA  113 (234)
T ss_dssp             SGGGCTT--HHHHHHHHH
T ss_pred             chhhhhh--HHHHHHHHH
Confidence            9998864  455556665

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=93.63  E-value=0.42  Score=49.19  Aligned_cols=116  Identities=17%  Similarity=0.343  Sum_probs=62.0

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc--h---hHhhhcCCCCCccCCCCch---hhHHHh
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH--E---VAKLIGAPPGYLGHDDGGQ---LTKRLK  367 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~--~---~~~llg~~~g~~g~~~~~~---l~~~~~  367 (607)
                      +|.++++.|++|+|||+++..|+..+... .....-+++..+....  .   .....|. +-|........   ....+.
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~-G~kVllv~~D~~r~~a~eqL~~~~~~~gv-~~~~~~~~~dp~~i~~~al~  173 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKR-GYKVGLVAADVYRPAAYDQLLQLGNQIGV-QVYGEPNNQNPIEIAKKGVD  173 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHT-TCCEEEEEECCSCHHHHHHHHHHHHTTTC-CEECCTTCSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEEecCccchhHHHHHHHHHHhcCC-ceeeccccCCHHHHHHHHHH
Confidence            46689999999999999999999888654 2333334444333211  0   1122221 11111111111   122233


Q ss_pred             h---CCCeEEEEecCCccC----HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchH
Q psy1308         368 K---CPNAVVLFDEVDKAH----PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASN  423 (607)
Q Consensus       368 ~---~~~~vl~lDEiek~~----~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~  423 (607)
                      .   ..+.++++|.....+    +.....+..+...-          ....+++++.+..+.+
T Consensus       174 ~a~~~~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~----------~pd~vlLVlDa~~gq~  226 (433)
T 3kl4_A          174 IFVKNKMDIIIVDTAGRHGYGEETKLLEEMKEMYDVL----------KPDDVILVIDASIGQK  226 (433)
T ss_dssp             HTTTTTCSEEEEEECCCSSSCCTTHHHHHHHHHHHHH----------CCSEEEEEEEGGGGGG
T ss_pred             HHHhcCCCEEEEECCCCccccCCHHHHHHHHHHHHhh----------CCcceEEEEeCccchH
Confidence            3   357899999998865    33444444433211          1235667777766654

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.55  E-value=0.025  Score=51.44  Aligned_cols=24  Identities=25%  Similarity=0.469  Sum_probs=21.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.|++|+|||++.+.++..+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhcc
Confidence            467899999999999999998874

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=93.39  E-value=0.1  Score=49.99  Aligned_cols=25  Identities=28%  Similarity=0.531  Sum_probs=22.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .+++.||+|+|||++.+.++..+..
T Consensus        27 ~v~i~Gp~GsGKSTll~~l~g~~~~   51 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASMIDYINQ   51 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHHhCCC
Confidence            7899999999999999999988743

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=93.26  E-value=0.17  Score=60.73  Aligned_cols=84  Identities=19%  Similarity=0.221  Sum_probs=49.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCC-CccCC--CC----chhhHHHhhCCC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPG-YLGHD--DG----GQLTKRLKKCPN  371 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g-~~g~~--~~----~~l~~~~~~~~~  371 (607)
                      .++++||+|||||.+|++++...... ..+.+-++..... +....+-||.... +++..  .+    ..+....+....
T Consensus      1084 ~~l~~G~~g~GKT~la~~~~~~~~~~-g~~~~fi~~~~~~-~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~~ 1161 (1706)
T 3cmw_A         1084 IVEIYGPESSGKTTLTLQVIAAAQRE-GKTCAFIDAEHAL-DPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAV 1161 (1706)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT-TCCEEEECTTSCC-CHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCC
T ss_pred             EEEEEcCCCCChHHHHHHHHHHhhhc-CCceeEEEcccch-HHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcCC
Confidence            68999999999999999998766443 4555555554322 1222233332211 22220  01    122334456778


Q ss_pred             eEEEEecCCccCH
Q psy1308         372 AVVLFDEVDKAHP  384 (607)
Q Consensus       372 ~vl~lDEiek~~~  384 (607)
                      +++++||++.+-|
T Consensus      1162 ~~i~~d~~~al~~ 1174 (1706)
T 3cmw_A         1162 DVIVVDSVAALTP 1174 (1706)
T ss_dssp             SEEEESCGGGCCC
T ss_pred             eEEEeCchHhcCc
Confidence            9999999875433

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=93.13  E-value=0.086  Score=47.01  Aligned_cols=34  Identities=15%  Similarity=0.360  Sum_probs=27.0

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      |..+++.|++|+|||++++.|++.+..    +++.++.
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~~----~~~~~~~   36 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLPE----PWLAFGV   36 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSS----CEEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCC----CeEEecc
Confidence            346889999999999999999988743    4665544

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=92.44  E-value=0.17  Score=54.96  Aligned_cols=26  Identities=15%  Similarity=0.239  Sum_probs=22.0

Q ss_pred             CCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         370 PNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       370 ~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      +..++++||++.++......|++.+.
T Consensus       262 ~~d~lIIDEAsml~~~~~~~Ll~~l~  287 (608)
T 1w36_D          262 HLDVLVVDEASMIDLPMMSRLIDALP  287 (608)
T ss_dssp             SCSEEEECSGGGCBHHHHHHHHHTCC
T ss_pred             CCCEEEEechhhCCHHHHHHHHHhCC
Confidence            45799999999999888888888764

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=92.44  E-value=0.17  Score=48.18  Aligned_cols=31  Identities=26%  Similarity=0.427  Sum_probs=26.0

Q ss_pred             CCCCCCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         292 TDDDHPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       292 ~~~~~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .....|..+++.|++|+|||++++.|++.+.
T Consensus        27 ~~~~~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           27 KSSKQPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             CCCSSCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CcccCCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            3445567899999999999999999998764

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=91.93  E-value=0.12  Score=47.19  Aligned_cols=30  Identities=30%  Similarity=0.367  Sum_probs=25.6

Q ss_pred             CCCCCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         293 DDDHPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       293 ~~~~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+|..+++.|++|+|||++++.|++.+.
T Consensus        16 ~~~~~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           16 PRGSHMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             CCCSCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345567899999999999999999998763

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=91.84  E-value=0.22  Score=50.40  Aligned_cols=25  Identities=28%  Similarity=0.531  Sum_probs=22.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .+++.||+|+|||++.+.++..+..
T Consensus       138 ~i~ivG~~GsGKTTll~~l~~~~~~  162 (372)
T 2ewv_A          138 LILVTGPTGSGKSTTIASMIDYINQ  162 (372)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcCc
Confidence            7899999999999999999988754

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=91.76  E-value=0.17  Score=50.35  Aligned_cols=33  Identities=27%  Similarity=0.514  Sum_probs=26.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      .+++.||+|+|||++.+.++..+..  ..+.+.++
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~~~~--~~g~i~i~  205 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEFIPK--EERIISIE  205 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGGSCT--TSCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcC--CCcEEEEC
Confidence            5889999999999999999987654  34556665

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=91.55  E-value=0.13  Score=46.13  Aligned_cols=25  Identities=32%  Similarity=0.426  Sum_probs=22.3

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ..+++.|++|+|||++++.|++.+.
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3688999999999999999998874

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=91.17  E-value=0.34  Score=47.13  Aligned_cols=46  Identities=24%  Similarity=0.328  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         276 AINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       276 ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .++.+...+.....  ....+|..+.+.|++|+|||++++.|+..+..
T Consensus        12 ~~~~l~~~i~~~~~--~~~~~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           12 TIEFLDKYIPEWFE--TGNKCPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             HHHHHHHHHHHHHT--TTCCSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhh--ccCCCCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            44445444444321  23345778999999999999999999998854

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=91.12  E-value=0.15  Score=45.94  Aligned_cols=26  Identities=31%  Similarity=0.498  Sum_probs=23.3

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +|..+++.|++|+|||++++.|++.+
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            35678999999999999999999876

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=91.02  E-value=0.13  Score=45.79  Aligned_cols=23  Identities=26%  Similarity=0.495  Sum_probs=20.8

Q ss_pred             CceeeeeccCCCChhHHHHHHHH
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAF  319 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~  319 (607)
                      |..+++.|++|+|||++++.|++
T Consensus         2 ~~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            2 KKIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEecCCCCCHHHHHHHHHh
Confidence            45688999999999999999997

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=90.97  E-value=0.51  Score=44.31  Aligned_cols=22  Identities=23%  Similarity=0.134  Sum_probs=19.2

Q ss_pred             eeeeccCCCChhHHHHHHHHHh
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++||+|+|||.++..++...
T Consensus       111 ~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A          111 GCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHS
T ss_pred             EEEEeCCCCCHHHHHHHHHHHc
Confidence            7889999999999998887665

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=90.87  E-value=0.17  Score=46.07  Aligned_cols=24  Identities=33%  Similarity=0.468  Sum_probs=22.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+++.|++|+|||++++.|++.+.
T Consensus        27 ~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           27 RIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            788999999999999999998873

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=90.86  E-value=1.7  Score=51.27  Aligned_cols=46  Identities=20%  Similarity=0.242  Sum_probs=35.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHH
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFY  320 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~  320 (607)
                      .++|.+..++.+...+....      ..+..+.++|+.|+|||.||+.++..
T Consensus       125 ~~vgR~~~~~~l~~~l~~~~------~~~~~v~i~G~gG~GKTtLa~~~~~~  170 (1249)
T 3sfz_A          125 IFVTRKKLVHAIQQKLWKLN------GEPGWVTIYGMAGCGKSVLAAEAVRD  170 (1249)
T ss_dssp             SCCCCHHHHHHHHHHHHTTT------TSCEEEEEECSTTSSHHHHHHHHTCC
T ss_pred             eeccHHHHHHHHHHHHhhcc------CCCCEEEEEeCCCCCHHHHHHHHhcC
Confidence            48899999998888775432      12447889999999999999887654

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=90.80  E-value=0.47  Score=43.24  Aligned_cols=40  Identities=30%  Similarity=0.295  Sum_probs=28.9

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSE  336 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~  336 (607)
                      ++..+.+.|++|+|||++++.++..+... ....+.+++..
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~~~~~~~-~~~v~~~~~d~   60 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLSQTLREQ-GISVCVFHMDD   60 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHHHHHHT-TCCEEEEEGGG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhc-CCeEEEeccCc
Confidence            45689999999999999999999887433 22344444433

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=90.64  E-value=0.19  Score=47.86  Aligned_cols=24  Identities=33%  Similarity=0.419  Sum_probs=21.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .++++||+|+|||.+++.|++.+.
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCC
Confidence            478999999999999999998774

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=90.62  E-value=0.22  Score=48.58  Aligned_cols=27  Identities=30%  Similarity=0.471  Sum_probs=23.5

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .|..+++.||+|+|||.++..+++.+.
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~~   35 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKILP   35 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhCC
Confidence            355788999999999999999998864

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=90.59  E-value=0.12  Score=46.26  Aligned_cols=27  Identities=26%  Similarity=0.342  Sum_probs=19.3

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +|..+++.|++|+|||++++.|++.+.
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            456789999999999999999998764

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=90.37  E-value=0.17  Score=44.64  Aligned_cols=24  Identities=17%  Similarity=0.230  Sum_probs=21.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+++.|++|+|||++++.|++.+.
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999998764

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=90.29  E-value=0.19  Score=45.93  Aligned_cols=25  Identities=28%  Similarity=0.445  Sum_probs=22.5

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +..+++.|++|+|||++++.|++.+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4478899999999999999999876

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=90.20  E-value=0.18  Score=45.43  Aligned_cols=25  Identities=32%  Similarity=0.523  Sum_probs=22.7

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      |..+++.|++|+|||++++.|++.+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5678999999999999999999876

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=90.18  E-value=0.21  Score=45.57  Aligned_cols=26  Identities=35%  Similarity=0.348  Sum_probs=23.4

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +..+.+.|++|+|||++++.|+..+.
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            44788999999999999999999886

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=90.15  E-value=0.37  Score=45.16  Aligned_cols=22  Identities=27%  Similarity=0.404  Sum_probs=20.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHH
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFY  320 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~  320 (607)
                      .+.+.||+|+|||.+++.++..
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            7889999999999999999985

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=90.07  E-value=0.19  Score=45.14  Aligned_cols=27  Identities=19%  Similarity=0.287  Sum_probs=23.5

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      +..+++.|++|+|||++++.|++.+..
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l~~   29 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNLRK   29 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            346889999999999999999998753

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=89.90  E-value=0.26  Score=45.27  Aligned_cols=26  Identities=27%  Similarity=0.417  Sum_probs=23.5

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +..+.+.||+|+|||++++.|+..+.
T Consensus        22 g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           22 RQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45889999999999999999999875

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=89.80  E-value=0.25  Score=44.10  Aligned_cols=26  Identities=38%  Similarity=0.475  Sum_probs=22.6

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +..+++.|++|+|||.+++.+++.+.
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~   36 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSG   36 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhC
Confidence            34688999999999999999998773

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=89.79  E-value=0.26  Score=43.70  Aligned_cols=24  Identities=29%  Similarity=0.667  Sum_probs=21.6

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHh
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      ..+.+.|++|+|||.+++.++..+
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhh
Confidence            378899999999999999999865

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=89.75  E-value=0.19  Score=46.60  Aligned_cols=27  Identities=19%  Similarity=0.305  Sum_probs=23.6

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +|..+++.|++|+|||++++.|++.+.
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            355788999999999999999998874

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=89.72  E-value=0.22  Score=46.15  Aligned_cols=26  Identities=27%  Similarity=0.478  Sum_probs=23.2

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +..++|.|++|+|||++++.|++.+.
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            55789999999999999999998773

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=89.68  E-value=0.38  Score=43.11  Aligned_cols=28  Identities=32%  Similarity=0.533  Sum_probs=24.4

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      +..+.+.|++|+|||++++.+++.+...
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~~l~~~   40 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLADLLQKE   40 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            4578899999999999999999988643

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=89.67  E-value=0.18  Score=44.59  Aligned_cols=24  Identities=29%  Similarity=0.584  Sum_probs=21.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.++|++|+|||++++.|+..+.
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999998763

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=89.66  E-value=0.23  Score=46.91  Aligned_cols=26  Identities=27%  Similarity=0.341  Sum_probs=23.5

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +|..+++.|++|+|||++++.|++.+
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999999866

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=89.66  E-value=0.18  Score=49.89  Aligned_cols=26  Identities=27%  Similarity=0.519  Sum_probs=22.8

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +..+++.||+|+|||.|+..||+.+.
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            34788999999999999999998764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=89.62  E-value=0.24  Score=45.18  Aligned_cols=28  Identities=29%  Similarity=0.388  Sum_probs=23.9

Q ss_pred             CCCCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         294 DDHPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       294 ~~~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +.++..+.+.|++|+|||++++.|++.+
T Consensus        12 ~~~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           12 PDQVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4455678999999999999999999765

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=89.60  E-value=0.22  Score=44.95  Aligned_cols=26  Identities=15%  Similarity=0.304  Sum_probs=23.0

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +..+.+.|++|+|||++++.|++.+.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45788999999999999999998763

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=89.56  E-value=0.27  Score=45.49  Aligned_cols=27  Identities=26%  Similarity=0.394  Sum_probs=23.4

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+|-.+++.||||+||++.++.|++.+
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            345578889999999999999999876

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=89.52  E-value=1.4  Score=41.19  Aligned_cols=20  Identities=35%  Similarity=0.564  Sum_probs=16.0

Q ss_pred             eeeeeccCCCChhHHHHHHH
Q psy1308         299 VFLFLGSSGIGKTELAKQLA  318 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la  318 (607)
                      .+++.|++|+|||.+...+.
T Consensus        78 ~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           78 VVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCcHHhHHHHH
Confidence            58899999999997665443

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=89.44  E-value=0.2  Score=45.87  Aligned_cols=25  Identities=28%  Similarity=0.364  Sum_probs=22.3

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +..+++.||+|+|||++++.|++.+
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4478899999999999999999876

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=89.44  E-value=0.33  Score=43.57  Aligned_cols=34  Identities=12%  Similarity=0.216  Sum_probs=25.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      .+++.|++|+|||++++.|++.+... ...+..++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~~~-g~~~~~~~   36 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILDNQ-GINNKIIN   36 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTT-TCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhc-CceEEEEE
Confidence            47899999999999999999988643 22344443

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=89.37  E-value=0.27  Score=44.08  Aligned_cols=36  Identities=28%  Similarity=0.516  Sum_probs=27.1

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY  337 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~  337 (607)
                      +..++++|++|+|||.+++.+++.+.     ++..+|+..+
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~l~-----g~~~id~d~~   45 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAELD-----GFQHLEVGKL   45 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHST-----TEEEEEHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC-----CCEEeeHHHH
Confidence            44789999999999999999998721     2555565443

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=89.23  E-value=0.24  Score=44.32  Aligned_cols=24  Identities=25%  Similarity=0.450  Sum_probs=21.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+++.|++|+|||++++.|++.+.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcC
Confidence            478999999999999999998764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=89.21  E-value=0.21  Score=46.58  Aligned_cols=26  Identities=19%  Similarity=0.381  Sum_probs=22.7

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +|..+++.|++|+|||++++.|++.+
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            35678999999999999999999876

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=89.19  E-value=0.25  Score=45.17  Aligned_cols=28  Identities=29%  Similarity=0.392  Sum_probs=24.3

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      +..+++.|++|+|||++++.|++.+...
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            4578899999999999999999987553

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=89.13  E-value=0.24  Score=45.55  Aligned_cols=26  Identities=23%  Similarity=0.358  Sum_probs=22.4

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +..+.+.||+|+|||++++.|+..+.
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            34788999999999999999998753

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=89.12  E-value=0.66  Score=45.68  Aligned_cols=59  Identities=19%  Similarity=0.269  Sum_probs=38.0

Q ss_pred             cccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         259 KYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       259 ~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ..||...+.- ..+.......+...+...    ....+|..+.+.||+|+|||++++.|...+.
T Consensus        59 y~pl~rll~~-~~~~~~~l~~~~~~~l~~----~~~~~p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           59 YLPLSRLLSF-YVTARQTLQQATYQFLGK----PEPKVPYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             HHHHHHHHHH-HHHHHHHHHHHHHHHHTC----CCCCCCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHH-hhcchHHHHHHHHHHhcc----CCCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3455443333 344444444444333322    2345678899999999999999999998875

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=89.07  E-value=0.29  Score=43.96  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=22.5

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      |..+.+.|++|+|||++++.+++.+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999999876

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=89.05  E-value=0.27  Score=44.02  Aligned_cols=23  Identities=22%  Similarity=0.528  Sum_probs=21.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+.+.||+|+|||++++.|....
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            68899999999999999999865

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=88.97  E-value=0.23  Score=44.07  Aligned_cols=24  Identities=38%  Similarity=0.573  Sum_probs=21.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+++.|++|+|||++++.|++.+.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            478899999999999999998773

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=88.94  E-value=0.27  Score=46.10  Aligned_cols=27  Identities=30%  Similarity=0.421  Sum_probs=23.5

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +|..+.+.||+|+|||++++.|++.+.
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999999998763

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=88.93  E-value=0.31  Score=48.00  Aligned_cols=25  Identities=32%  Similarity=0.468  Sum_probs=22.4

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ..++++||+|+|||.+++.|++.+.
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3688999999999999999998774

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=88.93  E-value=0.28  Score=44.73  Aligned_cols=35  Identities=23%  Similarity=0.284  Sum_probs=26.9

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY  337 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~  337 (607)
                      +..+.+.|++|+|||++++.|+..+      +.+.++...+
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~~~------g~~~i~~d~~   63 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVADET------GLEFAEADAF   63 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH------CCEEEEGGGG
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhh------CCeEEccccc
Confidence            3478899999999999999999876      2455554443

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=88.90  E-value=0.29  Score=45.89  Aligned_cols=27  Identities=30%  Similarity=0.362  Sum_probs=23.7

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ++..++|.|++|+|||++++.|++.+.
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345789999999999999999998873

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=88.70  E-value=0.39  Score=45.84  Aligned_cols=26  Identities=27%  Similarity=0.568  Sum_probs=23.1

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +..+++.|++|+|||.+++.|++.+.
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45789999999999999999999864

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=88.65  E-value=0.25  Score=44.26  Aligned_cols=25  Identities=36%  Similarity=0.520  Sum_probs=22.2

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +..+.+.|++|+|||++++.|++.+
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3468899999999999999999876

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=88.64  E-value=2.4  Score=38.25  Aligned_cols=116  Identities=13%  Similarity=0.125  Sum_probs=61.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecc-cccccchhHhhhc-----CCCCCccCCCCc---------h-
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMS-EYQEKHEVAKLIG-----APPGYLGHDDGG---------Q-  361 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a-~~~~~~~~~~llg-----~~~g~~g~~~~~---------~-  361 (607)
                      .+++++.+|.|||.+|-.++--....+ .-.++.+.-+ ...+.....+-++     ...|++-..+..         . 
T Consensus        30 ~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~~~l  109 (196)
T 1g5t_A           30 IIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMAVW  109 (196)
T ss_dssp             CEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHHHHH
Confidence            466777888999999987776543332 2222322222 1112222222222     112333211100         0 


Q ss_pred             --hhHHHhhCCCeEEEEecC------CccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHH
Q psy1308         362 --LTKRLKKCPNAVVLFDEV------DKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       362 --l~~~~~~~~~~vl~lDEi------ek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                        ..+.+....+.+|+|||+      +-++.+   .+++++.+.           +.+.-+|+|+|..++.+.+.
T Consensus       110 ~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~---ev~~~l~~R-----------p~~~~vIlTGr~ap~~l~e~  170 (196)
T 1g5t_A          110 QHGKRMLADPLLDMVVLDELTYMVAYDYLPLE---EVISALNAR-----------PGHQTVIITGRGCHRDILDL  170 (196)
T ss_dssp             HHHHHHTTCTTCSEEEEETHHHHHHTTSSCHH---HHHHHHHTS-----------CTTCEEEEECSSCCHHHHHH
T ss_pred             HHHHHHHhcCCCCEEEEeCCCccccCCCCCHH---HHHHHHHhC-----------cCCCEEEEECCCCcHHHHHh
Confidence              112233345899999998      444543   355555421           24556999999999988774

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=88.64  E-value=0.85  Score=45.59  Aligned_cols=83  Identities=19%  Similarity=0.180  Sum_probs=45.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCC---ccCCCCchhhH----HHhhCCC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGY---LGHDDGGQLTK----RLKKCPN  371 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~---~g~~~~~~l~~----~~~~~~~  371 (607)
                      .+++.|++|+|||.++..++...... ......++...-. .....+-+|.....   ........+..    +++....
T Consensus        63 iv~I~G~pGsGKTtLal~la~~~~~~-g~~vlyi~~E~~~-~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~~~~~  140 (349)
T 2zr9_A           63 VIEIYGPESSGKTTVALHAVANAQAA-GGIAAFIDAEHAL-DPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVRSGAL  140 (349)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHT-TCCEEEEESSCCC-CHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhC-CCeEEEEECCCCc-CHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHhcCCC
Confidence            68899999999999999998765433 2334444443211 11223334432110   00001112222    2334457


Q ss_pred             eEEEEecCCccC
Q psy1308         372 AVVLFDEVDKAH  383 (607)
Q Consensus       372 ~vl~lDEiek~~  383 (607)
                      .+|++|++..+.
T Consensus       141 ~lIVIDsl~~l~  152 (349)
T 2zr9_A          141 DIIVIDSVAALV  152 (349)
T ss_dssp             SEEEEECGGGCC
T ss_pred             CEEEEcChHhhc
Confidence            899999998875

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=88.58  E-value=0.45  Score=42.31  Aligned_cols=36  Identities=28%  Similarity=0.311  Sum_probs=27.3

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      +..+.+.|++|+|||++++.++..+... ..+++.+|
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~~-g~~~i~~d   40 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVCH-GIPCYTLD   40 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT-TCCEEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhhC-CCcEEEEC
Confidence            3478899999999999999999987432 33455555

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=88.53  E-value=0.3  Score=44.83  Aligned_cols=28  Identities=14%  Similarity=0.236  Sum_probs=24.5

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      +|..+.+.|++|+|||++++.|++.+..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3567899999999999999999998754

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=88.51  E-value=1.8  Score=45.11  Aligned_cols=36  Identities=31%  Similarity=0.498  Sum_probs=27.6

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      ++-.++++|++|+|||.+++.|+..+...  .+-+.+.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~~--~G~V~l~  327 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQQ--GKSVMLA  327 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHHT--TCCEEEE
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhhc--CCeEEEe
Confidence            34589999999999999999999887543  3344553

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=88.30  E-value=0.33  Score=42.65  Aligned_cols=24  Identities=29%  Similarity=0.592  Sum_probs=22.2

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.|++|+|||++++.|++.+.
T Consensus         9 ~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            9 HLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            789999999999999999998774

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=88.29  E-value=0.29  Score=44.34  Aligned_cols=26  Identities=19%  Similarity=0.298  Sum_probs=22.8

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      |..+.+.|++|+|||++++.|++.+.
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34688999999999999999998763

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=88.26  E-value=0.31  Score=46.02  Aligned_cols=25  Identities=28%  Similarity=0.434  Sum_probs=22.7

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      |..+.+.|++|+|||++++.|++.+
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            5678999999999999999999776

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=88.25  E-value=0.41  Score=58.32  Aligned_cols=85  Identities=16%  Similarity=0.141  Sum_probs=47.8

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCC-------CccCCCCchhhHHHhhC
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPG-------YLGHDDGGQLTKRLKKC  369 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g-------~~g~~~~~~l~~~~~~~  369 (607)
                      +..++++||+|+|||.||..++...... .....-++....-.... .+-+|.+-.       +.+.+....+...++..
T Consensus      1427 g~~vll~GppGtGKT~LA~ala~ea~~~-G~~v~Fi~~e~~~~~l~-a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr~~ 1504 (2050)
T 3cmu_A         1427 GRIVEIYGPESSGKTTLTLQVIAAAQRE-GKTCAFIDAEHALDPIY-ARKLGVDIDNLLCSQPDTGEQALEICDALARSG 1504 (2050)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHHHTT-TCCEEEECTTSCCCHHH-HHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc-CCcEEEEEcccccCHHH-HHHcCCCchhceeecCChHHHHHHHHHHHHhcC
Confidence            3489999999999999999988776543 33344444443322222 333331100       00000011223345557


Q ss_pred             CCeEEEEecCCccC
Q psy1308         370 PNAVVLFDEVDKAH  383 (607)
Q Consensus       370 ~~~vl~lDEiek~~  383 (607)
                      ...+|+|||++-+-
T Consensus      1505 ~~~lVVIDsi~al~ 1518 (2050)
T 3cmu_A         1505 AVDVIVVDSVAALT 1518 (2050)
T ss_dssp             CCSEEEESCGGGCC
T ss_pred             CCCEEEEcChhHhc
Confidence            78899999997443

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=88.16  E-value=1.4  Score=43.63  Aligned_cols=29  Identities=34%  Similarity=0.675  Sum_probs=25.0

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .+|-.+.+.||+|+|||++++.|+..+..
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            34568999999999999999999988754

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=87.98  E-value=0.32  Score=44.55  Aligned_cols=28  Identities=25%  Similarity=0.361  Sum_probs=24.4

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      ++..+.+.|++|+|||++++.|++.+..
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~l~~   36 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEYLKN   36 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3567899999999999999999998754

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=87.96  E-value=0.31  Score=43.87  Aligned_cols=34  Identities=24%  Similarity=0.323  Sum_probs=25.9

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      +..+.+.|++|+|||++++.|+...    ..+.+.++.
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~~----~~g~i~i~~   42 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANLP----GVPKVHFHS   42 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS----SSCEEEECT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhcc----CCCeEEEcc
Confidence            3478899999999999999998752    334555553

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=87.91  E-value=0.33  Score=44.59  Aligned_cols=23  Identities=43%  Similarity=0.631  Sum_probs=20.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .++|.||||+||++.++.|++.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999999876

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=87.84  E-value=0.34  Score=47.35  Aligned_cols=26  Identities=23%  Similarity=0.372  Sum_probs=22.4

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +..+++.||+|+|||.++..|++.+.
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhCc
Confidence            34678999999999999999998764

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=87.80  E-value=3.2  Score=40.37  Aligned_cols=28  Identities=32%  Similarity=0.514  Sum_probs=24.2

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .+-.+.+.||+|+|||++++.|+..+..
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3458999999999999999999988754

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=87.66  E-value=0.32  Score=42.81  Aligned_cols=22  Identities=45%  Similarity=0.531  Sum_probs=19.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.|++|+|||++++.| +.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHT
T ss_pred             EEEEECCCCCCHHHHHHHH-HHC
Confidence            5789999999999999999 543

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=87.65  E-value=0.33  Score=44.06  Aligned_cols=26  Identities=31%  Similarity=0.576  Sum_probs=22.9

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHH
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFY  320 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~  320 (607)
                      .+|..+.+.|++|+|||++++.|++.
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            35678999999999999999999974

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=87.48  E-value=0.34  Score=44.06  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=22.7

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +..+.+.|++|+|||++++.|++.+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            5578899999999999999999876

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=87.46  E-value=1.7  Score=46.83  Aligned_cols=40  Identities=28%  Similarity=0.303  Sum_probs=29.0

Q ss_pred             hHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         273 QESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       273 q~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      |..++..+...+....         -.+++.+++|+|||..+-.++..+
T Consensus       183 Q~~ai~~~~~~~~~~~---------~~~ll~~~TGsGKT~~~~~~~~~l  222 (590)
T 3h1t_A          183 QQIAINRAVQSVLQGK---------KRSLITMATGTGKTVVAFQISWKL  222 (590)
T ss_dssp             HHHHHHHHHHHHHTTC---------SEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCC---------CceEEEecCCCChHHHHHHHHHHH
Confidence            7777777766654321         246788999999999987777655

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=87.35  E-value=0.37  Score=45.75  Aligned_cols=28  Identities=14%  Similarity=0.362  Sum_probs=24.0

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+|..+.+.|++|+|||++++.|++.+.
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3466899999999999999999999764

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=87.29  E-value=1.1  Score=44.69  Aligned_cols=84  Identities=19%  Similarity=0.207  Sum_probs=47.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCC--Ccc-CCCCchhhH----HHhhCCC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPG--YLG-HDDGGQLTK----RLKKCPN  371 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g--~~g-~~~~~~l~~----~~~~~~~  371 (607)
                      .+++.||+|+|||.++..++..+... ......++....... ...+-+|..+.  +.- ......+..    .++....
T Consensus        63 i~~I~GppGsGKSTLal~la~~~~~~-gg~VlyId~E~s~~~-~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~~~~~  140 (356)
T 3hr8_A           63 IVEIFGQESSGKTTLALHAIAEAQKM-GGVAAFIDAEHALDP-VYAKNLGVDLKSLLISQPDHGEQALEIVDELVRSGVV  140 (356)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHT-TCCEEEEESSCCCCH-HHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTSCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEEecccccch-HHHHHcCCchhhhhhhhccCHHHHHHHHHHHhhhcCC
Confidence            78899999999999999999876543 233444544332221 13333343221  000 011112222    2233556


Q ss_pred             eEEEEecCCccCH
Q psy1308         372 AVVLFDEVDKAHP  384 (607)
Q Consensus       372 ~vl~lDEiek~~~  384 (607)
                      .++++|.+..+.+
T Consensus       141 dlvVIDSi~~l~~  153 (356)
T 3hr8_A          141 DLIVVDSVAALVP  153 (356)
T ss_dssp             SEEEEECTTTCCC
T ss_pred             CeEEehHhhhhcC
Confidence            7999999988765

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=87.17  E-value=0.35  Score=42.58  Aligned_cols=24  Identities=25%  Similarity=0.477  Sum_probs=21.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+++.|++|+|||++++.|++.+.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999998763

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=87.16  E-value=0.32  Score=44.95  Aligned_cols=25  Identities=16%  Similarity=0.263  Sum_probs=22.5

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +..++|.|++|+|||++++.|++.+
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3478899999999999999999877

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=87.10  E-value=0.42  Score=44.27  Aligned_cols=24  Identities=38%  Similarity=0.429  Sum_probs=21.7

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHh
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      ..+.+.|++|+|||++++.|++.+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999865

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=86.98  E-value=0.36  Score=43.93  Aligned_cols=25  Identities=28%  Similarity=0.421  Sum_probs=22.1

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +..+.+.|++|+|||++++.|+..+
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3478899999999999999999876

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=86.81  E-value=0.49  Score=43.00  Aligned_cols=25  Identities=20%  Similarity=0.466  Sum_probs=21.6

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +..+.+.||+|+|||.|++.|.+..
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECcCCCCHHHHHHHHHhhC
Confidence            3478899999999999999998764

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=86.65  E-value=0.42  Score=43.75  Aligned_cols=26  Identities=38%  Similarity=0.503  Sum_probs=23.0

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +..+.+.|++|+|||++++.|+..+.
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            44788999999999999999998764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=86.46  E-value=0.42  Score=43.34  Aligned_cols=24  Identities=17%  Similarity=0.422  Sum_probs=21.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.|++|+|||++++.|++.+.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            467899999999999999999874

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=86.44  E-value=0.43  Score=43.90  Aligned_cols=23  Identities=26%  Similarity=0.359  Sum_probs=20.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.|++|+|||++++.|++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999998876

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=86.26  E-value=0.5  Score=42.94  Aligned_cols=23  Identities=35%  Similarity=0.579  Sum_probs=21.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+.+.||+|+|||++++.|+..+
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            68899999999999999999874

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=86.18  E-value=0.46  Score=41.60  Aligned_cols=24  Identities=17%  Similarity=0.257  Sum_probs=21.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.|++|+|||++++.|++.+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999998763

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=86.13  E-value=2.3  Score=44.30  Aligned_cols=29  Identities=28%  Similarity=0.534  Sum_probs=24.8

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      ..|..++++|.+|+|||.+++.+++.+..
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~~   65 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLNF   65 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            34668899999999999999999998754

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=86.07  E-value=0.43  Score=43.95  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=20.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.|++|+|||++++.|++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999998765

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=85.99  E-value=0.8  Score=45.56  Aligned_cols=25  Identities=32%  Similarity=0.643  Sum_probs=22.2

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ..+++.|++|+|||.+++.|+..+.
T Consensus        25 ~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A           25 VCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhC
Confidence            3688999999999999999998864

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=85.87  E-value=0.44  Score=42.77  Aligned_cols=22  Identities=32%  Similarity=0.677  Sum_probs=19.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHH
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFY  320 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~  320 (607)
                      .+.+.||+|+|||++++.|+..
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhcc
Confidence            5778999999999999999863

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=85.62  E-value=0.46  Score=43.24  Aligned_cols=24  Identities=33%  Similarity=0.386  Sum_probs=21.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.||+|+|||++.+.|...+.
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCc
Confidence            578999999999999999988753

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=85.60  E-value=0.43  Score=42.95  Aligned_cols=22  Identities=36%  Similarity=0.480  Sum_probs=19.2

Q ss_pred             eeeeccCCCChhHHHHHHHHHh
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +.+.||+|+||++|++.|.+..
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            5689999999999999987654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=85.59  E-value=0.73  Score=41.28  Aligned_cols=24  Identities=42%  Similarity=0.594  Sum_probs=21.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.|++|+|||++++.+++.+.
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            467899999999999999999874

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=85.51  E-value=3.7  Score=41.04  Aligned_cols=28  Identities=32%  Similarity=0.514  Sum_probs=24.4

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      ++-.+++.||+|+|||++++.|+..+..
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            3458999999999999999999988754

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=85.32  E-value=7.8  Score=41.07  Aligned_cols=37  Identities=22%  Similarity=0.310  Sum_probs=26.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccC---cCCceEEeecc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRD---KKEAFIRLDMS  335 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~---~~~~~~~l~~a  335 (607)
                      ++++.|.+|+|||.+.+.+...+...   +.-.++-+|..
T Consensus       216 HlLIaG~TGSGKS~~L~tlI~sLl~~~sP~ev~lilIDpK  255 (574)
T 2iut_A          216 HLLVAGTTGSGKSVGVNAMLLSILFKSTPSEARLIMIDPK  255 (574)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHHTTCCTTTEEEEEECSS
T ss_pred             eeEEECCCCCCHHHHHHHHHHHHHHhCCCcceEEEEeCCC
Confidence            79999999999999999877654322   12346666654

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=84.85  E-value=0.66  Score=42.54  Aligned_cols=37  Identities=35%  Similarity=0.468  Sum_probs=27.4

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      +..+++.|++|+|||.+++.|++.+......+++.++
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~   61 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLD   61 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEEC
Confidence            4478899999999999999999987521122355555

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=84.71  E-value=0.56  Score=45.60  Aligned_cols=42  Identities=14%  Similarity=0.305  Sum_probs=27.8

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ  338 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~  338 (607)
                      ++..+.+.|++|+|||++++.+++.+... ......+++..+.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg~~-~~~~~vI~~D~~~   45 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFRRE-GVKAVSIEGDAFH   45 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHH-TCCEEEEEGGGGB
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHhhc-CCCeeEeecchhh
Confidence            35578999999999999999999876432 2225566766654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=84.70  E-value=0.61  Score=46.21  Aligned_cols=25  Identities=28%  Similarity=0.510  Sum_probs=22.4

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ..+.+.||+|+|||.+++.|++.+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            3688999999999999999998874

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=84.46  E-value=3.4  Score=42.41  Aligned_cols=89  Identities=18%  Similarity=0.134  Sum_probs=48.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCC--CCchhhHHH-hhC-----C
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHD--DGGQLTKRL-KKC-----P  370 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~--~~~~l~~~~-~~~-----~  370 (607)
                      ..++.|++|+|||.+.+.++..      .....+-.... ...++.+-+... |.....  .-.-+-..+ ...     +
T Consensus       163 v~~I~G~aGsGKTt~I~~~~~~------~~~lVlTpT~~-aa~~l~~kl~~~-~~~~~~~~~V~T~dsfL~~~~~~~~~~  234 (446)
T 3vkw_A          163 VVLVDGVPGCGKTKEILSRVNF------EEDLILVPGRQ-AAEMIRRRANAS-GIIVATKDNVRTVDSFLMNYGKGARCQ  234 (446)
T ss_dssp             EEEEEECTTSCHHHHHHHHCCT------TTCEEEESCHH-HHHHHHHHHTTT-SCCCCCTTTEEEHHHHHHTTTSSCCCC
T ss_pred             EEEEEcCCCCCHHHHHHHHhcc------CCeEEEeCCHH-HHHHHHHHhhhc-CccccccceEEEeHHhhcCCCCCCCCc
Confidence            6789999999999999876532      11222222111 112222222211 100000  001111222 222     2


Q ss_pred             CeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         371 NAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       371 ~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      ..+|++||+-.+++.....|+....
T Consensus       235 ~d~liiDE~sm~~~~~l~~l~~~~~  259 (446)
T 3vkw_A          235 FKRLFIDEGLMLHTGCVNFLVEMSL  259 (446)
T ss_dssp             CSEEEEETGGGSCHHHHHHHHHHTT
T ss_pred             CCEEEEeCcccCCHHHHHHHHHhCC
Confidence            5799999999999999998887765

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=84.33  E-value=0.76  Score=40.98  Aligned_cols=21  Identities=29%  Similarity=0.279  Sum_probs=18.6

Q ss_pred             eeeeccCCCChhHHHHHHHHH
Q psy1308         300 FLFLGSSGIGKTELAKQLAFY  320 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~  320 (607)
                      ++++|++|+|||.+|..++..
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            578999999999999998854

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=84.05  E-value=0.62  Score=42.84  Aligned_cols=23  Identities=22%  Similarity=0.226  Sum_probs=20.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.|++|+|||++++.|++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36899999999999999999876

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=83.93  E-value=0.68  Score=40.41  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=21.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+.+.||.|+|||.+.|.++..+
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            68899999999999999999987

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=83.90  E-value=4.5  Score=46.25  Aligned_cols=43  Identities=21%  Similarity=0.143  Sum_probs=33.5

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHH
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAF  319 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~  319 (607)
                      .+|.+..++.+...+....       ...++.++|+.|+|||.||+.++.
T Consensus       130 ~VGRe~eLeeL~elL~~~d-------~~RVV~IvGmGGIGKTTLAk~Vy~  172 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELR-------PAKNVLIDGVLGSGKTWVALDVCL  172 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCC-------SSCEEEECCSTTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccC-------CCeEEEEEcCCCccHHHHHHHHHH
Confidence            3788888888887776421       123788999999999999998875

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=83.84  E-value=0.66  Score=43.01  Aligned_cols=23  Identities=22%  Similarity=0.281  Sum_probs=20.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .++|.|++|+|||++++.|++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            46899999999999999999876

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=83.80  E-value=0.62  Score=42.53  Aligned_cols=25  Identities=32%  Similarity=0.401  Sum_probs=21.8

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +..+.+.|++|+|||++++.|++.+
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4478899999999999999998754

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=83.76  E-value=0.7  Score=44.67  Aligned_cols=26  Identities=31%  Similarity=0.371  Sum_probs=22.6

Q ss_pred             CCCCceeeeeccCCCChhHHHHHHHH
Q psy1308         294 DDHPLVFLFLGSSGIGKTELAKQLAF  319 (607)
Q Consensus       294 ~~~p~~~ll~G~~G~GKt~la~~la~  319 (607)
                      +.+|..+.+.|++|+|||++++.|++
T Consensus        72 ~~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           72 PSGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             CTTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34566899999999999999999995

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=83.75  E-value=0.71  Score=42.52  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=21.6

Q ss_pred             CCceeeeeccCCCChhHHHHHHHH
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAF  319 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~  319 (607)
                      +|..+.+.|++|+|||++++.|++
T Consensus         3 ~~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            3 LRYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            356789999999999999999987

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=83.71  E-value=0.87  Score=46.12  Aligned_cols=25  Identities=36%  Similarity=0.626  Sum_probs=22.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .+.+.||+|+|||.++..|++.+..
T Consensus         4 ~i~i~GptgsGKttla~~La~~~~~   28 (409)
T 3eph_A            4 VIVIAGTTGVGKSQLSIQLAQKFNG   28 (409)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHTE
T ss_pred             EEEEECcchhhHHHHHHHHHHHCCC
Confidence            6789999999999999999998753

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=83.60  E-value=1.3  Score=43.29  Aligned_cols=28  Identities=25%  Similarity=0.428  Sum_probs=24.3

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .++..+.+.|++|+|||++++.|+..+.
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3456889999999999999999998875

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=83.60  E-value=1.7  Score=42.26  Aligned_cols=28  Identities=32%  Similarity=0.418  Sum_probs=24.2

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      ++-.+++.|++|+|||+++..|+..+..
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~  131 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISML  131 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3458899999999999999999988753

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=83.45  E-value=0.66  Score=42.43  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=21.2

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+.+.||+|+|||++.+.|+..+
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            68899999999999999999876

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=83.33  E-value=0.83  Score=44.87  Aligned_cols=29  Identities=28%  Similarity=0.445  Sum_probs=24.8

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .++..+.+.||+|+|||++++.|+..+..
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~  116 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLAR  116 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccc
Confidence            34558899999999999999999998754

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=83.14  E-value=1.1  Score=43.71  Aligned_cols=28  Identities=32%  Similarity=0.519  Sum_probs=24.3

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      ++-.+.+.||+|+|||++++.|+..+..
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~  128 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQN  128 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            3458899999999999999999988754

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=82.83  E-value=0.65  Score=42.94  Aligned_cols=23  Identities=35%  Similarity=0.507  Sum_probs=21.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+.++||+|+|||++.+.|+...
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            67899999999999999999866

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=82.81  E-value=0.91  Score=42.45  Aligned_cols=29  Identities=24%  Similarity=0.283  Sum_probs=23.7

Q ss_pred             CCCCCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         293 DDDHPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       293 ~~~~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      ++.++..+.+.|++|+|||.+++.|++.+
T Consensus        12 ~~~~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           12 DKMKTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             --CCCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34455688999999999999999999866

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=82.75  E-value=0.71  Score=44.96  Aligned_cols=24  Identities=25%  Similarity=0.445  Sum_probs=21.2

Q ss_pred             CceeeeeccCCCChhHHHHHHHHH
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFY  320 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~  320 (607)
                      |..+++.|++|+|||++++.|++.
T Consensus         2 ~~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            2 KKIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            346889999999999999999974

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=82.67  E-value=0.84  Score=43.24  Aligned_cols=24  Identities=42%  Similarity=0.437  Sum_probs=21.7

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHh
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      ..+.+.||+|+|||++++.|++.+
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            378899999999999999999776

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=82.62  E-value=0.88  Score=42.84  Aligned_cols=25  Identities=16%  Similarity=0.406  Sum_probs=22.3

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +..+.+.||+|+|||++++.|+..+
T Consensus        25 g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           25 PFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3478899999999999999999875

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=82.54  E-value=0.74  Score=42.62  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=21.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.||+|+|||+|.+.|.....
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            788999999999999999998764

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=82.37  E-value=0.61  Score=42.22  Aligned_cols=23  Identities=39%  Similarity=0.440  Sum_probs=20.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.||+|+|||.++..+++..
T Consensus        36 ~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           36 GVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            58899999999999999998764

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=82.34  E-value=2.5  Score=42.24  Aligned_cols=84  Identities=20%  Similarity=0.250  Sum_probs=46.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCC--Ccc-CCCCchhhH----HHhhCCC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPG--YLG-HDDGGQLTK----RLKKCPN  371 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g--~~g-~~~~~~l~~----~~~~~~~  371 (607)
                      .+++.|++|+|||.++..++...... ..+...++...-.. ....+-+|....  ++. ......+..    +++....
T Consensus        65 ii~I~G~pGsGKTtLal~la~~~~~~-g~~vlyid~E~s~~-~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~~~~~  142 (356)
T 1u94_A           65 IVEIYGPESSGKTTLTLQVIAAAQRE-GKTCAFIDAEHALD-PIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAV  142 (356)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT-TCCEEEEESSCCCC-HHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC-CCeEEEEeCCCCcc-HHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHhccCC
Confidence            68899999999999999988776443 33445555432211 112222332211  000 001112222    2334567


Q ss_pred             eEEEEecCCccCH
Q psy1308         372 AVVLFDEVDKAHP  384 (607)
Q Consensus       372 ~vl~lDEiek~~~  384 (607)
                      .+|++|.+..+.+
T Consensus       143 ~lVVIDsl~~l~~  155 (356)
T 1u94_A          143 DVIVVDSVAALTP  155 (356)
T ss_dssp             SEEEEECGGGCCC
T ss_pred             CEEEEcCHHHhcc
Confidence            8999999988763

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=82.15  E-value=2  Score=42.01  Aligned_cols=29  Identities=31%  Similarity=0.523  Sum_probs=24.7

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      .|-.++++|++|+|||+++..++..+...
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~  131 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDE  131 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhc
Confidence            34589999999999999999999887543

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=82.13  E-value=1.1  Score=41.83  Aligned_cols=28  Identities=21%  Similarity=0.368  Sum_probs=24.4

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      ++..+.|.|++|+|||++++.|++.+..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            4557889999999999999999998853

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=82.03  E-value=0.78  Score=41.75  Aligned_cols=22  Identities=27%  Similarity=0.368  Sum_probs=19.8

Q ss_pred             ceeeeeccCCCChhHHHHHHHH
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAF  319 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~  319 (607)
                      ..+.+.|++|+|||++++.++.
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999986

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=81.86  E-value=1.8  Score=43.53  Aligned_cols=83  Identities=19%  Similarity=0.208  Sum_probs=44.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCC--C-ccCCCCchhhH----HHhhCCC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPG--Y-LGHDDGGQLTK----RLKKCPN  371 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g--~-~g~~~~~~l~~----~~~~~~~  371 (607)
                      .+++.|++|+|||.++..++...... ..+..-++...-.. ....+-+|....  + ........+..    +++....
T Consensus        76 li~I~G~pGsGKTtlal~la~~~~~~-g~~vlyi~~E~s~~-~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~~~~~  153 (366)
T 1xp8_A           76 ITEIYGPESGGKTTLALAIVAQAQKA-GGTCAFIDAEHALD-PVYARALGVNTDELLVSQPDNGEQALEIMELLVRSGAI  153 (366)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHT-TCCEEEEESSCCCC-HHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCC
T ss_pred             EEEEEcCCCCChHHHHHHHHHHHHHC-CCeEEEEECCCChh-HHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHhcCCC
Confidence            67789999999999999888765433 23344444432111 112233332211  0 00011112222    2333557


Q ss_pred             eEEEEecCCccC
Q psy1308         372 AVVLFDEVDKAH  383 (607)
Q Consensus       372 ~vl~lDEiek~~  383 (607)
                      .+|++|.+..+.
T Consensus       154 ~lVVIDsl~~l~  165 (366)
T 1xp8_A          154 DVVVVDSVAALT  165 (366)
T ss_dssp             SEEEEECTTTCC
T ss_pred             CEEEEeChHHhc
Confidence            899999998775

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=81.83  E-value=0.72  Score=47.43  Aligned_cols=27  Identities=22%  Similarity=0.372  Sum_probs=23.0

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      ..|..++++|++|+|||++++.+++.+
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            345688999999999999999998654

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=81.82  E-value=0.77  Score=41.70  Aligned_cols=21  Identities=24%  Similarity=0.317  Sum_probs=19.6

Q ss_pred             eeeeeccCCCChhHHHHHHHH
Q psy1308         299 VFLFLGSSGIGKTELAKQLAF  319 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~  319 (607)
                      .+.+.|++|+|||++++.|++
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            578999999999999999998

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=81.78  E-value=0.9  Score=41.24  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=21.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.|++|+|||++++.|++.+.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            678999999999999999998763

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=81.61  E-value=3.5  Score=40.53  Aligned_cols=41  Identities=20%  Similarity=0.318  Sum_probs=30.0

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY  337 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~  337 (607)
                      .+-.++++|++|+|||.++..|+..+... .....-+++..+
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~-g~kVllid~D~~  144 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAEL-GYKVLIAAADTF  144 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHT-TCCEEEEECCCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC-CCeEEEEeCCCc
Confidence            34588999999999999999999887654 333444455443

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=81.32  E-value=1.1  Score=39.52  Aligned_cols=27  Identities=26%  Similarity=0.293  Sum_probs=23.2

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      ..+.+.|++|+|||.++..++..+...
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~l~~~   31 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAAAVRE   31 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhhHhc
Confidence            368899999999999999999887543

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=81.28  E-value=2.2  Score=52.11  Aligned_cols=84  Identities=18%  Similarity=0.233  Sum_probs=49.2

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCC-CccC-----CCCchhhH-HHhhCCC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPG-YLGH-----DDGGQLTK-RLKKCPN  371 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g-~~g~-----~~~~~l~~-~~~~~~~  371 (607)
                      .++++|++|+|||.++..++...... .....-+++....+... .+-+|-... +.-+     +....+.. +.+....
T Consensus      1083 ~vll~G~~GtGKT~la~~~~~ea~k~-Ge~~~Fit~ee~~~~L~-a~~~G~dl~~l~~~~pd~~e~~~~i~~~l~~~~~~ 1160 (2050)
T 3cmu_A         1083 IVEIYGPESSGKTTLTLQVIAAAQRE-GKTCAFIDAEHALDPIY-ARKLGVDIDNLLCSQPDTGEQALEICDALARSGAV 1160 (2050)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHTT-TCCEEEECTTSCCCHHH-HHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEEEccccHHHHH-HHHcCCChhHheeecCcchHHHHHHHHHHHHhCCC
Confidence            78999999999999999988776544 44455555555443333 233332110 1000     00111222 3334557


Q ss_pred             eEEEEecCCccCH
Q psy1308         372 AVVLFDEVDKAHP  384 (607)
Q Consensus       372 ~vl~lDEiek~~~  384 (607)
                      .+|++|++.-+.|
T Consensus      1161 dlvVIDsl~~L~~ 1173 (2050)
T 3cmu_A         1161 DVIVVDSVAALTP 1173 (2050)
T ss_dssp             SEEEESCGGGCCC
T ss_pred             CEEEECCcccccc
Confidence            8999999998854

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=81.03  E-value=0.92  Score=41.69  Aligned_cols=25  Identities=24%  Similarity=0.389  Sum_probs=22.4

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHh
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      |..+.+.|++|+|||++++.+++.+
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            5578899999999999999999865

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=80.99  E-value=1.4  Score=47.48  Aligned_cols=37  Identities=27%  Similarity=0.308  Sum_probs=29.1

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      ++..++|.|.+|+|||++++.|++.+... ..+++.+|
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~~~-G~~~v~lD   87 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLVCH-GIPCYTLD   87 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHT-TCCEEEES
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhc-CCeEEEec
Confidence            46689999999999999999999988543 33455554

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=80.73  E-value=0.53  Score=43.12  Aligned_cols=25  Identities=24%  Similarity=0.357  Sum_probs=22.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .+.+.|++|+|||++++.|++.+..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~   26 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            4678999999999999999998753

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=80.36  E-value=1.2  Score=39.24  Aligned_cols=19  Identities=42%  Similarity=0.749  Sum_probs=17.3

Q ss_pred             eeeeeccCCCChhHHHHHH
Q psy1308         299 VFLFLGSSGIGKTELAKQL  317 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~l  317 (607)
                      .+.++||+|+|||++++.+
T Consensus        11 i~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6889999999999999963

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=80.36  E-value=0.95  Score=42.83  Aligned_cols=24  Identities=29%  Similarity=0.422  Sum_probs=21.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.|++|+|||++++.|++.+.
T Consensus        50 ~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           50 SMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            588999999999999999998763

---

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	607
d1qvra3	315	c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus	8e-68
d1r6bx3	315	c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, A	5e-53
d1um8a_	364	c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 2	6e-32
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	5e-20
d1n11a_	408	d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [Ta	5e-19
d1n11a_	408	d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [Ta	3e-18
d1n11a_	408	d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [Ta	4e-14
d1n11a_	408	d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [Ta	3e-12
d1uoha_	223	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	2e-16
d1uoha_	223	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	2e-15
d1wdya_	285	d.211.1.1 (A:) RNase L, 2-5a-dependent ribonucleas	3e-14
d1wdya_	285	d.211.1.1 (A:) RNase L, 2-5a-dependent ribonucleas	5e-13
d1wdya_	285	d.211.1.1 (A:) RNase L, 2-5a-dependent ribonucleas	6e-12
d1wdya_	285	d.211.1.1 (A:) RNase L, 2-5a-dependent ribonucleas	2e-09
d1wdya_	285	d.211.1.1 (A:) RNase L, 2-5a-dependent ribonucleas	5e-05
d2ajaa1	346	a.118.24.1 (A:3-348) Hypothetical protein LPG2416	4e-14
d2ajaa1	346	a.118.24.1 (A:3-348) Hypothetical protein LPG2416	5e-07
d2ajaa1	346	a.118.24.1 (A:3-348) Hypothetical protein LPG2416	1e-05
d2ajaa1	346	a.118.24.1 (A:3-348) Hypothetical protein LPG2416	0.004
d1sw6a_	301	d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker	5e-12
d1sw6a_	301	d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker	5e-10
d1sw6a_	301	d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker	4e-05
d1oy3d_	255	d.211.1.1 (D:) Transcription factor inhibitor I-ka	2e-11
d1oy3d_	255	d.211.1.1 (D:) Transcription factor inhibitor I-ka	2e-07
d1oy3d_	255	d.211.1.1 (D:) Transcription factor inhibitor I-ka	1e-06
d1s70b_	291	d.211.1.1 (B:) Myosin phosphatase targeting subuni	2e-10
d1s70b_	291	d.211.1.1 (B:) Myosin phosphatase targeting subuni	2e-09
d1s70b_	291	d.211.1.1 (B:) Myosin phosphatase targeting subuni	2e-05
d1s70b_	291	d.211.1.1 (B:) Myosin phosphatase targeting subuni	6e-04
d1s70b_	291	d.211.1.1 (B:) Myosin phosphatase targeting subuni	0.003
d1dcqa1	154	d.211.1.1 (A:369-522) Pyk2-associated protein beta	4e-10
d1k1aa_	228	d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId:	3e-09
d1k1aa_	228	d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId:	3e-05
d1k1aa_	228	d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId:	4e-05
d1k1aa_	228	d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId:	7e-05
d1k1aa_	228	d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId:	0.004
d2fo1e1	277	d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis ele	4e-09
d2fo1e1	277	d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis ele	2e-08
d2fo1e1	277	d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis ele	7e-06
d2fo1e1	277	d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis ele	5e-05
d1g41a_	443	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	2e-08
d1ycsb1	130	d.211.1.1 (B:327-456) 53BP2 {Human (Homo sapiens)	7e-08
d1ixva_	229	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	1e-07
d1ixva_	229	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	3e-07
d1ixva_	229	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	9e-05
d1ixva_	229	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	4e-04
d1ixva_	229	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	8e-04
d1ixva_	229	d.211.1.1 (A:) 26S proteasome non-ATPase regulator	0.001
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	1e-07
d1awcb_	153	d.211.1.1 (B:) GA bindinig protein (GABP) beta 1 {	2e-07
d1awcb_	153	d.211.1.1 (B:) GA bindinig protein (GABP) beta 1 {	7e-04
d1iknd_	221	d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapien	3e-07
d1iknd_	221	d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapien	2e-04
d1iknd_	221	d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapien	9e-04
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	8e-07
d1ihba_	156	d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens	7e-06
d1ihba_	156	d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens	7e-05
d1ihba_	156	d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens	1e-04
d1myoa_	118	d.211.1.1 (A:) Myotrophin {Rat (Rattus norvegicus)	9e-06
d1bi7b_	125	d.211.1.1 (B:) Cell cycle inhibitor p16ink4A {Huma	1e-05
d1bi7b_	125	d.211.1.1 (B:) Cell cycle inhibitor p16ink4A {Huma	1e-04
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	1e-05
d1ot8a_	209	d.211.1.1 (A:) Neurogenic locus notch receptor dom	2e-05
d1ot8a_	209	d.211.1.1 (A:) Neurogenic locus notch receptor dom	7e-05
d1ot8a_	209	d.211.1.1 (A:) Neurogenic locus notch receptor dom	4e-04
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	1e-04
d1ny5a2	247	c.37.1.20 (A:138-384) Transcriptional activator si	1e-04
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	1e-04
d1bd8a_	156	d.211.1.1 (A:) Cell cycle inhibitor p19ink4D {Huma	2e-04
d1bd8a_	156	d.211.1.1 (A:) Cell cycle inhibitor p19ink4D {Huma	6e-04
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	2e-04
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	5e-04
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	0.001
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	0.004

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]} Length = 315

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

 Score =  221 bits (563), Expect = 8e-68
 Identities = 114/329 (34%), Positives = 188/329 (57%), Gaps = 28/329 (8%)

Query: 248 LQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSS 306
           + +  E E  +   LE+ L  R+VGQ+ AI  ++ AI+R   G  D + P+  FLFLG +
Sbjct: 3   VSKLLEGEREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPT 62

Query: 307 GIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRL 366
           G+GKTELAK LA  +  D +EA IR+DM+EY EKH V++LIGAPPGY+G+++GGQLT+ +
Sbjct: 63  GVGKTELAKTLAATLF-DTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAV 121

Query: 367 KKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA 426
           ++ P +V+LFDE++KAHPDV  +LLQ+ D+GRLTD  G+T++ ++ + ++TSNL S  I 
Sbjct: 122 RRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLIL 181

Query: 427 QHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINE 486
           +   +         +    +                          +   R EFL R++E
Sbjct: 182 EGLQKGWPYERIRDEVFKVL--------------------------QQHFRPEFLNRLDE 215

Query: 487 IVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKH 546
           IV F P +K ++  +V  +L++   +  +K     + +   + +   GYD  +GAR ++ 
Sbjct: 216 IVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRR 275

Query: 547 EVERQVVSQLAAAHEKSVIGKGSFVRLYV 575
            ++R++ + LA       + +G  V++ V
Sbjct: 276 VIQRELETPLAQKILAGEVKEGDRVQVDV 304

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]} Length = 315

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

 Score =  181 bits (461), Expect = 5e-53
 Identities = 97/315 (30%), Positives = 150/315 (47%), Gaps = 32/315 (10%)

Query: 262 LEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFY 320
           L  RLK  + GQ+ AI  ++ AIK    G   +  P+  FLF G +G+GKTE+  QL+  
Sbjct: 16  LGDRLKMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA 75

Query: 321 IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVD 380
           +  +     +R DMSEY E+H V++LIGAPPGY+G D GG LT  + K P+AV+L DE++
Sbjct: 76  LGIE----LLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIE 131

Query: 381 KAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFS 440
           KAHPDV  +LLQ+ D G LTD  G+  + ++ + VMT+N    E  + ++ L  +     
Sbjct: 132 KAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQ----- 186

Query: 441 KRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT 500
                                         +K+ F   EF  R++ I++F   S   +H 
Sbjct: 187 ---------------------DNSTDAMEEIKKIFTP-EFRNRLDNIIWFDHLSTDVIHQ 224

Query: 501 LVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAH 560
           +V + +     +   K     V       +   GYD   GAR +   ++  +   LA   
Sbjct: 225 VVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNLKKPLANEL 284

Query: 561 EKSVIGKGSFVRLYV 575
               +  G  V + +
Sbjct: 285 LFGSLVDGGQVTVAL 299

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]} Length = 364

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

 Score =  124 bits (313), Expect = 6e-32
 Identities = 45/325 (13%), Positives = 109/325 (33%), Gaps = 37/325 (11%)

Query: 262 LEQRLKDRIVGQESAINIISAAI----------KRKENGWTDDDH------------PLV 299
           L+  L + ++GQE A  + S A+          ++ +     D +               
Sbjct: 11  LKAVLDNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSN 70

Query: 300 FLFLGSSGIGKTELAKQLAFYIH----RDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLG 355
            L +G +G GKT +A+ LA ++          +           ++ + +L+ A    + 
Sbjct: 71  ILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQ 130

Query: 356 HDDGG--QLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFD--EGRLTDGKGKTIECKD 411
               G   + +  K    +       D +   V   LL++ +     +    G+     +
Sbjct: 131 KAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGN 190

Query: 412 AIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPIL 471
            I + TS++                +  ++     ++ + S  +     H    V    L
Sbjct: 191 FIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILH---LVQTHDL 247

Query: 472 KRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRELNFWAKK---ALDKHNINIVWDIDVE 528
             +    E +GR+  +      S   +  ++ +  N   K+         ++++++ +  
Sbjct: 248 VTYGLIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAI 307

Query: 529 TILAD-GYDVHYGARSIKHEVERQV 552
             +A    +   GAR ++  +E   
Sbjct: 308 KEIAQLALERKTGARGLRAIIEDFC 332

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 88.7 bits (219), Expect = 5e-20
 Identities = 55/308 (17%), Positives = 100/308 (32%), Gaps = 67/308 (21%)

Query: 262 LEQRLKDRIVGQESAINIISAAIKRK------ENGWTDDDHPLVFLFLGSSGIGKTELAK 315
           +   L   I+GQ  A   ++ A++ +      +     +  P   L +G +G+GKTE+A+
Sbjct: 8   IVSELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIAR 67

Query: 316 QLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVL 375
           +LA   +      FI+++ +++ E   V K + +    L    GG +    +     +V 
Sbjct: 68  RLAKLANA----PFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNG---IVF 120

Query: 376 FDEVDKAHPDVLTVLLQLFDEGRLTD----GKGKTIECKDAIFVMTSNLASNEIAQHALQ 431
            DE+DK           +  EG   D     +G T+  K  +      L     A     
Sbjct: 121 IDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQ--- 177

Query: 432 LRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFL 491
                                                 + +      E  GR+   V   
Sbjct: 178 --------------------------------------VARPSDLIPELQGRLPIRVELT 199

Query: 492 PFSKSELH---TLVCRELNFWAKKALDKHNINIVWDIDVETILAD------GYDVHYGAR 542
             S ++     T     L    K  +    +NI +  D    +A+          + GAR
Sbjct: 200 ALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGAR 259

Query: 543 SIKHEVER 550
            +   +ER
Sbjct: 260 RLHTVMER 267

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]} Length = 408

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 87.3 bits (215), Expect = 5e-19
 Identities = 42/192 (21%), Positives = 63/192 (32%), Gaps = 32/192 (16%)

Query: 88  LT-LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP 146
           LT L  A+  G    +K  ++      N+ +    TPLH+AA  G  +  + LL+  A  
Sbjct: 1   LTPLHVASFMGHLPIVKNLLQR-GASPNVSNVKVETPLHMAARAGHTEVAKYLLQNKAKV 59

Query: 147 NLGDLFNT--VHRTAAEKKMNPFEVLLKREDEFNDVLNPNM------------------- 185
           N     +   +H  A     N  ++LL+     N                          
Sbjct: 60  NAKAKDDQTPLHCAARIGHTNMVKLLLENNANPNLATTAGHTPLHIAAREGHVETVLALL 119

Query: 186 ---------TFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQ 236
                    T  GF+ LH     G   V ELLL+  A P     +G  P   A   N   
Sbjct: 120 EKEASQACMTKKGFTPLHVAAKYGKVRVAELLLERDAHPNAAGKNGLTPLHVAVHHNNLD 179

Query: 237 ILQKYAEKYADL 248
           I++    +    
Sbjct: 180 IVKLLLPRGGSP 191

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]} Length = 408

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 84.6 bits (208), Expect = 3e-18
 Identities = 39/165 (23%), Positives = 70/165 (42%), Gaps = 7/165 (4%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA+ G   E+   + + + + N+ +  G TPLH+ A  G V    VL++ G   +  
Sbjct: 235 LHLAAQEGH-AEMVALLLSKQANGNLGNKSGLTPLHLVAQEGHVPVADVLIKHGVMVDA- 292

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                +  T      +   + L +    +       T LG+S LH     G+T++V LLL
Sbjct: 293 --TTRMGYTPLHVASHYGNIKLVKFLLQHQADVNAKTKLGYSPLHQAAQQGHTDIVTLLL 350

Query: 210 KSGADPTVKDNSGHIPSDYAEDAN---IKQILQKYAEKYADLQRE 251
           K+GA P    + G  P   A+      +  +L+   ++ + +   
Sbjct: 351 KNGASPNEVSSDGTTPLAIAKRLGYISVTDVLKVVTDETSFVLVS 395

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]} Length = 408

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 71.9 bits (175), Expect = 4e-14
 Identities = 29/128 (22%), Positives = 46/128 (35%), Gaps = 36/128 (28%)

Query: 122 TPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVL 181
           TPLHVA+  G +  V+ LL+ GA+PN+ ++                              
Sbjct: 2   TPLHVASFMGHLPIVKNLLQRGASPNVSNVK----------------------------- 32

Query: 182 NPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKY 241
                    + LH    AG+TEV + LL++ A    K      P   A       +++  
Sbjct: 33  -------VETPLHMAARAGHTEVAKYLLQNKAKVNAKAKDDQTPLHCAARIGHTNMVKLL 85

Query: 242 AEKYADLQ 249
            E  A+  
Sbjct: 86  LENNANPN 93

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]} Length = 408

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 66.2 bits (160), Expect = 3e-12
 Identities = 36/159 (22%), Positives = 58/159 (36%), Gaps = 4/159 (2%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA+YG  +  +  +E      N     G TPLHVA  +  +D V++LL  G +P+  
Sbjct: 136 LHVAAKYGKVRVAELLLER-DAHPNAAGKNGLTPLHVAVHHNNLDIVKLLLPRGGSPHSP 194

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                   T         +V + R            +  G + LH     G+ E+V LLL
Sbjct: 195 AWNG---YTPLHIAAKQNQVEVARSLLQYGGSANAESVQGVTPLHLAAQEGHAEMVALLL 251

Query: 210 KSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADL 248
              A+  + + SG  P           +     +    +
Sbjct: 252 SKQANGNLGNKSGLTPLHLVAQEGHVPVADVLIKHGVMV 290

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]} Length = 223

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 76.2 bits (186), Expect = 2e-16
 Identities = 33/131 (25%), Positives = 55/131 (41%), Gaps = 8/131 (6%)

Query: 113 VNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF-NTVHRTAAEKKMNPFEVLL 171
           VN  +  G TPLH AA   + +   +LLE GANP+  D +  T    AA K       +L
Sbjct: 96  VNAVNQNGCTPLHYAASKNRHEIAVMLLEGGANPDAKDHYEATAMHRAAAKGNLKMIHIL 155

Query: 172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAED 231
                  ++ +      G + LH        E  +LL+  GA   +++     P   A+ 
Sbjct: 156 LYYKASTNIQDTE----GNTPLHLACDEERVEEAKLLVSQGASIYIENKEEKTPLQVAKG 211

Query: 232 AN---IKQILQ 239
                +K++++
Sbjct: 212 GLGLILKRMVE 222

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]} Length = 223

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 73.5 bits (179), Expect = 2e-15
 Identities = 38/145 (26%), Positives = 53/145 (36%), Gaps = 7/145 (4%)

Query: 82  CQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLE 141
           C S  +L +   A  G  +ELK  I   K           T LH A   G  + V  LL+
Sbjct: 1   CVS--NLMVCNLAYSGKLEELKESILADKSLATRTDQDSRTALHWACSAGHTEIVEFLLQ 58

Query: 142 AGANPNLGDLFNTVH-RTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAG 200
            G   N  D         AA    +     L  +    + +N N    G + LHY     
Sbjct: 59  LGVPVNDKDDAGWSPLHIAASAGRDEIVKALLGKGAQVNAVNQN----GCTPLHYAASKN 114

Query: 201 NTEVVELLLKSGADPTVKDNSGHIP 225
             E+  +LL+ GA+P  KD+     
Sbjct: 115 RHEIAVMLLEGGANPDAKDHYEATA 139

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]} Length = 285

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 71.5 bits (174), Expect = 3e-14
 Identities = 29/139 (20%), Positives = 52/139 (37%), Gaps = 3/139 (2%)

Query: 113 VNMRHPLGWTPLHVAAINGKVDNVRVLL-EAGANPNLGDLFNTVHRTAAEKKMNPFEVLL 171
                  G T L  AA  G V+ +++LL E GA+ N  D         A    +  +V  
Sbjct: 141 QERLRKGGATALMDAAEKGHVEVLKILLDEMGADVNACDNMGRNALIHALLSSDDSDVEA 200

Query: 172 KREDEFNDVLNPNM-TFLGFSALHYGVVAGNTEVVELLL-KSGADPTVKDNSGHIPSDYA 229
                 +   + N+    G + L   V   +  +V+ LL +   +    D+ G      A
Sbjct: 201 ITHLLLDHGADVNVRGERGKTPLILAVEKKHLGLVQRLLEQEHIEINDTDSDGKTALLLA 260

Query: 230 EDANIKQILQKYAEKYADL 248
            +  +K+I +   ++ A  
Sbjct: 261 VELKLKKIAELLCKRGAST 279

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]} Length = 285

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 67.7 bits (164), Expect = 5e-13
 Identities = 33/136 (24%), Positives = 56/136 (41%), Gaps = 10/136 (7%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNV----RVLLEAGAN 145
           L  AA  G  + LK  ++    DVN    +G   L  A ++    +V     +LL+ GA+
Sbjct: 152 LMDAAEKGHVEVLKILLDEMGADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGAD 211

Query: 146 PNLGDLFNT--VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTE 203
            N+        +     +K +   + LL++E    +  + +    G +AL   V     +
Sbjct: 212 VNVRGERGKTPLILAVEKKHLGLVQRLLEQEHIEINDTDSD----GKTALLLAVELKLKK 267

Query: 204 VVELLLKSGADPTVKD 219
           + ELL K GA     D
Sbjct: 268 IAELLCKRGASTDCGD 283

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]} Length = 285

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 64.2 bits (155), Expect = 6e-12
 Identities = 14/62 (22%), Positives = 25/62 (40%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  A        ++  +E   +++N     G T L +A          +L + GA+ + G
Sbjct: 223 LILAVEKKHLGLVQRLLEQEHIEINDTDSDGKTALLLAVELKLKKIAELLCKRGASTDCG 282

Query: 150 DL 151
           DL
Sbjct: 283 DL 284

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]} Length = 285

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.5 bits (135), Expect = 2e-09
 Identities = 39/196 (19%), Positives = 64/196 (32%), Gaps = 43/196 (21%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHP-LGWTPLHVAAINGKVDNVRVLL-------- 140
           L +A +      ++  +E    +VN +    GWTPLH A    + D V +LL        
Sbjct: 9   LIKAVQNEDVDLVQQLLEG-GANVNFQEEEGGWTPLHNAVQMSREDIVELLLRHGADPVL 67

Query: 141 -------------------------EAGANPNLGDLF-NTVHRTAAEKKMNPFEVLLKRE 174
                                      GA+ N  D +  T    AA          L + 
Sbjct: 68  RKKNGATPFLLAAIAGSVKLLKLFLSKGADVNECDFYGFTAFMEAAVYGKVKALKFLYKR 127

Query: 175 DEFNDVLNPNMTFL------GFSALHYGVVAGNTEVVELLL-KSGADPTVKDNSGHIPSD 227
               ++              G +AL      G+ EV+++LL + GAD    DN G     
Sbjct: 128 GANVNLRRKTKEDQERLRKGGATALMDAAEKGHVEVLKILLDEMGADVNACDNMGRNALI 187

Query: 228 YAEDANIKQILQKYAE 243
           +A  ++    ++    
Sbjct: 188 HALLSSDDSDVEAITH 203

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]} Length = 285

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.0 bits (100), Expect = 5e-05
 Identities = 32/123 (26%), Positives = 46/123 (37%), Gaps = 35/123 (28%)

Query: 122 TPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVL 181
             L  A  N  VD V+ LLE GAN N  +                               
Sbjct: 7   HLLIKAVQNEDVDLVQQLLEGGANVNFQEEEG---------------------------- 38

Query: 182 NPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKY 241
                  G++ LH  V     ++VELLL+ GADP ++  +G  P   A  A   ++L+ +
Sbjct: 39  -------GWTPLHNAVQMSREDIVELLLRHGADPVLRKKNGATPFLLAAIAGSVKLLKLF 91

Query: 242 AEK 244
             K
Sbjct: 92  LSK 94

>d2ajaa1 a.118.24.1 (A:3-348) Hypothetical protein LPG2416 {Legionella pneumophila [TaxId: 446]} Length = 346

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Pseudo ankyrin repeat-like
family: Pseudo ankyrin repeat
domain: Hypothetical protein LPG2416
species: Legionella pneumophila [TaxId: 446]

 Score = 71.8 bits (175), Expect = 4e-14
 Identities = 30/191 (15%), Positives = 53/191 (27%), Gaps = 13/191 (6%)

Query: 41  TQADFKSCLSVF-PKIRQSNNTCMYNNLLFASACSLALTL---LECQSIKDLT-LFRAAR 95
               +K  + +F P  +          L +A     A  L      + IK     F AA 
Sbjct: 40  MTLSYKEAIHIFLPGTKNMEQVRQLLCLYYAHYNRNAKQLWSDAHKKGIKSEVICFVAAI 99

Query: 96  YGSAKELKTFIE--NSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFN 153
            G +  L T      S   V +     +    +AA NG +  +  L E      +  +  
Sbjct: 100 TGCSSALDTLCLLLTSDEIVKVIQAENYQAFRLAAENGHLHVLNRLCELAPTEIMAMIQA 159

Query: 154 ----TVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                    A    ++    L +        +        ++     V  G+  V+  LL
Sbjct: 160 ENYHAFRLAAENGHLHVLNRLCELAPTEATAMIQAEN--YYAFRWAAVGRGHHNVINFLL 217

Query: 210 KSGADPTVKDN 220
                    + 
Sbjct: 218 DCPVMLAYAEI 228

>d2ajaa1 a.118.24.1 (A:3-348) Hypothetical protein LPG2416 {Legionella pneumophila [TaxId: 446]} Length = 346

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Pseudo ankyrin repeat-like
family: Pseudo ankyrin repeat
domain: Hypothetical protein LPG2416
species: Legionella pneumophila [TaxId: 446]

 Score = 49.5 bits (117), Expect = 5e-07
 Identities = 12/146 (8%), Positives = 30/146 (20%), Gaps = 45/146 (30%)

Query: 108 NSKLDVNMRHPLGWTPLHVAAINGKVDNVRV---LLEAGANPNLGDLFNTVHRTAAEKKM 164
               D + +         VAAI G    +     LL +     +                
Sbjct: 78  QLWSDAHKKGIKSEVICFVAAITGCSSALDTLCLLLTSDEIVKVIQAE------------ 125

Query: 165 NPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSG-- 222
                                    + A       G+  V+  L +      +       
Sbjct: 126 ------------------------NYQAFRLAAENGHLHVLNRLCELAPTEIMAMIQAEN 161

Query: 223 ----HIPSDYAEDANIKQILQKYAEK 244
                + ++      + ++ +    +
Sbjct: 162 YHAFRLAAENGHLHVLNRLCELAPTE 187

>d2ajaa1 a.118.24.1 (A:3-348) Hypothetical protein LPG2416 {Legionella pneumophila [TaxId: 446]} Length = 346

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Pseudo ankyrin repeat-like
family: Pseudo ankyrin repeat
domain: Hypothetical protein LPG2416
species: Legionella pneumophila [TaxId: 446]

 Score = 45.3 bits (106), Expect = 1e-05
 Identities = 21/155 (13%), Positives = 38/155 (24%), Gaps = 9/155 (5%)

Query: 55  IRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVN 114
           I+  N        +     ++   LL+C  +          YG          +      
Sbjct: 192 IQAENYYAFRWAAVGRGHHNVINFLLDCPVMLAYAEIHEFEYGEKYVNPFIARHVN---- 247

Query: 115 MRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKRE 174
            R         ++  +G  D    L+          +   + R   E  ++    LL   
Sbjct: 248 -RLKEMHDAFKLSNPDGVFD----LVTKSECLQGFYMLRNLIRRNDEVLLDDIRFLLSIP 302

Query: 175 DEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
                     +       L   +  GN     LLL
Sbjct: 303 GIKALAPTATIPGDANELLRLALRLGNQGACALLL 337

>d2ajaa1 a.118.24.1 (A:3-348) Hypothetical protein LPG2416 {Legionella pneumophila [TaxId: 446]} Length = 346

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Pseudo ankyrin repeat-like
family: Pseudo ankyrin repeat
domain: Hypothetical protein LPG2416
species: Legionella pneumophila [TaxId: 446]

 Score = 37.6 bits (86), Expect = 0.004
 Identities = 17/147 (11%), Positives = 35/147 (23%), Gaps = 15/147 (10%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNM--RHPLGWTPLHVAAINGKVDNVRVLLEAGANPN 147
              AA  G    L    E +  +     +    +     A   G  + +  LL+      
Sbjct: 165 FRLAAENGHLHVLNRLCELAPTEATAMIQAENYYAFRWAAVGRGHHNVINFLLDCPVMLA 224

Query: 148 L--------GDLFNTVHRTAAEKKMNPFEVLLKR--EDEFNDVLNPNMT---FLGFSALH 194
                    G+ +          ++       K    D   D++  +     F     L 
Sbjct: 225 YAEIHEFEYGEKYVNPFIARHVNRLKEMHDAFKLSNPDGVFDLVTKSECLQGFYMLRNLI 284

Query: 195 YGVVAGNTEVVELLLKSGADPTVKDNS 221
                   + +  LL       +   +
Sbjct: 285 RRNDEVLLDDIRFLLSIPGIKALAPTA 311

>d1sw6a_ d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Swi6 ankyrin-repeat fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 64.7 bits (156), Expect = 5e-12
 Identities = 26/156 (16%), Positives = 52/156 (33%), Gaps = 18/156 (11%)

Query: 91  FRAARYGSAKELKTFIENSKL---DVNMRHPLGWTPLHVAAINGKVDN------------ 135
            +A +  +  +  TF          + +   +  T LH   I   +              
Sbjct: 145 VKAVKSVNNYDSGTFEALLDYLYPCLILEDSMNRTILHHIIITSGMTGCSAAAKYYLDIL 204

Query: 136 VRVLLEAGANPNLGD--LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSAL 193
           +  +++    P         +       ++ +     L  +    ++LN      G + L
Sbjct: 205 MGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIANMLN-AQDSNGDTCL 263

Query: 194 HYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYA 229
           +     GN  +V+ LL  GADP + + SG  P D+ 
Sbjct: 264 NIAARLGNISIVDALLDYGADPFIANKSGLRPVDFG 299

>d1sw6a_ d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Swi6 ankyrin-repeat fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 58.9 bits (141), Expect = 5e-10
 Identities = 28/174 (16%), Positives = 59/174 (33%), Gaps = 19/174 (10%)

Query: 89  TLFRAARYGSAKELKTFIENSKLDVNMRHPL---GWTPLHVAAINGKVDNVRVLLEAGAN 145
                +     +E+     N++L++N+  P+   G TPLH       ++ V+ L++ G+N
Sbjct: 75  QQQHVSFDSLLQEVNDAFPNTQLNLNI--PVDEHGNTPLHWLTSIANLELVKHLVKHGSN 132

Query: 146 PNLGDLFNTVHRTAAEKKMNPFEV-------------LLKREDEFNDVLNPNMTFLGFSA 192
              GD         A K +N ++              L+  +     +L+  +   G + 
Sbjct: 133 RLYGDNMGESCLVKAVKSVNNYDSGTFEALLDYLYPCLILEDSMNRTILHHIIITSGMTG 192

Query: 193 LHYGVVAGNTEVVELLLKSGADPTVK-DNSGHIPSDYAEDANIKQILQKYAEKY 245
                      ++  ++K    P     N      +         IL+    K+
Sbjct: 193 CSAAAKYYLDILMGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKW 246

>d1sw6a_ d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Swi6 ankyrin-repeat fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 43.5 bits (101), Expect = 4e-05
 Identities = 24/130 (18%), Positives = 39/130 (30%), Gaps = 5/130 (3%)

Query: 122 TPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVL 181
             L         +    L    +N N     +   +          EV    +   N  L
Sbjct: 41  AFLQRLLFPEIQEMPTSLNNDSSNRNSEGGSSNQQQQHVSFDSLLQEV---NDAFPNTQL 97

Query: 182 NPNMTF--LGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
           N N+     G + LH+     N E+V+ L+K G++    DN G      A  +       
Sbjct: 98  NLNIPVDEHGNTPLHWLTSIANLELVKHLVKHGSNRLYGDNMGESCLVKAVKSVNNYDSG 157

Query: 240 KYAEKYADLQ 249
            +      L 
Sbjct: 158 TFEALLDYLY 167

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]} Length = 255

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 62.8 bits (151), Expect = 2e-11
 Identities = 24/152 (15%), Positives = 41/152 (26%), Gaps = 6/152 (3%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTA---AEKKMNPFEVLLKREDE 176
           G T LH+A I+     +  LL   A     DL N + +TA   A        V       
Sbjct: 9   GDTALHLAVIHQHEPFLDFLLGFSAGHEYLDLQNDLGQTALHLAAILGEASTVEKLYAAG 68

Query: 177 FNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQ 236
              ++            H            +LL+         +  ++        +   
Sbjct: 69  AGVLVAERGGHTAL---HLACRVRAHTCACVLLQPRPSHPRDASDTYLTQSQDCTPDTSH 125

Query: 237 ILQKYAEKYADLQREKEAEERRKYPLEQRLKD 268
                  +      E+  +E  +  LE    D
Sbjct: 126 APAAVDSQPNPENEEEPRDEDWRLQLEAENYD 157

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]} Length = 255

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 50.1 bits (118), Expect = 2e-07
 Identities = 35/209 (16%), Positives = 57/209 (27%), Gaps = 6/209 (2%)

Query: 43  ADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKEL 102
           A      S   K+  +    +       +A  LA  +        L   R +    A + 
Sbjct: 52  AAILGEASTVEKLYAAGAGVLVAERGGHTALHLACRVRAHTCACVLLQPRPSHPRDASDT 111

Query: 103 KTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEK 162
                          P        +  N + +      +        +         A  
Sbjct: 112 YLTQSQDCTPDTSHAPA----AVDSQPNPENEEEPRDEDWRLQLEAENYDGHTPLHVAVI 167

Query: 163 KMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSG 222
             +   V  +   +    LN      G + LH  V A    V+ELLLK+GADPT +   G
Sbjct: 168 HKDAEMV--RLLRDAGADLNKPEPTCGRTPLHLAVEAQAASVLELLLKAGADPTARMYGG 225

Query: 223 HIPSDYAEDANIKQILQKYAEKYADLQRE 251
             P   A       + +      A    +
Sbjct: 226 RTPLGSALLRPNPILARLLRAHGAPEPED 254

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]} Length = 255

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.2 bits (113), Expect = 1e-06
 Identities = 25/147 (17%), Positives = 41/147 (27%), Gaps = 13/147 (8%)

Query: 90  LFRAARYGSAKELKTFIEN--SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN 147
           L  A  +     L   +        +++++ LG T LH+AAI G+   V  L  AGA   
Sbjct: 13  LHLAVIHQHEPFLDFLLGFSAGHEYLDLQNDLGQTALHLAAILGEASTVEKLYAAGAGVL 72

Query: 148 LGDLFNTVHRTAAEKKMNP--FEVLLKREDEFN---------DVLNPNMTFLGFSALHYG 196
           + +         A +        VLL+                  +         A    
Sbjct: 73  VAERGGHTALHLACRVRAHTCACVLLQPRPSHPRDASDTYLTQSQDCTPDTSHAPAAVDS 132

Query: 197 VVAGNTEVVELLLKSGADPTVKDNSGH 223
                 E              ++  GH
Sbjct: 133 QPNPENEEEPRDEDWRLQLEAENYDGH 159

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]} Length = 291

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 59.7 bits (143), Expect = 2e-10
 Identities = 24/132 (18%), Positives = 46/132 (34%), Gaps = 37/132 (28%)

Query: 113 VNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLK 172
                  G T LHVAA  G  + +++L++A  + N+                        
Sbjct: 192 DVRHAKSGGTALHVAAAKGYTEVLKLLIQARYDVNI------------------------ 227

Query: 173 REDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDA 232
                         + G++ LH     G  E   +L+++  D    +  G    D A++ 
Sbjct: 228 ------------KDYDGWTPLHAAAHWGKEEACRILVENLCDMEAVNKVGQTAFDVADE- 274

Query: 233 NIKQILQKYAEK 244
           +I   L++  +K
Sbjct: 275 DILGYLEELQKK 286

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]} Length = 291

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 57.0 bits (136), Expect = 2e-09
 Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF-NTVHRTAAEKKMNPFEVL 170
           DVN++   GWTPLH AA  GK +  R+L+E   +    +    T    A E  +   E L
Sbjct: 224 DVNIKDYDGWTPLHAAAHWGKEEACRILVENLCDMEAVNKVGQTAFDVADEDILGYLEEL 283

Query: 171 LKRED 175
            K+++
Sbjct: 284 QKKQN 288

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]} Length = 291

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 43.9 bits (102), Expect = 2e-05
 Identities = 13/64 (20%), Positives = 23/64 (35%)

Query: 182 NPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKY 241
              + F   +       +G+TE V  LL+ GAD    +  G      A   +   +++  
Sbjct: 33  KTKVKFDDGAVFLAACSSGDTEEVLRLLERGADINYANVDGLTALHQACIDDNVDMVKFL 92

Query: 242 AEKY 245
            E  
Sbjct: 93  VENG 96

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]} Length = 291

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 39.7 bits (91), Expect = 6e-04
 Identities = 28/128 (21%), Positives = 45/128 (35%), Gaps = 5/128 (3%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF-NTVHRTAAEKKMNPFEVLLKREDEFN 178
                  A  +G  + V  LLE GA+ N  ++   T    A           L      N
Sbjct: 40  DGAVFLAACSSGDTEEVLRLLERGADINYANVDGLTALHQACIDDNVDMVKFLV----EN 95

Query: 179 DVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQIL 238
                     G+  LH     G  ++ E L+  GA     ++ G  P D AE+  ++++L
Sbjct: 96  GANINQPDNEGWIPLHAAASCGYLDIAEYLISQGAHVGAVNSEGDTPLDIAEEEAMEELL 155

Query: 239 QKYAEKYA 246
           Q    +  
Sbjct: 156 QNEVNRQG 163

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]} Length = 291

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

 Score = 37.8 bits (86), Expect = 0.003
 Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 1/42 (2%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAING 131
              A   G  +E+   +E    D+N  +  G T LH A I+ 
Sbjct: 44  FLAACSSGDTEEVLRLLER-GADINYANVDGLTALHQACIDD 84

>d1dcqa1 d.211.1.1 (A:369-522) Pyk2-associated protein beta {Mouse (Mus musculus) [TaxId: 10090]} Length = 154

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Pyk2-associated protein beta
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 56.5 bits (135), Expect = 4e-10
 Identities = 22/137 (16%), Positives = 41/137 (29%), Gaps = 13/137 (9%)

Query: 89  TLFRAARYGSAKELKTFIE-----NSKLDVNMRHPLGWTPLHVAAINGKVDN---VRVLL 140
           +L  A +      L            K+ +   H    T LH+A  +    +   V  L+
Sbjct: 9   SLCEAVKTRDIFGLLQAYADGVDLTEKIPLANGHEPDETALHLAVRSVDRTSLHIVDFLV 68

Query: 141 EAGANPNL-GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVA 199
           +   N +      +T               LL R     ++ N +    G + L      
Sbjct: 69  QNSGNLDKQTGKGSTALHYCCLTDNAECLKLLLRGKASIEIANES----GETPLDIAKRL 124

Query: 200 GNTEVVELLLKSGADPT 216
            +    ELL ++ +   
Sbjct: 125 KHEHCEELLTQALSGRF 141

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 228

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.6 bits (132), Expect = 3e-09
 Identities = 35/128 (27%), Positives = 54/128 (42%), Gaps = 6/128 (4%)

Query: 114 NMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHR--TAAEKKMNPFEVLL 171
             R+  G T LHVA      + V++LLE GA+ +  D+ +       A E        LL
Sbjct: 104 EARNYDGLTALHVAVNTECQETVQLLLERGADIDAVDIKSGRSPLIHAVENNSLSMVQLL 163

Query: 172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAED 231
            +     +    +    G SALH     G   +V  L++SGAD ++K+     P   A  
Sbjct: 164 LQHGANVNAQMYS----GSSALHSASGRGLLPLVRTLVRSGADSSLKNCHNDTPLMVARS 219

Query: 232 ANIKQILQ 239
             +  IL+
Sbjct: 220 RRVIDILR 227

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 228

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.3 bits (100), Expect = 3e-05
 Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 4/35 (11%)

Query: 120 GWTPLHVAAINGKVDNVRVLL----EAGANPNLGD 150
           G TPLH+A + G +  V  L+    + G   ++ +
Sbjct: 3   GDTPLHIAVVQGNLPAVHRLVNLFQQGGRELDIYN 37

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 228

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.9 bits (99), Expect = 4e-05
 Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVR 137
           L  A+  G    ++T + +   D ++++    TPL VA     +D +R
Sbjct: 181 LHSASGRGLLPLVRTLVRS-GADSSLKNCHNDTPLMVARSRRVIDILR 227

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 228

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.1 bits (97), Expect = 7e-05
 Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 4/45 (8%)

Query: 189 GFSALHYGVVAGNTEVVELLLK----SGADPTVKDNSGHIPSDYA 229
           G + LH  VV GN   V  L+      G +  + +N    P   A
Sbjct: 3   GDTPLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLA 47

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 228

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.1 bits (84), Expect = 0.004
 Identities = 37/156 (23%), Positives = 57/156 (36%), Gaps = 4/156 (2%)

Query: 90  LFRAARYGS---AKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP 146
           L  A   G+      L    +    ++++ + L  TPLH+A I      VR+L+ AGA+P
Sbjct: 7   LHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSVVRLLVTAGASP 66

Query: 147 NLGDLFNTVHRTAAEKKMNP-FEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVV 205
              D         A +  +P     L        +      + G +ALH  V     E V
Sbjct: 67  MALDRHGQTAAHLACEHRSPTCLRALLDSAAPGTLDLEARNYDGLTALHVAVNTECQETV 126

Query: 206 ELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKY 241
           +LLL+ GAD    D             N    + + 
Sbjct: 127 QLLLERGADIDAVDIKSGRSPLIHAVENNSLSMVQL 162

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 55.9 bits (133), Expect = 4e-09
 Identities = 17/121 (14%), Positives = 38/121 (31%), Gaps = 36/121 (29%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L  AA+  +   +K  +     + + +   G TP+ +AA  G+++ V  L++ GA+    
Sbjct: 191 LHYAAQVSNMPIVKYLVGEKGSNKDKQDEDGKTPIMLAAQEGRIEVVMYLIQQGASVEAV 250

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL 209
           D                                        +A        +  +V++  
Sbjct: 251 DAT------------------------------------DHTARQLAQANNHHNIVDIFD 274

Query: 210 K 210
           +
Sbjct: 275 R 275

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 53.6 bits (127), Expect = 2e-08
 Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 3/56 (5%)

Query: 189 GFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN---IKQILQKY 241
           G + +      G  EVV  L++ GA     D + H     A+  N   I  I  + 
Sbjct: 221 GKTPIMLAAQEGRIEVVMYLIQQGASVEAVDATDHTARQLAQANNHHNIVDIFDRC 276

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 45.9 bits (107), Expect = 7e-06
 Identities = 9/53 (16%), Positives = 17/53 (32%), Gaps = 1/53 (1%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEA 142
           +  AA+ G  + +   I+     V        T   +A  N   + V +    
Sbjct: 225 IMLAAQEGRIEVVMYLIQQ-GASVEAVDATDHTARQLAQANNHHNIVDIFDRC 276

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 43.2 bits (100), Expect = 5e-05
 Identities = 22/133 (16%), Positives = 34/133 (25%), Gaps = 12/133 (9%)

Query: 109 SKLDVNMRHPL-GWTPLHVAAINGKVDNVRVLL--------EAGANPNLGDLFNTVHRTA 159
           ++  VN+  P    T LH  A N   +    L+         AGA+ N  D       T 
Sbjct: 21  TRESVNIIDPRHNRTVLHWIASNSSAEKSEDLIVHEAKECIAAGADVNAMDCDE---NTP 77

Query: 160 AEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKD 219
               +      L                   SALH      +  ++  +L S       +
Sbjct: 78  LMLAVLARRRRLVAYLMKAGADPTIYNKSERSALHQAAANRDFGMMVYMLNSTKLKGDIE 137

Query: 220 NSGHIPSDYAEDA 232
                        
Sbjct: 138 ELDRNGMTALMIV 150

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 443

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 54.4 bits (130), Expect = 2e-08
 Identities = 24/111 (21%), Positives = 48/111 (43%), Gaps = 10/111 (9%)

Query: 264 QRLKDRIVGQESAINIISAAI----KRKENGWTDDDH--PLVFLFLGSSGIGKTELAKQL 317
             L   I+GQ  A   ++ A+    +R +          P   L +G +G+GKTE+A++L
Sbjct: 10  SELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRL 69

Query: 318 AFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK 368
           A    +     FI+++ +++ E   V K + +    L       + ++   
Sbjct: 70  A----KLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAMKLVRQQEIA 116

>d1ycsb1 d.211.1.1 (B:327-456) 53BP2 {Human (Homo sapiens) [TaxId: 9606]} Length = 130

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 53BP2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.3 bits (116), Expect = 7e-08
 Identities = 22/116 (18%), Positives = 42/116 (36%), Gaps = 6/116 (5%)

Query: 118 PLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEF 177
           PL    L  +++ G+ D V+ ++    +P+L +         A    +       +    
Sbjct: 1   PL--ALLLDSSLEGEFDLVQRIIYEVDDPSLPNDEGITALHNAVCAGHTEI---VKFLVQ 55

Query: 178 NDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNS-GHIPSDYAEDA 232
             V        G++ LH      N +V + L++SGA       S     +D  E+ 
Sbjct: 56  FGVNVNAADSDGWTPLHCAASCNNVQVCKFLVESGAAVFAMTYSDMQTAADKCEEM 111

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 229

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 50.6 bits (119), Expect = 1e-07
 Identities = 23/138 (16%), Positives = 45/138 (32%), Gaps = 2/138 (1%)

Query: 90  LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG 149
           L +A       +++  + +    +  +   G  PLH +      +    LL    N NL 
Sbjct: 4   LHQACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWSVSFQAHEITSFLLSKMENVNLD 63

Query: 150 DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGN--TEVVEL 207
           D  +    T      +   + + +      +                +  G    EV + 
Sbjct: 64  DYPDDSGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQGVTCLHLAVGKKWFEVSQF 123

Query: 208 LLKSGADPTVKDNSGHIP 225
           L+++GA   +KD    IP
Sbjct: 124 LIENGASVRIKDKFNQIP 141

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 229

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 49.8 bits (117), Expect = 3e-07
 Identities = 28/127 (22%), Positives = 49/127 (38%), Gaps = 5/127 (3%)

Query: 114 NMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTA-AEKKMNPFEVLLK 172
           N     G T LH+A      +  + L+E GA+  + D FN   +             L++
Sbjct: 99  NKITNQGVTCLHLAVGKKWFEVSQFLIENGASVRIKDKFN---QIPLHRAASVGSLKLIE 155

Query: 173 REDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL-KSGADPTVKDNSGHIPSDYAED 231
                           G++ L + +  G+ +   LL+ K GA+  + DN G    D A +
Sbjct: 156 LLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVLLVEKYGAEYDLVDNKGAKAEDVALN 215

Query: 232 ANIKQIL 238
             +K+  
Sbjct: 216 EQVKKFF 222

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 229

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 42.1 bits (97), Expect = 9e-05
 Identities = 24/103 (23%), Positives = 31/103 (30%), Gaps = 40/103 (38%)

Query: 113 VNMRHPLGWTPLHVAAINGKVDNVRVLLEA-GANPNLGDLFNTVHRTAAEKKMNPFEVLL 171
           VN +   GWTPL  A   G  D   +L+E  GA  +L D                     
Sbjct: 165 VNWQDKQGWTPLFHALAEGHGDAAVLLVEKYGAEYDLVD--------------------- 203

Query: 172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD 214
                 N          G  A      A N +V +  L +  D
Sbjct: 204 ------NK---------GAKAEDV---ALNEQVKKFFLNNVVD 228

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 229

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.2 bits (92), Expect = 4e-04
 Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 1/39 (2%)

Query: 192 ALHYGVVAGNTEVVELLLKS-GADPTVKDNSGHIPSDYA 229
            LH   +      V+ LL S  +    KD  G IP  ++
Sbjct: 3   PLHQACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWS 41

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 229

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.0 bits (89), Expect = 8e-04
 Identities = 8/55 (14%), Positives = 14/55 (25%), Gaps = 3/55 (5%)

Query: 91  FRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGAN 145
           F A   G        +E    + ++    G     VA         +  L    +
Sbjct: 177 FHALAEGHGDAAVLLVEKYGAEYDLVDNKGAKAEDVAL---NEQVKKFFLNNVVD 228

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 229

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 38.3 bits (87), Expect = 0.001
 Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 1/30 (3%)

Query: 122 TPLHVAAINGKVDNVRVLLEA-GANPNLGD 150
            PLH A +  +   V+ LL +  +     D
Sbjct: 2   YPLHQACMENEFFKVQELLHSKPSLLLQKD 31

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

 Score = 50.7 bits (120), Expect = 1e-07
 Identities = 21/157 (13%), Positives = 49/157 (31%), Gaps = 8/157 (5%)

Query: 272 GQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIR 331
             +   N ++  ++    G    + P  FL  G  G GKT L   +      +     I 
Sbjct: 7   TDKQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGN----VIV 62

Query: 332 LDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLL 391
           +D   ++++H     +          D  +            ++    D+ +  V+    
Sbjct: 63  IDNDTFKQQHPNFDELVKLYE----KDVVKHVTPYSNRMTEAIISRLSDQGYNLVIEGTG 118

Query: 392 QLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH 428
           +  D    T    +    +  ++VM     ++ +   
Sbjct: 119 RTTDVPIQTATMLQAKGYETKMYVMAVPKINSYLGTI 155

>d1awcb_ d.211.1.1 (B:) GA bindinig protein (GABP) beta 1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 153

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: GA bindinig protein (GABP) beta 1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.3 bits (113), Expect = 2e-07
 Identities = 33/150 (22%), Positives = 48/150 (32%), Gaps = 32/150 (21%)

Query: 122 TPLHVAAINGKVDNVRVLLEAGANPNLGDLFNT--------------------------- 154
             L  AA  G+ D VR+L+  GA      L  +                           
Sbjct: 4   KKLLEAARAGQDDEVRILMANGAPFTTDWLGTSPLHLAAQYGHFSTTEVLLRAGVSRDAR 63

Query: 155 --VHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSG 212
             V RT      +     +      +         L  +ALH+     + EVVELL+K G
Sbjct: 64  TKVDRTPLHMAASEGHANIVEVLLKHGADVNAKDMLKMTALHWATEHNHQEVVELLIKYG 123

Query: 213 ADPTVKDNSGHIPSDYAEDAN---IKQILQ 239
           AD   +        D + D     + +ILQ
Sbjct: 124 ADVHTQSKFCKTAFDISIDNGNEDLAEILQ 153

>d1awcb_ d.211.1.1 (B:) GA bindinig protein (GABP) beta 1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 153

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: GA bindinig protein (GABP) beta 1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.3 bits (87), Expect = 7e-04
 Identities = 7/28 (25%), Positives = 12/28 (42%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVL 139
           DV+ +     T   ++  NG  D   +L
Sbjct: 125 DVHTQSKFCKTAFDISIDNGNEDLAEIL 152

>d1iknd_ d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 221

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: I-kappa-B-alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.5 bits (116), Expect = 3e-07
 Identities = 44/212 (20%), Positives = 71/212 (33%), Gaps = 41/212 (19%)

Query: 90  LFRAARYGS---AKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANP 146
           L  A  +       E+   ++     +N ++ L  TPLH+A I  + +    LL AG +P
Sbjct: 6   LHLAIIHEEKALTMEVIRQVKGDLAFLNFQNNLQQTPLHLAVITNQPEIAEALLGAGCDP 65

Query: 147 NLGDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFL------------------ 188
            L D         A ++     V +  +      L+  +                     
Sbjct: 66  ELRDFRGNTPLHLACEQGCLASVGVLTQSCTTPHLHSILKATNYNGHTCLHLASIHGYLG 125

Query: 189 -------------------GFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYA 229
                              G +ALH  V   N ++V LLLK GAD       G+ P    
Sbjct: 126 IVELLVSLGADVNAQEPCNGRTALHLAVDLQNPDLVSLLLKCGADVNRVTYQGYSPYQLT 185

Query: 230 EDANIKQILQKYAEKYAD-LQREKEAEERRKY 260
                 +I Q+  +   + LQ   E+E+   Y
Sbjct: 186 WGRPSTRIQQQLGQLTLENLQMLPESEDEESY 217

>d1iknd_ d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 221

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: I-kappa-B-alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.6 bits (93), Expect = 2e-04
 Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 4/35 (11%)

Query: 120 GWTPLHVAAINGKVDN----VRVLLEAGANPNLGD 150
           G + LH+A I+ +       +R +    A  N  +
Sbjct: 2   GDSFLHLAIIHEEKALTMEVIRQVKGDLAFLNFQN 36

>d1iknd_ d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 221

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: I-kappa-B-alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.7 bits (88), Expect = 9e-04
 Identities = 10/45 (22%), Positives = 16/45 (35%), Gaps = 4/45 (8%)

Query: 189 GFSALHYGVVAGNT----EVVELLLKSGADPTVKDNSGHIPSDYA 229
           G S LH  ++        EV+  +    A    ++N    P   A
Sbjct: 2   GDSFLHLAIIHEEKALTMEVIRQVKGDLAFLNFQNNLQQTPLHLA 46

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 48.2 bits (113), Expect = 8e-07
 Identities = 23/120 (19%), Positives = 39/120 (32%), Gaps = 10/120 (8%)

Query: 268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLA--FYIHRDK 325
           D +  Q+ A+ ++   +K          H    LF G  G GKT     L    Y     
Sbjct: 12  DEVTAQDHAVTVLKKTLKSANLP-----H---MLFYGPPGTGKTSTILALTKELYGPDLM 63

Query: 326 KEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPD 385
           K   + L+ S+ +    V + +                +     P  +++ DE D    D
Sbjct: 64  KSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTAD 123

>d1ihba_ d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]} Length = 156

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: p18ink4C(ink6)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.1 bits (102), Expect = 7e-06
 Identities = 6/38 (15%), Positives = 14/38 (36%)

Query: 191 SALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDY 228
           + L      G+ E +  LL++  +   ++  G      
Sbjct: 3   NELASAAARGDLEQLTSLLQNNVNVNAQNGFGRTALQV 40

>d1ihba_ d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]} Length = 156

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: p18ink4C(ink6)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.4 bits (95), Expect = 7e-05
 Identities = 8/29 (27%), Positives = 13/29 (44%)

Query: 122 TPLHVAAINGKVDNVRVLLEAGANPNLGD 150
             L  AA  G ++ +  LL+   N N  +
Sbjct: 3   NELASAAARGDLEQLTSLLQNNVNVNAQN 31

>d1ihba_ d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]} Length = 156

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: p18ink4C(ink6)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.6 bits (93), Expect = 1e-04
 Identities = 8/31 (25%), Positives = 15/31 (48%)

Query: 113 VNMRHPLGWTPLHVAAINGKVDNVRVLLEAG 143
           V  R+  G T   +A + G+ + V ++   G
Sbjct: 126 VGHRNHKGDTACDLARLYGRNEVVSLMQANG 156

>d1myoa_ d.211.1.1 (A:) Myotrophin {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 118

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myotrophin
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 43.0 bits (99), Expect = 9e-06
 Identities = 25/121 (20%), Positives = 39/121 (32%), Gaps = 3/121 (2%)

Query: 119 LGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFN 178
           +       A  NG +D V+  +  G + N            A        +        +
Sbjct: 1   MCDKEFMWALKNGDLDEVKDYVAKGEDVNRTLEGGRKPLHYAADCGQLEILEFLLLKGAD 60

Query: 179 DVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQIL 238
                        +  Y    G+   V+LLL  GAD TVK   G    +  ++  IK +L
Sbjct: 61  INAPDKHHITPLLSAVYE---GHVSCVKLLLSKGADKTVKGPDGLTALEATDNQAIKALL 117

Query: 239 Q 239
           Q
Sbjct: 118 Q 118

>d1bi7b_ d.211.1.1 (B:) Cell cycle inhibitor p16ink4A {Human (Homo sapiens) [TaxId: 9606]} Length = 125

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p16ink4A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.0 bits (99), Expect = 1e-05
 Identities = 24/124 (19%), Positives = 34/124 (27%), Gaps = 31/124 (25%)

Query: 120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKREDEFND 179
               L  AA  G+V+ VR LLEAGANPN  + +                 LL       +
Sbjct: 3   SADWLATAAARGRVEEVRALLEAGANPNAPNSYGRRPIQVMMMGSARVAELLLLHGAEPN 62

Query: 180 VLNPNMTF------------------------------LGFSALHYGVVAGNTEVVELLL 209
             +P                                   G   +      G+ +V   L 
Sbjct: 63  CADPATLTRPVHDAAREGFLDTLVVLHRAGARLDVRDAWGRLPVDLAEELGHRDVARYLR 122

Query: 210 KSGA 213
            + A
Sbjct: 123 -AAA 125

>d1bi7b_ d.211.1.1 (B:) Cell cycle inhibitor p16ink4A {Human (Homo sapiens) [TaxId: 9606]} Length = 125

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p16ink4A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.9 bits (91), Expect = 1e-04
 Identities = 9/29 (31%), Positives = 13/29 (44%)

Query: 114 NMRHPLGWTPLHVAAINGKVDNVRVLLEA 142
           ++R   G  P+ +A   G  D  R L  A
Sbjct: 96  DVRDAWGRLPVDLAEELGHRDVARYLRAA 124

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

 Score = 44.8 bits (104), Expect = 1e-05
 Identities = 12/76 (15%), Positives = 24/76 (31%), Gaps = 2/76 (2%)

Query: 268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKE 327
            R+  +E  +  +   +           H      LG  G GKT   ++L          
Sbjct: 16  KRLPHREQQLQQLDILLGNWLR--NPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTA 73

Query: 328 AFIRLDMSEYQEKHEV 343
            F+ ++   Y+    +
Sbjct: 74  RFVYINGFIYRNFTAI 89

>d1ot8a_ d.211.1.1 (A:) Neurogenic locus notch receptor domain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 209

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Neurogenic locus notch receptor domain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 43.6 bits (101), Expect = 2e-05
 Identities = 27/126 (21%), Positives = 43/126 (34%), Gaps = 3/126 (2%)

Query: 114 NMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLLKR 173
           N R   G TPL +AA       V  L+ A A+ N  D      +TA              
Sbjct: 84  NARMHDGTTPLILAARLAIEGMVEDLITADADINAADNS---GKTALHWAAAVNNTEAVN 140

Query: 174 EDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN 233
               +            + L      G+ E  + LL + A+  + D+   +P D A +  
Sbjct: 141 ILLMHHANRDAQDDKDETPLFLAAREGSYEASKALLDNFANREITDHMDRLPRDVASERL 200

Query: 234 IKQILQ 239
              I++
Sbjct: 201 HHDIVR 206

>d1ot8a_ d.211.1.1 (A:) Neurogenic locus notch receptor domain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 209

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Neurogenic locus notch receptor domain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 42.1 bits (97), Expect = 7e-05
 Identities = 31/151 (20%), Positives = 55/151 (36%), Gaps = 4/151 (2%)

Query: 98  SAKELKTFIENSKLDVNMRH-PLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVH 156
           +A+ +   +     ++N      G T LH+AA   + D  + LL+AGA+ N  D      
Sbjct: 1   TAQVISDLLAQ-GAELNATMDKTGETSLHLAARFARADAAKRLLDAGADANSQDNTGRTP 59

Query: 157 RTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPT 216
             AA          +   +   ++          + L          +VE L+ + AD  
Sbjct: 60  LHAAVAADAMGVFQILLRNRATNLNARMHDG--TTPLILAARLAIEGMVEDLITADADIN 117

Query: 217 VKDNSGHIPSDYAEDANIKQILQKYAEKYAD 247
             DNSG     +A   N  + +      +A+
Sbjct: 118 AADNSGKTALHWAAAVNNTEAVNILLMHHAN 148

>d1ot8a_ d.211.1.1 (A:) Neurogenic locus notch receptor domain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 209

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Neurogenic locus notch receptor domain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 39.8 bits (91), Expect = 4e-04
 Identities = 14/97 (14%), Positives = 25/97 (25%), Gaps = 36/97 (37%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPFEVLL 171
           + + +     TPL +AA  G  +  + LL+  AN  + D                     
Sbjct: 148 NRDAQDDKDETPLFLAAREGSYEASKALLDNFANREITDHM------------------- 188

Query: 172 KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
                                        + ++V LL
Sbjct: 189 -----------------DRLPRDVASERLHHDIVRLL 208

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

 Score = 42.1 bits (99), Expect = 1e-04
 Identities = 32/170 (18%), Positives = 59/170 (34%), Gaps = 41/170 (24%)

Query: 268 DRIVGQESAINIISAAI-------KRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFY 320
             + G + A   ++  +       + ++ G      P   L +G  G GKT LAK +A  
Sbjct: 12  ADVAGCDEAKEEVAELVEYLREPSRFQKLGGK---IPKGVLMVGPPGTGKTLLAKAIA-- 66

Query: 321 IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVD 380
              + K  F  +  S++     V   +G     +       + ++ KK    ++  DE+D
Sbjct: 67  --GEAKVPFFTISGSDF-----VEMFVGVGASRV-----RDMFEQAKKAAPCIIFIDEID 114

Query: 381 K-----------AHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN 419
                        H +    L Q+  E    DG       +  I +  +N
Sbjct: 115 AVGRQRGAGLGGGHDEREQTLNQMLVE---MDGFEGN---EGIIVIAATN 158

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

 Score = 41.8 bits (98), Expect = 1e-04
 Identities = 27/150 (18%), Positives = 57/150 (38%), Gaps = 8/150 (5%)

Query: 270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAF 329
            V +   +  I   IK+     +  + P+  L  G SG+GK  +A+ +     R K+  F
Sbjct: 2   YVFESPKMKEILEKIKK----ISCAECPV--LITGESGVGKEVVARLIHKLSDRSKEP-F 54

Query: 330 IRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTV 389
           + L+++        A+L G   G        +     +      +  DE+ +   +    
Sbjct: 55  VALNVASIPRDIFEAELFGYEKGAFTGAVSSK-EGFFELADGGTLFLDEIGELSLEAQAK 113

Query: 390 LLQLFDEGRLTDGKGKTIECKDAIFVMTSN 419
           LL++ + G+     G+     +   +  +N
Sbjct: 114 LLRVIESGKFYRLGGRKEIEVNVRILAATN 143

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

 Score = 41.8 bits (98), Expect = 1e-04
 Identities = 26/121 (21%), Positives = 42/121 (34%), Gaps = 24/121 (19%)

Query: 268 DRIVGQESAINIISAAI-------KRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFY 320
             + G E A   +   +       +  E G      P   L +G  G+GKT LA+ +A  
Sbjct: 9   KDVAGAEEAKEELKEIVEFLKNPSRFHEMGA---RIPKGVLLVGPPGVGKTHLARAVAGE 65

Query: 321 IHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVD 380
                   FI    S++     V   +G     +       L +  K+    +V  DE+D
Sbjct: 66  ARVP----FITASGSDF-----VEMFVGVGAARV-----RDLFETAKRHAPCIVFIDEID 111

Query: 381 K 381
            
Sbjct: 112 A 112

>d1bd8a_ d.211.1.1 (A:) Cell cycle inhibitor p19ink4D {Human (Homo sapiens) [TaxId: 9606]} Length = 156

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p19ink4D
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.2 bits (92), Expect = 2e-04
 Identities = 11/30 (36%), Positives = 15/30 (50%)

Query: 112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLE 141
           D++ R   G TPL +A   G  D V +L  
Sbjct: 125 DLHRRDARGLTPLELALQRGAQDLVDILQG 154

>d1bd8a_ d.211.1.1 (A:) Cell cycle inhibitor p19ink4D {Human (Homo sapiens) [TaxId: 9606]} Length = 156

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p19ink4D
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.6 bits (88), Expect = 6e-04
 Identities = 27/151 (17%), Positives = 50/151 (33%), Gaps = 5/151 (3%)

Query: 89  TLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL 148
            L  AA  G  +E++  +    +  +  +  G T L V         + +L +  +    
Sbjct: 5   RLSGAAARGDVQEVRRLLHRELVHPDALNRFGKTALQVMMFGSTAIALELLKQGASPNVQ 64

Query: 149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELL 208
                +    AA         +L       +V +      G   +H  V  G+T VV  L
Sbjct: 65  DTSGTSPVHDAARTGFLDTLKVLVEHGADVNVPDGT----GALPIHLAVQEGHTAVVSFL 120

Query: 209 LKSGADPTVKDNSGHIPSDYAEDANIKQILQ 239
               +D   +D  G  P + A     + ++ 
Sbjct: 121 AAE-SDLHRRDARGLTPLELALQRGAQDLVD 150

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score = 40.5 bits (94), Expect = 2e-04
 Identities = 32/149 (21%), Positives = 56/149 (37%), Gaps = 19/149 (12%)

Query: 258 RKY-PLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQ 316
           RK+ P  Q   D +VGQE  +  ++  +               +LF G+ G+GKT +A+ 
Sbjct: 4   RKWRP--QTFAD-VVGQEHVLTALANGLSL-------GRIHHAYLFSGTRGVGKTSIARL 53

Query: 317 LAFYIHRDKKE----AFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNA 372
           LA  ++ +         +  +  E ++   V  +          +D   L   ++  P  
Sbjct: 54  LAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPAR 113

Query: 373 ----VVLFDEVDKAHPDVLTVLLQLFDEG 397
               V L DEV          LL+  +E 
Sbjct: 114 GRFKVYLIDEVHMLSRHSFNALLKTLEEP 142

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.2 bits (92), Expect = 5e-04
 Identities = 9/60 (15%), Positives = 16/60 (26%), Gaps = 7/60 (11%)

Query: 268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKE 327
           + +   E   N + +   +  +           L  G +G GK      L   I      
Sbjct: 11  NALSHNEELTNFLKSLSDQPRD-------LPHLLLYGPNGTGKKTRCMALLESIFGPGVY 63

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

 Score = 38.9 bits (90), Expect = 0.001
 Identities = 14/82 (17%), Positives = 26/82 (31%), Gaps = 7/82 (8%)

Query: 300 FLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDG 359
           +LF G    GKT LA  L            + +++   +   E+   I         +D 
Sbjct: 157 WLFKGPIDSGKTTLAAALLELCGGK----ALNVNLPLDRLNFELGVAIDQFLVVF--EDV 210

Query: 360 GQLTKRLKKCPNAVVLFDEVDK 381
                  +  P +    + +D 
Sbjct: 211 KGTGGESRDLP-SGQGINNLDN 231

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

 Score = 37.0 bits (84), Expect = 0.004
 Identities = 12/57 (21%), Positives = 22/57 (38%), Gaps = 1/57 (1%)

Query: 268 DRIVGQESAIN-IISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHR 323
             +  +      +    + R  +G    D  +++  +G  GIGKT LAK     +  
Sbjct: 16  PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSE 72

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	607
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	100.0
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	100.0
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	100.0
d1oy3d_	255	Transcription factor inhibitor I-kappa-B-beta, IKB	100.0
d1uoha_	223	26S proteasome non-ATPase regulatory subunit 10, g	100.0
d1iknd_	221	I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606	99.97
d1uoha_	223	26S proteasome non-ATPase regulatory subunit 10, g	99.97
d1n11a_	408	Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2fo1e1	277	Lin-12 {Caenorhabditis elegans [TaxId: 6239]}	99.96
d1s70b_	291	Myosin phosphatase targeting subunit 1, MYPT1 {Chi	99.96
d1n11a_	408	Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1ixva_	229	26S proteasome non-ATPase regulatory subunit 10, g	99.96
d1ixva_	229	26S proteasome non-ATPase regulatory subunit 10, g	99.96
d1oy3d_	255	Transcription factor inhibitor I-kappa-B-beta, IKB	99.96
d1wdya_	285	RNase L, 2-5a-dependent ribonuclease {Human (Homo	99.95
d1k1aa_	228	bcl-3 {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1s70b_	291	Myosin phosphatase targeting subunit 1, MYPT1 {Chi	99.94
d1bd8a_	156	Cell cycle inhibitor p19ink4D {Human (Homo sapiens	99.94
d1ihba_	156	p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]	99.94
d2fo1e1	277	Lin-12 {Caenorhabditis elegans [TaxId: 6239]}	99.94
d1ot8a_	209	Neurogenic locus notch receptor domain {Fruit fly	99.94
d1awcb_	153	GA bindinig protein (GABP) beta 1 {Mouse (Mus musc	99.94
d1ihba_	156	p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]	99.93
d2ajaa1	346	Hypothetical protein LPG2416 {Legionella pneumophi	99.93
d1iknd_	221	I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606	99.92
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.92
d1k1aa_	228	bcl-3 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1bd8a_	156	Cell cycle inhibitor p19ink4D {Human (Homo sapiens	99.91
d1myoa_	118	Myotrophin {Rat (Rattus norvegicus) [TaxId: 10116]	99.91
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.9
d1bi7b_	125	Cell cycle inhibitor p16ink4A {Human (Homo sapiens	99.9
d1awcb_	153	GA bindinig protein (GABP) beta 1 {Mouse (Mus musc	99.9
d1wdya_	285	RNase L, 2-5a-dependent ribonuclease {Human (Homo	99.9
d1ycsb1	130	53BP2 {Human (Homo sapiens) [TaxId: 9606]}	99.89
d1bi7b_	125	Cell cycle inhibitor p16ink4A {Human (Homo sapiens	99.89
d1sw6a_	301	Swi6 ankyrin-repeat fragment {Baker's yeast (Sacch	99.89
d1ot8a_	209	Neurogenic locus notch receptor domain {Fruit fly	99.89
d2ajaa1	346	Hypothetical protein LPG2416 {Legionella pneumophi	99.87
d1myoa_	118	Myotrophin {Rat (Rattus norvegicus) [TaxId: 10116]	99.86
d1dcqa1	154	Pyk2-associated protein beta {Mouse (Mus musculus)	99.86
d1ycsb1	130	53BP2 {Human (Homo sapiens) [TaxId: 9606]}	99.85
d1dcqa1	154	Pyk2-associated protein beta {Mouse (Mus musculus)	99.82
d1sw6a_	301	Swi6 ankyrin-repeat fragment {Baker's yeast (Sacch	99.81
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	99.79
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.47
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.4
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.38
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.37
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.36
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.35
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.33
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.28
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.19
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.18
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.14
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.06
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.03
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.03
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.99
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.96
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.93
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.89
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.83
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.8
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	98.57
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.49
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.43
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.38
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	97.9
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.38
d1qzma_	94	ATPase domain of protease Lon (La) {Escherichia co	96.95
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.37
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.37
d1okkd2	207	GTPase domain of the signal recognition particle r	95.96
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.92
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.87
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.78
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.78
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	95.52
d1tuea_	205	Replication protein E1 helicase domain {Human papi	95.21
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.12
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	95.0
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	94.98
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	94.96
d1ls1a2	207	GTPase domain of the signal sequence recognition p	94.94
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	94.94
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	94.74
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	94.47
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	94.43
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	94.26
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	94.07
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	94.03
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	94.01
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	93.99
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	93.99
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	93.82
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	93.73
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	93.67
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	93.64
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	93.43
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	93.36
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	93.34
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	93.18
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	93.01
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	92.89
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	92.5
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	92.1
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	92.09
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	91.92
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	91.89
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	91.71
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	91.47
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	91.32
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	91.26
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	91.21
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	91.08
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	91.05
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	90.37
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	90.23
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	90.14
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	89.61
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	89.36
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	89.31
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	88.94
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	88.89
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	88.78
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	88.75
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	88.73
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	88.35
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	88.16
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	87.96
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	87.17
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	86.48
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	86.06
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	85.26
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	84.59
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	84.07
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	83.77
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	82.78
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	82.73
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	82.69
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	82.46
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	80.19

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=1.1e-49  Score=397.67  Aligned_cols=301  Identities=40%  Similarity=0.689  Sum_probs=261.3

Q ss_pred             cccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc
Q psy1308         257 RRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS  335 (607)
Q Consensus       257 ~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a  335 (607)
                      .....|++.|.+.++||+.+++.+..++.+...++.++++|. +++|+||+|+|||++|+.||+.++.. ..+++++||+
T Consensus        12 ~~l~~l~~~L~~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~-~~~~~~~~~~   90 (315)
T d1qvra3          12 EKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT-EEAMIRIDMT   90 (315)
T ss_dssp             HHHHSHHHHHHHHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS-GGGEEEECTT
T ss_pred             HHHHHHHHHhcCeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCC-CcceEEEecc
Confidence            445678999999999999999999999999999999999998 89999999999999999999999876 7789999999


Q ss_pred             cccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEE
Q psy1308         336 EYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFV  415 (607)
Q Consensus       336 ~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI  415 (607)
                      .|.+.+.+.+|+|+++||+|+++++.+++.++++|++||+||||||+|+++++.|++++++|++++..|++++|++++||
T Consensus        91 ~~~~~~~~~~L~g~~~gyvG~~~~~~l~~~~~~~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i  170 (315)
T d1qvra3          91 EYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVII  170 (315)
T ss_dssp             TCCSSGGGGGC--------------CHHHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEE
T ss_pred             ccccchhhhhhcCCCCCCcCcccCChHHHHHHhCCCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCH
Q psy1308         416 MTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSK  495 (607)
Q Consensus       416 ~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~  495 (607)
                      +|||+|.+.+.+......                         ............++++|+ |||++|||.+++|.||+.
T Consensus       171 ~tsnlG~~~i~~~~~~~~-------------------------~~~~~~~~~~~~l~~~f~-pEflnRid~Ii~F~~L~~  224 (315)
T d1qvra3         171 LTSNLGSPLILEGLQKGW-------------------------PYERIRDEVFKVLQQHFR-PEFLNRLDEIVVFRPLTK  224 (315)
T ss_dssp             EECCTTHHHHHHHHHTTC-------------------------CHHHHHHHHHHHHHTTSC-HHHHHTCSBCCBCCCCCH
T ss_pred             EecccChHHHhhhccccc-------------------------chhhhhHHHHHHHHhhcC-HHHHhcCCeeeeccchhh
Confidence            999999998866432211                         011123334566788998 999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEEEE
Q psy1308         496 SELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLY  574 (607)
Q Consensus       496 ~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~  574 (607)
                      +++.+|+..++.++.+++..+ ++.+.++++++++|++ +|++.+|||+|++.|++.|.++|++.++++++++|++|+|+
T Consensus       225 ~~~~~I~~~~l~~l~~rl~~~-~i~l~i~~~~~~~L~~~~y~~~~GAR~L~r~Ie~~i~~~La~~iL~~~~~~g~~i~i~  303 (315)
T d1qvra3         225 EQIRQIVEIQLSYLRARLAEK-RISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVKEGDRVQVD  303 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTT-TCEEEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTHHHHHHHHHHTSSCSSCEEEEE
T ss_pred             hhhHHHHHHHHHHHHHHHHhc-cccccccHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHHHHHhCcCCCCCEEEEE
Confidence            999999999999999998775 8999999999999987 89999999999999999999999999999999999999999


Q ss_pred             EecCCcccccC
Q psy1308         575 VQWSKEVSEDS  585 (607)
Q Consensus       575 ~~~~~~~~~~~  585 (607)
                      +.+++..++.+
T Consensus       304 ~~~~~lvf~~~  314 (315)
T d1qvra3         304 VGPAGLVFAVP  314 (315)
T ss_dssp             CCTTSCEEESC
T ss_pred             EECCEEEEEee
Confidence            99999877654

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1e-48  Score=391.76  Aligned_cols=293  Identities=34%  Similarity=0.563  Sum_probs=261.2

Q ss_pred             hcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         256 ERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       256 ~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      ...+..|+..|.+.++||+.+++.+..++.+...++.++++|. +++|+||+|+|||++|+.||+.++    .+|+++||
T Consensus        10 ~~~l~~l~~~L~~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~----~~~i~~d~   85 (315)
T d1r6bx3          10 RDTLKNLGDRLKMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG----IELLRFDM   85 (315)
T ss_dssp             HHHHHHHHHHHTTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT----CEEEEEEG
T ss_pred             HHHHHHHHHHhCCeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc----CCeeEecc
Confidence            3445678889999999999999999999999999999999999 899999999999999999999985    45999999


Q ss_pred             ccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         335 SEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       335 a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                      +.|.+.+.+++++|+++||+|+..++.+.+.+..+|++|++||||||+||++++.||+++++|.++|..|++++|+++++
T Consensus        86 s~~~~~~~~~~l~g~~~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~ii  165 (315)
T d1r6bx3          86 SEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVL  165 (315)
T ss_dssp             GGCSSSSCCSSSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEE
T ss_pred             ccccchhhhhhhcccCCCccccccCChhhHHHHhCccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |||||+|...+.+...++..+                          .......+.++++|+ |||++|||.+++|.||+
T Consensus       166 I~Tsnig~~~i~~~~~~~~~~--------------------------~~~~~~~~~l~~~f~-pEflnRid~ii~f~~l~  218 (315)
T d1r6bx3         166 VMTTNAGVRETERKSIGLIHQ--------------------------DNSTDAMEEIKKIFT-PEFRNRLDNIIWFDHLS  218 (315)
T ss_dssp             EEEECSSCC-------------------------------------------CHHHHHHHSC-HHHHTTCSEEEECCCCC
T ss_pred             EeccchhhHHHHhhhccchhh--------------------------hhhHhHHHHHHHhcC-HHHHhhhhhhhcccchh
Confidence            999999988775543221110                          112233456788898 99999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEEE
Q psy1308         495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRL  573 (607)
Q Consensus       495 ~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i  573 (607)
                      .+++.+|+..++..+..++... ++.+.++++|+++|++ +|++.+|||+|++.|++.|.++|++.++.+.+.+|.+++|
T Consensus       219 ~~~~~~I~~~~l~~~~~~l~~~-~i~l~~~~~a~~~l~~~~yd~~~GaR~L~r~Ie~~i~~~la~~il~~~~~~g~~i~V  297 (315)
T d1r6bx3         219 TDVIHQVVDKFIVELQVQLDQK-GVSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNLKKPLANELLFGSLVDGGQVTV  297 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHT-TEEEEECHHHHHHHHHHHCBTTTBTTTHHHHHHHHHTHHHHHHHHHSTTTTCEEEEE
T ss_pred             hhHHHHHHHHHHHHHHHHHHhc-CcchhhHHHHHHHHHHhCCCCCCChhhHHHHHHHHHHHHHHHHHHhCcCCCCCEEEE
Confidence            9999999999999999998775 9999999999999986 8999999999999999999999999999999999999999


Q ss_pred             EEecCCc
Q psy1308         574 YVQWSKE  580 (607)
Q Consensus       574 ~~~~~~~  580 (607)
                      +++..+.
T Consensus       298 ~~~~~~~  304 (315)
T d1r6bx3         298 ALDKEKN  304 (315)
T ss_dssp             EEEGGGT
T ss_pred             EEECCCC
Confidence            9997775

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=100.00  E-value=3.8e-35  Score=296.86  Aligned_cols=282  Identities=20%  Similarity=0.301  Sum_probs=188.0

Q ss_pred             ccHHHHHHhHhhhhHHHHHHHHHHHHHhh---------------------CCCCCCCCCc-eeeeeccCCCChhHHHHHH
Q psy1308         260 YPLEQRLKDRIVGQESAINIISAAIKRKE---------------------NGWTDDDHPL-VFLFLGSSGIGKTELAKQL  317 (607)
Q Consensus       260 ~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~---------------------~~~~~~~~p~-~~ll~G~~G~GKt~la~~l  317 (607)
                      ..+...|.++++||++|++.++.++..++                     .+..+++.|. .+||+||+|||||++||+|
T Consensus         9 ~ei~~~L~~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~L   88 (364)
T d1um8a_           9 KELKAVLDNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTL   88 (364)
T ss_dssp             HHHHHHHHTTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHH
T ss_pred             HHHHHHhCCeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHH
Confidence            34778889999999999999998874221                     1122344555 8999999999999999999


Q ss_pred             HHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHH-------HhhCCCeEEEEecCCc---------
Q psy1308         318 AFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKR-------LKKCPNAVVLFDEVDK---------  381 (607)
Q Consensus       318 a~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~-------~~~~~~~vl~lDEiek---------  381 (607)
                      |+.+    ..+|+++||+.|++           +||+|++.++.+.++       ++..++++++|||+||         
T Consensus        89 A~~~----~~~~ir~D~s~~~e-----------~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~s~~~~  153 (364)
T d1um8a_          89 AKHL----DIPIAISDATSLTE-----------AGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRS  153 (364)
T ss_dssp             HHHT----TCCEEEEEGGGCC-------------------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------
T ss_pred             Hhhc----ccceeehhhhhccc-----------chhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhhcccccccc
Confidence            9987    44699999999976           689999888888877       4556789999999999         


Q ss_pred             -----cCHHHHHHHHHhhccc--eeecCCCcEEecCceEEEEecCc---------chHHHHHHHhhhhhcccccccCCCC
Q psy1308         382 -----AHPDVLTVLLQLFDEG--RLTDGKGKTIECKDAIFVMTSNL---------ASNEIAQHALQLRKEGEEFSKRTPS  445 (607)
Q Consensus       382 -----~~~~~~~~Ll~~~~~~--~~~~~~g~~~~~~~~~iI~tsn~---------~~~~i~~~~~~~~~~~~~~~~~~~~  445 (607)
                           +||++|+.||++++++  .+++..|++.++.++++|+|+|+         +.+.+....    ..     .....
T Consensus       154 ~~~d~a~~~V~~~lLqild~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~----~~-----~~~~~  224 (364)
T d1um8a_         154 ITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKR----TT-----QNVLG  224 (364)
T ss_dssp             ------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTS----CS-----SCCCS
T ss_pred             ccccccchHHHHhhhhhhcCceeccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhh----cc-----ccccc
Confidence                 8999999999999964  47788999999999999999997         222221110    00     00000


Q ss_pred             cccccCCCcchhcchhhhhhhh-hHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHH----HHHHHHHHhhcCCcE
Q psy1308         446 ISKSQGSNLDVTISRHFKDHVV-QPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCRE----LNFWAKKALDKHNIN  520 (607)
Q Consensus       446 ~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~----l~~~~~~~~~~~~i~  520 (607)
                      .....   ........+.+... ...++..|+ |||++||+.++.|.||+++++.+|+...    +.++...+. .+|+.
T Consensus       225 ~~~~~---~~~~~~~~~~~~~~~~~~~~~~f~-PEf~gRi~~iv~f~~L~~~~l~~Il~~~~~~l~kq~~~~l~-~~gi~  299 (364)
T d1um8a_         225 FTQEK---MSKKEQEAILHLVQTHDLVTYGLI-PELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFK-MDEVD  299 (364)
T ss_dssp             CCCSS---CCTTTTTTSGGGCCHHHHHHTTCC-HHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHH-TTTCE
T ss_pred             ccccc---cchhhhhhhhccccHHHHhhhhhH-HHHHHHhcchhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHH-hCCcE
Confidence            00000   01111111222222 245667787 9999999999999999999999999864    344444444 45999


Q ss_pred             EEeCHhHHHHHHc-cCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCCCEEEEE
Q psy1308         521 IVWDIDVETILAD-GYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSFVRLY  574 (607)
Q Consensus       521 l~~~~~a~~~L~~-~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~v~i~  574 (607)
                      ++++++|+++|++ +|++.+|||+|+++||+.+.+.+.+.    ....+..|.|+
T Consensus       300 L~~td~a~~~la~~g~d~~~GAR~L~riie~~l~~~~f~~----p~~~~~~v~I~  350 (364)
T d1um8a_         300 LIFEEEAIKEIAQLALERKTGARGLRAIIEDFCLDIMFDL----PKLKGSEVRIT  350 (364)
T ss_dssp             EEECHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHHHHHTG----GGGTTSEEEEC
T ss_pred             EEECHHHHHHHHHhccCCCCCchHHHHHHHHHHHHHhccC----CCCCCCEEEEC
Confidence            9999999999997 99999999999999999887765432    22356777765

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.1e-34  Score=282.95  Aligned_cols=199  Identities=23%  Similarity=0.198  Sum_probs=175.9

Q ss_pred             CCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHH
Q psy1308          24 PYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELK  103 (607)
Q Consensus        24 ~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~  103 (607)
                      ++.+..|+||||+||.+|+.+++++|++.+....                    .++..+..|.||||+||..|+.++++
T Consensus         3 ~~i~~~G~t~Lh~A~~~~~~~~v~~Ll~~~a~~~--------------------~i~~~~~~g~TpL~~A~~~g~~~iv~   62 (255)
T d1oy3d_           3 GYVTEDGDTALHLAVIHQHEPFLDFLLGFSAGHE--------------------YLDLQNDLGQTALHLAAILGEASTVE   62 (255)
T ss_dssp             CCCCTTCCCHHHHHHHTTCHHHHHHHHHHHTTSG--------------------GGGCCCTTSCCHHHHHHHHTCHHHHH
T ss_pred             ccCCcCCCCHHHHHHHcCCHHHHHHHHHcCCCcc--------------------cccCcCCCCCCccchHHhhccccccc
Confidence            3456679999999999999999999987654322                    23567889999999999999999999


Q ss_pred             HHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCC------------------------------------
Q psy1308         104 TFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPN------------------------------------  147 (607)
Q Consensus       104 ~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~------------------------------------  147 (607)
                      +|+++| ++++.+|.+|+||||+|+..++.+++++|++.+....                                    
T Consensus        63 ~Ll~~g-a~i~~~d~~g~tpL~~A~~~~~~~~~~~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  141 (255)
T d1oy3d_          63 KLYAAG-AGVLVAERGGHTALHLACRVRAHTCACVLLQPRPSHPRDASDTYLTQSQDCTPDTSHAPAAVDSQPNPENEEE  141 (255)
T ss_dssp             HHHHTT-CCSSCCCTTSCCHHHHHTTTTCHHHHHHHSSSCCSSCCCC---------------------------------
T ss_pred             cccccc-ccccccccccchhhhhhhccCchHHHHHHHhhccchhcccchhhhhHHhhhcccchHHHHHHHhhcchhHHHH
Confidence            999998 9999999999999999999999999999987543211                                    


Q ss_pred             -----------CC--CCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         148 -----------LG--DLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       148 -----------~~--d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                                 .+  +++||||+|+..++.+++++|++++++.+...    +..|.||||+|+..|+.+++++|+++|+|
T Consensus       142 ~~~~~~~~~in~~d~~g~TpLh~A~~~~~~~~v~~Ll~~~~~~~~~~----~~~g~TpL~~A~~~~~~~~v~~Ll~~gad  217 (255)
T d1oy3d_         142 PRDEDWRLQLEAENYDGHTPLHVAVIHKDAEMVRLLRDAGADLNKPE----PTCGRTPLHLAVEAQAASVLELLLKAGAD  217 (255)
T ss_dssp             --CCCGGGGTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHTCCTTCCC----TTTCCCHHHHHHHTTCHHHHHHHHHTTCC
T ss_pred             HHhhhcCcccccccccCcccccccccccccccccchhcccccccccc----cccccccccccccccHHHHHHHHHHCCCC
Confidence                       11  24679999999999999999999999887543    34599999999999999999999999999


Q ss_pred             CCccCCCCCCCCcchhhhhHHHHHHHHHHhhhh
Q psy1308         215 PTVKDNSGHIPSDYAEDANIKQILQKYAEKYAD  247 (607)
Q Consensus       215 ~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~  247 (607)
                      ++.+|..|+||||+|+..++.+++++|+++||+
T Consensus       218 in~~d~~g~t~L~~A~~~~~~~i~~~Ll~~Ga~  250 (255)
T d1oy3d_         218 PTARMYGGRTPLGSALLRPNPILARLLRAHGAP  250 (255)
T ss_dssp             TTCCCTTSCCHHHHHHTSSCHHHHHHHHHTTCC
T ss_pred             CCCCCCCCCCHHHHHHHCCCHHHHHHHHHcCCC
Confidence            999999999999999999999999999999996

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.2e-33  Score=270.11  Aligned_cols=207  Identities=21%  Similarity=0.236  Sum_probs=185.1

Q ss_pred             chhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCC
Q psy1308           7 QRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIK   86 (607)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g   86 (607)
                      ...+.+..++.......+..|..|+||||+||..|+.+++++|+..+....                       ..+..+
T Consensus        14 G~~~~v~~~l~~~~~~~~~~D~~G~TpLh~Aa~~g~~e~~~~l~~~~~~~~-----------------------~~~~~~   70 (223)
T d1uoha_          14 GKLEELKESILADKSLATRTDQDSRTALHWACSAGHTEIVEFLLQLGVPVN-----------------------DKDDAG   70 (223)
T ss_dssp             TCHHHHHHHHHHCGGGGGCCCTTSCCHHHHHHHHTCHHHHHHHHHHTCCSC-----------------------CCCTTC
T ss_pred             CCHHHHHHHHHhCCCcCcCcCCCCCCHHHHHHHhhhhcccccccccccccc-----------------------cccccc
Confidence            334556667777777777789999999999999999999999986654333                       445678


Q ss_pred             CHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCc
Q psy1308          87 DLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKM  164 (607)
Q Consensus        87 ~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~  164 (607)
                      .++++.|+..|+.+++++|++++ ++++.+|..|+||||+|+..|+.+++++|+++|++++..+.  .+|||+|+..++.
T Consensus        71 ~~~~~~~~~~~~~~i~~~Ll~~~-~d~~~~d~~g~tpL~~A~~~~~~e~~~~Ll~~g~d~~~~~~~~~t~L~~a~~~~~~  149 (223)
T d1uoha_          71 WSPLHIAASAGRDEIVKALLGKG-AQVNAVNQNGCTPLHYAASKNRHEIAVMLLEGGANPDAKDHYEATAMHRAAAKGNL  149 (223)
T ss_dssp             CCHHHHHHHHTCHHHHHHHHHTT-CCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCH
T ss_pred             cccccccccccccchhHHHhccC-ceeEeeCCCCCchhhHHHHcCCHHHHHHHHHCCCCCCCcCCCCCccchhhhhcCCc
Confidence            89999999999999999999999 99999999999999999999999999999999999998776  5699999999999


Q ss_pred             cHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHH
Q psy1308         165 NPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAE  243 (607)
Q Consensus       165 ~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~  243 (607)
                      +++++|+..+.+++..+.     +|+||||+|+..|+.++|++|+++|+|++.+|.+|+||||+|. .|+.++++.|++
T Consensus       150 ~~~~~L~~~~~~i~~~d~-----~g~TpL~~Aa~~g~~~~v~~LL~~Gad~~~~d~~g~tpl~~A~-~~~~~i~~~Ll~  222 (223)
T d1uoha_         150 KMIHILLYYKASTNIQDT-----EGNTPLHLACDEERVEEAKLLVSQGASIYIENKEEKTPLQVAK-GGLGLILKRMVE  222 (223)
T ss_dssp             HHHHHHHHTTCCSCCCCT-----TCCCHHHHHHHTTCHHHHHHHHHTTCCSCCCCTTSCCHHHHCC-TTHHHHHHHHHC
T ss_pred             chhhhhccccceeeeccC-----CCCceeccccccCcHHHHHHHHHCCCCCCCCCCCCCCHHHHHH-CCCHHHHhcccC
Confidence            999999999999987754     4999999999999999999999999999999999999999985 699999998874

>d1iknd_ d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: I-kappa-B-alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=7.5e-32  Score=257.05  Aligned_cols=195  Identities=22%  Similarity=0.192  Sum_probs=170.7

Q ss_pred             CCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhc
Q psy1308          29 FQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIEN  108 (607)
Q Consensus        29 ~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~  108 (607)
                      .|+||||+|+..|+.+++..|+....                   ..+..++..|.+|+||||+||..|+.+++++|++.
T Consensus         1 dG~t~Lh~A~~~g~~~~~~~li~~~~-------------------~~~~~in~~d~~g~TpLh~A~~~~~~~iv~~L~~~   61 (221)
T d1iknd_           1 DGDSFLHLAIIHEEKALTMEVIRQVK-------------------GDLAFLNFQNNLQQTPLHLAVITNQPEIAEALLGA   61 (221)
T ss_dssp             CCCCTTHHHHHTTCSSSSSCCCC------------------------CCCCCCCCTTCCCHHHHHHHTTCHHHHHCCCSC
T ss_pred             CCChHHHHHHHcCCHHHHHHHHHHHH-------------------hCCCCcccCCCCCCccccccccccccccccccccc
Confidence            38999999999999877766553321                   12233467899999999999999999999999999


Q ss_pred             CCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCC--------CCCCchHHHHHHcCCccHHHHHHhcCCCcccc
Q psy1308         109 SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL--------GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDV  180 (607)
Q Consensus       109 ~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~--------~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~  180 (607)
                      | ++++.+|..|.||||+|+..|+.++++.|++.+.+...        .++.+|||.|+..++.+++++|+..|+.++..
T Consensus        62 g-~d~~~~d~~g~t~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~t~l~~a~~~~~~~~~~~l~~~~~~~~~~  140 (221)
T d1iknd_          62 G-CDPELRDFRGNTPLHLACEQGCLASVGVLTQSCTTPHLHSILKATNYNGHTCLHLASIHGYLGIVELLVSLGADVNAQ  140 (221)
T ss_dssp             C-CCSCCCCTTCCCHHHHHHHHTCHHHHHHHHHSTTTTSSSCGGGCCCTTCCCHHHHHHHTTCHHHHHHHHHHTCCTTCC
T ss_pred             c-ccccccccccccccccccccccccccchhhhhcccccccccccccccccchhhhHHhhcCChhheeeecccCcccccc
Confidence            9 99999999999999999999999999999998876543        23468999999999999999999999998866


Q ss_pred             CCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhh
Q psy1308         181 LNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYAD  247 (607)
Q Consensus       181 ~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~  247 (607)
                      ++    .+|+||||+|+..|+.+++++|+++|+|++.+|.+|+||||+|+..++.+++++|++...+
T Consensus       141 ~~----~~G~T~L~~A~~~g~~~~v~~Ll~~gad~~~~~~~G~tpl~~A~~~~~~~~~~~l~~~~~~  203 (221)
T d1iknd_         141 EP----CNGRTALHLAVDLQNPDLVSLLLKCGADVNRVTYQGYSPYQLTWGRPSTRIQQQLGQLTLE  203 (221)
T ss_dssp             CT----TTCCCHHHHHHHTTCHHHHHHHHTTTCCSCCCCTTCCCGGGGCTTSSCHHHHHHHHTTSCG
T ss_pred             cc----cCCCCccccccccccHHHHHHHHhcCCcccccCCCCCCHHHHHHHCCCHHHHHHHHHcCCc
Confidence            43    3499999999999999999999999999999999999999999999999999999987654

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1e-30  Score=249.50  Aligned_cols=205  Identities=20%  Similarity=0.241  Sum_probs=184.9

Q ss_pred             CCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhc
Q psy1308          29 FQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIEN  108 (607)
Q Consensus        29 ~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~  108 (607)
                      -.++.|+.+|+.|+.+.++.++...                      ...++.+|..|+||||+||..|+.+++++|+..
T Consensus         2 ~~~~~~~~~a~~G~~~~v~~~l~~~----------------------~~~~~~~D~~G~TpLh~Aa~~g~~e~~~~l~~~   59 (223)
T d1uoha_           2 VSNLMVCNLAYSGKLEELKESILAD----------------------KSLATRTDQDSRTALHWACSAGHTEIVEFLLQL   59 (223)
T ss_dssp             CSSSHHHHHHHTTCHHHHHHHHHHC----------------------GGGGGCCCTTSCCHHHHHHHHTCHHHHHHHHHH
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHhC----------------------CCcCcCcCCCCCCHHHHHHHhhhhccccccccc
Confidence            3578999999999999997776432                      223357899999999999999999999999999


Q ss_pred             CCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcC
Q psy1308         109 SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMT  186 (607)
Q Consensus       109 ~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d  186 (607)
                      + .+....+..+.+++++|+..++.+++++|+++|++++..|.  +||||+|+..|+.+++++|+++|++++..+.    
T Consensus        60 ~-~~~~~~~~~~~~~~~~~~~~~~~~i~~~Ll~~~~d~~~~d~~g~tpL~~A~~~~~~e~~~~Ll~~g~d~~~~~~----  134 (223)
T d1uoha_          60 G-VPVNDKDDAGWSPLHIAASAGRDEIVKALLGKGAQVNAVNQNGCTPLHYAASKNRHEIAVMLLEGGANPDAKDH----  134 (223)
T ss_dssp             T-CCSCCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCT----
T ss_pred             c-cccccccccccccccccccccccchhHHHhccCceeEeeCCCCCchhhHHHHcCCHHHHHHHHHCCCCCCCcCC----
Confidence            8 88888888999999999999999999999999999998775  6799999999999999999999999887644    


Q ss_pred             cCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHH
Q psy1308         187 FLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQ  264 (607)
Q Consensus       187 ~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~  264 (607)
                       .|.||||+|+..++.+++++|++.|++++.+|..|+||||+|+..|+.+++++|++.|++..   ..+..+.+||+.
T Consensus       135 -~~~t~L~~a~~~~~~~~~~~L~~~~~~i~~~d~~g~TpL~~Aa~~g~~~~v~~LL~~Gad~~---~~d~~g~tpl~~  208 (223)
T d1uoha_         135 -YEATAMHRAAAKGNLKMIHILLYYKASTNIQDTEGNTPLHLACDEERVEEAKLLVSQGASIY---IENKEEKTPLQV  208 (223)
T ss_dssp             -TSCCHHHHHHHTTCHHHHHHHHHTTCCSCCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCSC---CCCTTSCCHHHH
T ss_pred             -CCCccchhhhhcCCcchhhhhccccceeeeccCCCCceeccccccCcHHHHHHHHHCCCCCC---CCCCCCCCHHHH
Confidence             49999999999999999999999999999999999999999999999999999999999876   346788899843

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.8e-29  Score=263.05  Aligned_cols=262  Identities=20%  Similarity=0.218  Sum_probs=199.1

Q ss_pred             hchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCcc--------
Q psy1308           6 VQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLAL--------   77 (607)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~--------   77 (607)
                      ...-+++..++++ ....+..+..|+||||+||..|+.+++++|++.+......+..+.++++.|...+...        
T Consensus        10 ~g~~~~v~~Ll~~-g~~in~~d~~g~TpL~~A~~~g~~~iv~~Ll~~gadi~~~~~~g~t~L~~A~~~g~~~~~~~Ll~~   88 (408)
T d1n11a_          10 MGHLPIVKNLLQR-GASPNVSNVKVETPLHMAARAGHTEVAKYLLQNKAKVNAKAKDDQTPLHCAARIGHTNMVKLLLEN   88 (408)
T ss_dssp             HTCHHHHHHHHHT-TCCSCCSSSCCCCHHHHHHHHTCHHHHHHHHHHTCCSSCCCTTSCCHHHHHHHHTCHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHC-CCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHCcCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHHh
Confidence            3445566666654 4566778889999999999999999999999999988888888899998875333221        


Q ss_pred             -----------------------------------chhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCc
Q psy1308          78 -----------------------------------TLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWT  122 (607)
Q Consensus        78 -----------------------------------~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~t  122 (607)
                                                         .....+..+.++|+.|+..++.+++++|++++ ++++..+..|.+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~v~~ll~~~-~~~~~~~~~~~~  167 (408)
T d1n11a_          89 NANPNLATTAGHTPLHIAAREGHVETVLALLEKEASQACMTKKGFTPLHVAAKYGKVRVAELLLERD-AHPNAAGKNGLT  167 (408)
T ss_dssp             TCCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHHHHHHHHTT-CCTTCCCSSCCC
T ss_pred             hhccccccccccchhhhhhhhcccccccccccccccccccccccchHHHHHHHcCCHHHHHHHHHcC-CCCCcCCCcCch
Confidence                                               11234567778888888888888888888887 788888888888


Q ss_pred             HHHHHHHcCCHHHHHHHHHcCCCCCCCC----------------------------------------------------
Q psy1308         123 PLHVAAINGKVDNVRVLLEAGANPNLGD----------------------------------------------------  150 (607)
Q Consensus       123 pLh~A~~~g~~~~v~~Ll~~ga~~~~~d----------------------------------------------------  150 (607)
                      |||+|+..|+.+++++|+++|++++..+                                                    
T Consensus       168 ~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~t~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~t~l~~a~~~~~~~~~  247 (408)
T d1n11a_         168 PLHVAVHHNNLDIVKLLLPRGGSPHSPAWNGYTPLHIAAKQNQVEVARSLLQYGGSANAESVQGVTPLHLAAQEGHAEMV  247 (408)
T ss_dssp             HHHHHHHTTCHHHHHHHGGGTCCSCCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHTTCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHhcCCcccccCCCCCCcchhhhccchhhhhhhhhhccccccccCCCCCCHHHHHHHhCcHhHh
Confidence            8888888888888888888887766431                                                    


Q ss_pred             ----------------CCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         151 ----------------LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       151 ----------------~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                                      +.+|++.|+..++.+++++|+++|++++....     .+.||||.|+..++.++++++++.|++
T Consensus       248 ~~~~~~~~~~~~~~~~g~~~l~~a~~~~~~~i~~~Ll~~g~~~~~~~~-----~~~t~L~~~~~~~~~~~~~~ll~~g~~  322 (408)
T d1n11a_         248 ALLLSKQANGNLGNKSGLTPLHLVAQEGHVPVADVLIKHGVMVDATTR-----MGYTPLHVASHYGNIKLVKFLLQHQAD  322 (408)
T ss_dssp             HHHHTTTCCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHHTCCTTCCCS-----SCCCHHHHHHHSSCSHHHHHHHHTTCC
T ss_pred             hhhhccccccccccCCCCChhhhhhhcCcHHHHHHHHHCCCccccccc-----cccccchhhcccCcceeeeeecccccc
Confidence                            13356666666667777777777777765543     378888888888888888888888888


Q ss_pred             CCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHH
Q psy1308         215 PTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINII  280 (607)
Q Consensus       215 ~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l  280 (607)
                      ++.+|.+|+||||+|+..|+.+++++|+++|++..   ..+..|.+||+.+...   |....++.+
T Consensus       323 in~~d~~G~T~Lh~A~~~g~~~iv~~Ll~~GAd~n---~~d~~G~t~L~~A~~~---~~~~iv~~L  382 (408)
T d1n11a_         323 VNAKTKLGYSPLHQAAQQGHTDIVTLLLKNGASPN---EVSSDGTTPLAIAKRL---GYISVTDVL  382 (408)
T ss_dssp             TTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCSC---CCCSSSCCHHHHHHHT---TCHHHHHHH
T ss_pred             ccccCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCC---CCCCCCCCHHHHHHHc---CCHHHHHHH
Confidence            88889899999999999999999999999988865   3467788888666543   444444443

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.96  E-value=2.7e-30  Score=254.49  Aligned_cols=195  Identities=15%  Similarity=0.166  Sum_probs=162.5

Q ss_pred             cCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHh
Q psy1308          28 GFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIE  107 (607)
Q Consensus        28 ~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~  107 (607)
                      .+|+||||+||..|+.+++++|+....               ......+..++..|.+|+||||+|+..|+.++|++|++
T Consensus        31 ~~g~T~Lh~A~~~g~~~~v~~Ll~~~~---------------~~~l~~Gadvn~~d~~G~TpLh~A~~~g~~~iv~~Ll~   95 (277)
T d2fo1e1          31 RHNRTVLHWIASNSSAEKSEDLIVHEA---------------KECIAAGADVNAMDCDENTPLMLAVLARRRRLVAYLMK   95 (277)
T ss_dssp             SSCCCHHHHHHCTTCCSCCTTHHHHHH---------------HHHHHTCCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHH
T ss_pred             CCCccHHHHHHHcCCHHHHHHHHhcch---------------hHHHHcCCCccccCCCCCeeeccccccccccccccccc
Confidence            469999999999999999999874321               12233456677899999999999999999999999999


Q ss_pred             cCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcC---CCCCC------------------------------------
Q psy1308         108 NSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAG---ANPNL------------------------------------  148 (607)
Q Consensus       108 ~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~g---a~~~~------------------------------------  148 (607)
                      +| +++|.+|.+|.||||+|+..++.++++++...+   ..++.                                    
T Consensus        96 ~G-ad~n~~~~~g~t~l~~a~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  174 (277)
T d2fo1e1          96 AG-ADPTIYNKSERSALHQAAANRDFGMMVYMLNSTKLKGDIEELDRNGMTALMIVAHNEGRDQVASAKLLVEKGAKVDY  174 (277)
T ss_dssp             TT-CCSCCCCTTCCCHHHHHHHTTCHHHHHHHTTSHHHHHTTSCCCTTSCCHHHHHHHSCSTTHHHHHHHHHHHTCCSSC
T ss_pred             cc-cccccccccccccccchhhhcchhhhhhhhhcccccccccccccccchhHHHHHhcccccccccccccccccccccc
Confidence            98 999999999999999999999999999887542   11111                                    


Q ss_pred             ----------CCCCchHHHHHHcCCccHHHHHH-hcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCc
Q psy1308         149 ----------GDLFNTVHRTAAEKKMNPFEVLL-KREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTV  217 (607)
Q Consensus       149 ----------~d~~~~l~~A~~~~~~~~~~~Ll-~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~  217 (607)
                                .+++||||+++..++.+++++++ ..+.+.+..     |..|+||||+|+..|+.++|++|+++|+|++.
T Consensus       175 ~~~~~~~~~~~~g~t~L~~~~~~~~~~~~~~~l~~~~~~~~~~-----d~~g~tpL~~A~~~g~~~iv~~Ll~~gadin~  249 (277)
T d2fo1e1         175 DGAARKDSEKYKGRTALHYAAQVSNMPIVKYLVGEKGSNKDKQ-----DEDGKTPIMLAAQEGRIEVVMYLIQQGASVEA  249 (277)
T ss_dssp             CSGGGTSSSSCCCCCTHHHHHSSCCHHHHHHHHHHSCCCTTCC-----CTTCCCHHHHHHHHTCHHHHHHHHHTTCCSSC
T ss_pred             cccccccccccCCCCcccccccccccccccccccccccccccc-----CCCCCCHHHHHHHcCCHHHHHHHHHCcCCCCC
Confidence                      12467899999999999888755 556666554     44599999999999999999999999999999


Q ss_pred             cCCCCCCCCcchhhhhHHHHHHHHHH
Q psy1308         218 KDNSGHIPSDYAEDANIKQILQKYAE  243 (607)
Q Consensus       218 ~d~~g~Tpl~~A~~~~~~~~~~~ll~  243 (607)
                      +|.+|+||||+|+..|+.+++++|++
T Consensus       250 ~d~~G~T~L~~A~~~~~~~iv~lL~~  275 (277)
T d2fo1e1         250 VDATDHTARQLAQANNHHNIVDIFDR  275 (277)
T ss_dssp             CCSSSCCHHHHHHHTTCHHHHHHHHT
T ss_pred             cCCCCCCHHHHHHHcCCHHHHHHHHH
Confidence            99999999999999999999998864

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=99.96  E-value=2.6e-29  Score=249.53  Aligned_cols=196  Identities=20%  Similarity=0.219  Sum_probs=125.2

Q ss_pred             CchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcC
Q psy1308          30 QSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENS  109 (607)
Q Consensus        30 g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~  109 (607)
                      +.||||+||..|+.++|++|++.|..++                       ..|.+|.||||+|+..|+.++|++|++++
T Consensus        40 ~~t~l~~A~~~G~~~~v~~Ll~~Gadvn-----------------------~~d~~G~T~L~~A~~~g~~eiv~~Ll~~~   96 (291)
T d1s70b_          40 DGAVFLAACSSGDTEEVLRLLERGADIN-----------------------YANVDGLTALHQACIDDNVDMVKFLVENG   96 (291)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHCCCTT-----------------------CBCTTCCBHHHHHHHTTCHHHHHHHHHTT
T ss_pred             CchHHHHHHHcCCHHHHHHHHHCCCCCC-----------------------ccCCCCCcHHHHHHhcCCceeeeeecccc
Confidence            5699999999999999999998775443                       56777888888888888888888888877


Q ss_pred             CCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhc-CCCcc--------
Q psy1308         110 KLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKR-EDEFN--------  178 (607)
Q Consensus       110 ~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~-g~~~~--------  178 (607)
                       ++.+..+..+.||||+|+..++.++++.|+++|+..+..|.  .+|+++|+..++.++++.++.. +.++.        
T Consensus        97 -~~~~~~~~~~~~~L~~a~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~ll~~~~~~~~~~~~~~~~  175 (291)
T d1s70b_          97 -ANINQPDNEGWIPLHAAASCGYLDIAEYLISQGAHVGAVNSEGDTPLDIAEEEAMEELLQNEVNRQGVDIEAARKEEER  175 (291)
T ss_dssp             -CCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHCCSHHHHHHHHHHHHHHTCCHHHHHHHHHH
T ss_pred             -cccccccccccccccccccccccchhhcccccCcccccccccCccccccccccccchhccccccccccccccccccccc
Confidence             77777777788888888888888888888888777665432  3355555555555444444432 11110        


Q ss_pred             -------------ccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhh
Q psy1308         179 -------------DVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKY  245 (607)
Q Consensus       179 -------------~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~  245 (607)
                                   .......+..|.||||+|+..|+.+++++|+++|+|++.++.+|+||||+|+..|+.+++++|+++|
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~a~~~~~~~~~~~Ll~~g~din~~~~~g~TpL~~A~~~g~~~iv~lLl~~G  255 (291)
T d1s70b_         176 IMLRDARQWLNSGHINDVRHAKSGGTALHVAAAKGYTEVLKLLIQARYDVNIKDYDGWTPLHAAAHWGKEEACRILVENL  255 (291)
T ss_dssp             HHHHHHHHHHHHTCCCCCCCTTTCCCHHHHHHHHTCHHHHHHHHTTTCCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTT
T ss_pred             cccccchhhhcccccccccccCCCCChhhHHHHcCChhhhcccccceecccccccCCCCHHHHHHHcCCHHHHHHHHHCC
Confidence                         0001112333555555555555555555555555555555555555555555555555555555555


Q ss_pred             hhHH
Q psy1308         246 ADLQ  249 (607)
Q Consensus       246 ~~~~  249 (607)
                      +++.
T Consensus       256 adv~  259 (291)
T d1s70b_         256 CDME  259 (291)
T ss_dssp             CCTT
T ss_pred             CCCC
Confidence            5443

>d1n11a_ d.211.1.1 (A:) Ankyrin-R {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Ankyrin-R
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=9.9e-29  Score=257.32  Aligned_cols=225  Identities=21%  Similarity=0.236  Sum_probs=198.8

Q ss_pred             hHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCc----------cchh
Q psy1308          11 LVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLA----------LTLL   80 (607)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~----------~~~~   80 (607)
                      ++..++++ ....+..+..|.+|||+|+..|+.+++++|+..+......+..+.++++.+......          ....
T Consensus       147 ~v~~ll~~-~~~~~~~~~~~~~~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~t~l~~~~~~~~~~~~~~l~~~~~~~~  225 (408)
T d1n11a_         147 VAELLLER-DAHPNAAGKNGLTPLHVAVHHNNLDIVKLLLPRGGSPHSPAWNGYTPLHIAAKQNQVEVARSLLQYGGSAN  225 (408)
T ss_dssp             HHHHHHHT-TCCTTCCCSSCCCHHHHHHHTTCHHHHHHHGGGTCCSCCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTT
T ss_pred             HHHHHHHc-CCCCCcCCCcCchHHHHHHHcCCHHHHHHHHhcCCcccccCCCCCCcchhhhccchhhhhhhhhhcccccc
Confidence            44444433 344566677899999999999999999999999888888888889999887644433          2334


Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHH
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRT  158 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A  158 (607)
                      ..+..|.||||+|+..++.++++++++.+ .+.+..+..|.||||.|+..++.+++++|+++|++++..+.  .||||.+
T Consensus       226 ~~~~~~~t~l~~a~~~~~~~~~~~~~~~~-~~~~~~~~~g~~~l~~a~~~~~~~i~~~Ll~~g~~~~~~~~~~~t~L~~~  304 (408)
T d1n11a_         226 AESVQGVTPLHLAAQEGHAEMVALLLSKQ-ANGNLGNKSGLTPLHLVAQEGHVPVADVLIKHGVMVDATTRMGYTPLHVA  304 (408)
T ss_dssp             CCCTTCCCHHHHHHHTTCHHHHHHHHTTT-CCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHHTCCTTCCCSSCCCHHHHH
T ss_pred             ccCCCCCCHHHHHHHhCcHhHhhhhhccc-cccccccCCCCChhhhhhhcCcHHHHHHHHHCCCccccccccccccchhh
Confidence            56788999999999999999999999998 89999999999999999999999999999999999998654  6799999


Q ss_pred             HHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHH
Q psy1308         159 AAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQIL  238 (607)
Q Consensus       159 ~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~  238 (607)
                      +..++.++++++++.|++++..+.     +|.||||+|+.+|+.++|++|+++|||++.+|.+|+||||+|+..|+.+++
T Consensus       305 ~~~~~~~~~~~ll~~g~~in~~d~-----~G~T~Lh~A~~~g~~~iv~~Ll~~GAd~n~~d~~G~t~L~~A~~~~~~~iv  379 (408)
T d1n11a_         305 SHYGNIKLVKFLLQHQADVNAKTK-----LGYSPLHQAAQQGHTDIVTLLLKNGASPNEVSSDGTTPLAIAKRLGYISVT  379 (408)
T ss_dssp             HHSSCSHHHHHHHHTTCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHTTCCSCCCCSSSCCHHHHHHHTTCHHHH
T ss_pred             cccCcceeeeeeccccccccccCC-----CCCCHHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHcCCHHHH
Confidence            999999999999999999988754     499999999999999999999999999999999999999999999999999


Q ss_pred             HHHH
Q psy1308         239 QKYA  242 (607)
Q Consensus       239 ~~ll  242 (607)
                      ++|.
T Consensus       380 ~~L~  383 (408)
T d1n11a_         380 DVLK  383 (408)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8773

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.96  E-value=1.9e-28  Score=234.28  Aligned_cols=215  Identities=20%  Similarity=0.158  Sum_probs=176.3

Q ss_pred             hhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCC
Q psy1308           5 LVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQS   84 (607)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~   84 (607)
                      .....+.+..++.......+..+..|+||||+|+..|+.+++++|++.+......                    ...+.
T Consensus         9 ~~g~~~~v~~Ll~~~~~~~~~~d~~G~TpL~~A~~~g~~~iv~~Ll~~ga~~~~~--------------------~~~~~   68 (229)
T d1ixva_           9 MENEFFKVQELLHSKPSLLLQKDQDGRIPLHWSVSFQAHEITSFLLSKMENVNLD--------------------DYPDD   68 (229)
T ss_dssp             HHTCHHHHHHHHHHCGGGTTCCCTTSCCHHHHHHHTTCHHHHHHHHTTCTTCCGG--------------------GCCCT
T ss_pred             HcCCHHHHHHHHHcCCCcccccCCCCCCHHHHHHHcCCccccchhhhhhcccccc--------------------ccccc
Confidence            3344456666777666677777888999999999999999999998876543321                    24567


Q ss_pred             CCCHHHHHHHHcCCHHHHHHHHhcC-CCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHc
Q psy1308          85 IKDLTLFRAARYGSAKELKTFIENS-KLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAE  161 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~~v~~Ll~~~-~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~  161 (607)
                      .|.+|+|+|+..+..++++.++..+ ..+....+..+.|||+.++..++.+++++|++.|.+.+..|.  +||||+|+..
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~g~t~l~~a~~~  148 (229)
T d1ixva_          69 SGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQGVTCLHLAVGKKWFEVSQFLIENGASVRIKDKFNQIPLHRAASV  148 (229)
T ss_dssp             TSCCHHHHHHHHTCHHHHHHHHSSSSCCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccchhhhhhhhhhhcccccccCCCCCCccchhhhc
Confidence            8899999999999999999998877 124455677889999999999999999999999999887665  6799999999


Q ss_pred             CCccHHHHHHhcC-CCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHh-cCCCCCccCCCCCCCCcchhhhhHHHHHH
Q psy1308         162 KKMNPFEVLLKRE-DEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLK-SGADPTVKDNSGHIPSDYAEDANIKQILQ  239 (607)
Q Consensus       162 ~~~~~~~~Ll~~g-~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~-~gad~~~~d~~g~Tpl~~A~~~~~~~~~~  239 (607)
                      |+.+++++|++.+ .+++..     |.+|+||||+|+..|+.++|++|++ .|+|++.+|.+|+||||+|+..   ++++
T Consensus       149 ~~~~~~~~Ll~~~~~~in~~-----d~~g~TpLh~A~~~~~~~~v~~Ll~~~gad~~~~d~~g~t~l~~A~~~---~~~~  220 (229)
T d1ixva_         149 GSLKLIELLCGLGKSAVNWQ-----DKQGWTPLFHALAEGHGDAAVLLVEKYGAEYDLVDNKGAKAEDVALNE---QVKK  220 (229)
T ss_dssp             TCHHHHHHHHTTTCCCSCCC-----CTTSCCHHHHHHHTTCHHHHHHHHHHHCCCSCCCCTTSCCTGGGCSCH---HHHH
T ss_pred             cccccccccccccccccccc-----ccccCCchhhhcccccHHHHHHHHHhcCCCCCCcCCCCCCHHHHHhhH---HHHH
Confidence            9999999999987 455555     4459999999999999999999996 5999999999999999999864   6889


Q ss_pred             HHHHhhhh
Q psy1308         240 KYAEKYAD  247 (607)
Q Consensus       240 ~ll~~~~~  247 (607)
                      +|+++|+|
T Consensus       221 ~Ll~~g~d  228 (229)
T d1ixva_         221 FFLNNVVD  228 (229)
T ss_dssp             HHHHHCCC
T ss_pred             HHHHcCCC
Confidence            99988875

>d1ixva_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.96  E-value=3.9e-29  Score=239.06  Aligned_cols=202  Identities=17%  Similarity=0.194  Sum_probs=176.7

Q ss_pred             chHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCC
Q psy1308          31 SSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSK  110 (607)
Q Consensus        31 ~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~  110 (607)
                      +||||+||.+|+.++++.|+....                      ..++..|.+|.||||+|+..|+.+++++|+++| 
T Consensus         1 n~pLh~A~~~g~~~~v~~Ll~~~~----------------------~~~~~~d~~G~TpL~~A~~~g~~~iv~~Ll~~g-   57 (229)
T d1ixva_           1 NYPLHQACMENEFFKVQELLHSKP----------------------SLLLQKDQDGRIPLHWSVSFQAHEITSFLLSKM-   57 (229)
T ss_dssp             CCHHHHHHHHTCHHHHHHHHHHCG----------------------GGTTCCCTTSCCHHHHHHHTTCHHHHHHHHTTC-
T ss_pred             CHhHHHHHHcCCHHHHHHHHHcCC----------------------CcccccCCCCCCHHHHHHHcCCccccchhhhhh-
Confidence            689999999999999999876421                      123567899999999999999999999999998 


Q ss_pred             CCCcc---CCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCC--C--CCchHHHHHHcCCccHHHHHHhcCCCccccCCC
Q psy1308         111 LDVNM---RHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLG--D--LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNP  183 (607)
Q Consensus       111 ~~~~~---~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~--d--~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~  183 (607)
                      ++++.   .+..|.||+|+|+..+..++++.++..+.+.+..  +  ..+|++.++..++.+++++|+..|.+.+..   
T Consensus        58 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~~~~---  134 (229)
T d1ixva_          58 ENVNLDDYPDDSGWTPFHIACSVGNLEVVKSLYDRPLKPDLNKITNQGVTCLHLAVGKKWFEVSQFLIENGASVRIK---  134 (229)
T ss_dssp             TTCCGGGCCCTTSCCHHHHHHHHTCHHHHHHHHSSSSCCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCSCCC---
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhhhhhhhccccccc---
Confidence            88764   5678999999999999999999999998876553  2  356999999999999999999999988765   


Q ss_pred             CcCcCCcchhhHHHhcCCHHHHHHHHhcC-CCCCccCCCCCCCCcchhhhhHHHHHHHHHHh-hhhHHhhHHHhhccccc
Q psy1308         184 NMTFLGFSALHYGVVAGNTEVVELLLKSG-ADPTVKDNSGHIPSDYAEDANIKQILQKYAEK-YADLQREKEAEERRKYP  261 (607)
Q Consensus       184 ~~d~~g~TpLh~A~~~g~~~~v~~Ll~~g-ad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~-~~~~~~~~~~~~~~~~~  261 (607)
                        |..|+||||+|+..|+.+++++|++.| .+++.+|.+|+||||+|+..++.+++++|+++ |++...   .+..|.++
T Consensus       135 --~~~g~t~l~~a~~~~~~~~~~~Ll~~~~~~in~~d~~g~TpLh~A~~~~~~~~v~~Ll~~~gad~~~---~d~~g~t~  209 (229)
T d1ixva_         135 --DKFNQIPLHRAASVGSLKLIELLCGLGKSAVNWQDKQGWTPLFHALAEGHGDAAVLLVEKYGAEYDL---VDNKGAKA  209 (229)
T ss_dssp             --CTTSCCHHHHHHHHTCHHHHHHHHTTTCCCSCCCCTTSCCHHHHHHHTTCHHHHHHHHHHHCCCSCC---CCTTSCCT
T ss_pred             --CCCCCCccchhhhcccccccccccccccccccccccccCCchhhhcccccHHHHHHHHHhcCCCCCC---cCCCCCCH
Confidence              445999999999999999999999987 78999999999999999999999999999975 777663   46788899


Q ss_pred             HH
Q psy1308         262 LE  263 (607)
Q Consensus       262 L~  263 (607)
                      |+
T Consensus       210 l~  211 (229)
T d1ixva_         210 ED  211 (229)
T ss_dssp             GG
T ss_pred             HH
Confidence            93

>d1oy3d_ d.211.1.1 (D:) Transcription factor inhibitor I-kappa-B-beta, IKBB {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Transcription factor inhibitor I-kappa-B-beta, IKBB
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.96  E-value=3.6e-29  Score=243.47  Aligned_cols=192  Identities=23%  Similarity=0.246  Sum_probs=162.5

Q ss_pred             ccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCC---CccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchH
Q psy1308          81 ECQSIKDLTLFRAARYGSAKELKTFIENSKLD---VNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTV  155 (607)
Q Consensus        81 ~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~---~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l  155 (607)
                      -.+.+|+||||+||..|+.+++++|++++ ++   ++.+|..|.||||+||..|+.+++++|+++|++++.+|.  ++||
T Consensus         4 ~i~~~G~t~Lh~A~~~~~~~~v~~Ll~~~-a~~~~i~~~~~~g~TpL~~A~~~g~~~iv~~Ll~~ga~i~~~d~~g~tpL   82 (255)
T d1oy3d_           4 YVTEDGDTALHLAVIHQHEPFLDFLLGFS-AGHEYLDLQNDLGQTALHLAAILGEASTVEKLYAAGAGVLVAERGGHTAL   82 (255)
T ss_dssp             CCCTTCCCHHHHHHHTTCHHHHHHHHHHH-TTSGGGGCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCSSCCCTTSCCHH
T ss_pred             cCCcCCCCHHHHHHHcCCHHHHHHHHHcC-CCcccccCcCCCCCCccchHHhhcccccccccccccccccccccccchhh
Confidence            45789999999999999999999999987 66   778889999999999999999999999999999999765  6799


Q ss_pred             HHHHHcCCccHHHHHHhcCCCccccCC------------------------------------------CCcCcCCcchh
Q psy1308         156 HRTAAEKKMNPFEVLLKREDEFNDVLN------------------------------------------PNMTFLGFSAL  193 (607)
Q Consensus       156 ~~A~~~~~~~~~~~Ll~~g~~~~~~~~------------------------------------------~~~d~~g~TpL  193 (607)
                      |+|+..++.+++++|++.+........                                          +..|..|.|||
T Consensus        83 ~~A~~~~~~~~~~~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~in~~d~~g~TpL  162 (255)
T d1oy3d_          83 HLACRVRAHTCACVLLQPRPSHPRDASDTYLTQSQDCTPDTSHAPAAVDSQPNPENEEEPRDEDWRLQLEAENYDGHTPL  162 (255)
T ss_dssp             HHHTTTTCHHHHHHHSSSCCSSCCCC-----------------------------------CCCGGGGTTCCCTTSCCHH
T ss_pred             hhhhccCchHHHHHHHhhccchhcccchhhhhHHhhhcccchHHHHHHHhhcchhHHHHHHhhhcCcccccccccCcccc
Confidence            999999999999999876543221000                                          33577899999


Q ss_pred             hHHHhcCCHHHHHHHHhcCCCCCcc-CCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhh
Q psy1308         194 HYGVVAGNTEVVELLLKSGADPTVK-DNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVG  272 (607)
Q Consensus       194 h~A~~~g~~~~v~~Ll~~gad~~~~-d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~G  272 (607)
                      |+||..|+.+++++|+++|++++.. +..|.||||+|+..++.+++++|+++|+++.   ..+..+.+||+.++..   +
T Consensus       163 h~A~~~~~~~~v~~Ll~~~~~~~~~~~~~g~TpL~~A~~~~~~~~v~~Ll~~gadin---~~d~~g~t~L~~A~~~---~  236 (255)
T d1oy3d_         163 HVAVIHKDAEMVRLLRDAGADLNKPEPTCGRTPLHLAVEAQAASVLELLLKAGADPT---ARMYGGRTPLGSALLR---P  236 (255)
T ss_dssp             HHHHHTTCHHHHHHHHHHTCCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTT---CCCTTSCCHHHHHHTS---S
T ss_pred             cccccccccccccchhcccccccccccccccccccccccccHHHHHHHHHHCCCCCC---CCCCCCCCHHHHHHHC---C
Confidence            9999999999999999999998865 6789999999999999999999999998876   3467789999665433   3


Q ss_pred             hHHHHHH
Q psy1308         273 QESAINI  279 (607)
Q Consensus       273 q~~ai~~  279 (607)
                      ....++.
T Consensus       237 ~~~i~~~  243 (255)
T d1oy3d_         237 NPILARL  243 (255)
T ss_dssp             CHHHHHH
T ss_pred             CHHHHHH
Confidence            4444443

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.9e-27  Score=234.96  Aligned_cols=240  Identities=21%  Similarity=0.185  Sum_probs=194.7

Q ss_pred             hhhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccC--------
Q psy1308           4 ILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSL--------   75 (607)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~--------   75 (607)
                      +.....+++..++++........+..|.||||+|+..|+.+++++|+..+............+...+...+.        
T Consensus        13 i~~~~~e~vk~Ll~~G~din~~~~~~g~tpL~~A~~~~~~eiv~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (285)
T d1wdya_          13 VQNEDVDLVQQLLEGGANVNFQEEEGGWTPLHNAVQMSREDIVELLLRHGADPVLRKKNGATPFLLAAIAGSVKLLKLFL   92 (285)
T ss_dssp             HHTTCHHHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHHTCHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHCCCCcCccCCCCCCCHHHHHHHcCCHHHhhhhccccccccccccccchhhHHHhhcCCccccchhh
Confidence            344555677777776544323345579999999999999999999999988777777777777776643322        


Q ss_pred             --ccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccC----------CCCCCcHHHHHHHcCCHHHHHHHHHc-
Q psy1308          76 --ALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMR----------HPLGWTPLHVAAINGKVDNVRVLLEA-  142 (607)
Q Consensus        76 --~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~----------d~~g~tpLh~A~~~g~~~~v~~Ll~~-  142 (607)
                        .......+..+.|+++.|+..|+...+..++... .+++..          +..|.||||+|+..|+.+++++|+++ 
T Consensus        93 ~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~~  171 (285)
T d1wdya_          93 SKGADVNECDFYGFTAFMEAAVYGKVKALKFLYKRG-ANVNLRRKTKEDQERLRKGGATALMDAAEKGHVEVLKILLDEM  171 (285)
T ss_dssp             HTTCCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTT-CCTTCCCCCCHHHHHTTCCCCCHHHHHHHHTCHHHHHHHHHTS
T ss_pred             hhcccccccccCCCchhHHHHHhcchhhhhhhhhhc-ccccccccchhhhhhhcccCchHHHHHHHcCCHHHHHHHHhcc
Confidence              2223456788999999999999999999999876 565543          34699999999999999999999975 


Q ss_pred             CCCCCCCCCC--chHHHHHHcC----CccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHh-cCCCC
Q psy1308         143 GANPNLGDLF--NTVHRTAAEK----KMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLK-SGADP  215 (607)
Q Consensus       143 ga~~~~~d~~--~~l~~A~~~~----~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~-~gad~  215 (607)
                      |++++..+..  ++++.+...+    ..+++++|+++|++++..+.     .|.||||+|+..|+.++|++|++ .|+|+
T Consensus       172 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~i~~~Li~~ga~~n~~~~-----~g~t~L~~a~~~~~~~~v~~lL~~~g~di  246 (285)
T d1wdya_         172 GADVNACDNMGRNALIHALLSSDDSDVEAITHLLLDHGADVNVRGE-----RGKTPLILAVEKKHLGLVQRLLEQEHIEI  246 (285)
T ss_dssp             CCCTTCCCTTSCCHHHHHHHCSCTTTHHHHHHHHHHTTCCSSCCCT-----TSCCHHHHHHHTTCHHHHHHHHHSSSCCT
T ss_pred             CCCcccccCCCCcccccccccccchHHHHHHHHHHHCCCCCCccCC-----CCCCccchhhhcCcHHHHHHHHHcCCCCC
Confidence            8999988764  3555554433    34689999999999987644     49999999999999999999998 59999


Q ss_pred             CccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHH
Q psy1308         216 TVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQ  249 (607)
Q Consensus       216 ~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~  249 (607)
                      +.+|.+|.||||+|+..++.+++++|+++|++++
T Consensus       247 n~~d~~G~TpL~~A~~~~~~eiv~~Ll~~GAd~n  280 (285)
T d1wdya_         247 NDTDSDGKTALLLAVELKLKKIAELLCKRGASTD  280 (285)
T ss_dssp             TCCCTTSCCHHHHHHHTTCHHHHHHHHHHSSCSC
T ss_pred             cCCCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCC
Confidence            9999999999999999999999999999999865

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=6.2e-28  Score=228.36  Aligned_cols=186  Identities=18%  Similarity=0.160  Sum_probs=158.0

Q ss_pred             CCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhc
Q psy1308          29 FQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIEN  108 (607)
Q Consensus        29 ~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~  108 (607)
                      .|+||||+||.+|+.+++++|+...                   ...+..++..|..|+||||+||..|+.+++++|+++
T Consensus         2 dG~TpLh~A~~~g~~~~v~~Ll~~~-------------------~~~g~~in~~d~~g~TpL~~A~~~~~~~iv~~Ll~~   62 (228)
T d1k1aa_           2 DGDTPLHIAVVQGNLPAVHRLVNLF-------------------QQGGRELDIYNNLRQTPLHLAVITTLPSVVRLLVTA   62 (228)
T ss_dssp             TTCCHHHHHHHTTCHHHHHHHHHHH-------------------HHTTCCSCCCCTTSCCHHHHHHHTTCHHHHHHHHHT
T ss_pred             CCccHHHHHHHcCCHHHHHHHHHHH-------------------HHCCCCCCccCCCCCccceehhcccccccccccccc
Confidence            4899999999999999999997421                   122334457788999999999999999999999999


Q ss_pred             CCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCC----------------------------------------
Q psy1308         109 SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL----------------------------------------  148 (607)
Q Consensus       109 ~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~----------------------------------------  148 (607)
                      + ++.+..+..|.++++.|...++.++++.+.........                                        
T Consensus        63 g-a~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~  141 (228)
T d1k1aa_          63 G-ASPMALDRHGQTAAHLACEHRSPTCLRALLDSAAPGTLDLEARNYDGLTALHVAVNTECQETVQLLLERGADIDAVDI  141 (228)
T ss_dssp             T-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHSCTTSCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCT
T ss_pred             c-ccccccccccccccccccccccccchhhhhhccccccccccccccccccccccccccccchhhhhhhccccccccccc
Confidence            8 99999999999999999999999888887764322110                                        


Q ss_pred             CCCCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcc
Q psy1308         149 GDLFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDY  228 (607)
Q Consensus       149 ~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~  228 (607)
                      ..+.+|++.|+..+...+++.++++|.+.+..+.     .|.||||+|+..|+.+++++|+++|+|++.+|.+|+||||+
T Consensus       142 ~~~~~~l~~a~~~~~~~~~~~~~~~~~~~~~~d~-----~g~t~L~~A~~~g~~~~v~~Ll~~Gad~n~~d~~G~TpL~~  216 (228)
T d1k1aa_         142 KSGRSPLIHAVENNSLSMVQLLLQHGANVNAQMY-----SGSSALHSASGRGLLPLVRTLVRSGADSSLKNCHNDTPLMV  216 (228)
T ss_dssp             TTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCBCT-----TSCBHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCTTTT
T ss_pred             cchhhHHHHHHHhhhhhhhhhhhhhccccccccc-----cCcchHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCCHHHH
Confidence            0134589999999999999999999988876644     49999999999999999999999999999999999999999


Q ss_pred             hhhhhHHHHHH
Q psy1308         229 AEDANIKQILQ  239 (607)
Q Consensus       229 A~~~~~~~~~~  239 (607)
                      |+.+|+.++|+
T Consensus       217 A~~~~~~divk  227 (228)
T d1k1aa_         217 ARSRRVIDILR  227 (228)
T ss_dssp             CSSHHHHHHHT
T ss_pred             HHhCCCccccC
Confidence            99999999875

>d1s70b_ d.211.1.1 (B:) Myosin phosphatase targeting subunit 1, MYPT1 {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myosin phosphatase targeting subunit 1, MYPT1
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=99.94  E-value=2e-27  Score=235.74  Aligned_cols=206  Identities=21%  Similarity=0.231  Sum_probs=170.5

Q ss_pred             CCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHH
Q psy1308          83 QSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAA  160 (607)
Q Consensus        83 ~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~  160 (607)
                      +..+.|+||.||..|+.++|++||++| +|+|.+|.+|+||||+|+..|+.++|++|+++|++++..+.  .+||++++.
T Consensus        37 ~~~~~t~l~~A~~~G~~~~v~~Ll~~G-advn~~d~~G~T~L~~A~~~g~~eiv~~Ll~~~~~~~~~~~~~~~~L~~a~~  115 (291)
T d1s70b_          37 KFDDGAVFLAACSSGDTEEVLRLLERG-ADINYANVDGLTALHQACIDDNVDMVKFLVENGANINQPDNEGWIPLHAAAS  115 (291)
T ss_dssp             EECHHHHHHHHHHHTCHHHHHHHHHHC-CCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHH
T ss_pred             CCCCchHHHHHHHcCCHHHHHHHHHCC-CCCCccCCCCCcHHHHHHhcCCceeeeeeccccccccccccccccccccccc
Confidence            345779999999999999999999999 99999999999999999999999999999999999887655  569999999


Q ss_pred             cCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhc-C--------------------------C
Q psy1308         161 EKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKS-G--------------------------A  213 (607)
Q Consensus       161 ~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~-g--------------------------a  213 (607)
                      .++.++++.|+++|+..+..+.     .|.||+++|+..++.+++..++.. |                          .
T Consensus       116 ~~~~~~~~~l~~~~~~~~~~~~-----~~~~~~~~a~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (291)
T d1s70b_         116 CGYLDIAEYLISQGAHVGAVNS-----EGDTPLDIAEEEAMEELLQNEVNRQGVDIEAARKEEERIMLRDARQWLNSGHI  190 (291)
T ss_dssp             HTCHHHHHHHHHTTCCTTCCCT-----TSCCHHHHCCSHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHHTCC
T ss_pred             ccccchhhcccccCcccccccc-----cCccccccccccccchhccccccccccccccccccccccccccchhhhccccc
Confidence            9999999999999998776644     499999999999999998888853 2                          2


Q ss_pred             CCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHHHHHHHHhhCCCCC
Q psy1308         214 DPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINIISAAIKRKENGWTD  293 (607)
Q Consensus       214 d~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l~~~i~~~~~~~~~  293 (607)
                      +....+..|.||||+|+..|+.++++.|+..|+++.   ..+..+.+||+.+..   .|+.+.++.+.+.-.........
T Consensus       191 ~~~~~~~~g~t~L~~a~~~~~~~~~~~Ll~~g~din---~~~~~g~TpL~~A~~---~g~~~iv~lLl~~Gadv~~~d~~  264 (291)
T d1s70b_         191 NDVRHAKSGGTALHVAAAKGYTEVLKLLIQARYDVN---IKDYDGWTPLHAAAH---WGKEEACRILVENLCDMEAVNKV  264 (291)
T ss_dssp             CCCCCTTTCCCHHHHHHHHTCHHHHHHHHTTTCCTT---CCCTTCCCHHHHHHH---TTCHHHHHHHHHTTCCTTCCCTT
T ss_pred             ccccccCCCCChhhHHHHcCChhhhcccccceeccc---ccccCCCCHHHHHHH---cCCHHHHHHHHHCCCCCCCcCCC
Confidence            345677889999999999999999999999998865   346678899977654   46777777776543333332233


Q ss_pred             CCCCcee
Q psy1308         294 DDHPLVF  300 (607)
Q Consensus       294 ~~~p~~~  300 (607)
                      ..+|+.+
T Consensus       265 G~TaL~~  271 (291)
T d1s70b_         265 GQTAFDV  271 (291)
T ss_dssp             SCCTTTS
T ss_pred             CCCHHHH
Confidence            3456644

>d1bd8a_ d.211.1.1 (A:) Cell cycle inhibitor p19ink4D {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p19ink4D
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=2.2e-27  Score=212.70  Aligned_cols=151  Identities=24%  Similarity=0.335  Sum_probs=139.6

Q ss_pred             CHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCc
Q psy1308          87 DLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKM  164 (607)
Q Consensus        87 ~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~  164 (607)
                      .++||.||..|+.++|++||+.+++++|.+|..|+||||+|+. |+.+++++|++++++++..+.  .+|++.++..++.
T Consensus         3 g~~L~~Aa~~g~~~~vk~lL~~~~~~~n~~d~~g~t~L~~A~~-~~~~~v~~Ll~~~~~~~~~~~~~~~~l~~~~~~~~~   81 (156)
T d1bd8a_           3 GDRLSGAAARGDVQEVRRLLHRELVHPDALNRFGKTALQVMMF-GSTAIALELLKQGASPNVQDTSGTSPVHDAARTGFL   81 (156)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHTTCCCTTCCCTTSCCHHHHSCT-TCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCH
T ss_pred             cHHHHHHHHcCCHHHHHHHHHhCCCCCCccCCCCCcccccccc-cccccccccccccccccccccccccccccccccccc
Confidence            3569999999999999999998779999999999999999874 899999999999999998765  5599999999999


Q ss_pred             cHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHh
Q psy1308         165 NPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEK  244 (607)
Q Consensus       165 ~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~  244 (607)
                      +++++++++|++++..+.     .|+||||+||..|+.+++++|+ .|++++.+|.+|+||||+|+..|+.+++++|+++
T Consensus        82 ~~~~~~l~~~~~~n~~~~-----~~~t~L~~A~~~~~~~i~~~L~-~~~~~~~~d~~G~TpL~~A~~~g~~~iv~~Ll~h  155 (156)
T d1bd8a_          82 DTLKVLVEHGADVNVPDG-----TGALPIHLAVQEGHTAVVSFLA-AESDLHRRDARGLTPLELALQRGAQDLVDILQGH  155 (156)
T ss_dssp             HHHHHHHHTTCCSCCCCT-----TSCCHHHHHHHHTCHHHHHHHH-TTSCTTCCCTTSCCHHHHHHHSCCHHHHHHHHTT
T ss_pred             cccccccccccccccccC-----CCCeeecccccccccccccccc-ccccccccCCCCCCHHHHHHHcCCHHHHHHHHhh
Confidence            999999999999887644     4999999999999999999887 7899999999999999999999999999999864

>d1ihba_ d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: p18ink4C(ink6)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=3e-27  Score=211.62  Aligned_cols=151  Identities=27%  Similarity=0.366  Sum_probs=141.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCcc
Q psy1308          88 LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMN  165 (607)
Q Consensus        88 t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~  165 (607)
                      +|||+||..|+.++|++|+++| +|+|.+|.+|+||||+|+ .|+.+++++|+++|++++..+.  .+|++.++..++.+
T Consensus         3 ~~Lh~Aa~~g~~~~v~~Ll~~g-~d~n~~d~~g~TpL~~A~-~~~~ei~~~Ll~~~a~~~~~~~~~~~~l~~~~~~~~~~   80 (156)
T d1ihba_           3 NELASAAARGDLEQLTSLLQNN-VNVNAQNGFGRTALQVMK-LGNPEIARRLLLRGANPDLKDRTGFAVIHDAARAGFLD   80 (156)
T ss_dssp             HHHHHHHHHTCHHHHHHHTTSC-CCTTCCCTTSCCHHHHCC-SSCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHHTCHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHCC-CCcCccCCcccccccccc-cccccccccccccccccccccccCcccccccccccccc
Confidence            8999999999999999999998 999999999999999886 7999999999999999998775  56999999999999


Q ss_pred             HHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCC-CCCccCCCCCCCCcchhhhhHHHHHHHHHHh
Q psy1308         166 PFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGA-DPTVKDNSGHIPSDYAEDANIKQILQKYAEK  244 (607)
Q Consensus       166 ~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~ga-d~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~  244 (607)
                      +++.|+..+.+++..+     ..|.+|||+|+..++.+++++|+++|+ +++.+|..|+||||+|+..++.+++++|+++
T Consensus        81 ~~~~l~~~~~~~~~~~-----~~~~~~l~~a~~~~~~~~~~~Ll~~~~~~~~~~d~~g~TpL~~A~~~~~~~iv~~Ll~~  155 (156)
T d1ihba_          81 TLQTLLEFQADVNIED-----NEGNLPLHLAAKEGHLRVVEFLVKHTASNVGHRNHKGDTACDLARLYGRNEVVSLMQAN  155 (156)
T ss_dssp             HHHHHHHTTCCTTCCC-----TTSCCHHHHHHHTTCHHHHHHHHHHSCCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHT
T ss_pred             cccccccccccccccc-----cccccccccccccccccccccccccccccccccCCCCCCHHHHHHHcCCHHHHHHHHhc
Confidence            9999999999887664     449999999999999999999999885 8999999999999999999999999999987


Q ss_pred             h
Q psy1308         245 Y  245 (607)
Q Consensus       245 ~  245 (607)
                      |
T Consensus       156 G  156 (156)
T d1ihba_         156 G  156 (156)
T ss_dssp             C
T ss_pred             C
Confidence            5

>d2fo1e1 d.211.1.1 (E:1021-1297) Lin-12 {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Lin-12
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.94  E-value=2.6e-28  Score=240.11  Aligned_cols=190  Identities=19%  Similarity=0.301  Sum_probs=157.7

Q ss_pred             CCCCHHHHHHHHcCCHHHHHHH--------HhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--Cc
Q psy1308          84 SIKDLTLFRAARYGSAKELKTF--------IENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FN  153 (607)
Q Consensus        84 ~~g~t~Lh~A~~~g~~~~v~~L--------l~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~  153 (607)
                      .+|+||||+||..|+.++|++|        ++.| +|+|.+|.+|+||||+|+..|+.++|++|+++|++++.+|.  .|
T Consensus        31 ~~g~T~Lh~A~~~g~~~~v~~Ll~~~~~~~l~~G-advn~~d~~G~TpLh~A~~~g~~~iv~~Ll~~Gad~n~~~~~g~t  109 (277)
T d2fo1e1          31 RHNRTVLHWIASNSSAEKSEDLIVHEAKECIAAG-ADVNAMDCDENTPLMLAVLARRRRLVAYLMKAGADPTIYNKSERS  109 (277)
T ss_dssp             SSCCCHHHHHHCTTCCSCCTTHHHHHHHHHHHTC-CCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCSCCCCTTCCC
T ss_pred             CCCccHHHHHHHcCCHHHHHHHHhcchhHHHHcC-CCccccCCCCCeeeccccccccccccccccccccccccccccccc
Confidence            4699999999999999988777        4556 99999999999999999999999999999999999998765  67


Q ss_pred             hHHHHHHcCCccHHHHHHhcCC---CccccCC---------------------------------------CCcCcCCcc
Q psy1308         154 TVHRTAAEKKMNPFEVLLKRED---EFNDVLN---------------------------------------PNMTFLGFS  191 (607)
Q Consensus       154 ~l~~A~~~~~~~~~~~Ll~~g~---~~~~~~~---------------------------------------~~~d~~g~T  191 (607)
                      |+++|+..++.+++.++...+.   .++..+.                                       ...+..|+|
T Consensus       110 ~l~~a~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~t  189 (277)
T d2fo1e1         110 ALHQAAANRDFGMMVYMLNSTKLKGDIEELDRNGMTALMIVAHNEGRDQVASAKLLVEKGAKVDYDGAARKDSEKYKGRT  189 (277)
T ss_dssp             HHHHHHHTTCHHHHHHHTTSHHHHHTTSCCCTTSCCHHHHHHHSCSTTHHHHHHHHHHHTCCSSCCSGGGTSSSSCCCCC
T ss_pred             cccchhhhcchhhhhhhhhcccccccccccccccchhHHHHHhcccccccccccccccccccccccccccccccccCCCC
Confidence            9999999999988888876431   1111111                                       234567999


Q ss_pred             hhhHHHhcCCHHHHHHHH-hcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHh
Q psy1308         192 ALHYGVVAGNTEVVELLL-KSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRI  270 (607)
Q Consensus       192 pLh~A~~~g~~~~v~~Ll-~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i  270 (607)
                      |||+++..++.+++++++ ..|.+.+.+|..|+||||+|+..|+.+++++|++.|+++.   ..+..|.++|+.+...  
T Consensus       190 ~L~~~~~~~~~~~~~~~l~~~~~~~~~~d~~g~tpL~~A~~~g~~~iv~~Ll~~gadin---~~d~~G~T~L~~A~~~--  264 (277)
T d2fo1e1         190 ALHYAAQVSNMPIVKYLVGEKGSNKDKQDEDGKTPIMLAAQEGRIEVVMYLIQQGASVE---AVDATDHTARQLAQAN--  264 (277)
T ss_dssp             THHHHHSSCCHHHHHHHHHHSCCCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCSS---CCCSSSCCHHHHHHHT--
T ss_pred             ccccccccccccccccccccccccccccCCCCCCHHHHHHHcCCHHHHHHHHHCcCCCC---CcCCCCCCHHHHHHHc--
Confidence            999999999999999766 5789999999999999999999999999999999999875   4477889999766543  


Q ss_pred             hhhHHHHHHH
Q psy1308         271 VGQESAINII  280 (607)
Q Consensus       271 ~Gq~~ai~~l  280 (607)
                       |..+.++.+
T Consensus       265 -~~~~iv~lL  273 (277)
T d2fo1e1         265 -NHHNIVDIF  273 (277)
T ss_dssp             -TCHHHHHHH
T ss_pred             -CCHHHHHHH
Confidence             344555543

>d1ot8a_ d.211.1.1 (A:) Neurogenic locus notch receptor domain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Neurogenic locus notch receptor domain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.94  E-value=6.8e-27  Score=220.00  Aligned_cols=204  Identities=19%  Similarity=0.163  Sum_probs=177.0

Q ss_pred             hhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHH
Q psy1308          10 QLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLT   89 (607)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~   89 (607)
                      +++..|+++..+.....+..|+||||+||+.|+.+++++|+..+..+.                       ..+..+.++
T Consensus         3 ~~v~~Ll~~g~din~~~d~~G~t~L~~A~~~g~~e~v~~Ll~~g~~~n-----------------------~~~~~~~~~   59 (209)
T d1ot8a_           3 QVISDLLAQGAELNATMDKTGETSLHLAARFARADAAKRLLDAGADAN-----------------------SQDNTGRTP   59 (209)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHTTCHHHHHHHHHTTCCTT-----------------------CCCTTSCCH
T ss_pred             HHHHHHHHCCCCcCcCcCCCCCCHHHHHHHcCCHHHHHHHHhhccccc-----------------------ccccccccc
Confidence            566777776665323357889999999999999999999998765543                       567788999


Q ss_pred             HHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHH
Q psy1308          90 LFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPF  167 (607)
Q Consensus        90 Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~  167 (607)
                      ++.++..++.....................|.++.+.+.........+.|.+.+++++..+.  +|||++++..+..+++
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~~~~t~l~~~~~~~~~~~~  139 (209)
T d1ot8a_          60 LHAAVAADAMGVFQILLRNRATNLNARMHDGTTPLILAARLAIEGMVEDLITADADINAADNSGKTALHWAAAVNNTEAV  139 (209)
T ss_dssp             HHHHHHTTCHHHHHHHHTCTTCCTTCCCTTCCCHHHHHHHTTCTTHHHHHHHTTCCTTCBCTTSCBHHHHHHHTTCHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccchhhhhhhhhhcccccccCCCCCCcchhhcccCcceee
Confidence            99999999998888888776455566677799999999999999999999999999988654  6799999999999999


Q ss_pred             HHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHH
Q psy1308         168 EVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKY  241 (607)
Q Consensus       168 ~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~l  241 (607)
                      +.+++++.+++..+.     .|.||||+||..|+.++|++|+++|+|++.+|..|+||||+|+.+|+.++|++|
T Consensus       140 ~~l~~~~~~~~~~d~-----~g~TpL~~A~~~g~~~~v~~Ll~~gad~n~~d~~g~Tpl~~A~~~~~~~iv~lL  208 (209)
T d1ot8a_         140 NILLMHHANRDAQDD-----KDETPLFLAAREGSYEASKALLDNFANREITDHMDRLPRDVASERLHHDIVRLL  208 (209)
T ss_dssp             HHHHHTTCCTTCCCT-----TCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHH
T ss_pred             eeecccccccccccc-----ccccccchhccccHHHHHHHHHHCCCCCCCcCCCCCCHHHHHHHcCCHHHHhhc
Confidence            999999999887654     499999999999999999999999999999999999999999999999999875

>d1awcb_ d.211.1.1 (B:) GA bindinig protein (GABP) beta 1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: GA bindinig protein (GABP) beta 1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.94  E-value=1.1e-26  Score=207.29  Aligned_cols=149  Identities=31%  Similarity=0.399  Sum_probs=136.8

Q ss_pred             CCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCC
Q psy1308          86 KDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKK  163 (607)
Q Consensus        86 g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~  163 (607)
                      ..||||.||+.|+.++|++||++| ++++ .|..|+||||+|+..++.++++.++......+..+.  .++++.++...+
T Consensus         2 ~~t~L~~Aa~~g~~~~v~~LL~~g-a~~~-~~~~g~t~L~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (153)
T d1awcb_           2 LGKKLLEAARAGQDDEVRILMANG-APFT-TDWLGTSPLHLAAQYGHFSTTEVLLRAGVSRDARTKVDRTPLHMAASEGH   79 (153)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHT-CCCC-CCTTCCCHHHHHHHHTCHHHHHHHHTTTCCTTCCCTTCCCHHHHHHHHTC
T ss_pred             CCHHHHHHHHCCCHHHHHHHHHcC-CCcc-cccCCCcccccccccccccccccccccccccccccccccccccccccccc
Confidence            359999999999999999999999 8887 699999999999999999999999988776665443  569999999999


Q ss_pred             ccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHH
Q psy1308         164 MNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKY  241 (607)
Q Consensus       164 ~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~l  241 (607)
                      .+++++++.++++.+..+     ..|+||||+|+..|+.+++++|+++|+|++.+|.+|+||||+|+.+|+.+++++|
T Consensus        80 ~~~~~~l~~~~~~~~~~~-----~~g~T~L~~A~~~g~~~iv~~ll~~gad~~~~d~~g~Tpl~~A~~~g~~eiv~lL  152 (153)
T d1awcb_          80 ANIVEVLLKHGADVNAKD-----MLKMTALHWATEHNHQEVVELLIKYGADVHTQSKFCKTAFDISIDNGNEDLAEIL  152 (153)
T ss_dssp             HHHHHHHHTTTCCTTCCC-----TTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHH
T ss_pred             ceeeecccccCCcccccc-----ccCchHHHhhhhcchhheeeeccccccCCcccCCCCCCHHHHHHHcCCHHHHHhC
Confidence            999999999999887764     4499999999999999999999999999999999999999999999999999876

>d1ihba_ d.211.1.1 (A:) p18ink4C(ink6) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: p18ink4C(ink6)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=1.2e-25  Score=201.13  Aligned_cols=153  Identities=20%  Similarity=0.232  Sum_probs=138.6

Q ss_pred             CCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhc
Q psy1308          29 FQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIEN  108 (607)
Q Consensus        29 ~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~  108 (607)
                      || +|||+||..|+.+++++|++.+..+.                       ..|..|.||||+|+ .|+.+++++|+++
T Consensus         1 ~~-~~Lh~Aa~~g~~~~v~~Ll~~g~d~n-----------------------~~d~~g~TpL~~A~-~~~~ei~~~Ll~~   55 (156)
T d1ihba_           1 WG-NELASAAARGDLEQLTSLLQNNVNVN-----------------------AQNGFGRTALQVMK-LGNPEIARRLLLR   55 (156)
T ss_dssp             CH-HHHHHHHHHTCHHHHHHHTTSCCCTT-----------------------CCCTTSCCHHHHCC-SSCHHHHHHHHHT
T ss_pred             Ch-HHHHHHHHcCCHHHHHHHHHCCCCcC-----------------------ccCCcccccccccc-ccccccccccccc
Confidence            46 89999999999999999998865543                       56789999999886 7999999999999


Q ss_pred             CCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCC-CccccCCCCc
Q psy1308         109 SKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKRED-EFNDVLNPNM  185 (607)
Q Consensus       109 ~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~-~~~~~~~~~~  185 (607)
                      + ++++.++..|.+||+.++..++.+++++|++++.+++..+.  .+|+|+|+..++.+++++|+++++ +.+..     
T Consensus        56 ~-a~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~Ll~~~~~~~~~~-----  129 (156)
T d1ihba_          56 G-ANPDLKDRTGFAVIHDAARAGFLDTLQTLLEFQADVNIEDNEGNLPLHLAAKEGHLRVVEFLVKHTASNVGHR-----  129 (156)
T ss_dssp             T-CCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHSCCCTTCC-----
T ss_pred             c-cccccccccCccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-----
Confidence            9 99999999999999999999999999999999999998766  459999999999999999999987 55554     


Q ss_pred             CcCCcchhhHHHhcCCHHHHHHHHhcC
Q psy1308         186 TFLGFSALHYGVVAGNTEVVELLLKSG  212 (607)
Q Consensus       186 d~~g~TpLh~A~~~g~~~~v~~Ll~~g  212 (607)
                      |.+|+||||+|+..|+.+++++|+++|
T Consensus       130 d~~g~TpL~~A~~~~~~~iv~~Ll~~G  156 (156)
T d1ihba_         130 NHKGDTACDLARLYGRNEVVSLMQANG  156 (156)
T ss_dssp             CTTSCCHHHHHHHTTCHHHHHHHHHTC
T ss_pred             CCCCCCHHHHHHHcCCHHHHHHHHhcC
Confidence            445999999999999999999999987

>d2ajaa1 a.118.24.1 (A:3-348) Hypothetical protein LPG2416 {Legionella pneumophila [TaxId: 446]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Pseudo ankyrin repeat-like
family: Pseudo ankyrin repeat
domain: Hypothetical protein LPG2416
species: Legionella pneumophila [TaxId: 446]

Probab=99.93  E-value=1.3e-28  Score=250.44  Aligned_cols=200  Identities=13%  Similarity=-0.003  Sum_probs=157.9

Q ss_pred             CCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHH
Q psy1308          26 KRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTF  105 (607)
Q Consensus        26 ~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~L  105 (607)
                      ++..|.||||+||++|+.++++++...                    ...+..++..|..|+||||+||++|+.++|++|
T Consensus        86 ~~~~~~t~L~~Aa~~g~~~~~~~~~~L--------------------~~~~~~in~~~~~g~taL~~Aa~~G~~~~v~~L  145 (346)
T d2ajaa1          86 KGIKSEVICFVAAITGCSSALDTLCLL--------------------LTSDEIVKVIQAENYQAFRLAAENGHLHVLNRL  145 (346)
T ss_dssp             HTCCHHHHHHHHHHHCCHHHHHHHTTC----------------------CCSSCC--CHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccCCCCcHHHHHHHhCCHHHHHHHHHH--------------------HhCCCcccccCCCCCCHHHHHHHCCCHHHHHHH
Confidence            466799999999999999998875321                    112233456788999999999999999999999


Q ss_pred             HhcCCCCCccCC--CCCCcHHHHHHHcCCHHHHHHHHHcCCCCCC-----CCCCchHHHHHHcCCccHHHHHHhcCCCcc
Q psy1308         106 IENSKLDVNMRH--PLGWTPLHVAAINGKVDNVRVLLEAGANPNL-----GDLFNTVHRTAAEKKMNPFEVLLKREDEFN  178 (607)
Q Consensus       106 l~~~~~~~~~~d--~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~-----~d~~~~l~~A~~~~~~~~~~~Ll~~g~~~~  178 (607)
                      ++.| ++++..+  .+|+||||+||..||.++|++|++.|+++..     .++.+|+|.|+.+|+.+++++|+++|++++
T Consensus       146 l~~g-~~~~~~~~~~~g~t~L~~Aa~~g~~~iv~~Ll~~~~~~~~~~~~~~~~~t~l~~A~~~g~~~iv~~Ll~~ga~~~  224 (346)
T d2ajaa1         146 CELA-PTEIMAMIQAENYHAFRLAAENGHLHVLNRLCELAPTEATAMIQAENYYAFRWAAVGRGHHNVINFLLDCPVMLA  224 (346)
T ss_dssp             HHSC-TTTHHHHHSHHHHHHHHHHHHTTCHHHHHHHHHSCGGGHHHHHHHHHHHHHHHHHSTTCCHHHHHHHTTSHHHHH
T ss_pred             HHcC-CCccccccccCCCChhHHHHHHhhHHHHHHHHHcCCcccccccccCCCcchhhHHhhcCHHHHHHHHHhCCCCcc
Confidence            9998 8998875  4699999999999999999999999987643     223457778889999999999999887654


Q ss_pred             ccCC------------------------------CC--------------cCcCCcchhhHHHhcCCHHHHHHHHhcCCC
Q psy1308         179 DVLN------------------------------PN--------------MTFLGFSALHYGVVAGNTEVVELLLKSGAD  214 (607)
Q Consensus       179 ~~~~------------------------------~~--------------~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad  214 (607)
                      ..+.                              ..              ....+.|+|+.|+..|+.+++++|++.++.
T Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~ld~v~~Ll~~~~~  304 (346)
T d2ajaa1         225 YAEIHEFEYGEKYVNPFIARHVNRLKEMHDAFKLSNPDGVFDLVTKSECLQGFYMLRNLIRRNDEVLLDDIRFLLSIPGI  304 (346)
T ss_dssp             HHHHCTTTTTTTTHHHHHHHHHHHHHHHHTTTTTTSSSSCCCCSSHHHHHHHHHHHHHHHHHCCGGGHHHHHHHHTSTTT
T ss_pred             hHHHHHHHcCcHhhhHHHHHhhccchHHHHHHHHhcccccHhHHhcccccccchhhhHHHHHhcCChHHHHHHHHhCcCh
Confidence            3210                              00              001235788899999999999999988753


Q ss_pred             -----CCccCCCCCCCCcchhhhhHHHHHHHHHHhhh
Q psy1308         215 -----PTVKDNSGHIPSDYAEDANIKQILQKYAEKYA  246 (607)
Q Consensus       215 -----~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~  246 (607)
                           .+..+.+|+||||+|++.|+.+++++|++.+.
T Consensus       305 ~~~~~~~~~~~~g~T~LhlA~~~Gn~e~v~lLL~~p~  341 (346)
T d2ajaa1         305 KALAPTATIPGDANELLRLALRLGNQGACALLLSIPS  341 (346)
T ss_dssp             GGGSSCCSSTTCCCHHHHHHHHHTCTTHHHHHTTSHH
T ss_pred             hhhcccccCCCCCCcHHHHHHHcCcHHHHHHHhCCCC
Confidence                 44556789999999999999999999998754

>d1iknd_ d.211.1.1 (D:) I-kappa-B-alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: I-kappa-B-alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=3.6e-26  Score=217.22  Aligned_cols=174  Identities=22%  Similarity=0.261  Sum_probs=148.8

Q ss_pred             CCCHHHHHHHHcCCHHH----HHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHH
Q psy1308          85 IKDLTLFRAARYGSAKE----LKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRT  158 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~~----v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A  158 (607)
                      +|+||||+|+..|+.++    ++++...+ +++|.+|.+|+||||+||..|+.+++++|+++|++++..|.  ++|||++
T Consensus         1 dG~t~Lh~A~~~g~~~~~~~li~~~~~~~-~~in~~d~~g~TpLh~A~~~~~~~iv~~L~~~g~d~~~~d~~g~t~l~~~   79 (221)
T d1iknd_           1 DGDSFLHLAIIHEEKALTMEVIRQVKGDL-AFLNFQNNLQQTPLHLAVITNQPEIAEALLGAGCDPELRDFRGNTPLHLA   79 (221)
T ss_dssp             CCCCTTHHHHHTTCSSSSSCCCC-----C-CCCCCCCTTCCCHHHHHHHTTCHHHHHCCCSCCCCSCCCCTTCCCHHHHH
T ss_pred             CCChHHHHHHHcCCHHHHHHHHHHHHhCC-CCcccCCCCCCccccccccccccccccccccccccccccccccccccccc
Confidence            69999999999999654    45556666 89999999999999999999999999999999999998765  5699999


Q ss_pred             HHcCCccHHHHHHhcCCCccccCC-CCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccC-CCCCCCCcchhhhhHHH
Q psy1308         159 AAEKKMNPFEVLLKREDEFNDVLN-PNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKD-NSGHIPSDYAEDANIKQ  236 (607)
Q Consensus       159 ~~~~~~~~~~~Ll~~g~~~~~~~~-~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d-~~g~Tpl~~A~~~~~~~  236 (607)
                      +..++.++++.|+..+........ ......|.||||+|+..++.+++++|+..|++++..+ .+|+||||+|+..|+.+
T Consensus        80 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~t~l~~a~~~~~~~~~~~l~~~~~~~~~~~~~~G~T~L~~A~~~g~~~  159 (221)
T d1iknd_          80 CEQGCLASVGVLTQSCTTPHLHSILKATNYNGHTCLHLASIHGYLGIVELLVSLGADVNAQEPCNGRTALHLAVDLQNPD  159 (221)
T ss_dssp             HHHTCHHHHHHHHHSTTTTSSSCGGGCCCTTCCCHHHHHHHTTCHHHHHHHHHHTCCTTCCCTTTCCCHHHHHHHTTCHH
T ss_pred             cccccccccchhhhhcccccccccccccccccchhhhHHhhcCChhheeeecccCcccccccccCCCCccccccccccHH
Confidence            999999999999998876543322 2234558999999999999999999999999998876 57999999999999999


Q ss_pred             HHHHHHHhhhhHHhhHHHhhcccccH
Q psy1308         237 ILQKYAEKYADLQREKEAEERRKYPL  262 (607)
Q Consensus       237 ~~~~ll~~~~~~~~~~~~~~~~~~~L  262 (607)
                      ++++|++.|++...   .+..+.+||
T Consensus       160 ~v~~Ll~~gad~~~---~~~~G~tpl  182 (221)
T d1iknd_         160 LVSLLLKCGADVNR---VTYQGYSPY  182 (221)
T ss_dssp             HHHHHHTTTCCSCC---CCTTCCCGG
T ss_pred             HHHHHHhcCCcccc---cCCCCCCHH
Confidence            99999999998763   467788998

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.92  E-value=3.2e-24  Score=205.30  Aligned_cols=226  Identities=20%  Similarity=0.298  Sum_probs=184.6

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcC
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGA  349 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~  349 (607)
                      ++|++.+++.+...+.+....      ..++++.|++||||+.+|+.||...... ..+++.++|+..+.......+||.
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~------~~pvlI~Ge~GtGK~~~A~~ih~~s~~~-~~~~~~~~~~~~~~~~~~~~lfg~   74 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCA------ECPVLITGESGVGKEVVARLIHKLSDRS-KEPFVALNVASIPRDIFEAELFGY   74 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTC------CSCEEEECSTTSSHHHHHHHHHHHSTTT-TSCEEEEETTTSCHHHHHHHHHCB
T ss_pred             eEecCHHHHHHHHHHHHHhCC------CCCEEEECCCCcCHHHHHHHHHHhcCCc-ccccccchhhhhhhcccHHHhcCc
Confidence            578999999998888877543      3468899999999999999999987665 788999999999988888999997


Q ss_pred             CCC-CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHH
Q psy1308         350 PPG-YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQH  428 (607)
Q Consensus       350 ~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~  428 (607)
                      ..+ +.+.  .....+.++.+.+|+|||||||.+++..|..|+++++++.+...++......++++|++|+.+...+.+ 
T Consensus        75 ~~~~~~~~--~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~~l~~l~~-  151 (247)
T d1ny5a2          75 EKGAFTGA--VSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVK-  151 (247)
T ss_dssp             CTTSSTTC--CSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHH-
T ss_pred             ccCCcCCc--ccccCCHHHccCCCEEEEeChHhCCHHHHHHHHHHHHhCCEEECCCCCceecCeEEEEecCCCHHHHHH-
Confidence            665 3332  223356788999999999999999999999999999999988776665556789999999976554322 


Q ss_pred             HhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc-C--CHHHHHHHHHHH
Q psy1308         429 ALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP-F--SKSELHTLVCRE  505 (607)
Q Consensus       429 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p-l--~~~~~~~i~~~~  505 (607)
                                                                 .+.|+ ++|++||+.+.+..| |  +++|+..|+..+
T Consensus       152 -------------------------------------------~~~f~-~~L~~~l~~~~i~lPpLreR~~Di~~l~~~~  187 (247)
T d1ny5a2         152 -------------------------------------------EGKFR-EDLYYRLGVIEIEIPPLRERKEDIIPLANHF  187 (247)
T ss_dssp             -------------------------------------------TTSSC-HHHHHHHTTEEEECCCGGGCHHHHHHHHHHH
T ss_pred             -------------------------------------------cCCCc-HHHHhhcCeeeecCCChhhchhhHhhhhhhh
Confidence                                                       23476 999999988755554 5  568999999999


Q ss_pred             HHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHH
Q psy1308         506 LNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVV  553 (607)
Q Consensus       506 l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~  553 (607)
                      +.++..+....   ...++++|++.|.. |+||+|.|+|++++++.+.
T Consensus       188 l~~~~~~~~~~---~~~ls~~al~~L~~-~~WPGNl~EL~~~l~~a~~  231 (247)
T d1ny5a2         188 LKKFSRKYAKE---VEGFTKSAQELLLS-YPWYGNVRELKNVIERAVL  231 (247)
T ss_dssp             HHHHHHHTTCC---CCEECHHHHHHHHH-SCCTTHHHHHHHHHHHHHH
T ss_pred             hhhhhhhcCCC---CCCCCHHHHHHHHh-CCCCCHHHHHHHHHHHHHH
Confidence            99887765322   35799999999986 9999999999999998764

>d1k1aa_ d.211.1.1 (A:) bcl-3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: bcl-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=1.4e-24  Score=204.98  Aligned_cols=187  Identities=22%  Similarity=0.242  Sum_probs=155.8

Q ss_pred             CCCCHHHHHHHHcCCHHHHHHHHh----cCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHH
Q psy1308          84 SIKDLTLFRAARYGSAKELKTFIE----NSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHR  157 (607)
Q Consensus        84 ~~g~t~Lh~A~~~g~~~~v~~Ll~----~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~  157 (607)
                      .+|+||||+||..|+.++|+.|++    .| +++|.+|..|+||||+|+..|+.+++++|+++|++++..+.  .++++.
T Consensus         1 ~dG~TpLh~A~~~g~~~~v~~Ll~~~~~~g-~~in~~d~~g~TpL~~A~~~~~~~iv~~Ll~~ga~~~~~~~~~~~~~~~   79 (228)
T d1k1aa_           1 EDGDTPLHIAVVQGNLPAVHRLVNLFQQGG-RELDIYNNLRQTPLHLAVITTLPSVVRLLVTAGASPMALDRHGQTAAHL   79 (228)
T ss_dssp             CTTCCHHHHHHHTTCHHHHHHHHHHHHHTT-CCSCCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHH
T ss_pred             CCCccHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCccCCCCCccceehhccccccccccccccccccccccccccccccc
Confidence            369999999999999999999885    55 99999999999999999999999999999999999988655  458899


Q ss_pred             HHHcCCccHHHHHHhcCCCccccCC---------------------------------CCcCcCCcchhhHHHhcCCHHH
Q psy1308         158 TAAEKKMNPFEVLLKREDEFNDVLN---------------------------------PNMTFLGFSALHYGVVAGNTEV  204 (607)
Q Consensus       158 A~~~~~~~~~~~Ll~~g~~~~~~~~---------------------------------~~~d~~g~TpLh~A~~~g~~~~  204 (607)
                      |...++.++++.+............                                 ...+..|.+||++|+..+...+
T Consensus        80 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~  159 (228)
T d1k1aa_          80 ACEHRSPTCLRALLDSAAPGTLDLEARNYDGLTALHVAVNTECQETVQLLLERGADIDAVDIKSGRSPLIHAVENNSLSM  159 (228)
T ss_dssp             HHHTTCHHHHHHHHHHSCTTSCCTTCCCTTSCCHHHHHHHHTCHHHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHHH
T ss_pred             ccccccccchhhhhhccccccccccccccccccccccccccccchhhhhhhccccccccccccchhhHHHHHHHhhhhhh
Confidence            9888888877776654322111000                                 1234569999999999999999


Q ss_pred             HHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHhHhhhhHHHHHHH
Q psy1308         205 VELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAEKYADLQREKEAEERRKYPLEQRLKDRIVGQESAINII  280 (607)
Q Consensus       205 v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~~i~Gq~~ai~~l  280 (607)
                      ++.++++|.+++.+|..|.||||+|+..|+.+++++|+++|++..   ..+..|.+||      +++.+.+.++.+
T Consensus       160 ~~~~~~~~~~~~~~d~~g~t~L~~A~~~g~~~~v~~Ll~~Gad~n---~~d~~G~TpL------~~A~~~~~~div  226 (228)
T d1k1aa_         160 VQLLLQHGANVNAQMYSGSSALHSASGRGLLPLVRTLVRSGADSS---LKNCHNDTPL------MVARSRRVIDIL  226 (228)
T ss_dssp             HHHHHHTTCCTTCBCTTSCBHHHHHHHHTCHHHHHHHHHTTCCTT---CCCTTSCCTT------TTCSSHHHHHHH
T ss_pred             hhhhhhhccccccccccCcchHHHHHHcCCHHHHHHHHHCCCCCC---CCCCCCCCHH------HHHHhCCCcccc
Confidence            999999999999999999999999999999999999999999876   3467889999      455555555443

>d1bd8a_ d.211.1.1 (A:) Cell cycle inhibitor p19ink4D {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p19ink4D
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=1.8e-24  Score=193.50  Aligned_cols=150  Identities=19%  Similarity=0.230  Sum_probs=133.5

Q ss_pred             hHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCC
Q psy1308          32 SKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKL  111 (607)
Q Consensus        32 t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~  111 (607)
                      ++||.||..|+.++|++|+......                      ++..|..|+||||+|+ .|+.+++++|++++ .
T Consensus         4 ~~L~~Aa~~g~~~~vk~lL~~~~~~----------------------~n~~d~~g~t~L~~A~-~~~~~~v~~Ll~~~-~   59 (156)
T d1bd8a_           4 DRLSGAAARGDVQEVRRLLHRELVH----------------------PDALNRFGKTALQVMM-FGSTAIALELLKQG-A   59 (156)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHTTCCC----------------------TTCCCTTSCCHHHHSC-TTCHHHHHHHHHTT-C
T ss_pred             HHHHHHHHcCCHHHHHHHHHhCCCC----------------------CCccCCCCCccccccc-cccccccccccccc-c
Confidence            4599999999999999998753221                      2467889999999987 58999999999998 8


Q ss_pred             CCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCC
Q psy1308         112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLG  189 (607)
Q Consensus       112 ~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g  189 (607)
                      +++..+..|.+||++|+..++.+++++++++|++++.+|.  ++|||+|+..|+.+++++|+ .|++++..+.     +|
T Consensus        60 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~n~~~~~~~t~L~~A~~~~~~~i~~~L~-~~~~~~~~d~-----~G  133 (156)
T d1bd8a_          60 SPNVQDTSGTSPVHDAARTGFLDTLKVLVEHGADVNVPDGTGALPIHLAVQEGHTAVVSFLA-AESDLHRRDA-----RG  133 (156)
T ss_dssp             CTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHHTCHHHHHHHH-TTSCTTCCCT-----TS
T ss_pred             cccccccccccccccccccccccccccccccccccccccCCCCeeecccccccccccccccc-ccccccccCC-----CC
Confidence            9999999999999999999999999999999999998765  67999999999999999887 6888876644     49


Q ss_pred             cchhhHHHhcCCHHHHHHHHhc
Q psy1308         190 FSALHYGVVAGNTEVVELLLKS  211 (607)
Q Consensus       190 ~TpLh~A~~~g~~~~v~~Ll~~  211 (607)
                      +||||+|+..|+.+++++|+++
T Consensus       134 ~TpL~~A~~~g~~~iv~~Ll~h  155 (156)
T d1bd8a_         134 LTPLELALQRGAQDLVDILQGH  155 (156)
T ss_dssp             CCHHHHHHHSCCHHHHHHHHTT
T ss_pred             CCHHHHHHHcCCHHHHHHHHhh
Confidence            9999999999999999999975

>d1myoa_ d.211.1.1 (A:) Myotrophin {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myotrophin
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.91  E-value=1.6e-25  Score=189.98  Aligned_cols=108  Identities=31%  Similarity=0.412  Sum_probs=83.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHH
Q psy1308          88 LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPF  167 (607)
Q Consensus        88 t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~  167 (607)
                      |||++|++.|+.++|++|+++| +++|.+|..|+||||+|+..|+.+++++|+++|++++.+|                 
T Consensus         4 tpL~~A~~~g~~~~v~~Ll~~g-~d~n~~~~~g~t~lh~A~~~~~~~~~~~ll~~g~din~~d-----------------   65 (118)
T d1myoa_           4 KEFMWALKNGDLDEVKDYVAKG-EDVNRTLEGGRKPLHYAADCGQLEILEFLLLKGADINAPD-----------------   65 (118)
T ss_dssp             HHHHHHHHTTCHHHHHHHHTTT-CCCCCCSSSSCCTTHHHHHHSTTTHHHHHHHSSCTTTCCS-----------------
T ss_pred             hHHHHHHHCCCHHHHHHHHHhh-hccccccccccccccccccccccccccccccccceeeecc-----------------
Confidence            5666666666666666666666 6666666666666666666666666666666666655432                 


Q ss_pred             HHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhh
Q psy1308         168 EVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDA  232 (607)
Q Consensus       168 ~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~  232 (607)
                                         ..|+||||+|+.+|+.+++++|+++|+|++.+|.+|+||||+|...
T Consensus        66 -------------------~~g~tpLh~A~~~~~~~~v~~Ll~~Gad~~~~d~~G~t~l~~a~~~  111 (118)
T d1myoa_          66 -------------------KHHITPLLSAVYEGHVSCVKLLLSKGADKTVKGPDGLTALEATDNQ  111 (118)
T ss_dssp             -------------------SSCSCHHHHHHTTTCCHHHHHHHTTCCCSSSSSSSTCCCCCTCSST
T ss_pred             -------------------cccccchhhhhhcCchhhhhhhhcccccceeeCCCCCCHHHHHhHH
Confidence                               3399999999999999999999999999999999999999999654

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.90  E-value=5.7e-24  Score=211.30  Aligned_cols=255  Identities=21%  Similarity=0.329  Sum_probs=181.6

Q ss_pred             ccHHHHHHhHhhhhHHHHHHHHHHHHHh--hCCCCCCC----CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEee
Q psy1308         260 YPLEQRLKDRIVGQESAINIISAAIKRK--ENGWTDDD----HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD  333 (607)
Q Consensus       260 ~~L~~~l~~~i~Gq~~ai~~l~~~i~~~--~~~~~~~~----~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~  333 (607)
                      ..+.+.|.+.++||++|++.+..++.++  +.+...+.    .|..++|+||||||||++||++|+.++    .+|+.++
T Consensus         6 ~~i~~~L~~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~----~~~~~i~   81 (309)
T d1ofha_           6 REIVSELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN----APFIKVE   81 (309)
T ss_dssp             HHHHHHHHTTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT----CCEEEEE
T ss_pred             HHHHHHhcCcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc----cchhccc
Confidence            3467778889999999999999988543  22222222    244899999999999999999999875    4599999


Q ss_pred             cccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHH------------HHHHHHHhhccceeec
Q psy1308         334 MSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPD------------VLTVLLQLFDEGRLTD  401 (607)
Q Consensus       334 ~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~------------~~~~Ll~~~~~~~~~~  401 (607)
                      ++.+.+.+.+....|.+++|++...++.+....   .++|||||||||++|.            +++.||+.++...+.+
T Consensus        82 ~s~~~~~~~~~~~~~~~~~~~f~~a~~~~~~~~---~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~  158 (309)
T d1ofha_          82 ATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVE---QNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVST  158 (309)
T ss_dssp             GGGGSSCCSGGGSTTHHHHHHHHTTTTCHHHHH---HHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEE
T ss_pred             ccccccceeEeeeccccccccchhhhccccccc---CCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEec
Confidence            999998887777777777777655554433222   2489999999999865            7788999998554443


Q ss_pred             CCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh
Q psy1308         402 GKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL  481 (607)
Q Consensus       402 ~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~  481 (607)
                      . ...++.++++||++.+....                                            +   ...|. |+|.
T Consensus       159 ~-~~~i~~s~ilfi~~ga~~~~--------------------------------------------~---~~~~~-p~l~  189 (309)
T d1ofha_         159 K-HGMVKTDHILFIASGAFQVA--------------------------------------------R---PSDLI-PELQ  189 (309)
T ss_dssp             T-TEEEECTTCEEEEEECCSSS--------------------------------------------C---GGGSC-HHHH
T ss_pred             C-CeEEEccceeEEeccchhhc--------------------------------------------C---cccch-hhhh
Confidence            3 34566777888876441000                                            0   12255 9999


Q ss_pred             ccccceeeeccCCHHHHHHHHHHHHHHH---HHHHhhcCCcEEEeCHhHHHHHHc------cCCCCCCccchhHHHHHHH
Q psy1308         482 GRINEIVYFLPFSKSELHTLVCRELNFW---AKKALDKHNINIVWDIDVETILAD------GYDVHYGARSIKHEVERQV  552 (607)
Q Consensus       482 ~ri~~iv~f~pl~~~~~~~i~~~~l~~~---~~~~~~~~~i~l~~~~~a~~~L~~------~~~~~~GaR~L~~~i~~~i  552 (607)
                      +||+.++.|.|++.+++.+|+......+   ........+..+.+++.+...+..      .+....|||+|++.+++.+
T Consensus       190 ~R~~~~i~~~~~~~~~~~~Il~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~GaR~L~~~ie~i~  269 (309)
T d1ofha_         190 GRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLM  269 (309)
T ss_dssp             HTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHHHHHHHHHSCCCTTHHHHHHHHHHS
T ss_pred             hhhheeeeccCCCHHHHHHHHHHHHHHHHHHHHHHHhhcCCccccchHHHHHHHHHHHHHhhcchhcCchHHHHHHHHHH
Confidence            9999999999999999999986643322   222234458899999988766531      4567899999999999866


Q ss_pred             HHHHHHHHHhccCCCCCEEEEE
Q psy1308         553 VSQLAAAHEKSVIGKGSFVRLY  574 (607)
Q Consensus       553 ~~~l~~~~l~~~~~~~~~v~i~  574 (607)
                      .+.+...    ....+..+.|+
T Consensus       270 ~~~~~~~----~~~~~~~v~i~  287 (309)
T d1ofha_         270 DKISFSA----SDMNGQTVNID  287 (309)
T ss_dssp             HHHHHHG----GGCTTCEEEEC
T ss_pred             HHHHccc----cccCCCEEEEC
Confidence            6544322    22445666664

>d1bi7b_ d.211.1.1 (B:) Cell cycle inhibitor p16ink4A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p16ink4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=2.1e-24  Score=185.16  Aligned_cols=118  Identities=24%  Similarity=0.289  Sum_probs=82.3

Q ss_pred             CCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCC---chHHHHHHc
Q psy1308          85 IKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLF---NTVHRTAAE  161 (607)
Q Consensus        85 ~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~---~~l~~A~~~  161 (607)
                      .+.++||+||..|++++|++|+++| +++|.+|..|.||||+|+ .|+.+++++|+++|++++..+..   +|||+|+..
T Consensus         2 p~~~~L~~Aa~~G~~~~v~~Ll~~g-ad~n~~~~~g~t~l~~a~-~g~~~~v~~Ll~~ga~~~~~~~~~~~~~L~~A~~~   79 (125)
T d1bi7b_           2 PSADWLATAAARGRVEEVRALLEAG-ANPNAPNSYGRRPIQVMM-MGSARVAELLLLHGAEPNCADPATLTRPVHDAARE   79 (125)
T ss_dssp             CSTTHHHHHHHHTCHHHHHHHHTTT-CCTTCCCSSSCCTTTSSC-TTCHHHHHHHHTTTCCCCCCCTTTCCCHHHHHHHH
T ss_pred             CChhHHHHHHHCCCHHHHHHHHHcC-Cccccccccccccccccc-ccccccccccccccccccccccccccccccccccc
Confidence            3568899999999999999999988 899999999999998775 68999999999999998876542   255555555


Q ss_pred             CCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHH
Q psy1308         162 KKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLL  209 (607)
Q Consensus       162 ~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll  209 (607)
                      |+.+++++|+++|++++..+.     .|+||||+|+.+|+.+++++|+
T Consensus        80 g~~~~v~~Ll~~ga~~~~~d~-----~G~T~l~~A~~~g~~~~v~~Ll  122 (125)
T d1bi7b_          80 GFLDTLVVLHRAGARLDVRDA-----WGRLPVDLAEELGHRDVARYLR  122 (125)
T ss_dssp             TCHHHHHHHHHHTCCSSCCCT-----TCCCHHHHHHHHTCHHHHHHHS
T ss_pred             ccccccccccccccccccccC-----CCCCHHHHHHHcCCHHHHHHHH
Confidence            555555555555555444322     2555555555555555555544

>d1awcb_ d.211.1.1 (B:) GA bindinig protein (GABP) beta 1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: GA bindinig protein (GABP) beta 1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.90  E-value=2.4e-23  Score=185.26  Aligned_cols=148  Identities=24%  Similarity=0.320  Sum_probs=133.9

Q ss_pred             chHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCC
Q psy1308          31 SSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSK  110 (607)
Q Consensus        31 ~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~  110 (607)
                      .||||.||+.|+.+++++|++.+...                        ..|..|.||||+|+..++.++++.++... 
T Consensus         3 ~t~L~~Aa~~g~~~~v~~LL~~ga~~------------------------~~~~~g~t~L~~a~~~~~~~~~~~~~~~~-   57 (153)
T d1awcb_           3 GKKLLEAARAGQDDEVRILMANGAPF------------------------TTDWLGTSPLHLAAQYGHFSTTEVLLRAG-   57 (153)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHTCCC------------------------CCCTTCCCHHHHHHHHTCHHHHHHHHTTT-
T ss_pred             CHHHHHHHHCCCHHHHHHHHHcCCCc------------------------ccccCCCcccccccccccccccccccccc-
Confidence            49999999999999999999876421                        24778999999999999999999999987 


Q ss_pred             CCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcC
Q psy1308         111 LDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFL  188 (607)
Q Consensus       111 ~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~  188 (607)
                      ...+..+..+.+++++++...+.+++++++.+|++++.+|.  +||||+|+..|+.+++++|+++|++++..+..     
T Consensus        58 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~g~T~L~~A~~~g~~~iv~~ll~~gad~~~~d~~-----  132 (153)
T d1awcb_          58 VSRDARTKVDRTPLHMAASEGHANIVEVLLKHGADVNAKDMLKMTALHWATEHNHQEVVELLIKYGADVHTQSKF-----  132 (153)
T ss_dssp             CCTTCCCTTCCCHHHHHHHHTCHHHHHHHHTTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTT-----
T ss_pred             ccccccccccccccccccccccceeeecccccCCccccccccCchHHHhhhhcchhheeeeccccccCCcccCCC-----
Confidence            66677788899999999999999999999999999988665  67999999999999999999999999877544     


Q ss_pred             CcchhhHHHhcCCHHHHHHH
Q psy1308         189 GFSALHYGVVAGNTEVVELL  208 (607)
Q Consensus       189 g~TpLh~A~~~g~~~~v~~L  208 (607)
                      |.||||+|+.+|+.+++++|
T Consensus       133 g~Tpl~~A~~~g~~eiv~lL  152 (153)
T d1awcb_         133 CKTAFDISIDNGNEDLAEIL  152 (153)
T ss_dssp             SCCHHHHHHHTTCHHHHHHH
T ss_pred             CCCHHHHHHHcCCHHHHHhC
Confidence            99999999999999999976

>d1wdya_ d.211.1.1 (A:) RNase L, 2-5a-dependent ribonuclease {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: RNase L, 2-5a-dependent ribonuclease
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=1.1e-22  Score=200.40  Aligned_cols=212  Identities=18%  Similarity=0.170  Sum_probs=168.6

Q ss_pred             hhhhchhhhHHHHHhhcccCCCCCCcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCcc-----
Q psy1308           3 RILVQRRQLVLCILSNYFKQKPYKRGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLAL-----   77 (607)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~-----   77 (607)
                      ++.....+++..++... .........+.+|.++|+..+..+...+++.........+..+.+.++.+...+...     
T Consensus        46 A~~~~~~eiv~~L~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~  124 (285)
T d1wdya_          46 AVQMSREDIVELLLRHG-ADPVLRKKNGATPFLLAAIAGSVKLLKLFLSKGADVNECDFYGFTAFMEAAVYGKVKALKFL  124 (285)
T ss_dssp             HHHTTCHHHHHHHHHTT-CCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCTTCBCTTCCBHHHHHHHTTCHHHHHHH
T ss_pred             HHHcCCHHHhhhhcccc-ccccccccccchhhHHHhhcCCccccchhhhhcccccccccCCCchhHHHHHhcchhhhhhh
Confidence            34444555555554433 344555667889999999999999988888876666666666777777664332211     


Q ss_pred             ---------------chhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHc----CCHHHHHH
Q psy1308          78 ---------------TLLECQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAIN----GKVDNVRV  138 (607)
Q Consensus        78 ---------------~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~----g~~~~v~~  138 (607)
                                     .....+..|.||||+|+..|+.+++++|+++.+++++.++..|.++++.+...    +..+++++
T Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  204 (285)
T d1wdya_         125 YKRGANVNLRRKTKEDQERLRKGGATALMDAAEKGHVEVLKILLDEMGADVNACDNMGRNALIHALLSSDDSDVEAITHL  204 (285)
T ss_dssp             HHTTCCTTCCCCCCHHHHHTTCCCCCHHHHHHHHTCHHHHHHHHHTSCCCTTCCCTTSCCHHHHHHHCSCTTTHHHHHHH
T ss_pred             hhhcccccccccchhhhhhhcccCchHHHHHHHcCCHHHHHHHHhccCCCcccccCCCCcccccccccccchHHHHHHHH
Confidence                           12345677999999999999999999999987799999999999988876553    34579999


Q ss_pred             HHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHh-cCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCC
Q psy1308         139 LLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLK-REDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADP  215 (607)
Q Consensus       139 Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~-~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~  215 (607)
                      |+++|++++.++.  .||||+|+..|+.+++++|++ .|++++..+.     +|.||||+|+.+|+.++|++||++|||+
T Consensus       205 Li~~ga~~n~~~~~g~t~L~~a~~~~~~~~v~~lL~~~g~din~~d~-----~G~TpL~~A~~~~~~eiv~~Ll~~GAd~  279 (285)
T d1wdya_         205 LLDHGADVNVRGERGKTPLILAVEKKHLGLVQRLLEQEHIEINDTDS-----DGKTALLLAVELKLKKIAELLCKRGAST  279 (285)
T ss_dssp             HHHTTCCSSCCCTTSCCHHHHHHHTTCHHHHHHHHHSSSCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHHSSCS
T ss_pred             HHHCCCCCCccCCCCCCccchhhhcCcHHHHHHHHHcCCCCCcCCCC-----CCCCHHHHHHHcCCHHHHHHHHHCCCCC
Confidence            9999999998754  679999999999999999997 5889887644     4999999999999999999999999999


Q ss_pred             CccCC
Q psy1308         216 TVKDN  220 (607)
Q Consensus       216 ~~~d~  220 (607)
                      |++|.
T Consensus       280 n~~d~  284 (285)
T d1wdya_         280 DCGDL  284 (285)
T ss_dssp             CCSSC
T ss_pred             CcccC
Confidence            99884

>d1ycsb1 d.211.1.1 (B:327-456) 53BP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 53BP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=7.8e-24  Score=182.79  Aligned_cols=121  Identities=23%  Similarity=0.255  Sum_probs=99.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCCCchHHHHHHcCCccHH
Q psy1308          88 LTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDLFNTVHRTAAEKKMNPF  167 (607)
Q Consensus        88 t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~~~~l~~A~~~~~~~~~  167 (607)
                      ++||.||..|+.++|++|+++| +|+|.+|.+|+||||+||..|+.+++++|+++|++++.+|.                
T Consensus         3 ~lL~~A~~~G~~~~v~~Ll~~g-~d~n~~d~~g~t~Lh~A~~~~~~~~~~~ll~~g~~~~~~d~----------------   65 (130)
T d1ycsb1           3 ALLLDSSLEGEFDLVQRIIYEV-DDPSLPNDEGITALHNAVCAGHTEIVKFLVQFGVNVNAADS----------------   65 (130)
T ss_dssp             HHHHHHHHHTCHHHHHHHTSTT-SSCCCCCTTSCCHHHHHHHHTCHHHHHHHHHHTCCTTCCCT----------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHcC-CCccccccccccccccccccccccccccccccccccccccc----------------
Confidence            6799999999999999999998 89999999999999999999999999999999998887543                


Q ss_pred             HHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCC-CCCCCCc--chhhhhHHHHHHHHHHh
Q psy1308         168 EVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDN-SGHIPSD--YAEDANIKQILQKYAEK  244 (607)
Q Consensus       168 ~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~-~g~Tpl~--~A~~~~~~~~~~~ll~~  244 (607)
                                          +|+||||+|+.+|+.+++++|+++|+|++..+. .|+||++  .|+..|+.+++++|++.
T Consensus        66 --------------------~g~tpLh~A~~~g~~~~v~~Ll~~ga~v~~~~~~~~~~~~~~~~a~~~g~~eiv~~L~~~  125 (130)
T d1ycsb1          66 --------------------DGWTPLHCAASCNNVQVCKFLVESGAAVFAMTYSDMQTAADKCEEMEEGYTQCSQFLYGV  125 (130)
T ss_dssp             --------------------TCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCSSSCCCHHHHCCSSSTTCCCHHHHHHHH
T ss_pred             --------------------cCcccccccchhhHHHHHHHHHHcCCCcccccCCCCCCHHHHHHHHHcChHHHHHHHHhH
Confidence                                277888888888888888888888888877664 4667654  34566777888877765


Q ss_pred             h
Q psy1308         245 Y  245 (607)
Q Consensus       245 ~  245 (607)
                      .
T Consensus       126 ~  126 (130)
T d1ycsb1         126 Q  126 (130)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d1bi7b_ d.211.1.1 (B:) Cell cycle inhibitor p16ink4A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Cell cycle inhibitor p16ink4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=3.4e-24  Score=183.75  Aligned_cols=119  Identities=28%  Similarity=0.309  Sum_probs=108.4

Q ss_pred             CCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHH
Q psy1308         120 GWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGV  197 (607)
Q Consensus       120 g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~  197 (607)
                      +.++||+||..|+.++|++|+++|+++|.++.  ++|+|+| ..|+.+++++|+++|++++..+..    .+.||||+|+
T Consensus         3 ~~~~L~~Aa~~G~~~~v~~Ll~~gad~n~~~~~g~t~l~~a-~~g~~~~v~~Ll~~ga~~~~~~~~----~~~~~L~~A~   77 (125)
T d1bi7b_           3 SADWLATAAARGRVEEVRALLEAGANPNAPNSYGRRPIQVM-MMGSARVAELLLLHGAEPNCADPA----TLTRPVHDAA   77 (125)
T ss_dssp             STTHHHHHHHHTCHHHHHHHHTTTCCTTCCCSSSCCTTTSS-CTTCHHHHHHHHTTTCCCCCCCTT----TCCCHHHHHH
T ss_pred             ChhHHHHHHHCCCHHHHHHHHHcCCcccccccccccccccc-cccccccccccccccccccccccc----cccccccccc
Confidence            56899999999999999999999999999776  5699866 479999999999999999877554    1457999999


Q ss_pred             hcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhhHHHHHHHHHH
Q psy1308         198 VAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDANIKQILQKYAE  243 (607)
Q Consensus       198 ~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~~~~~~~~ll~  243 (607)
                      ..|+.+++++|+++|+|++.+|..|+||||+|+.+|+.+++++|++
T Consensus        78 ~~g~~~~v~~Ll~~ga~~~~~d~~G~T~l~~A~~~g~~~~v~~Lls  123 (125)
T d1bi7b_          78 REGFLDTLVVLHRAGARLDVRDAWGRLPVDLAEELGHRDVARYLRA  123 (125)
T ss_dssp             HHTCHHHHHHHHHHTCCSSCCCTTCCCHHHHHHHHTCHHHHHHHSS
T ss_pred             ccccccccccccccccccccccCCCCCHHHHHHHcCCHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999864

>d1sw6a_ d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Swi6 ankyrin-repeat fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.89  E-value=1.4e-23  Score=208.93  Aligned_cols=146  Identities=16%  Similarity=0.152  Sum_probs=115.1

Q ss_pred             CCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCH-------HHHHHHHHcCCCCCCCCCCchH
Q psy1308          83 QSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKV-------DNVRVLLEAGANPNLGDLFNTV  155 (607)
Q Consensus        83 ~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~-------~~v~~Ll~~ga~~~~~d~~~~l  155 (607)
                      |.+|+||||+||..|+.++|++|+++| ++++.+|..|+||||+||..++.       +++++|.+.....+ ..++|||
T Consensus       104 D~~G~T~LH~Aa~~g~~~~v~~Ll~~g-ad~~~~d~~G~TpL~~A~~~~~~~~~~~~~~ll~~l~~~~~~~d-~~g~t~l  181 (301)
T d1sw6a_         104 DEHGNTPLHWLTSIANLELVKHLVKHG-SNRLYGDNMGESCLVKAVKSVNNYDSGTFEALLDYLYPCLILED-SMNRTIL  181 (301)
T ss_dssp             STTCCCHHHHHHHTTCHHHHHHHHHTT-CCTTBCCTTCCCHHHHHHHSSHHHHTTCHHHHHHHHGGGGGEEC-TTCCCHH
T ss_pred             CCCCCCHHHHHHHcCCHHHHHHHHHCC-CCCCcCCcccccHHHHhhhcccchhhhhHHHHHHHHhhhhhhcc-cccCCHH
Confidence            889999999999999999999999998 99999999999999999987652       55566554433333 2357899


Q ss_pred             HHHHHcCCcc------------HHHHHHhcCCCccccC--------------------------------CCCcCcCCcc
Q psy1308         156 HRTAAEKKMN------------PFEVLLKREDEFNDVL--------------------------------NPNMTFLGFS  191 (607)
Q Consensus       156 ~~A~~~~~~~------------~~~~Ll~~g~~~~~~~--------------------------------~~~~d~~g~T  191 (607)
                      |+++..+...            ++.+++..+.......                                -+.+|..|+|
T Consensus       182 h~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~in~~D~~G~T  261 (301)
T d1sw6a_         182 HHIIITSGMTGCSAAAKYYLDILMGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIANMLNAQDSNGDT  261 (301)
T ss_dssp             HHHHHHHTSTTCHHHHHHHHHHHHHHHHHGGGCCEEEC----------------CHHHHHCSHHHHHHHTTTCCCTTSCC
T ss_pred             HHHHHHhCccccHHHHHHHHHHHHHHHHhcCCcchhcccccccchhHHHHhcchHHHHHHHhhHHHHhcCccCCCCCCCC
Confidence            9998765532            2334444333211000                                1335677999


Q ss_pred             hhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchh
Q psy1308         192 ALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAE  230 (607)
Q Consensus       192 pLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~  230 (607)
                      |||+||+.|+.++|++|+++|||++.+|+.|+|||++|+
T Consensus       262 pLh~A~~~g~~~iv~~Ll~~GAd~~~~n~~G~Tpl~~A~  300 (301)
T d1sw6a_         262 CLNIAARLGNISIVDALLDYGADPFIANKSGLRPVDFGA  300 (301)
T ss_dssp             HHHHHHHHCCHHHHHHHHHTTCCTTCCCTTSCCGGGGTC
T ss_pred             HHHHHHHcCCHHHHHHHHHCCCCCCCCCCCCCCHHHHcC
Confidence            999999999999999999999999999999999999996

>d1ot8a_ d.211.1.1 (A:) Neurogenic locus notch receptor domain {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Neurogenic locus notch receptor domain
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.89  E-value=5.3e-23  Score=192.98  Aligned_cols=182  Identities=22%  Similarity=0.271  Sum_probs=158.8

Q ss_pred             chhc-cCCCCCHHHHHHHHcCCHHHHHHHHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCC---CCCCc
Q psy1308          78 TLLE-CQSIKDLTLFRAARYGSAKELKTFIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNL---GDLFN  153 (607)
Q Consensus        78 ~~~~-~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~---~d~~~  153 (607)
                      .++. .|.+|.||||+||..|+.+++++|++.+ +++|.++..+.++++.++..++................   .++.+
T Consensus        14 din~~~d~~G~t~L~~A~~~g~~e~v~~Ll~~g-~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (209)
T d1ot8a_          14 ELNATMDKTGETSLHLAARFARADAAKRLLDAG-ADANSQDNTGRTPLHAAVAADAMGVFQILLRNRATNLNARMHDGTT   92 (209)
T ss_dssp             HHHHHHHHHCCCHHHHHHHTTCHHHHHHHHHTT-CCTTCCCTTSCCHHHHHHHTTCHHHHHHHHTCTTCCTTCCCTTCCC
T ss_pred             CcCcCcCCCCCCHHHHHHHcCCHHHHHHHHhhc-cccccccccccccccccccccccccccccccccccccccccccccc
Confidence            3443 5889999999999999999999999999 99999999999999999999999888887766444333   23355


Q ss_pred             hHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhhhh
Q psy1308         154 TVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAEDAN  233 (607)
Q Consensus       154 ~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~~~  233 (607)
                      +.+.+.........+.|...+++++..+.     .|+||||+|+..+..++++.|++++++++..|..|.||||+|+..|
T Consensus        93 ~~~~~~~~~~~~~~~~L~~~~~~~~~~~~-----~~~t~l~~~~~~~~~~~~~~l~~~~~~~~~~d~~g~TpL~~A~~~g  167 (209)
T d1ot8a_          93 PLILAARLAIEGMVEDLITADADINAADN-----SGKTALHWAAAVNNTEAVNILLMHHANRDAQDDKDETPLFLAAREG  167 (209)
T ss_dssp             HHHHHHHTTCTTHHHHHHHTTCCTTCBCT-----TSCBHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTCCCHHHHHHHTT
T ss_pred             cccccccccchhhhhhhhhhcccccccCC-----CCCCcchhhcccCcceeeeeeccccccccccccccccccchhcccc
Confidence            88888889999999999999999887744     4999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhHHhhHHHhhcccccHHHHHHh
Q psy1308         234 IKQILQKYAEKYADLQREKEAEERRKYPLEQRLKD  268 (607)
Q Consensus       234 ~~~~~~~ll~~~~~~~~~~~~~~~~~~~L~~~l~~  268 (607)
                      +.++++.|++.|++..   ..+..+.+||+-+...
T Consensus       168 ~~~~v~~Ll~~gad~n---~~d~~g~Tpl~~A~~~  199 (209)
T d1ot8a_         168 SYEASKALLDNFANRE---ITDHMDRLPRDVASER  199 (209)
T ss_dssp             CHHHHHHHHHTTCCTT---CCCTTSCCHHHHHHHT
T ss_pred             HHHHHHHHHHCCCCCC---CcCCCCCCHHHHHHHc
Confidence            9999999999999876   3467889999666544

>d2ajaa1 a.118.24.1 (A:3-348) Hypothetical protein LPG2416 {Legionella pneumophila [TaxId: 446]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Pseudo ankyrin repeat-like
family: Pseudo ankyrin repeat
domain: Hypothetical protein LPG2416
species: Legionella pneumophila [TaxId: 446]

Probab=99.87  E-value=8.5e-25  Score=222.06  Aligned_cols=150  Identities=13%  Similarity=0.100  Sum_probs=122.8

Q ss_pred             hhccCCCCCHHHHHHHHcCCHHHHHH---HHhcCCCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC----C
Q psy1308          79 LLECQSIKDLTLFRAARYGSAKELKT---FIENSKLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD----L  151 (607)
Q Consensus        79 ~~~~~~~g~t~Lh~A~~~g~~~~v~~---Ll~~~~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d----~  151 (607)
                      +..++..|.||||+||++|+.+++++   |++.+ +++|.+|..|+||||+||+.||.++|++|+++|++++..+    +
T Consensus        83 ~~~~~~~~~t~L~~Aa~~g~~~~~~~~~~L~~~~-~~in~~~~~g~taL~~Aa~~G~~~~v~~Ll~~g~~~~~~~~~~~g  161 (346)
T d2ajaa1          83 AHKKGIKSEVICFVAAITGCSSALDTLCLLLTSD-EIVKVIQAENYQAFRLAAENGHLHVLNRLCELAPTEIMAMIQAEN  161 (346)
T ss_dssp             HHHHTCCHHHHHHHHHHHCCHHHHHHHTTC--CC-SSCC--CHHHHHHHHHHHHTTCHHHHHHHHHSCTTTHHHHHSHHH
T ss_pred             HHhccCCCCcHHHHHHHhCCHHHHHHHHHHHhCC-CcccccCCCCCCHHHHHHHCCCHHHHHHHHHcCCCccccccccCC
Confidence            35678899999999999999887776   67777 9999999999999999999999999999999999998753    5


Q ss_pred             CchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCCCCCccCCCCCCCCcchhh
Q psy1308         152 FNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGADPTVKDNSGHIPSDYAED  231 (607)
Q Consensus       152 ~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~gad~~~~d~~g~Tpl~~A~~  231 (607)
                      +||||+||..|+.+++++|++.|++....+.  .+.+|.||+|.|+.+|+.++|++|+++|++++..+..+.++.+.+..
T Consensus       162 ~t~L~~Aa~~g~~~iv~~Ll~~~~~~~~~~~--~~~~~~t~l~~A~~~g~~~iv~~Ll~~ga~~~~~~~~~~~~~~~~~~  239 (346)
T d2ajaa1         162 YHAFRLAAENGHLHVLNRLCELAPTEATAMI--QAENYYAFRWAAVGRGHHNVINFLLDCPVMLAYAEIHEFEYGEKYVN  239 (346)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHSCGGGHHHHH--HHHHHHHHHHHHSTTCCHHHHHHHTTSHHHHHHHHHCTTTTTTTTHH
T ss_pred             CChhHHHHHHhhHHHHHHHHHcCCccccccc--ccCCCcchhhHHhhcCHHHHHHHHHhCCCCcchHHHHHHHcCcHhhh
Confidence            7899999999999999999999987543211  12337788899999999999999999999887666555555555443

>d1myoa_ d.211.1.1 (A:) Myotrophin {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Myotrophin
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.86  E-value=6.1e-23  Score=173.89  Aligned_cols=97  Identities=20%  Similarity=0.191  Sum_probs=89.1

Q ss_pred             chHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCC
Q psy1308          31 SSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSK  110 (607)
Q Consensus        31 ~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~  110 (607)
                      .|||++||+.|+.+++++|++.+....                       ..+..|+||||+|+..|+.+++++|+++| 
T Consensus         3 ~tpL~~A~~~g~~~~v~~Ll~~g~d~n-----------------------~~~~~g~t~lh~A~~~~~~~~~~~ll~~g-   58 (118)
T d1myoa_           3 DKEFMWALKNGDLDEVKDYVAKGEDVN-----------------------RTLEGGRKPLHYAADCGQLEILEFLLLKG-   58 (118)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHTTTCCCC-----------------------CCSSSSCCTTHHHHHHSTTTHHHHHHHSS-
T ss_pred             ChHHHHHHHCCCHHHHHHHHHhhhccc-----------------------ccccccccccccccccccccccccccccc-
Confidence            589999999999999999998765433                       56789999999999999999999999999 


Q ss_pred             CCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC
Q psy1308         111 LDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL  151 (607)
Q Consensus       111 ~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~  151 (607)
                      +++|.+|..|+||||+|+..|+.+++++|+++|+|++.+|.
T Consensus        59 ~din~~d~~g~tpLh~A~~~~~~~~v~~Ll~~Gad~~~~d~   99 (118)
T d1myoa_          59 ADINAPDKHHITPLLSAVYEGHVSCVKLLLSKGADKTVKGP   99 (118)
T ss_dssp             CTTTCCSSSCSCHHHHHHTTTCCHHHHHHHTTCCCSSSSSS
T ss_pred             ceeeecccccccchhhhhhcCchhhhhhhhcccccceeeCC
Confidence            99999999999999999999999999999999999987653

>d1dcqa1 d.211.1.1 (A:369-522) Pyk2-associated protein beta {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Pyk2-associated protein beta
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.86  E-value=1.3e-21  Score=173.22  Aligned_cols=119  Identities=17%  Similarity=0.163  Sum_probs=89.5

Q ss_pred             HHHHHHHcCCHHHHHHHHhcCCCCCccC------CCCCCcHHHHHHHc---CCHHHHHHHHHcCCCCCCCCC--CchHHH
Q psy1308          89 TLFRAARYGSAKELKTFIENSKLDVNMR------HPLGWTPLHVAAIN---GKVDNVRVLLEAGANPNLGDL--FNTVHR  157 (607)
Q Consensus        89 ~Lh~A~~~g~~~~v~~Ll~~~~~~~~~~------d~~g~tpLh~A~~~---g~~~~v~~Ll~~ga~~~~~d~--~~~l~~  157 (607)
                      .|+.|++.+++..+..++..| .|++.+      +..|+||||+|+..   |+.++|++|+++|+++|.+|.  +||||+
T Consensus         9 ~L~~Av~~~dl~~l~~~~~~g-~d~~~~~~~~~~~~~g~t~Lh~A~~~~~~~~~~iv~~Ll~~gadin~~d~~g~TpLh~   87 (154)
T d1dcqa1           9 SLCEAVKTRDIFGLLQAYADG-VDLTEKIPLANGHEPDETALHLAVRSVDRTSLHIVDFLVQNSGNLDKQTGKGSTALHY   87 (154)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTT-CCTTSBCCCSSCSSTTCBHHHHHHHHCCTTTHHHHHHHHHHCSCTTCCCTTCCCHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHcC-CCcCCCCCcccCCCCCCchHHHHHHhcCCCCHHHHHHHHHcCCChhhhhhhhcccccc
Confidence            466888999999999999988 777655      67799999999975   678999999999999998764  456666


Q ss_pred             HHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHHhcCCHHHHHHHHhcCC
Q psy1308         158 TAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGVVAGNTEVVELLLKSGA  213 (607)
Q Consensus       158 A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~~~g~~~~v~~Ll~~ga  213 (607)
                      |+..|+.+++++|+++|++++..+.     .|+||||+|+..|+.+++++|++.++
T Consensus        88 A~~~~~~~~v~~Ll~~gad~~~~d~-----~g~tpL~~A~~~~~~~i~~~L~~~~~  138 (154)
T d1dcqa1          88 CCLTDNAECLKLLLRGKASIEIANE-----SGETPLDIAKRLKHEHCEELLTQALS  138 (154)
T ss_dssp             HHHTTCHHHHHHHHHTTCCTTCCCT-----TSCCHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             ccccccccccccccccCccccccCC-----CCCCHHHHHHHcCCHHHHHHHHHhCC
Confidence            6666666666666666666665533     36666666666666666666666543

>d1ycsb1 d.211.1.1 (B:327-456) 53BP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 53BP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=1.7e-21  Score=167.88  Aligned_cols=117  Identities=20%  Similarity=0.186  Sum_probs=97.7

Q ss_pred             hHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCHHHHHHHHhcCCC
Q psy1308          32 SKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSAKELKTFIENSKL  111 (607)
Q Consensus        32 t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~~~v~~Ll~~~~~  111 (607)
                      ++||.||..|+.+++++|++.+...+                       .+|.+|+||||+||..|+.+++++|++.+ +
T Consensus         3 ~lL~~A~~~G~~~~v~~Ll~~g~d~n-----------------------~~d~~g~t~Lh~A~~~~~~~~~~~ll~~g-~   58 (130)
T d1ycsb1           3 ALLLDSSLEGEFDLVQRIIYEVDDPS-----------------------LPNDEGITALHNAVCAGHTEIVKFLVQFG-V   58 (130)
T ss_dssp             HHHHHHHHHTCHHHHHHHTSTTSSCC-----------------------CCCTTSCCHHHHHHHHTCHHHHHHHHHHT-C
T ss_pred             HHHHHHHHcCCHHHHHHHHHcCCCcc-----------------------ccccccccccccccccccccccccccccc-c
Confidence            68999999999999999988765433                       66789999999999999999999999998 9


Q ss_pred             CCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCC---CCchHHH--HHHcCCccHHHHHHh
Q psy1308         112 DVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGD---LFNTVHR--TAAEKKMNPFEVLLK  172 (607)
Q Consensus       112 ~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d---~~~~l~~--A~~~~~~~~~~~Ll~  172 (607)
                      ++|.+|.+|+||||+|+..|+.++|++|+++|++++..+   +.||+++  ++..|+.+++++|+.
T Consensus        59 ~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~v~~~~~~~~~~~~~~~~a~~~g~~eiv~~L~~  124 (130)
T d1ycsb1          59 NVNAADSDGWTPLHCAASCNNVQVCKFLVESGAAVFAMTYSDMQTAADKCEEMEEGYTQCSQFLYG  124 (130)
T ss_dssp             CTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCSSSCCCHHHHCCSSSTTCCCHHHHHHH
T ss_pred             ccccccccCcccccccchhhHHHHHHHHHHcCCCcccccCCCCCCHHHHHHHHHcChHHHHHHHHh
Confidence            999999999999999999999999999999999998754   2343332  234455555555554

>d1dcqa1 d.211.1.1 (A:369-522) Pyk2-associated protein beta {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Pyk2-associated protein beta
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=7.4e-20  Score=161.82  Aligned_cols=127  Identities=14%  Similarity=0.068  Sum_probs=107.6

Q ss_pred             HHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHc---CCHHHHHHHHhcC
Q psy1308          33 KLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARY---GSAKELKTFIENS  109 (607)
Q Consensus        33 ~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~---g~~~~v~~Ll~~~  109 (607)
                      .|+.|+..++...+..++..+......                 ......+..|+||||+|+..   |+.++|++|+++|
T Consensus         9 ~L~~Av~~~dl~~l~~~~~~g~d~~~~-----------------~~~~~~~~~g~t~Lh~A~~~~~~~~~~iv~~Ll~~g   71 (154)
T d1dcqa1           9 SLCEAVKTRDIFGLLQAYADGVDLTEK-----------------IPLANGHEPDETALHLAVRSVDRTSLHIVDFLVQNS   71 (154)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTTCCTTSB-----------------CCCSSCSSTTCBHHHHHHHHCCTTTHHHHHHHHHHC
T ss_pred             HHHHHHHhCCHHHHHHHHHcCCCcCCC-----------------CCcccCCCCCCchHHHHHHhcCCCCHHHHHHHHHcC
Confidence            366888999988888877665433211                 11234567899999999985   6789999999999


Q ss_pred             CCCCccCCCCCCcHHHHHHHcCCHHHHHHHHHcCCCCCCCCC--CchHHHHHHcCCccHHHHHHhcCCCc
Q psy1308         110 KLDVNMRHPLGWTPLHVAAINGKVDNVRVLLEAGANPNLGDL--FNTVHRTAAEKKMNPFEVLLKREDEF  177 (607)
Q Consensus       110 ~~~~~~~d~~g~tpLh~A~~~g~~~~v~~Ll~~ga~~~~~d~--~~~l~~A~~~~~~~~~~~Ll~~g~~~  177 (607)
                       +++|.+|..|+||||+||..|+.+++++|+++|++++.+|.  +||||+|+..|+.+++++|++.++..
T Consensus        72 -adin~~d~~g~TpLh~A~~~~~~~~v~~Ll~~gad~~~~d~~g~tpL~~A~~~~~~~i~~~L~~~~~~~  140 (154)
T d1dcqa1          72 -GNLDKQTGKGSTALHYCCLTDNAECLKLLLRGKASIEIANESGETPLDIAKRLKHEHCEELLTQALSGR  140 (154)
T ss_dssp             -SCTTCCCTTCCCHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHHHHHHTTC
T ss_pred             -CChhhhhhhhccccccccccccccccccccccCccccccCCCCCCHHHHHHHcCCHHHHHHHHHhCCCC
Confidence             99999999999999999999999999999999999999765  67999999999999999999987653

>d1sw6a_ d.211.1.1 (A:) Swi6 ankyrin-repeat fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: Swi6 ankyrin-repeat fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.81  E-value=1.7e-20  Score=186.33  Aligned_cols=143  Identities=12%  Similarity=0.104  Sum_probs=94.6

Q ss_pred             CcCCchHHHHHHhcCChhHHHHHhcCCCcccccccccCChHHHHHHccCccchhccCCCCCHHHHHHHHcCCH---HHHH
Q psy1308          27 RGFQSSKLFYTTQSTQADFKSCLSVFPKIRQSNNTCMYNNLLFASACSLALTLLECQSIKDLTLFRAARYGSA---KELK  103 (607)
Q Consensus        27 ~~~g~t~L~~A~~~g~~~~v~~L~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~~~~~~g~t~Lh~A~~~g~~---~~v~  103 (607)
                      |..|+||||+||..|+.++|++|++.+.....                       +|..|+||||.||..++.   ..+.
T Consensus       104 D~~G~T~LH~Aa~~g~~~~v~~Ll~~gad~~~-----------------------~d~~G~TpL~~A~~~~~~~~~~~~~  160 (301)
T d1sw6a_         104 DEHGNTPLHWLTSIANLELVKHLVKHGSNRLY-----------------------GDNMGESCLVKAVKSVNNYDSGTFE  160 (301)
T ss_dssp             STTCCCHHHHHHHTTCHHHHHHHHHTTCCTTB-----------------------CCTTCCCHHHHHHHSSHHHHTTCHH
T ss_pred             CCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCc-----------------------CCcccccHHHHhhhcccchhhhhHH
Confidence            78899999999999999999999998876664                       445556666666554431   1111


Q ss_pred             HHHhcCCCCCccCCCCCCcHHHHHHHcCC----HHHH--------HHHHHcCC---------------------------
Q psy1308         104 TFIENSKLDVNMRHPLGWTPLHVAAINGK----VDNV--------RVLLEAGA---------------------------  144 (607)
Q Consensus       104 ~Ll~~~~~~~~~~d~~g~tpLh~A~~~g~----~~~v--------~~Ll~~ga---------------------------  144 (607)
                      .+++....+++.+|..|+||||+|+..+.    ..++        .+++..+.                           
T Consensus       161 ~ll~~l~~~~~~~d~~g~t~lh~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (301)
T d1sw6a_         161 ALLDYLYPCLILEDSMNRTILHHIIITSGMTGCSAAAKYYLDILMGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILE  240 (301)
T ss_dssp             HHHHHHGGGGGEECTTCCCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHGGGCCEEEC----------------CHHHH
T ss_pred             HHHHHHhhhhhhcccccCCHHHHHHHHhCccccHHHHHHHHHHHHHHHHhcCCcchhcccccccchhHHHHhcchHHHHH
Confidence            12211112344555556666665554322    1111        22222211                           


Q ss_pred             ----------CCCCCC--CCchHHHHHHcCCccHHHHHHhcCCCccccCCCCcCcCCcchhhHHH
Q psy1308         145 ----------NPNLGD--LFNTVHRTAAEKKMNPFEVLLKREDEFNDVLNPNMTFLGFSALHYGV  197 (607)
Q Consensus       145 ----------~~~~~d--~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~d~~g~TpLh~A~  197 (607)
                                .+|.+|  |+||||+|+..|+.+++++|+++|++++..++.     |+|||++|+
T Consensus       241 ~~~~~~~~~~~in~~D~~G~TpLh~A~~~g~~~iv~~Ll~~GAd~~~~n~~-----G~Tpl~~A~  300 (301)
T d1sw6a_         241 NLDLKWIIANMLNAQDSNGDTCLNIAARLGNISIVDALLDYGADPFIANKS-----GLRPVDFGA  300 (301)
T ss_dssp             HCSHHHHHHHTTTCCCTTSCCHHHHHHHHCCHHHHHHHHHTTCCTTCCCTT-----SCCGGGGTC
T ss_pred             HHhhHHHHhcCccCCCCCCCCHHHHHHHcCCHHHHHHHHHCCCCCCCCCCC-----CCCHHHHcC
Confidence                      145544  578999999999999999999999999987554     999999996

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.79  E-value=7.6e-19  Score=180.88  Aligned_cols=247  Identities=21%  Similarity=0.378  Sum_probs=167.4

Q ss_pred             cHHHHHHhHhhhhHHHHHHHHHHHHHhh----CC--CCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         261 PLEQRLKDRIVGQESAINIISAAIKRKE----NG--WTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       261 ~L~~~l~~~i~Gq~~ai~~l~~~i~~~~----~~--~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      .+...|.++++||+.|.+.++-++..++    ..  ....-.|..+|+.||||||||+|||.||+.+    +-||+..|+
T Consensus         7 ~i~~~Ld~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l----~VPFv~~da   82 (443)
T d1g41a_           7 EIVSELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA----NAPFIKVEA   82 (443)
T ss_dssp             HHHHHHHTTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEG
T ss_pred             HHHHHhcCcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHh----CCCEEEeec
Confidence            4667788899999999999998886542    11  1112234589999999999999999999988    446999999


Q ss_pred             ccccccchhHhhhcCCCCCccCCCCchhhHHHhh----------------------------------------------
Q psy1308         335 SEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKK----------------------------------------------  368 (607)
Q Consensus       335 a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~----------------------------------------------  368 (607)
                      +.|++.           ||+|.+....+..+++.                                              
T Consensus        83 T~fTea-----------GYvG~DVesii~~L~~~a~~~v~~~e~~~V~~~~~~~~~e~~~d~l~~~~~~~~~~~~~~~~~  151 (443)
T d1g41a_          83 TKFTEV-----------GYVGKEVDSIIRDLTDSAMKLVRQQEIAKNRARAEDVAEERILDALLPPAKNQWGEVENHDSH  151 (443)
T ss_dssp             GGGC---------------CCCCTHHHHHHHHHHHHHHHHHHHHHSCC--------------------------------
T ss_pred             ceeeec-----------ceeecchhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccccch
Confidence            999873           22222222211111111                                              


Q ss_pred             --------------------------------------------------------------------------------
Q psy1308         369 --------------------------------------------------------------------------------  368 (607)
Q Consensus       369 --------------------------------------------------------------------------------  368 (607)
                                                                                                      
T Consensus       152 ~~~~~~~~~~L~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~l~~~~~~  231 (443)
T d1g41a_         152 SSTRQAFRKKLREGQLDDKEIEIDVSAGVSMGVEIMAPPGMEEMTNQLQSLFQNLGSDKTKKRKMKIKDALKALIDDEAA  231 (443)
T ss_dssp             -------------------------------------------------------------------------CCGGGSC
T ss_pred             hhhhHHHHHHHhcCCccccccccccccCCCcccccccccchhhhhhhHHHhhhccCCccccceeeehHHHHHHHHHHHhh
Confidence                                                                                            


Q ss_pred             ----------------CCCeEEEEecCCccC------------HHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         369 ----------------CPNAVVLFDEVDKAH------------PDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       369 ----------------~~~~vl~lDEiek~~------------~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                                      ...+++++||+++.-            ..++..|+.+++...+....| .+...+..+|.++..
T Consensus       232 ~~~~~~~i~~~ai~~v~~~~~~~~dei~k~~~~~~~~g~d~~~eg~~~~ll~~~e~~~v~~~~~-~~~~~~~l~i~~~~~  310 (443)
T d1g41a_         232 KLINPEELKQKAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHG-MVKTDHILFIASGAF  310 (443)
T ss_dssp             SSCCHHHHHHHHHHHHHHHCEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTE-EEECTTCEEEEEECC
T ss_pred             hccchhHHHHHHHHHHhccCccccchhhhhhhcccCCCCCcccchhhhhhhhhccccccccccc-cccccchhhccccch
Confidence                            124577777777642            346677777776555554433 244555666665441


Q ss_pred             chHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHH
Q psy1308         421 ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT  500 (607)
Q Consensus       421 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~  500 (607)
                      ...                                            +   ...|. |||.+||+.++.+.||+.+++.+
T Consensus       311 ~~~--------------------------------------------~---~~gli-PEliGRlPi~v~L~~L~~~dL~r  342 (443)
T d1g41a_         311 QVA--------------------------------------------R---PSDLI-PELQGRLPIRVELTALSAADFER  342 (443)
T ss_dssp             SSC--------------------------------------------C---GGGSC-HHHHTTCCEEEECCCCCHHHHHH
T ss_pred             hhc--------------------------------------------c---cccch-hhhccceEEEEEccCccHHHHHH
Confidence            100                                            0   01244 99999999999999999999999


Q ss_pred             HHHH----HHHHHHHHHhhcCCcEEEeCHhHHHHHHc-cCC-----CCCCccchhHHHHHHHHHHHHHHHHhccCCCCCE
Q psy1308         501 LVCR----ELNFWAKKALDKHNINIVWDIDVETILAD-GYD-----VHYGARSIKHEVERQVVSQLAAAHEKSVIGKGSF  570 (607)
Q Consensus       501 i~~~----~l~~~~~~~~~~~~i~l~~~~~a~~~L~~-~~~-----~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~~~  570 (607)
                      |+..    .+.++...+ ...|+.|+++++|++.+++ ++.     ...|||.|+.++|+.+.+.+.+.=  +  ..+..
T Consensus       343 ILtEPknsLikQy~~lf-~~~gv~L~ft~~al~~iA~~A~~~n~~~~~~GAR~Lr~i~E~~l~~~~f~~p--~--~~~~~  417 (443)
T d1g41a_         343 ILTEPHASLTEQYKALM-ATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSAS--D--MNGQT  417 (443)
T ss_dssp             HHHSSTTCHHHHHHHHH-HTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHHHHHHHHHHGG--G--CTTCE
T ss_pred             HHHhhhhhHHHHHHHHH-hhcCcEEEEcHHHHHHHHHHHHHhhhhcccCCchHHHHHHHHHHHHHhccCC--C--CCCCE
Confidence            9864    444544444 4569999999999999986 564     568999999999999998876642  1  23566


Q ss_pred             EEEEEe
Q psy1308         571 VRLYVQ  576 (607)
Q Consensus       571 v~i~~~  576 (607)
                      +.|+..
T Consensus       418 v~Id~~  423 (443)
T d1g41a_         418 VNIDAA  423 (443)
T ss_dssp             EEECHH
T ss_pred             EEECHH
Confidence            666543

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.47  E-value=3.4e-13  Score=128.05  Aligned_cols=194  Identities=16%  Similarity=0.211  Sum_probs=131.3

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++||+.+++.+..++.......   ..+.+++|+||||+|||.+|+.+++.+...    +..++.+.......+...+
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~---~~~~~~L~~GPpGtGKT~lA~~la~~~~~~----~~~~~~~~~~~~~~~~~~~   81 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRG---EVLDHVLLAGPPGLGKTTLAHIIASELQTN----IHVTSGPVLVKQGDMAAIL   81 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHT---CCCCCEEEESSTTSSHHHHHHHHHHHHTCC----EEEEETTTCCSHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcC---CCCCeEEEECCCCCcHHHHHHHHHhccCCC----cccccCcccccHHHHHHHH
Confidence            358999999999998886543211   112379999999999999999999988543    5555554443322222222


Q ss_pred             cCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCC-------cEEecCceEEEEecCc
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKG-------KTIECKDAIFVMTSNL  420 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g-------~~~~~~~~~iI~tsn~  420 (607)
                                        .....++++++||++++++.+++.|+..++.+......+       ......+++||++||.
T Consensus        82 ------------------~~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~  143 (238)
T d1in4a2          82 ------------------TSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTR  143 (238)
T ss_dssp             ------------------HHCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESC
T ss_pred             ------------------HhhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCC
Confidence                              123346899999999999999999999999876433211       1123467889999883


Q ss_pred             chHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHH
Q psy1308         421 ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT  500 (607)
Q Consensus       421 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~  500 (607)
                      ...                                                   . .+.+..|+..++.|.+++.+++..
T Consensus       144 ~~~---------------------------------------------------~-~~~~~~r~~~~~~~~~~~~~~~~~  171 (238)
T d1in4a2         144 SGL---------------------------------------------------L-SSPLRSRFGIILELDFYTVKELKE  171 (238)
T ss_dssp             GGG---------------------------------------------------S-CHHHHTTCSEEEECCCCCHHHHHH
T ss_pred             Ccc---------------------------------------------------c-cccceeeeeEEEEecCCCHHHHHH
Confidence            211                                                   1 167778888889999999999998


Q ss_pred             HHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         501 LVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       501 i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      ++......          ..+.+++++++.++. +. .+..|..-+.+++
T Consensus       172 ~l~~~~~~----------~~~~~~~~~l~~i~~-~s-~gd~R~ai~~l~~  209 (238)
T d1in4a2         172 IIKRAASL----------MDVEIEDAAAEMIAK-RS-RGTPRIAIRLTKR  209 (238)
T ss_dssp             HHHHHHHH----------TTCCBCHHHHHHHHH-TS-TTCHHHHHHHHHH
T ss_pred             HHHHhhhh----------ccchhhHHHHHHHHH-hC-CCCHHHHHHHHHH
Confidence            87654421          124578999999875 32 3456666666654

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=99.40  E-value=9.1e-13  Score=125.29  Aligned_cols=199  Identities=17%  Similarity=0.241  Sum_probs=126.7

Q ss_pred             hHhhhhHHHHHHHHHHHHHhh--CCCC--CCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchh
Q psy1308         268 DRIVGQESAINIISAAIKRKE--NGWT--DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~--~~~~--~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~  343 (607)
                      ..++|.+...+.+.+.+....  ..+.  ....|..++|+||+|||||.+++.+++.+..    +++.++++.+..    
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~----~~~~i~~~~l~~----   83 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV----PFFTISGSDFVE----   83 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC----CEEEECSCSSTT----
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCC----CEEEEEhHHhhh----
Confidence            457788888877766553221  1111  1223558999999999999999999998854    599999887642    


Q ss_pred             HhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccC-----------H---HHHHHHHHhhccceeecCCCcEE
Q psy1308         344 AKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAH-----------P---DVLTVLLQLFDEGRLTDGKGKTI  407 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~-----------~---~~~~~Ll~~~~~~~~~~~~g~~~  407 (607)
                              .|+|....  ..+....+....+||||||+|.+-           +   .+.+.|+..++.-.         
T Consensus        84 --------~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~---------  146 (256)
T d1lv7a_          84 --------MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFE---------  146 (256)
T ss_dssp             --------SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCC---------
T ss_pred             --------cchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCC---------
Confidence                    23332221  123445556678999999998752           1   24566777776321         


Q ss_pred             ecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--cccc
Q psy1308         408 ECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRIN  485 (607)
Q Consensus       408 ~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~  485 (607)
                      +-.+++||+|||...                                                   .+ .|.|+  +||+
T Consensus       147 ~~~~v~vIatTn~~~---------------------------------------------------~l-d~al~R~gRfd  174 (256)
T d1lv7a_         147 GNEGIIVIAATNRPD---------------------------------------------------VL-DPALLRPGRFD  174 (256)
T ss_dssp             SSSCEEEEEEESCTT---------------------------------------------------TS-CGGGGSTTSSC
T ss_pred             CCCCEEEEEeCCCcc---------------------------------------------------cC-CHhHcCCCCCC
Confidence            124678999999210                                                   01 16665  4899


Q ss_pred             ceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHH
Q psy1308         486 EIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQ  555 (607)
Q Consensus       486 ~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~  555 (607)
                      ..+.|.|++.++..+|++..+.          +..+. .+.-+..|++ ....+..+.|++.+.+.....
T Consensus       175 ~~i~i~~P~~~~R~~il~~~l~----------~~~~~-~~~~~~~la~-~t~G~s~adi~~l~~~A~~~a  232 (256)
T d1lv7a_         175 RQVVVGLPDVRGREQILKVHMR----------RVPLA-PDIDAAIIAR-GTPGFSGADLANLVNEAALFA  232 (256)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHT----------TSCBC-TTCCHHHHHH-TCTTCCHHHHHHHHHHHHHHH
T ss_pred             EEEECCCcCHHHHHHHHHHhcc----------CCCcC-cccCHHHHHH-hCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999876553          11222 2233455654 334455677887777654443

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.38  E-value=9.7e-13  Score=124.21  Aligned_cols=188  Identities=19%  Similarity=0.249  Sum_probs=128.5

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~l  346 (607)
                      ..++||+.+++.+...+....        +.+++|+||+|+|||.+++.+++.+.... ...++.++++...+.......
T Consensus        24 ~diig~~~~~~~l~~~i~~~~--------~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~~~~~~   95 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTGS--------MPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREK   95 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC--------CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC--------CCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccchhHHHHH
Confidence            358999999999988886543        22689999999999999999999875421 335677777665443332222


Q ss_pred             hcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHH
Q psy1308         347 IGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA  426 (607)
Q Consensus       347 lg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~  426 (607)
                      .....          ...........++++||++.+....+..|+.+++.+.           .++++|+++|....   
T Consensus        96 ~~~~~----------~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~-----------~~~~~i~~~n~~~~---  151 (231)
T d1iqpa2          96 VKEFA----------RTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFS-----------SNVRFILSCNYSSK---  151 (231)
T ss_dssp             HHHHH----------HSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTT-----------TTEEEEEEESCGGG---
T ss_pred             HHHHH----------hhhhccCCCceEEeehhhhhcchhHHHHHhhhcccCC-----------cceEEEeccCChhh---
Confidence            21000          0011123356799999999999999999999998543           56788999882110   


Q ss_pred             HHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHH
Q psy1308         427 QHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCREL  506 (607)
Q Consensus       427 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l  506 (607)
                                                                      . .+.+.+|+ .++.|.|++.+++..++...+
T Consensus       152 ------------------------------------------------i-~~~l~sR~-~~i~~~~~~~~~~~~~l~~~~  181 (231)
T d1iqpa2         152 ------------------------------------------------I-IEPIQSRC-AIFRFRPLRDEDIAKRLRYIA  181 (231)
T ss_dssp             ------------------------------------------------S-CHHHHHTE-EEEECCCCCHHHHHHHHHHHH
T ss_pred             ------------------------------------------------c-hHhHhCcc-ccccccccchhhHHHHHHHHH
Confidence                                                            1 15677777 568999999999999876655


Q ss_pred             HHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHH
Q psy1308         507 NFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVE  549 (607)
Q Consensus       507 ~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~  549 (607)
                      .        ..+  +.+++++++.|++.+  .+.+|.+-+.++
T Consensus       182 ~--------~e~--i~i~~~~l~~I~~~~--~gdiR~ai~~Lq  212 (231)
T d1iqpa2         182 E--------NEG--LELTEEGLQAILYIA--EGDMRRAINILQ  212 (231)
T ss_dssp             H--------TTT--CEECHHHHHHHHHHH--TTCHHHHHHHHH
T ss_pred             H--------HhC--CCCCHHHHHHHHHHc--CCCHHHHHHHHH
Confidence            3        123  468999999998622  245555444443

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.37  E-value=2.6e-12  Score=121.79  Aligned_cols=187  Identities=19%  Similarity=0.260  Sum_probs=121.8

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCC--------------------c
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKE--------------------A  328 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~--------------------~  328 (607)
                      .++||+..++.+...+....       -|-.++|+||+|+|||.+|+.+++.++.....                    .
T Consensus        13 dlig~~~~~~~L~~~i~~~~-------~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~   85 (239)
T d1njfa_          13 DVVGQEHVLTALANGLSLGR-------IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVD   85 (239)
T ss_dssp             GSCSCHHHHHHHHHHHHTTC-------CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTT
T ss_pred             HccChHHHHHHHHHHHHcCC-------CCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCe
Confidence            68999999999888776432       13368999999999999999999987653211                    1


Q ss_pred             eEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEe
Q psy1308         329 FIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIE  408 (607)
Q Consensus       329 ~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~  408 (607)
                      +..++.+.......+.+++..-. +.-           .....-+++|||+|+++++.|+.|++.+|+.           
T Consensus        86 ~~~~~~~~~~~i~~ir~~~~~~~-~~~-----------~~~~~kviiIde~d~l~~~~q~~Llk~lE~~-----------  142 (239)
T d1njfa_          86 LIEIDAASRTKVEDTRDLLDNVQ-YAP-----------ARGRFKVYLIDEVHMLSRHSFNALLKTLEEP-----------  142 (239)
T ss_dssp             EEEEETTCSSSHHHHHHHHHSCC-CSC-----------SSSSSEEEEEETGGGSCHHHHHHHHHHHHSC-----------
T ss_pred             EEEecchhcCCHHHHHHHHHHHH-hcc-----------ccCCCEEEEEECcccCCHHHHHHHHHHHhcC-----------
Confidence            22233222222122222221100 000           0112459999999999999999999999853           


Q ss_pred             cCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccccee
Q psy1308         409 CKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIV  488 (607)
Q Consensus       409 ~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv  488 (607)
                      ..+++||++||.-.                                                   .+. +.+.+|+ .++
T Consensus       143 ~~~~~~il~tn~~~---------------------------------------------------~i~-~~i~SRc-~~i  169 (239)
T d1njfa_         143 PEHVKFLLATTDPQ---------------------------------------------------KLP-VTILSRC-LQF  169 (239)
T ss_dssp             CTTEEEEEEESCGG---------------------------------------------------GSC-HHHHTTS-EEE
T ss_pred             CCCeEEEEEcCCcc---------------------------------------------------ccC-hhHhhhh-ccc
Confidence            25678999988210                                                   122 6778888 578


Q ss_pred             eeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         489 YFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       489 ~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      .|.|++.+++..++......       . +  ..+++++++.|+. +. .+..|..-+.+++
T Consensus       170 ~~~~~~~~~i~~~l~~i~~~-------e-~--~~~~~~~l~~i~~-~s-~Gd~R~ain~l~~  219 (239)
T d1njfa_         170 HLKALDVEQIRHQLEHILNE-------E-H--IAHEPRALQLLAR-AA-EGSLRDALSLTDQ  219 (239)
T ss_dssp             ECCCCCHHHHHHHHHHHHHH-------H-T--CCBCHHHHHHHHH-HT-TTCHHHHHHHHHH
T ss_pred             ccccCcHHHhhhHHHHHHhh-------h-c--cCCCHHHHHHHHH-Hc-CCCHHHHHHHHHH
Confidence            99999999998876655542       1 2  3579999999986 33 3556655555543

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=99.36  E-value=5.4e-13  Score=126.36  Aligned_cols=194  Identities=19%  Similarity=0.240  Sum_probs=120.3

Q ss_pred             HhhhhHHHHHHHHHHHHH-------hhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc
Q psy1308         269 RIVGQESAINIISAAIKR-------KENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH  341 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~-------~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~  341 (607)
                      .++|.+..++.+.+.+..       ...+   ...|..++|+||+|||||.+++++++.+.    .+++.++++.+..  
T Consensus        10 di~G~~~~k~~l~~~i~~l~~~~~~~~~g---~~~~~giLl~GppGtGKT~la~aia~~~~----~~~~~i~~~~l~~--   80 (247)
T d1ixza_          10 DVAGAEEAKEELKEIVEFLKNPSRFHEMG---ARIPKGVLLVGPPGVGKTHLARAVAGEAR----VPFITASGSDFVE--   80 (247)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHCHHHHHHTT---CCCCSEEEEECCTTSSHHHHHHHHHHHTT----CCEEEEEHHHHHH--
T ss_pred             HHccHHHHHHHHHHHHHHHHCHHHHHHcC---CCCCceEEEecCCCCChhHHHHHHHHHcC----CCEEEEEhHHhhh--
Confidence            466777666666544321       1112   12345799999999999999999999874    4588888865422  


Q ss_pred             hhHhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCccCH--------------HHHHHHHHhhccceeecCCCc
Q psy1308         342 EVAKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKAHP--------------DVLTVLLQLFDEGRLTDGKGK  405 (607)
Q Consensus       342 ~~~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~~~--------------~~~~~Ll~~~~~~~~~~~~g~  405 (607)
                                .|+|....  ..+....+...++||||||||.+-.              .+++.|+..++.-  .     
T Consensus        81 ----------~~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~--~-----  143 (247)
T d1ixza_          81 ----------MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGF--E-----  143 (247)
T ss_dssp             ----------SCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTC--C-----
T ss_pred             ----------ccccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCC--C-----
Confidence                      23332111  1223334455678999999987521              2566777777631  1     


Q ss_pred             EEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--cc
Q psy1308         406 TIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GR  483 (607)
Q Consensus       406 ~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~r  483 (607)
                        ...+++||+|||.. +                                                  .+ .|.|+  +|
T Consensus       144 --~~~~vivi~tTn~~-~--------------------------------------------------~l-d~al~R~~R  169 (247)
T d1ixza_         144 --KDTAIVVMAATNRP-D--------------------------------------------------IL-DPALLRPGR  169 (247)
T ss_dssp             --TTCCEEEEEEESCG-G--------------------------------------------------GS-CGGGGSTTS
T ss_pred             --CCCCEEEEEeCCCc-c--------------------------------------------------cc-CHhHcCCCC
Confidence              12467889999921 0                                                  01 15555  58


Q ss_pred             ccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHH
Q psy1308         484 INEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVS  554 (607)
Q Consensus       484 i~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~  554 (607)
                      |+..+.|.|++.++..+|++..+...        ...   .+.-++.|++ ....+-++.|++.+.+....
T Consensus       170 f~~~i~~~~P~~~eR~~il~~~l~~~--------~~~---~~~~~~~la~-~t~g~s~~di~~lv~~A~l~  228 (247)
T d1ixza_         170 FDRQIAIDAPDVKGREQILRIHARGK--------PLA---EDVDLALLAK-RTPGFVGADLENLLNEAALL  228 (247)
T ss_dssp             SCEEEECCSCCHHHHHHHHHHHHTTS--------CBC---TTCCHHHHHH-TCTTCCHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCcCHHHHHHHHHHHhccc--------CCc---cccCHHHHHH-HCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999987766421        111   2223566664 33344556788777665443

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=99.35  E-value=9.5e-12  Score=117.89  Aligned_cols=195  Identities=14%  Similarity=0.169  Sum_probs=129.8

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI  347 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll  347 (607)
                      ..++||+.+++.+..++......   ...+.+++|+||||+|||.+|+.+++.+...    +..++.+...........+
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~---~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~----~~~~~~~~~~~~~~~~~~~   81 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKAR---KEPLEHLLLFGPPGLGKTTLAHVIAHELGVN----LRVTSGPAIEKPGDLAAIL   81 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTS---SSCCCCEEEECCTTSCHHHHHHHHHHHHTCC----EEEEETTTCCSHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhc---CCCCCeEEEECCCCCCHHHHHHHHHHHhCCC----eEeccCCccccchhhHHHH
Confidence            35899999999998888765432   1123478999999999999999999988543    6666655543322211111


Q ss_pred             cCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCC-------CcEEecCceEEEEecCc
Q psy1308         348 GAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGK-------GKTIECKDAIFVMTSNL  420 (607)
Q Consensus       348 g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~-------g~~~~~~~~~iI~tsn~  420 (607)
                      .               .  ....++++++||++++++..+..|+..++++......       ....+..++++|++++.
T Consensus        82 ~---------------~--~~~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  144 (239)
T d1ixsb2          82 A---------------N--SLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTR  144 (239)
T ss_dssp             H---------------T--TCCTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESC
T ss_pred             H---------------h--hccCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccC
Confidence            0               0  0123579999999999999999999999876433211       12344566778887772


Q ss_pred             chHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHH
Q psy1308         421 ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHT  500 (607)
Q Consensus       421 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~  500 (607)
                      ...                                                   . .+..+.|....+.|.+++.+++..
T Consensus       145 ~~~---------------------------------------------------~-~~~~l~~~~~~~~~~~~~~~~~~~  172 (239)
T d1ixsb2         145 PGL---------------------------------------------------I-TAPLLSRFGIVEHLEYYTPEELAQ  172 (239)
T ss_dssp             CSS---------------------------------------------------C-SCGGGGGCSEEEECCCCCHHHHHH
T ss_pred             ccc---------------------------------------------------c-cchhhcccceeeEeeccChhhhhH
Confidence            100                                                   0 145566677788889999999988


Q ss_pred             HHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         501 LVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       501 i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      ++...+.          ...+.+++++++.++. .. .+.+|...+.+++
T Consensus       173 i~~~~~~----------~~~i~~~~~~l~~ia~-~s-~gd~R~a~~~l~~  210 (239)
T d1ixsb2         173 GVMRDAR----------LLGVRITEEAALEIGR-RS-RGTMRVAKRLFRR  210 (239)
T ss_dssp             HHHHHHG----------GGCCCBCHHHHHHHHH-HT-TSSHHHHHHHHHH
T ss_pred             HHHHHHH----------HhCCccchHHHHHHHH-Hc-CCCHHHHHHHHHH
Confidence            8665442          1245778999999885 21 3456666666554

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.33  E-value=1.1e-12  Score=124.35  Aligned_cols=199  Identities=16%  Similarity=0.150  Sum_probs=127.6

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc--CCceEEeecccccccchhHhh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK--KEAFIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~--~~~~~~l~~a~~~~~~~~~~l  346 (607)
                      .++|++..++.+...+....        ..+++|+||+|+|||.+++.+++.+...+  .......+.+...+.......
T Consensus        13 diig~~~~~~~l~~~i~~~~--------~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (237)
T d1sxjd2          13 EVTAQDHAVTVLKKTLKSAN--------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREK   84 (237)
T ss_dssp             TCCSCCTTHHHHHHHTTCTT--------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTH
T ss_pred             HccCcHHHHHHHHHHHHcCC--------CCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHH
Confidence            47888888888776654221        22588999999999999999999864321  233555666555543332222


Q ss_pred             hcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHH
Q psy1308         347 IGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA  426 (607)
Q Consensus       347 lg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~  426 (607)
                      +......................+..+++|||++.++...++.|+.+++...           .+++||++++....   
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~-----------~~~~~i~~~~~~~~---  150 (237)
T d1sxjd2          85 VKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYS-----------GVTRFCLICNYVTR---  150 (237)
T ss_dssp             HHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTT-----------TTEEEEEEESCGGG---
T ss_pred             HHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhcccccc-----------cccccccccccccc---
Confidence            2111111111111222233334456799999999999999999999988542           56677877772110   


Q ss_pred             HHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHH
Q psy1308         427 QHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCREL  506 (607)
Q Consensus       427 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l  506 (607)
                                                                      .. +.+.+|+ .++.|.|++.+++..++...+
T Consensus       151 ------------------------------------------------~~-~~l~sr~-~~i~f~~~~~~~~~~~L~~i~  180 (237)
T d1sxjd2         151 ------------------------------------------------II-DPLASQC-SKFRFKALDASNAIDRLRFIS  180 (237)
T ss_dssp             ------------------------------------------------SC-HHHHHHS-EEEECCCCCHHHHHHHHHHHH
T ss_pred             ------------------------------------------------cc-ccccchh-hhhccccccccccchhhhhhh
Confidence                                                            11 5567777 578999999999998876543


Q ss_pred             HHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHH
Q psy1308         507 NFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQ  551 (607)
Q Consensus       507 ~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~  551 (607)
                      .        ..+  +.++++++++|++..  .+++|..-+.++++
T Consensus       181 ~--------~e~--i~i~~~~l~~ia~~s--~gd~R~ai~~L~~~  213 (237)
T d1sxjd2         181 E--------QEN--VKCDDGVLERILDIS--AGDLRRGITLLQSA  213 (237)
T ss_dssp             H--------TTT--CCCCHHHHHHHHHHT--SSCHHHHHHHHHHT
T ss_pred             h--------hhc--CcCCHHHHHHHHHHc--CCCHHHHHHHHHHH
Confidence            2        123  368999999998622  45677666666543

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.28  E-value=4.4e-12  Score=119.22  Aligned_cols=174  Identities=19%  Similarity=0.272  Sum_probs=117.7

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~l  346 (607)
                      ..++||+.+++.+...+....        ..+++|+||+|+|||.+++.+++.++..+ ...+...+.+...+.......
T Consensus        14 ~divg~~~~~~~L~~~i~~~~--------~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~   85 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGK--------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQ   85 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC--------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHccCcHHHHHHHHHHHHcCC--------CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecc
Confidence            358999999999888876432        22588999999999999999999876542 223455565554433222211


Q ss_pred             hcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHH
Q psy1308         347 IGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA  426 (607)
Q Consensus       347 lg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~  426 (607)
                      +...          .....+......++++||++.+++..++.|+..+++.           ..+++|++++|....   
T Consensus        86 ~~~~----------~~~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~-----------~~~~~~~~~~~~~~~---  141 (227)
T d1sxjc2          86 IKDF----------ASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERY-----------TKNTRFCVLANYAHK---  141 (227)
T ss_dssp             HHHH----------HHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHT-----------TTTEEEEEEESCGGG---
T ss_pred             hhhc----------cccccccCCCeEEEEEeccccchhhHHHHHHHHhhhc-----------ccceeeccccCcHHH---
Confidence            1000          0000011122459999999999999999999999853           257788888882110   


Q ss_pred             HHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHH
Q psy1308         427 QHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCREL  506 (607)
Q Consensus       427 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l  506 (607)
                                                                      .. +.+.+|+ ..+.|.|++.+++..++...+
T Consensus       142 ------------------------------------------------i~-~~i~sr~-~~i~~~~~~~~~i~~~l~~I~  171 (227)
T d1sxjc2         142 ------------------------------------------------LT-PALLSQC-TRFRFQPLPQEAIERRIANVL  171 (227)
T ss_dssp             ------------------------------------------------SC-HHHHTTS-EEEECCCCCHHHHHHHHHHHH
T ss_pred             ------------------------------------------------hH-HHHHHHH-hhhcccccccccccccccccc
Confidence                                                            11 6677777 567899999999988877654


Q ss_pred             HHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         507 NFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       507 ~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .       . .+  +.+++++++.|++
T Consensus       172 ~-------~-e~--i~i~~~~l~~i~~  188 (227)
T d1sxjc2         172 V-------H-EK--LKLSPNAEKALIE  188 (227)
T ss_dssp             H-------T-TT--CCBCHHHHHHHHH
T ss_pred             c-------c-cc--ccCCHHHHHHHHH
Confidence            3       1 23  3579999999986

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.19  E-value=1.4e-11  Score=115.45  Aligned_cols=190  Identities=15%  Similarity=0.205  Sum_probs=125.0

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccchhHhh
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHEVAKL  346 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~~~~l  346 (607)
                      ..++||+..++.+...+....        ..+++|+||+|+|||.+|+.+++.+.... ......++.+...+...+...
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~--------~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~   86 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGN--------MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQ   86 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC--------CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHhcCCHHHHHHHHHHHHcCC--------CCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhH
Confidence            358999999999888776432        12588999999999999999999876432 223556666655443332221


Q ss_pred             hcCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHH
Q psy1308         347 IGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIA  426 (607)
Q Consensus       347 lg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~  426 (607)
                      +...   ...      ..........++++||++.+....|+.|+..++..           ..+++||++++.-.    
T Consensus        87 ~~~~---~~~------~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~-----------~~~~~~i~~~~~~~----  142 (224)
T d1sxjb2          87 IKHF---AQK------KLHLPPGKHKIVILDEADSMTAGAQQALRRTMELY-----------SNSTRFAFACNQSN----  142 (224)
T ss_dssp             HHHH---HHB------CCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHT-----------TTTEEEEEEESCGG----
T ss_pred             HHHH---HHh------hccCCCcceEEEEEecccccchhHHHHHhhhcccc-----------ccceeeeeccCchh----
Confidence            1000   000      00001123569999999999999999999999853           35677888877210    


Q ss_pred             HHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCHHHHHHHHHHHH
Q psy1308         427 QHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSKSELHTLVCREL  506 (607)
Q Consensus       427 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~~~~~~i~~~~l  506 (607)
                                                                     ... +.+.+|+ .++.|.|++.+++..++...+
T Consensus       143 -----------------------------------------------~i~-~~l~sr~-~~i~~~~~~~~~i~~~l~~i~  173 (224)
T d1sxjb2         143 -----------------------------------------------KII-EPLQSQC-AILRYSKLSDEDVLKRLLQII  173 (224)
T ss_dssp             -----------------------------------------------GSC-HHHHTTS-EEEECCCCCHHHHHHHHHHHH
T ss_pred             -----------------------------------------------hhh-hHHHHHH-HHhhhcccchhhhHHHHHHHH
Confidence                                                           011 6677887 568999999999998876655


Q ss_pred             HHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHH
Q psy1308         507 NFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVER  550 (607)
Q Consensus       507 ~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~  550 (607)
                      ..       + +  +.+++++++.|+..  ..+..|..-+.++.
T Consensus       174 ~~-------e-~--~~i~~~~l~~I~~~--s~Gd~R~ai~~Lq~  205 (224)
T d1sxjb2         174 KL-------E-D--VKYTNDGLEAIIFT--AEGDMRQAINNLQS  205 (224)
T ss_dssp             HH-------H-T--CCBCHHHHHHHHHH--HTTCHHHHHHHHHH
T ss_pred             Hh-------c-c--cCCCHHHHHHHHHH--cCCcHHHHHHHHHH
Confidence            42       1 2  45789999998751  13555655555554

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.18  E-value=1.3e-11  Score=116.87  Aligned_cols=130  Identities=18%  Similarity=0.222  Sum_probs=80.7

Q ss_pred             HhHhhhhHHHHHHHHHHHHHhhCC-CCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhH
Q psy1308         267 KDRIVGQESAINIISAAIKRKENG-WTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVA  344 (607)
Q Consensus       267 ~~~i~Gq~~ai~~l~~~i~~~~~~-~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~  344 (607)
                      .+.++|+...++.+.+........ .+....|. .+||+||+|||||.+++.+|..+..    +|+.++++..-.     
T Consensus         8 ~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~----~~~~i~~~~~~~-----   78 (246)
T d1d2na_           8 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF----PFIKICSPDKMI-----   78 (246)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTC----SEEEEECGGGCT-----
T ss_pred             ccCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcccc----cccccccccccc-----
Confidence            345677666666554443321100 01122344 8999999999999999999998744    588888764211     


Q ss_pred             hhhcCCCCCccCCCCc---hhhHHHhhCCCeEEEEecCCcc----------CHHHHHHHHHhhccceeecCCCcEEecCc
Q psy1308         345 KLIGAPPGYLGHDDGG---QLTKRLKKCPNAVVLFDEVDKA----------HPDVLTVLLQLFDEGRLTDGKGKTIECKD  411 (607)
Q Consensus       345 ~llg~~~g~~g~~~~~---~l~~~~~~~~~~vl~lDEiek~----------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~  411 (607)
                             |+.+.....   .+.+..++...+||||||||++          ...+.+.|+..++...        ....+
T Consensus        79 -------g~~~~~~~~~i~~if~~A~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~--------~~~~~  143 (246)
T d1d2na_          79 -------GFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAP--------PQGRK  143 (246)
T ss_dssp             -------TCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCC--------STTCE
T ss_pred             -------cccccchhhhhhhhhhhhhhcccceeehhhhhhHhhhcccccchhHHHHHHHHHHhcCCC--------ccccc
Confidence                   111111111   2334456667899999999875          3346677888877432        12356


Q ss_pred             eEEEEecCc
Q psy1308         412 AIFVMTSNL  420 (607)
Q Consensus       412 ~~iI~tsn~  420 (607)
                      ++||+|||.
T Consensus       144 v~vi~tTn~  152 (246)
T d1d2na_         144 LLIIGTTSR  152 (246)
T ss_dssp             EEEEEEESC
T ss_pred             eeeeeccCC
Confidence            789999993

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.14  E-value=1.4e-10  Score=110.52  Aligned_cols=201  Identities=17%  Similarity=0.180  Sum_probs=125.9

Q ss_pred             hHhhhhHHHHHHHHHHHHH--------hhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc
Q psy1308         268 DRIVGQESAINIISAAIKR--------KENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~--------~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~  339 (607)
                      ..+.|.+..++.+.+.+..        ...+..   .|..+||+||+|||||.++++++..+..    ++..++++.+..
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~---~~~giLL~GppGtGKT~l~~ala~~~~~----~~~~i~~~~l~~   76 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVK---PPRGILLYGPPGTGKTLIARAVANETGA----FFFLINGPEIMS   76 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCC---CCCEEEEECCTTSSHHHHHHHHHHHTTC----EEEEECHHHHTT
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCC---CCceeEEecCCCCCchHHHHHHHHHhCC----eEEEEEchhhcc
Confidence            3577888887777766432        122222   2447999999999999999999998744    477777765432


Q ss_pred             cchhHhhhcCCCCCccCC--CCchhhHHHhhCCCeEEEEecCCccCH-----------HHHHHHHHhhccceeecCCCcE
Q psy1308         340 KHEVAKLIGAPPGYLGHD--DGGQLTKRLKKCPNAVVLFDEVDKAHP-----------DVLTVLLQLFDEGRLTDGKGKT  406 (607)
Q Consensus       340 ~~~~~~llg~~~g~~g~~--~~~~l~~~~~~~~~~vl~lDEiek~~~-----------~~~~~Ll~~~~~~~~~~~~g~~  406 (607)
                      .            |.|..  .-..+....+....+||||||+|.+-+           .+...++..++..         
T Consensus        77 ~------------~~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~---------  135 (258)
T d1e32a2          77 K------------LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGL---------  135 (258)
T ss_dssp             S------------CTTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTC---------
T ss_pred             c------------ccccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccc---------
Confidence            1            11100  011233445566789999999999742           2445555555421         


Q ss_pred             EecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc--cc
Q psy1308         407 IECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG--RI  484 (607)
Q Consensus       407 ~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~--ri  484 (607)
                      ....++++|+|||....                                                   +. |.+..  ||
T Consensus       136 ~~~~~vlvi~tTn~~~~---------------------------------------------------ld-~al~r~gRf  163 (258)
T d1e32a2         136 KQRAHVIVMAATNRPNS---------------------------------------------------ID-PALRRFGRF  163 (258)
T ss_dssp             CCSSCEEEEEEESCGGG---------------------------------------------------SC-GGGTSTTSS
T ss_pred             cccCCccEEEeCCCccc---------------------------------------------------cc-hhhhhcccc
Confidence            12246789999992110                                                   11 55554  89


Q ss_pred             cceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHH
Q psy1308         485 NEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAH  560 (607)
Q Consensus       485 ~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~  560 (607)
                      +..+.|.+++.++..+|+...+..          ..+. ++.-++.|++ ....+-++.|++.+.+....++.+..
T Consensus       164 d~~i~~~~P~~~~R~~il~~~l~~----------~~~~-~~~~~~~la~-~t~G~s~adl~~lv~~A~~~a~~~~~  227 (258)
T d1e32a2         164 DREVDIGIPDATGRLEILQIHTKN----------MKLA-DDVDLEQVAN-ETHGHVGADLAALCSEAALQAIRKKM  227 (258)
T ss_dssp             CEEEECCCCCHHHHHHHHHHTTTT----------SCBC-TTCCHHHHHH-HCTTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cceeECCCCCHHHHHHHhhhhccC----------cccc-cccchhhhhh-cccCCCHHHHHHHHHHHHHHHHHhhc
Confidence            999999999999999998776531          1111 2222566664 33334567799888877766665543

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.06  E-value=2.5e-09  Score=102.69  Aligned_cols=218  Identities=16%  Similarity=0.200  Sum_probs=134.5

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh-
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI-  347 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll-  347 (607)
                      .++|++..++.+..++.....+  ....|.+++++||+|+|||.+++.+++.+.......++.+++............+ 
T Consensus        17 ~l~~Re~ei~~l~~~l~~~l~~--~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (276)
T d1fnna2          17 RLPHREQQLQQLDILLGNWLRN--PGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIA   94 (276)
T ss_dssp             CCTTCHHHHHHHHHHHHHHHHS--TTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHhC--CCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhhH
Confidence            4788899999998888765322  1223558999999999999999999999876545566667666554433332222 


Q ss_pred             ---cCCCCCccCCCC---chhhHHH-hhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         348 ---GAPPGYLGHDDG---GQLTKRL-KKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       348 ---g~~~g~~g~~~~---~~l~~~~-~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                         +....+.+....   ..+...+ ......++++|+++.+....+..+..++......       ...++++|++++.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~-------~~~~~~~i~~~~~  167 (276)
T d1fnna2          95 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKL-------GAFRIALVIVGHN  167 (276)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHH-------SSCCEEEEEEESS
T ss_pred             HhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccc-------cccceEEeecCCc
Confidence               211122221111   1122222 2335778889999999999888888777643221       1245667787772


Q ss_pred             chHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhcccc-ceeeeccCCHHHHH
Q psy1308         421 ASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRIN-EIVYFLPFSKSELH  499 (607)
Q Consensus       421 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~-~iv~f~pl~~~~~~  499 (607)
                      ... .                                               ..+. +.+.+|+. ..+.|.|++.+++.
T Consensus       168 ~~~-~-----------------------------------------------~~~~-~~~~~r~~~~~i~~~~~~~~e~~  198 (276)
T d1fnna2         168 DAV-L-----------------------------------------------NNLD-PSTRGIMGKYVIRFSPYTKDQIF  198 (276)
T ss_dssp             THH-H-----------------------------------------------HTSC-HHHHHHHTTCEEECCCCBHHHHH
T ss_pred             hhh-h-----------------------------------------------hhcc-hhhhhhhcchhccccchhHHHHH
Confidence            111 0                                               1121 45555543 45789999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc---cC----CCCCCccchhHHHHHHH
Q psy1308         500 TLVCRELNFWAKKALDKHNINIVWDIDVETILAD---GY----DVHYGARSIKHEVERQV  552 (607)
Q Consensus       500 ~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~---~~----~~~~GaR~L~~~i~~~i  552 (607)
                      +|+...+....        ....+++++++.|+.   .+    ...+++|...+.+++.+
T Consensus       199 ~il~~r~~~~~--------~~~~~~~~~l~~ia~~~~~~~~~~~~~G~~R~a~~ll~~a~  250 (276)
T d1fnna2         199 DILLDRAKAGL--------AEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSA  250 (276)
T ss_dssp             HHHHHHHHHHB--------CTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc--------ccccccHHHHHHHHHHhhhhhhhhhcCCCHHHHHHHHHHHH
Confidence            99887664211        112368999998863   11    23456777666666543

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.03  E-value=4.4e-10  Score=106.97  Aligned_cols=184  Identities=15%  Similarity=0.183  Sum_probs=103.9

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIG  348 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg  348 (607)
                      .++|++..+..+...+..       ...+-.++|+||+|+|||.+++.+++.+...+ ......+.............++
T Consensus        12 diig~~~~~~~L~~~~~~-------~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~   83 (252)
T d1sxje2          12 ALSHNEELTNFLKSLSDQ-------PRDLPHLLLYGPNGTGKKTRCMALLESIFGPG-VYRLKIDVRQFVTASNRKLELN   83 (252)
T ss_dssp             GCCSCHHHHHHHHTTTTC-------TTCCCCEEEECSTTSSHHHHHHTHHHHHSCTT-CCC------------------C
T ss_pred             HccCcHHHHHHHHHHHHc-------CCCCCeEEEECCCCCCHHHHHHHHHHhhcCcc-ccccccccccccccccchhhhh
Confidence            588888877776544321       12233689999999999999999999874431 1111111111110000000000


Q ss_pred             C---------CCCCccCCCCchhh-----------------HHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecC
Q psy1308         349 A---------PPGYLGHDDGGQLT-----------------KRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDG  402 (607)
Q Consensus       349 ~---------~~g~~g~~~~~~l~-----------------~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~  402 (607)
                      .         .....+........                 .........+++|||+|.++...++.|++.+++.     
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~-----  158 (252)
T d1sxje2          84 VVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKY-----  158 (252)
T ss_dssp             CEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHS-----
T ss_pred             hccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccc-----
Confidence            0         00000000000000                 0011223569999999999999999999999843     


Q ss_pred             CCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhc
Q psy1308         403 KGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLG  482 (607)
Q Consensus       403 ~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~  482 (607)
                            ..+++||++||..                                                   .... +.+.+
T Consensus       159 ------~~~~~~Il~tn~~---------------------------------------------------~~i~-~~l~s  180 (252)
T d1sxje2         159 ------SKNIRLIMVCDSM---------------------------------------------------SPII-APIKS  180 (252)
T ss_dssp             ------TTTEEEEEEESCS---------------------------------------------------CSSC-HHHHT
T ss_pred             ------cccccceeeeccc---------------------------------------------------cchh-hhhhc
Confidence                  2567899998821                                                   0112 67888


Q ss_pred             cccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         483 RINEIVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       483 ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      |+ .++.|.|++.+++.+++...+..        .++.+. ++++++.|+.
T Consensus       181 R~-~~i~~~~~~~~~~~~~l~~i~~~--------e~~~~~-~~~~l~~i~~  221 (252)
T d1sxje2         181 QC-LLIRCPAPSDSEISTILSDVVTN--------ERIQLE-TKDILKRIAQ  221 (252)
T ss_dssp             TS-EEEECCCCCHHHHHHHHHHHHHH--------HTCEEC-CSHHHHHHHH
T ss_pred             ch-heeeecccchhhHHHHHHHHHHH--------cCCCCC-cHHHHHHHHH
Confidence            88 57889999999999887655431        144332 4678888874

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=99.03  E-value=3.8e-10  Score=112.18  Aligned_cols=138  Identities=18%  Similarity=0.213  Sum_probs=87.0

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc--------
Q psy1308         268 DRIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE--------  339 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~--------  339 (607)
                      ..++||+.++..+.-+......+        +++|.|++|+|||.++|.++..+..     ...+....+..        
T Consensus         7 ~~I~Gq~~~kral~laa~~~~~h--------~vLl~G~pG~GKT~lar~~~~iLp~-----~~~~~~~~~~~~~~~~~~~   73 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPGIG--------GVLVFGDRGTGKSTAVRALAALLPE-----IEAVEGCPVSSPNVEMIPD   73 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGC--------CEEEECCGGGCTTHHHHHHHHHSCC-----EEEETTCTTCCSSGGGSCT
T ss_pred             hhccCcHHHHHHHHHHHhccCCC--------eEEEECCCCccHHHHHHHHHHhCCC-----chhhccCccccCccccccc
Confidence            35899999888665444321111        5899999999999999999988732     11111111110        


Q ss_pred             ---------------------cchhHhhhcCCCC---CccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         340 ---------------------KHEVAKLIGAPPG---YLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       340 ---------------------~~~~~~llg~~~g---~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                                           ......++|....   ..+ +......+.+..+++||+|+||+.++++.+|+.|++.|+
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~d~~~~~~~-g~~~~~~G~l~~A~~gvl~iDEi~~~~~~~~~aLl~~me  152 (333)
T d1g8pa_          74 WATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISK-GEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQ  152 (333)
T ss_dssp             TCCCSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHH-CGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHH
T ss_pred             hhhccccCcccccCceeeccCCCCcccccCcchhhhcccc-CcceeeccccccccccEeecccHHHHHHHHHHHHhhhhc
Confidence                                 0112233331000   000 001112345667788999999999999999999999999


Q ss_pred             cceeecC-CCcEEe-cCceEEEEecC
Q psy1308         396 EGRLTDG-KGKTIE-CKDAIFVMTSN  419 (607)
Q Consensus       396 ~~~~~~~-~g~~~~-~~~~~iI~tsn  419 (607)
                      +|+++-. .|.++. ..++++|+|+|
T Consensus       153 ~~~v~i~r~g~~~~~p~~f~liaa~N  178 (333)
T d1g8pa_         153 SGENVVERDGLSIRHPARFVLVGSGN  178 (333)
T ss_dssp             HSEEEECCTTCCEEEECCEEEEEEEC
T ss_pred             CCeEEecccCceecCCCCEEEEEecC
Confidence            9998853 344443 46778888888

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.99  E-value=1.5e-09  Score=103.56  Aligned_cols=170  Identities=19%  Similarity=0.283  Sum_probs=105.3

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCc---hhhHHHhhCCCeE
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGG---QLTKRLKKCPNAV  373 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~---~l~~~~~~~~~~v  373 (607)
                      |..+||+||+|||||.++++++..+..    +++.++++.+..            .|.|. ...   .+....+....++
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~~~----~~~~~~~~~l~~------------~~~~~-~~~~l~~~f~~A~~~~p~i  103 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANECQA----NFISIKGPELLT------------MWFGE-SEANVREIFDKARQAAPCV  103 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHTTC----EEEEECHHHHHT------------SCTTT-HHHHHHHHHHHHHHTCSEE
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHhCC----cEEEEEHHHhhh------------ccccc-hHHHHHHHHHHHHhcCCcc
Confidence            347999999999999999999998854    488887654421            11111 111   2333445566899


Q ss_pred             EEEecCCccCHH--------------HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhccccc
Q psy1308         374 VLFDEVDKAHPD--------------VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEF  439 (607)
Q Consensus       374 l~lDEiek~~~~--------------~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~  439 (607)
                      |+|||+|.+-..              +.+.|++.++.-         ....+++||+|||....                
T Consensus       104 l~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~---------~~~~~v~vi~ttn~~~~----------------  158 (265)
T d1r7ra3         104 LFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGM---------STKKNVFIIGATNRPDI----------------  158 (265)
T ss_dssp             EEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC---------------CCEEEECCBSCTT----------------
T ss_pred             eeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCc---------CCCCCEEEEEeCCCchh----------------
Confidence            999999987432              456777777521         12245789999992110                


Q ss_pred             ccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhh--ccccceeeeccCCHHHHHHHHHHHHHHHHHHHhhcC
Q psy1308         440 SKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFL--GRINEIVYFLPFSKSELHTLVCRELNFWAKKALDKH  517 (607)
Q Consensus       440 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~--~ri~~iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~  517 (607)
                                                         + +|.|.  +||+..+.|.+++.++..+|++..+...        
T Consensus       159 -----------------------------------l-d~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~--------  194 (265)
T d1r7ra3         159 -----------------------------------I-DPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKS--------  194 (265)
T ss_dssp             -----------------------------------T-SCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC--------
T ss_pred             -----------------------------------C-CHHHhCCCCccEEEEecchHHHHHHHHHHHHhccC--------
Confidence                                               1 15665  4899999999999999999987555321        


Q ss_pred             CcEEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHH
Q psy1308         518 NINIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQL  556 (607)
Q Consensus       518 ~i~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l  556 (607)
                        .+. .+.-++.|++ ....+..+.|...+.+....++
T Consensus       195 --~~~-~~~~l~~la~-~t~g~s~~di~~lv~~A~~~A~  229 (265)
T d1r7ra3         195 --PVA-KDVDLEFLAK-MTNGFSGADLTEICQRACKLAI  229 (265)
T ss_dssp             -------CCCCHHHHH-HHCSSCCHHHHHHHHHHHHHHH
T ss_pred             --Cch-hhhhHHHHHh-cCCCCCHHHHHHHHHHHHHHHH
Confidence              111 1111344442 1122346678888877665554

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.96  E-value=2.9e-09  Score=101.15  Aligned_cols=188  Identities=15%  Similarity=0.084  Sum_probs=112.1

Q ss_pred             hHhhhhHHHHHHHHHHHHHhhC---------CCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccccc
Q psy1308         268 DRIVGQESAINIISAAIKRKEN---------GWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQ  338 (607)
Q Consensus       268 ~~i~Gq~~ai~~l~~~i~~~~~---------~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~  338 (607)
                      ..++|++..++.+...+..+..         +......+..++|+||+|+|||.+++++++.+...    +..++.+...
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~----~~~~~~~~~~   89 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYD----ILEQNASDVR   89 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCE----EEEECTTSCC
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhh----hhccccccch
Confidence            4689999999999887754311         11112223389999999999999999999987543    7778777665


Q ss_pred             ccchhHhhh----cCCCCCccCCCCchhhHHHhhCCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEE
Q psy1308         339 EKHEVAKLI----GAPPGYLGHDDGGQLTKRLKKCPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIF  414 (607)
Q Consensus       339 ~~~~~~~ll----g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~i  414 (607)
                      ....+...+    +......-.  ..............++++||++.+....+..+..+++...-          ....+
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~----------~~~~i  157 (253)
T d1sxja2          90 SKTLLNAGVKNALDNMSVVGYF--KHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK----------TSTPL  157 (253)
T ss_dssp             CHHHHHHTGGGGTTBCCSTTTT--TC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH----------CSSCE
T ss_pred             hhHHHHHHHHHHhhcchhhhhh--hhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhcc----------ccccc
Confidence            443332222    111000000  00001112234577999999999988877766666653211          11123


Q ss_pred             EEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCC
Q psy1308         415 VMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFS  494 (607)
Q Consensus       415 I~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~  494 (607)
                      |+++|....                                         .         .  .+.+.|....+.|.|++
T Consensus       158 i~i~~~~~~-----------------------------------------~---------~--~~~l~~~~~~i~f~~~~  185 (253)
T d1sxja2         158 ILICNERNL-----------------------------------------P---------K--MRPFDRVCLDIQFRRPD  185 (253)
T ss_dssp             EEEESCTTS-----------------------------------------S---------T--TGGGTTTSEEEECCCCC
T ss_pred             ccccccccc-----------------------------------------c---------c--cccccceeeeeeccccc
Confidence            444331000                                         0         0  11233555789999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         495 KSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       495 ~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      .+++..++...+..        .++  .+++++++.|++
T Consensus       186 ~~~i~~~l~~i~~~--------e~i--~i~~~~l~~i~~  214 (253)
T d1sxja2         186 ANSIKSRLMTIAIR--------EKF--KLDPNVIDRLIQ  214 (253)
T ss_dssp             HHHHHHHHHHHHHH--------HTC--CCCTTHHHHHHH
T ss_pred             hhHHHHHHHHHHHH--------hCC--CCCHHHHHHHHH
Confidence            99999887665532        133  478999999986

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.93  E-value=9.5e-09  Score=94.11  Aligned_cols=171  Identities=13%  Similarity=0.161  Sum_probs=105.0

Q ss_pred             hhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhh-cCC
Q psy1308         272 GQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLI-GAP  350 (607)
Q Consensus       272 Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~ll-g~~  350 (607)
                      ++..+.+.+...+.....       |-.++|+||+|+|||.+|+.+++.+.........  .|..   ..+...+. +..
T Consensus         6 w~~~~~~~l~~~~~~~~l-------~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~--~~~~---~~~~~~i~~~~~   73 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRG-------HHALLIQALPGMGDDALIYALSRYLLCQQPQGHK--SCGH---CRGCQLMQAGTH   73 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCC-------CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTB--CCSC---SHHHHHHHHTCC
T ss_pred             ccHHHHHHHHHHHHcCCc-------CeEEEEECCCCCcHHHHHHHHHHhcccccccccc--cccc---cchhhhhhhccc
Confidence            456677777766664431       3369999999999999999999988643211100  0000   00000000 111


Q ss_pred             CCC--------ccCCCCchhhHHHh---h----CCCeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEE
Q psy1308         351 PGY--------LGHDDGGQLTKRLK---K----CPNAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFV  415 (607)
Q Consensus       351 ~g~--------~g~~~~~~l~~~~~---~----~~~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI  415 (607)
                      +.+        .+.-....+.++.+   .    ....|++|||+|++..+.|+.|++.+|+.           ..+++||
T Consensus        74 ~~~~~~~~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep-----------~~~~~fI  142 (207)
T d1a5ta2          74 PDYYTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEP-----------PAETWFF  142 (207)
T ss_dssp             TTEEEECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSC-----------CTTEEEE
T ss_pred             cccchhhhhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhh-----------cccceee
Confidence            110        00000011222222   1    23569999999999999999999999963           3688999


Q ss_pred             EecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeeccCCH
Q psy1308         416 MTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLPFSK  495 (607)
Q Consensus       416 ~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~pl~~  495 (607)
                      ++|+--.                                                   ... |-+.+|. ..+.|.|++.
T Consensus       143 l~t~~~~---------------------------------------------------~ll-~tI~SRc-~~i~~~~~~~  169 (207)
T d1a5ta2         143 LATREPE---------------------------------------------------RLL-ATLRSRC-RLHYLAPPPE  169 (207)
T ss_dssp             EEESCGG---------------------------------------------------GSC-HHHHTTS-EEEECCCCCH
T ss_pred             eeecChh---------------------------------------------------hhh-hhhccee-EEEecCCCCH
Confidence            9888210                                                   122 6788888 7889999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         496 SELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       496 ~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      +++..++..               .+.+++++++.+++
T Consensus       170 ~~~~~~L~~---------------~~~~~~~~~~~i~~  192 (207)
T d1a5ta2         170 QYAVTWLSR---------------EVTMSQDALLAALR  192 (207)
T ss_dssp             HHHHHHHHH---------------HCCCCHHHHHHHHH
T ss_pred             HHHHHHHHH---------------cCCCCHHHHHHHHH
Confidence            988777532               12357888888875

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.89  E-value=7.7e-09  Score=95.01  Aligned_cols=169  Identities=14%  Similarity=0.209  Sum_probs=105.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      +++++||+|+|||.|+++++...... ......+++..+...... .+..        +....+.+.++.  ..+|+||+
T Consensus        38 ~l~l~G~~G~GKTHLl~A~~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~--------~~~~~~~~~~~~--~dll~iDD  105 (213)
T d1l8qa2          38 PIFIYGSVGTGKTHLLQAAGNEAKKR-GYRVIYSSADDFAQAMVE-HLKK--------GTINEFRNMYKS--VDLLLLDD  105 (213)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHHHHHT-TCCEEEEEHHHHHHHHHH-HHHH--------TCHHHHHHHHHT--CSEEEEEC
T ss_pred             cEEEECCCCCcHHHHHHHHHHHhccC-ccceEEechHHHHHHHHH-HHHc--------cchhhHHHHHhh--ccchhhhh
Confidence            47899999999999999999987655 444555555544322111 1110        011122333333  46999999


Q ss_pred             CCcc--CHHHHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcch
Q psy1308         379 VDKA--HPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDV  456 (607)
Q Consensus       379 iek~--~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  456 (607)
                      |+..  .+..+..|..++..-  .        -.+..+|+||+....++                               
T Consensus       106 i~~i~~~~~~~~~lf~lin~~--~--------~~~~~iiits~~~p~~l-------------------------------  144 (213)
T d1l8qa2         106 VQFLSGKERTQIEFFHIFNTL--Y--------LLEKQIILASDRHPQKL-------------------------------  144 (213)
T ss_dssp             GGGGTTCHHHHHHHHHHHHHH--H--------HTTCEEEEEESSCGGGC-------------------------------
T ss_pred             hhhhcCchHHHHHHHHHHHHH--h--------hccceEEEecCCcchhc-------------------------------
Confidence            9987  477888888888631  1        13445788888543322                               


Q ss_pred             hcchhhhhhhhhHHHHhccCChhhhccccc-eeeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHccC
Q psy1308         457 TISRHFKDHVVQPILKRHFRRDEFLGRINE-IVYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILADGY  535 (607)
Q Consensus       457 ~~~~~~~~~~~~~~l~~~f~~~el~~ri~~-iv~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~~~  535 (607)
                                      ..+. |++.+|+.. .+.-.+++.++..++++....+        .|  +.++++++++|++ .
T Consensus       145 ----------------~~~~-~dL~SRL~~g~~~~i~p~d~~~~~iL~~~a~~--------rg--l~l~~~v~~yl~~-~  196 (213)
T d1l8qa2         145 ----------------DGVS-DRLVSRFEGGILVEIELDNKTRFKIIKEKLKE--------FN--LELRKEVIDYLLE-N  196 (213)
T ss_dssp             ----------------TTSC-HHHHHHHHTSEEEECCCCHHHHHHHHHHHHHH--------TT--CCCCHHHHHHHHH-H
T ss_pred             ----------------cccc-hHHHHHhhCceEEEECCCcHHHHHHHHHHHHH--------cC--CCCCHHHHHHHHH-h
Confidence                            1122 788888854 3333345666667766555431        23  6689999999986 3


Q ss_pred             CCCCCccchhHHHHH
Q psy1308         536 DVHYGARSIKHEVER  550 (607)
Q Consensus       536 ~~~~GaR~L~~~i~~  550 (607)
                      .  .++|+|...+.+
T Consensus       197 ~--~~~R~L~~~l~~  209 (213)
T d1l8qa2         197 T--KNVREIEGKIKL  209 (213)
T ss_dssp             C--SSHHHHHHHHHH
T ss_pred             c--CcHHHHHHHHHH
Confidence            2  368988888765

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.83  E-value=1e-08  Score=98.93  Aligned_cols=204  Identities=15%  Similarity=0.141  Sum_probs=116.6

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCc-eeeeeccCCCChhHHHHHHHHHhccCc-----CCceEEeecccccccch
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPL-VFLFLGSSGIGKTELAKQLAFYIHRDK-----KEAFIRLDMSEYQEKHE  342 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~-~~ll~G~~G~GKt~la~~la~~l~~~~-----~~~~~~l~~a~~~~~~~  342 (607)
                      .+.+.+..++.+...+.+.......+..+. .++++||+|+|||.+++.+++.+....     ...+..+++........
T Consensus        17 ~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (287)
T d1w5sa2          17 ELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYT   96 (287)
T ss_dssp             SCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchhh
Confidence            567777888888777655443323333333 577899999999999999999874311     22344445544433322


Q ss_pred             hH----hhhcCCCCCccCCCCchhhH----HHh-hCCCeEEEEecCCcc------CHHHHHHHHHhhccceeecCCCcEE
Q psy1308         343 VA----KLIGAPPGYLGHDDGGQLTK----RLK-KCPNAVVLFDEVDKA------HPDVLTVLLQLFDEGRLTDGKGKTI  407 (607)
Q Consensus       343 ~~----~llg~~~g~~g~~~~~~l~~----~~~-~~~~~vl~lDEiek~------~~~~~~~Ll~~~~~~~~~~~~g~~~  407 (607)
                      ..    ..++....+.|... ..+..    ..+ .....++++||++.+      ..++...|..+++.-.-.      .
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~------~  169 (287)
T d1w5sa2          97 ILSLIVRQTGYPIQVRGAPA-LDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSR------D  169 (287)
T ss_dssp             HHHHHHHHHTCCCCCTTCCH-HHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCT------T
T ss_pred             HHHHHhhhcccccccccchH-HHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchh------h
Confidence            21    22233222333221 12222    222 345678889999875      345666666655422111      1


Q ss_pred             ecCceEEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccce
Q psy1308         408 ECKDAIFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEI  487 (607)
Q Consensus       408 ~~~~~~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~i  487 (607)
                      ...+..+|+.++.....  +.                                          +.. . .+.+..|+...
T Consensus       170 ~~~~~~~i~i~~~~~~~--~~------------------------------------------~~~-~-~~~~~~r~~~~  203 (287)
T d1w5sa2         170 GVNRIGFLLVASDVRAL--SY------------------------------------------MRE-K-IPQVESQIGFK  203 (287)
T ss_dssp             SCCBEEEEEEEEETHHH--HH------------------------------------------HHH-H-CHHHHTTCSEE
T ss_pred             cccceeEEeecccHHHH--HH------------------------------------------HHh-h-ccchhccccee
Confidence            22345566655522111  00                                          000 1 17788899999


Q ss_pred             eeeccCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc
Q psy1308         488 VYFLPFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD  533 (607)
Q Consensus       488 v~f~pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~  533 (607)
                      +.|.|++.+++.+|+...+...    .    ....+++++++++++
T Consensus       204 i~f~~y~~~el~~Il~~r~~~~----~----~~~~~~~~al~~ia~  241 (287)
T d1w5sa2         204 LHLPAYKSRELYTILEQRAELG----L----RDTVWEPRHLELISD  241 (287)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHH----B----CTTSCCHHHHHHHHH
T ss_pred             eeccCCcHHHHHHHHhhhHHHh----h----ccCCCCHHHHHHHHH
Confidence            9999999999999987655321    1    112378999999975

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.80  E-value=4.3e-08  Score=92.30  Aligned_cols=203  Identities=18%  Similarity=0.282  Sum_probs=125.4

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccchh
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~~  343 (607)
                      ++|.+.-++.+...+.+...        -..+++|++|+|||.++..++..+...+      ...++.+|++..-.    
T Consensus        20 ~igRd~Ei~~l~~iL~r~~k--------~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~lia----   87 (268)
T d1r6bx2          20 LIGREKELERAIQVLCRRRK--------NNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLA----   87 (268)
T ss_dssp             CCSCHHHHHHHHHHHTSSSS--------CEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---C----
T ss_pred             ccChHHHHHHHHHHHhcCcc--------CCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhc----
Confidence            68999999999888865542        2678999999999999999998754321      23466666654421    


Q ss_pred             HhhhcCCCCCccCCCC--chhhHHHhhCCCeEEEEecCCcc---------CHHHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         344 AKLIGAPPGYLGHDDG--GQLTKRLKKCPNAVVLFDEVDKA---------HPDVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEiek~---------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                            ...|.|.=+.  ..+...+...+..++|+||++.+         +.++-+.|..++..|.             .
T Consensus        88 ------g~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg~-------------i  148 (268)
T d1r6bx2          88 ------GTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGK-------------I  148 (268)
T ss_dssp             ------CCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCC-------------C
T ss_pred             ------cCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCC-------------C
Confidence                  1123221111  11333445667889999998876         2356777777887654             4


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccC-Chhhhccccceeeec
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFR-RDEFLGRINEIVYFL  491 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~-~~el~~ri~~iv~f~  491 (607)
                      .+|.+|+.  ++.                                              .+.|. .|.|..||.. |...
T Consensus       149 ~vIgatT~--eey----------------------------------------------~~~~e~d~al~rrF~~-I~V~  179 (268)
T d1r6bx2         149 RVIGSTTY--QEF----------------------------------------------SNIFEKDRALARRFQK-IDIT  179 (268)
T ss_dssp             EEEEEECH--HHH----------------------------------------------HCCCCCTTSSGGGEEE-EECC
T ss_pred             eEEEeCCH--HHH----------------------------------------------HHHHhhcHHHHhhhcc-cccC
Confidence            58888771  111                                              01111 3889999954 5667


Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHHc---cCCCCCCccch-hHHHHHHHHHHHHHHHHh
Q psy1308         492 PFSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILAD---GYDVHYGARSI-KHEVERQVVSQLAAAHEK  562 (607)
Q Consensus       492 pl~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~~---~~~~~~GaR~L-~~~i~~~i~~~l~~~~l~  562 (607)
                      +++.++...|+......+....      .+.+++++++.+++   .|-+.   |.+ ...|. .+....+..-+.
T Consensus       180 Eps~e~t~~IL~~~~~~~e~~h------~v~~~~~al~~~v~ls~ryi~~---~~~PdKAId-llDea~a~~~~~  244 (268)
T d1r6bx2         180 EPSIEETVQIINGLKPKYEAHH------DVRYTAKAVRAAVELAVKYIND---RHLPDKAID-VIDEAGARARLM  244 (268)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHH------TCCCCHHHHHHHHHHHHHHCTT---SCTTHHHHH-HHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHhhHHHhccC------CEEeChHHHHHHHHHHHhhccC---CCCCcHHHH-HHHHHHHHHHhh
Confidence            7799999999887776655433      35678888877653   35442   222 33443 444444544443

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=98.57  E-value=2.2e-08  Score=96.66  Aligned_cols=98  Identities=15%  Similarity=0.185  Sum_probs=64.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhC-CCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKC-PNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~-~~~vl~lD  377 (607)
                      +++++||||||||.+|+.+|..+..  ..+|+.++.+.+..            .|+|..+ ..+...++.+ ..+|||||
T Consensus       125 ~~l~~G~pG~GKT~la~ala~~~~~--~~~~~~~~~~~~~~------------~~~G~~e-~~~~~~f~~a~~~~ilf~D  189 (321)
T d1w44a_         125 MVIVTGKGNSGKTPLVHALGEALGG--KDKYATVRFGEPLS------------GYNTDFN-VFVDDIARAMLQHRVIVID  189 (321)
T ss_dssp             EEEEECSSSSCHHHHHHHHHHHHHT--TSCCEEEEBSCSST------------TCBCCHH-HHHHHHHHHHHHCSEEEEE
T ss_pred             eEEEECCCCccHHHHHHHHHHHhcC--CCCeEEEEhhHhhh------------cccchHH-HHHHHHHHHHhhccEEEee
Confidence            5677999999999999999998754  45688888877642            3555322 2233333222 25799999


Q ss_pred             cCCccCHH------------HHHHHHHhhccceeecCCCcEEecCceEEEEecCc
Q psy1308         378 EVDKAHPD------------VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNL  420 (607)
Q Consensus       378 Eiek~~~~------------~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~  420 (607)
                      |||.+.+.            +++.||.-++.-         ....+++||.|||.
T Consensus       190 Eid~~~~~r~~~~~~~~~~r~v~~lL~e~dg~---------~~~~~v~viaatN~  235 (321)
T d1w44a_         190 SLKNVIGAAGGNTTSGGISRGAFDLLSDIGAM---------AASRGCVVIASLNP  235 (321)
T ss_dssp             CCTTTC-----------CCHHHHHHHHHHHHH---------HHHHTCEEEEECCC
T ss_pred             hhhhhccccccCCCCCcchhhhhhhhhhcccc---------ccCCCeEEEEeCCC
Confidence            99997543            445555555411         12357899999994

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.49  E-value=3.2e-07  Score=91.29  Aligned_cols=177  Identities=16%  Similarity=0.261  Sum_probs=102.3

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccchh
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~~  343 (607)
                      ++|.+.-++.+...+.+....        ..+++|++|+|||.++..+|..+...+      ...++.+|++.+-.    
T Consensus        24 ~~gr~~ei~~~~~~L~r~~k~--------n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~a----   91 (387)
T d1qvra2          24 VIGRDEEIRRVIQILLRRTKN--------NPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA----   91 (387)
T ss_dssp             CCSCHHHHHHHHHHHHCSSCC--------CCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------
T ss_pred             CcCcHHHHHHHHHHHhcCCCC--------CCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhc----
Confidence            789999999999888765422        457889999999999998887653321      23477777765532    


Q ss_pred             HhhhcCCCCCccCCCCc--hhhHHHhhC-CCeEEEEecCCcc--------CHHHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         344 AKLIGAPPGYLGHDDGG--QLTKRLKKC-PNAVVLFDEVDKA--------HPDVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~~--~l~~~~~~~-~~~vl~lDEiek~--------~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                            ..+|.|.-+..  .+...+... +..|+||||++.+        ..++-+.|..++..|.             .
T Consensus        92 ------g~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~-------------~  152 (387)
T d1qvra2          92 ------GAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGE-------------L  152 (387)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTC-------------C
T ss_pred             ------ccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCCC-------------c
Confidence                  12233321111  122233334 3568999999876        3456788888888765             3


Q ss_pred             EEEEecCcchHHHHHHHhhhhhcccccccCCCCcccccCCCcchhcchhhhhhhhhHHHHhccCChhhhccccceeeecc
Q psy1308         413 IFVMTSNLASNEIAQHALQLRKEGEEFSKRTPSISKSQGSNLDVTISRHFKDHVVQPILKRHFRRDEFLGRINEIVYFLP  492 (607)
Q Consensus       413 ~iI~tsn~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~f~~~el~~ri~~iv~f~p  492 (607)
                      .+|.+|+.  ++...                                  +.            +.|.|..||. .|...+
T Consensus       153 ~~I~~tT~--~ey~~----------------------------------~e------------~d~al~rrF~-~v~v~e  183 (387)
T d1qvra2         153 RLIGATTL--DEYRE----------------------------------IE------------KDPALERRFQ-PVYVDE  183 (387)
T ss_dssp             CEEEEECH--HHHHH----------------------------------HT------------TCTTTCSCCC-CEEECC
T ss_pred             ceeeecCH--HHHHH----------------------------------hc------------ccHHHHHhcc-cccCCC
Confidence            47777772  21110                                  00            0277888995 566677


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHhhcCCcEEEeCHhHHHHHH
Q psy1308         493 FSKSELHTLVCRELNFWAKKALDKHNINIVWDIDVETILA  532 (607)
Q Consensus       493 l~~~~~~~i~~~~l~~~~~~~~~~~~i~l~~~~~a~~~L~  532 (607)
                      ++.++-..|+......+...    +  .+.++++|+...+
T Consensus       184 p~~~~~~~il~~~~~~~e~~----h--~v~~~~~ai~~~v  217 (387)
T d1qvra2         184 PTVEETISILRGLKEKYEVH----H--GVRISDSAIIAAA  217 (387)
T ss_dssp             CCHHHHHHHHHHHHHHHHHH----T--TCEECHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHhc----c--CCcccHHHHHHHH
Confidence            89999999977666554432    2  4567888877754

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.43  E-value=3.3e-07  Score=82.66  Aligned_cols=97  Identities=16%  Similarity=0.269  Sum_probs=65.7

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcC--CceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCC----
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKK--EAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCP----  370 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~--~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~----  370 (607)
                      +.+++|+||+|+||+.+|+.+++.+.....  ..+..+......               .|-++-..+...+...+    
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~---------------I~Id~IR~i~~~~~~~~~~~~   79 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGEN---------------IGIDDIRTIKDFLNYSPELYT   79 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSC---------------BCHHHHHHHHHHHTSCCSSSS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCC---------------CCHHHHHHHHHHHhhCcccCC
Confidence            458999999999999999999998754311  124444432111               11111112222232332    


Q ss_pred             CeEEEEecCCccCHHHHHHHHHhhccceeecCCCcEEecCceEEEEecC
Q psy1308         371 NAVVLFDEVDKAHPDVLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSN  419 (607)
Q Consensus       371 ~~vl~lDEiek~~~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn  419 (607)
                      .-|+++||+|+++.+.|++||+.+|+.           ..+++||++|+
T Consensus        80 ~KviIId~ad~l~~~aqNaLLK~LEEP-----------p~~t~fiLit~  117 (198)
T d2gnoa2          80 RKYVIVHDCERMTQQAANAFLKALEEP-----------PEYAVIVLNTR  117 (198)
T ss_dssp             SEEEEETTGGGBCHHHHHHTHHHHHSC-----------CTTEEEEEEES
T ss_pred             CEEEEEeCccccchhhhhHHHHHHhCC-----------CCCceeeeccC
Confidence            459999999999999999999999963           26888999888

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.38  E-value=3e-07  Score=81.57  Aligned_cols=119  Identities=21%  Similarity=0.343  Sum_probs=76.7

Q ss_pred             hhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc------CCceEEeecccccccchh
Q psy1308         270 IVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK------KEAFIRLDMSEYQEKHEV  343 (607)
Q Consensus       270 i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~------~~~~~~l~~a~~~~~~~~  343 (607)
                      ++|.+.-++.+...+.+....        ..+++|++|+|||.++..+|..+...+      ...++.+|.+..      
T Consensus        24 ~igRd~Ei~~l~~iL~r~~k~--------n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~L------   89 (195)
T d1jbka_          24 VIGRDEEIRRTIQVLQRRTKN--------NPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGAL------   89 (195)
T ss_dssp             CCSCHHHHHHHHHHHTSSSSC--------EEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHH------
T ss_pred             CcCcHHHHHHHHHHHhccCCC--------CeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHH------
Confidence            679999999998888765422        678999999999999999998764321      344666766543      


Q ss_pred             HhhhcCCCCCccCCCC--chhhHHHhh-CCCeEEEEecCCccC--------HHHHHHHHHhhccceeecCCCcEEecCce
Q psy1308         344 AKLIGAPPGYLGHDDG--GQLTKRLKK-CPNAVVLFDEVDKAH--------PDVLTVLLQLFDEGRLTDGKGKTIECKDA  412 (607)
Q Consensus       344 ~~llg~~~g~~g~~~~--~~l~~~~~~-~~~~vl~lDEiek~~--------~~~~~~Ll~~~~~~~~~~~~g~~~~~~~~  412 (607)
                         +. ...|.|.-+.  ..+...+.. ....|+||||++.+-        .++-+.|..++..|.             .
T Consensus        90 ---iA-g~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg~-------------l  152 (195)
T d1jbka_          90 ---VA-GAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGE-------------L  152 (195)
T ss_dssp             ---HT-TTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTTS-------------C
T ss_pred             ---hc-cCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCCC-------------c
Confidence               21 1112221111  012223333 346799999998762        235588888888664             3


Q ss_pred             EEEEecC
Q psy1308         413 IFVMTSN  419 (607)
Q Consensus       413 ~iI~tsn  419 (607)
                      .+|.+|.
T Consensus       153 ~~IgatT  159 (195)
T d1jbka_         153 HCVGATT  159 (195)
T ss_dssp             CEEEEEC
T ss_pred             eEEecCC
Confidence            4788777

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=97.90  E-value=3.7e-06  Score=82.80  Aligned_cols=39  Identities=23%  Similarity=0.263  Sum_probs=32.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKH  341 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~  341 (607)
                      .++|+||||||||.+++.++..+...    ++.++++......
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~~~~~~----~i~in~s~~rs~~  194 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLELCGGK----ALNVNLPLDRLNF  194 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCE----EECCSSCTTTHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCC----EEEEECcchhhHH
Confidence            78999999999999999999998654    8888887765443

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.38  E-value=0.00011  Score=69.16  Aligned_cols=58  Identities=22%  Similarity=0.343  Sum_probs=43.5

Q ss_pred             HHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc
Q psy1308         278 NIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE  339 (607)
Q Consensus       278 ~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~  339 (607)
                      +.+...+.....+......|..++|+||||||||++|+.|+..+..    +|+.++++.+..
T Consensus        13 ~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~----~~~~i~~d~~~~   70 (273)
T d1gvnb_          13 NRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQG----NVIVIDNDTFKQ   70 (273)
T ss_dssp             HHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHTTT----CCEEECTHHHHT
T ss_pred             HHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHhhc----ceEEEecHHHHH
Confidence            3344444444455566777889999999999999999999998854    488888876643

>d1qzma_ c.37.1.20 (A:) ATPase domain of protease Lon (La) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase domain of protease Lon (La)
species: Escherichia coli [TaxId: 562]

Probab=96.95  E-value=0.00097  Score=50.95  Aligned_cols=85  Identities=9%  Similarity=0.063  Sum_probs=60.0

Q ss_pred             cCCHHHHHHHHHHHHHHHHHHHhhcCCc---EEEeCHhHHHHHHccCCCCCCccchhHHHHHHHHHHHHHHHHhccCCCC
Q psy1308         492 PFSKSELHTLVCRELNFWAKKALDKHNI---NIVWDIDVETILADGYDVHYGARSIKHEVERQVVSQLAAAHEKSVIGKG  568 (607)
Q Consensus       492 pl~~~~~~~i~~~~l~~~~~~~~~~~~i---~l~~~~~a~~~L~~~~~~~~GaR~L~~~i~~~i~~~l~~~~l~~~~~~~  568 (607)
                      .++.+|-..|+..+|-.-+-   +.+|+   .+.++++++.+|.+.|..+.|+|.|++.|+..+... +..++.+.  ..
T Consensus         2 GYt~~EK~~Iak~yLiPk~l---~~~gl~~~~i~i~~~~l~~iI~~YtrEaGVR~Ler~i~~I~Rk~-a~~~~~~~--~~   75 (94)
T d1qzma_           2 GYTEDEKLNIAKRHLLPKQI---ERNALKKGELTVDDSAIIGIIRYYTREAGVRGLEREISKLCRKA-VKQLLLDK--SL   75 (94)
T ss_dssp             CCCHHHHHHHHHHTHHHHHH---HHTTCCTTTEEECHHHHHHHHHHHCCCSSSHHHHHHHHHHHHHH-HHHHHTCT--TC
T ss_pred             CCCHHHHHHHHHHHhHHHHH---HHhccccccccchHHHHHHHHHHHccHHHHHHHHHHHHHHHHHH-HHHHHhCC--CC
Confidence            36788999999999864332   22354   599999999999878999999999999999866654 44544442  22


Q ss_pred             CEEEEEEecCCccc
Q psy1308         569 SFVRLYVQWSKEVS  582 (607)
Q Consensus       569 ~~v~i~~~~~~~~~  582 (607)
                      ..+.|+.++-..++
T Consensus        76 ~~~~i~~~~l~~~L   89 (94)
T d1qzma_          76 KHIEINGDNLHDYL   89 (94)
T ss_dssp             CCEEECTTTTHHHH
T ss_pred             CCeeeCHHHHHHHc
Confidence            35556555544444

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.37  E-value=0.0072  Score=56.03  Aligned_cols=53  Identities=21%  Similarity=0.328  Sum_probs=37.2

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY  337 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~  337 (607)
                      .++|.+..++.+...    .        +-.++++||+|+|||.+++.+++.+..    .+..+++...
T Consensus        13 ~f~GR~~el~~l~~~----~--------~~~i~i~G~~G~GKTsLl~~~~~~~~~----~~~~i~~~~~   65 (283)
T d2fnaa2          13 DFFDREKEIEKLKGL----R--------APITLVLGLRRTGKSSIIKIGINELNL----PYIYLDLRKF   65 (283)
T ss_dssp             GSCCCHHHHHHHHHT----C--------SSEEEEEESTTSSHHHHHHHHHHHHTC----CEEEEEGGGG
T ss_pred             hCCChHHHHHHHHhc----c--------CCEEEEEcCCCCcHHHHHHHHHHHCCC----CeEEEEeccc
Confidence            578888888776431    1        236789999999999999999877633    2455554433

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=96.37  E-value=0.0046  Score=53.28  Aligned_cols=25  Identities=28%  Similarity=0.547  Sum_probs=22.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .+++.||+|+|||+|++.++..+..
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            4789999999999999999998754

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=95.96  E-value=0.035  Score=48.81  Aligned_cols=128  Identities=21%  Similarity=0.224  Sum_probs=71.1

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccc---hhHhhhcCCCCCccCCCCchhhHHH-----
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKH---EVAKLIGAPPGYLGHDDGGQLTKRL-----  366 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~---~~~~llg~~~g~~g~~~~~~l~~~~-----  366 (607)
                      +|.+++|+||+|+|||..+-.||..+...+ +-.++..|.-......   ...+.+|.+ -|... .+......+     
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~-~~~~~-~~~d~~~~~~~~~~   82 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIP-VIQGP-EGTDPAALAYDAVQ   82 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHHHHHHHHHTCC-EECCC-TTCCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccccchhhHhhcccccCce-EEecc-CCccHHHHHHHHHH
Confidence            466899999999999999888887765432 2233334432221111   235555542 12222 222222222     


Q ss_pred             --hhCCCeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHH
Q psy1308         367 --KKCPNAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHA  429 (607)
Q Consensus       367 --~~~~~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~  429 (607)
                        +.....+||+|=..+.+.+  ....|-++.+.....+.    .....+++++.++.+.+.+.+..
T Consensus        83 ~~~~~~~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~----~~p~~~~LVl~a~~~~~~~~~~~  145 (207)
T d1okkd2          83 AMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADP----EEPKEVWLVLDAVTGQNGLEQAK  145 (207)
T ss_dssp             HHHHHTCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCT----TCCSEEEEEEETTBCTHHHHHHH
T ss_pred             HHHHCCCCEEEcCccccchhhHHHHHHHHHHHHHhhhccc----CCCceEEEEeecccCchHHHHHH
Confidence              2345789999999987643  33444443332111111    01245788899998888776643

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=95.92  E-value=0.18  Score=46.35  Aligned_cols=48  Identities=15%  Similarity=0.166  Sum_probs=37.1

Q ss_pred             HhhhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         269 RIVGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       269 ~i~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .++|.+..++.+...+......     ...++.++|+.|+|||.||+.+.+..
T Consensus        21 ~~~gR~~~~~~i~~~L~~~~~~-----~~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          21 TCYIREYHVDRVIKKLDEMCDL-----DSFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             CSCCCHHHHHHHHHHHHHHTTS-----SSEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             ceeCcHHHHHHHHHHHHhccCC-----CceEEEEECCCCCCHHHHHHHHHHhh
Confidence            3678999999998888654322     12378899999999999999987653

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=95.87  E-value=0.012  Score=52.07  Aligned_cols=131  Identities=17%  Similarity=0.217  Sum_probs=73.4

Q ss_pred             CCCCCceeeeeccCCCChhHHHHHHHHHhccC-cCCceEEeecccccccch---hHhhhcCCCCCccCCCCchhhH----
Q psy1308         293 DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRD-KKEAFIRLDMSEYQEKHE---VAKLIGAPPGYLGHDDGGQLTK----  364 (607)
Q Consensus       293 ~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~-~~~~~~~l~~a~~~~~~~---~~~llg~~~g~~g~~~~~~l~~----  364 (607)
                      .+.+|.+++|+||+|+|||..+-.||..+... .+-.++..|.-......+   ..+.+|.+- |.... +.....    
T Consensus         7 ~~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~-~~~~~-~~d~~~~~~~   84 (213)
T d1vmaa2           7 PPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATV-ISHSE-GADPAAVAFD   84 (213)
T ss_dssp             CSSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEE-ECCST-TCCHHHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccccchhHHHHHHhhhcCccc-cccCC-CCcHHHHHHH
Confidence            45678899999999999999887777665332 234555666533322222   234554321 22222 222211    


Q ss_pred             ---HHhhCCCeEEEEecCCccCHHHH--HHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHH
Q psy1308         365 ---RLKKCPNAVVLFDEVDKAHPDVL--TVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHA  429 (607)
Q Consensus       365 ---~~~~~~~~vl~lDEiek~~~~~~--~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~  429 (607)
                         ........+||+|=..+.+.+..  +.|..+.+.-......    ....+++++.++.+.+.+.+..
T Consensus        85 ~~~~~~~~~~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~----~p~~~~LVl~a~~~~~~~~~~~  150 (213)
T d1vmaa2          85 AVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPD----APHETLLVIDATTGQNGLVQAK  150 (213)
T ss_dssp             HHHHHHHTTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTT----CCSEEEEEEEGGGHHHHHHHHH
T ss_pred             HHHHHHHcCCCEEEEeccccccchHHHHHHHHHHHhhhhhcccc----ccceeEEeeccccCcchhhhhh
Confidence               12234567999999998876533  3344443311100100    1245678888888887776643

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=95.78  E-value=0.018  Score=50.93  Aligned_cols=121  Identities=15%  Similarity=0.312  Sum_probs=64.6

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccch---hHhhhcCCCCCccCCCCchhhHH-----
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHE---VAKLIGAPPGYLGHDDGGQLTKR-----  365 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~---~~~llg~~~g~~g~~~~~~l~~~-----  365 (607)
                      .+|.+++|+||+|+|||..+-.||..+...+ +-.++..|.-.......   ..+++|.+- +.. .....+...     
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~-~~~-~~~~~~~~~~~~a~   87 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPV-YGE-PGEKDVVGIAKRGV   87 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHHHHHHHHHHTCCE-ECC-TTCCCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHHHHHhccccCcce-eec-ccchhhhHHHHHHH
Confidence            4577999999999999998877776654321 33555555443332222   245555331 111 222222221     


Q ss_pred             --HhhCCCeEEEEecCCccCHH----HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         366 --LKKCPNAVVLFDEVDKAHPD----VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       366 --~~~~~~~vl~lDEiek~~~~----~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                        .......+||+|=..+.+.+    ....|.++.+..          ...++++++.++.+.+.+..
T Consensus        88 ~~~~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~----------~~~~~~LVl~a~~~~~~~~~  145 (211)
T d1j8yf2          88 EKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAI----------KPDEVTLVIDASIGQKAYDL  145 (211)
T ss_dssp             HHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHH----------CCSEEEEEEEGGGGGGHHHH
T ss_pred             HHhhccCCceEEEecCCcCccchhhHHHHHHHHHHhhc----------CCceEEEEEecccCcchHHH
Confidence              22456789999988876533    123344444321          12356788888877766544

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=95.78  E-value=0.021  Score=50.34  Aligned_cols=129  Identities=15%  Similarity=0.227  Sum_probs=71.9

Q ss_pred             CCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccc--cc---hhHhhhcCCCCCccCCCCchhhHHH--
Q psy1308         294 DDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQE--KH---EVAKLIGAPPGYLGHDDGGQLTKRL--  366 (607)
Q Consensus       294 ~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~--~~---~~~~llg~~~g~~g~~~~~~l~~~~--  366 (607)
                      ..+|.+++|+||+|+|||..+-.||..+... .....-+.+..|.-  ..   ...+.+|-+- +.. ..+..+...+  
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~-g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~-~~~-~~~~d~~~~l~~   82 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQ-GKSVMLAAGDTFRAAAVEQLQVWGQRNNIPV-IAQ-HTGADSASVIFD   82 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHTT-TCCEEEECCCTTCHHHHHHHHHHHHHTTCCE-ECC-STTCCHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHC-CCcEEEEecccccccchhhhhhhhhhcCCcc-ccc-ccCCCHHHHHHH
Confidence            4457899999999999999988888776443 23333333333322  11   2345555321 222 2222223322  


Q ss_pred             -----hhCCCeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHHHH
Q psy1308         367 -----KKCPNAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQHA  429 (607)
Q Consensus       367 -----~~~~~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~~~  429 (607)
                           +.....+||+|=..+.+.+  ..+.|-++.+-....+.    .....+++++.++.+.+.+.+..
T Consensus        83 ~~~~a~~~~~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~----~~p~~~~LVl~a~~~~~~~~~~~  148 (211)
T d2qy9a2          83 AIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDV----EAPHEVMLTIDASTGQNAVSQAK  148 (211)
T ss_dssp             HHHHHHHTTCSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCT----TCCSEEEEEEEGGGTHHHHHHHH
T ss_pred             HHHHHHHcCCCEEEeccCCCccccHHHHHHHHHHHHHHhhhcc----cCcceeeeehhcccCcchHHHHh
Confidence                 2345789999999887654  33444444331111111    11246778888888888776643

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.52  E-value=0.0061  Score=52.42  Aligned_cols=30  Identities=17%  Similarity=0.369  Sum_probs=25.8

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      .++..++|+|++|+|||++++.|++.+...
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L~~~   33 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTLNQQ   33 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            345688999999999999999999998653

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=95.21  E-value=0.025  Score=48.99  Aligned_cols=95  Identities=17%  Similarity=0.274  Sum_probs=54.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .++|+||+++|||.++..|.+.+.+.      .+.......                   .-.+..+   ...-++++||
T Consensus        55 ~i~~~GP~~TGKS~f~~sl~~~l~G~------vis~~N~~s-------------------~F~Lq~l---~~~kv~l~dD  106 (205)
T d1tuea_          55 CLVFCGPANTGKSYFGMSFIHFIQGA------VISFVNSTS-------------------HFWLEPL---TDTKVAMLDD  106 (205)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHHHTCE------ECCCCCSSS-------------------CGGGGGG---TTCSSEEEEE
T ss_pred             EEEEECCCCccHHHHHHHHHHHhCCE------EEeccCCCC-------------------Ccccccc---cCCeEEEEec
Confidence            78899999999999999999988542      111111110                   1112222   2234889999


Q ss_pred             CCccCHHHHHHHHH-hhccceee-cCCCc-EEecCceEEEEecCcc
Q psy1308         379 VDKAHPDVLTVLLQ-LFDEGRLT-DGKGK-TIECKDAIFVMTSNLA  421 (607)
Q Consensus       379 iek~~~~~~~~Ll~-~~~~~~~~-~~~g~-~~~~~~~~iI~tsn~~  421 (607)
                      +....-...+..++ +++...+. |.+.+ .+.....-+|+|||..
T Consensus       107 ~t~~~~~~~d~~lK~ll~G~~vsvd~KhK~~vqi~~pPliITsN~~  152 (205)
T d1tuea_         107 ATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIH  152 (205)
T ss_dssp             ECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSC
T ss_pred             cccchHHHHHHHHHhccCCCeeeeecccCCcccccCCCEEEEcCCC
Confidence            88776666666444 55432222 22222 2233334478899954

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=95.12  E-value=0.0067  Score=53.23  Aligned_cols=35  Identities=23%  Similarity=0.414  Sum_probs=28.7

Q ss_pred             CCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         294 DDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       294 ~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      .++|..+++.||+|+|||++++.|++.+.      +..+++
T Consensus         3 ~~kp~iI~i~G~pGSGKsT~a~~La~~~g------~~~i~~   37 (194)
T d1qf9a_           3 KSKPNVVFVLGGPGSGKGTQCANIVRDFG------WVHLSA   37 (194)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHHHHC------CEEEEH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHC------CceEch
Confidence            35688899999999999999999998763      455554

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=95.00  E-value=0.0075  Score=51.56  Aligned_cols=27  Identities=30%  Similarity=0.496  Sum_probs=23.9

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ++..+++.|++|+|||++++.|++.+.
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            456899999999999999999998764

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=94.98  E-value=0.0057  Score=51.64  Aligned_cols=25  Identities=28%  Similarity=0.538  Sum_probs=21.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      +++|.||+|+|||++++.|++.+..
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L~~   28 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQLNM   28 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTTC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4778899999999999999998743

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.96  E-value=0.0058  Score=53.47  Aligned_cols=31  Identities=26%  Similarity=0.282  Sum_probs=26.4

Q ss_pred             CCCCceeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         294 DDHPLVFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       294 ~~~p~~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      .-++.+++|+|++|+|||++|+.|++.+...
T Consensus        16 ~~~g~vI~L~G~pGSGKTTiAk~La~~l~~~   46 (195)
T d1x6va3          16 GFRGCTVWLTGLSGAGKTTVSMALEEYLVCH   46 (195)
T ss_dssp             SCCCEEEEEESSCHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3356788899999999999999999988654

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=94.94  E-value=0.093  Score=46.02  Aligned_cols=121  Identities=17%  Similarity=0.298  Sum_probs=69.4

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeecccccccch---hHhhhcCCCCCccCCCCchhh-------
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQEKHE---VAKLIGAPPGYLGHDDGGQLT-------  363 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~~~~~---~~~llg~~~g~~g~~~~~~l~-------  363 (607)
                      ..+-+++|.||+|+|||..+-.||..+...+ +-.++..|.-.......   ..+.++.+ -+...+ .....       
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~-~~~~~~-~~~~~~~~~~~~   85 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVP-VLEVMD-GESPESIRRRVE   85 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCC-EEECCT-TCCHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccchHHHHHHHHHHhcCCc-cccccc-cchhhHHHHHHH
Confidence            3455789999999999998888887764432 22344444332222211   34555532 122211 11211       


Q ss_pred             HHHhhCCCeEEEEecCCccCHH--HHHHHHHhhccceeecCCCcEEecCceEEEEecCcchHHHHH
Q psy1308         364 KRLKKCPNAVVLFDEVDKAHPD--VLTVLLQLFDEGRLTDGKGKTIECKDAIFVMTSNLASNEIAQ  427 (607)
Q Consensus       364 ~~~~~~~~~vl~lDEiek~~~~--~~~~Ll~~~~~~~~~~~~g~~~~~~~~~iI~tsn~~~~~i~~  427 (607)
                      ...+.....++|+|=..+.+.+  ....|.++.+..          ....+++++.++.+.+.+..
T Consensus        86 ~~~~~~~~d~vlIDTaGr~~~d~~~~~el~~~~~~~----------~~~~~llv~~a~~~~~~~~~  141 (207)
T d1ls1a2          86 EKARLEARDLILVDTAGRLQIDEPLMGELARLKEVL----------GPDEVLLVLDAMTGQEALSV  141 (207)
T ss_dssp             HHHHHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHH----------CCSEEEEEEEGGGTHHHHHH
T ss_pred             HHHhhccCcceeecccccchhhhhhHHHHHHHHhhc----------CCceEEEEeccccchhHHHH
Confidence            1234456789999999887653  444555554421          22467888888888877654

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=94.94  E-value=0.019  Score=55.50  Aligned_cols=26  Identities=15%  Similarity=0.239  Sum_probs=22.2

Q ss_pred             CCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         370 PNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       370 ~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                      +..++++||+-.++......++..+.
T Consensus       261 ~~d~lIIDEaSmv~~~l~~~ll~~~~  286 (359)
T d1w36d1         261 HLDVLVVDEASMIDLPMMSRLIDALP  286 (359)
T ss_dssp             SCSEEEECSGGGCBHHHHHHHHHTCC
T ss_pred             ccceeeehhhhccCHHHHHHHHHHhc
Confidence            46799999999999988888888765

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=94.74  E-value=0.008  Score=52.47  Aligned_cols=27  Identities=19%  Similarity=0.305  Sum_probs=24.4

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .|+.+++.||+|+|||++++.|++.+.
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHC
Confidence            478888999999999999999998874

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.47  E-value=0.014  Score=49.70  Aligned_cols=27  Identities=30%  Similarity=0.646  Sum_probs=23.2

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      +-.+++.|++|+|||.+++.|++.+..
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~~   32 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLHA   32 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            446788999999999999999998743

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=94.43  E-value=0.0086  Score=49.10  Aligned_cols=94  Identities=11%  Similarity=0.011  Sum_probs=48.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccc--cccchhHhhhcCCCCCccCCCCch--------hhH-H--
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEY--QEKHEVAKLIGAPPGYLGHDDGGQ--------LTK-R--  365 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~--~~~~~~~~llg~~~g~~g~~~~~~--------l~~-~--  365 (607)
                      +.++.+|+|+|||.++-.+...   .+..-++.......  +......+.++...+.........        ... .  
T Consensus        10 ~~ll~apTGsGKT~~~~~~~~~---~~~~vli~~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAYAA---QGYKVLVLNPSVAATLGFGAYMSKAHGVDPNIRTGVRTITTGSPITYSTYGKFLA   86 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHHHT---TTCCEEEEESCHHHHHHHHHHHHHHHSCCCEEECSSCEECCCCSEEEEEHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH---cCCcEEEEcChHHHHHHHHHHHHHHhhccccccccccccccccceEEEeeeeecc
Confidence            6788999999999887444322   21223333322211  112223455555444221111100        000 0  


Q ss_pred             ---HhhCCCeEEEEecCCccCHHHHHHHHHhhc
Q psy1308         366 ---LKKCPNAVVLFDEVDKAHPDVLTVLLQLFD  395 (607)
Q Consensus       366 ---~~~~~~~vl~lDEiek~~~~~~~~Ll~~~~  395 (607)
                         -.-...++|++||++..+.+....+..+++
T Consensus        87 ~~~~~~~~~~~vIiDE~H~~~~~~~~~~~~~l~  119 (136)
T d1a1va1          87 DGGCSGGAYDIIICDECHSTDATSILGIGTVLD  119 (136)
T ss_dssp             TTGGGGCCCSEEEEETTTCCSHHHHHHHHHHHH
T ss_pred             ccchhhhcCCEEEEecccccCHHHHHHHHHHHH
Confidence               111346899999999998876555544444

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=94.26  E-value=0.019  Score=48.85  Aligned_cols=33  Identities=15%  Similarity=0.370  Sum_probs=26.3

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      ..+++.|++|+|||++++.|++.+..    ++..++.
T Consensus         4 kiI~l~G~~GsGKsTva~~L~~~l~~----~~~~~~~   36 (178)
T d1qhxa_           4 RMIILNGGSSAGKSGIVRCLQSVLPE----PWLAFGV   36 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSS----CEEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCC----CeEEeec
Confidence            36889999999999999999998853    3555543

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=94.07  E-value=0.011  Score=50.85  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=22.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+++.|++|+|||++++.|++.+.
T Consensus         9 ~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           9 TVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             EEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            789999999999999999999874

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=94.03  E-value=0.014  Score=49.70  Aligned_cols=24  Identities=42%  Similarity=0.578  Sum_probs=21.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+++.|++|+|||++++.|++.+.
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            467899999999999999998874

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=94.01  E-value=0.03  Score=48.58  Aligned_cols=43  Identities=28%  Similarity=0.276  Sum_probs=31.2

Q ss_pred             CCCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccc
Q psy1308         293 DDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSE  336 (607)
Q Consensus       293 ~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~  336 (607)
                      .+.+|+.+.+.|++|+|||++|+.|++.+... ......++...
T Consensus        18 ~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~-~~~~~~~~~~~   60 (198)
T d1rz3a_          18 KTAGRLVLGIDGLSRSGKTTLANQLSQTLREQ-GISVCVFHMDD   60 (198)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHHHHHT-TCCEEEEEGGG
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHhccc-cccceeccccc
Confidence            34458889999999999999999999887653 22334444433

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=93.99  E-value=0.014  Score=49.65  Aligned_cols=24  Identities=29%  Similarity=0.666  Sum_probs=21.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+++.|++|+|||++|+.|++.+.
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            478899999999999999998864

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.99  E-value=0.015  Score=51.40  Aligned_cols=28  Identities=29%  Similarity=0.497  Sum_probs=25.2

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      |+.++++|.||+|||++|+.|++.+...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            7889999999999999999999987643

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.82  E-value=0.017  Score=50.37  Aligned_cols=32  Identities=28%  Similarity=0.487  Sum_probs=26.6

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      |+.+++.||+|+||++.|+.|++.+.      +..++.
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~g------~~~i~~   32 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKYG------YTHLSA   32 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHC------CEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC------CceEcH
Confidence            67789999999999999999998762      555554

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.73  E-value=0.022  Score=48.78  Aligned_cols=26  Identities=23%  Similarity=0.437  Sum_probs=22.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      +++++||+|+|||.+++.+++.+...
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            47899999999999999999988543

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.67  E-value=0.021  Score=49.93  Aligned_cols=24  Identities=29%  Similarity=0.405  Sum_probs=21.4

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHh
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .++++.||+|+|||++|+.|++.+
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            367788999999999999999876

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=93.64  E-value=0.024  Score=50.22  Aligned_cols=41  Identities=32%  Similarity=0.411  Sum_probs=30.7

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSE  336 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~  336 (607)
                      ++.+++|+|.||+|||.+++.|++.+......+.+.+|...
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~   63 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDN   63 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchH
Confidence            46689999999999999999999877543233455666543

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=93.43  E-value=0.024  Score=49.38  Aligned_cols=36  Identities=17%  Similarity=0.280  Sum_probs=28.3

Q ss_pred             CCCCceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc
Q psy1308         294 DDHPLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS  335 (607)
Q Consensus       294 ~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a  335 (607)
                      +.+.+.+++.||||+|||++++.|++.+.      +..+++.
T Consensus         3 ~~r~mrIiliG~PGSGKtT~a~~La~~~g------~~~is~g   38 (189)
T d2ak3a1           3 SARLLRAAIMGAPGSGKGTVSSRITKHFE------LKHLSSG   38 (189)
T ss_dssp             SSCCCEEEEECCTTSSHHHHHHHHHHHBC------CEEEEHH
T ss_pred             CCcceeEEEECCCCCCHHHHHHHHHHHHC------CeEEcHH
Confidence            45667788899999999999999998763      5556553

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.36  E-value=0.023  Score=48.10  Aligned_cols=24  Identities=25%  Similarity=0.445  Sum_probs=21.0

Q ss_pred             eeeeccCCCChhHHHHHHHHHhcc
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      +.|.|++|+|||++++.+++.+..
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~   27 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGV   27 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            456699999999999999999854

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=93.34  E-value=0.021  Score=48.72  Aligned_cols=24  Identities=25%  Similarity=0.477  Sum_probs=21.1

Q ss_pred             eeeeccCCCChhHHHHHHHHHhcc
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      +++.|++|+|||++++.+|+.+..
T Consensus         5 Iil~G~~GsGKSTia~~LA~~Lg~   28 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELARALGY   28 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            567899999999999999998843

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=93.18  E-value=0.024  Score=48.28  Aligned_cols=34  Identities=24%  Similarity=0.320  Sum_probs=26.2

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeec
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDM  334 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~  334 (607)
                      +..+++.|++|+|||++++.|++.+.    .+++.++.
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~lg----~~~~~~~~   37 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLPG----VPKVHFHS   37 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSS----SCEEEECT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC----CCEEEecH
Confidence            34688999999999999999987653    34665554

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.01  E-value=0.025  Score=46.88  Aligned_cols=22  Identities=27%  Similarity=0.527  Sum_probs=19.1

Q ss_pred             eeeeeccCCCChhHHHHHHHHH
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFY  320 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~  320 (607)
                      .++++|++|+|||++|+.|.+.
T Consensus         4 lIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4778999999999999988654

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=92.89  E-value=0.027  Score=47.48  Aligned_cols=24  Identities=38%  Similarity=0.573  Sum_probs=21.3

Q ss_pred             eeeeccCCCChhHHHHHHHHHhcc
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      +.+.|++|+|||++++.||+.+..
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~~   26 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLDL   26 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            567799999999999999999843

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.50  E-value=0.03  Score=47.87  Aligned_cols=26  Identities=23%  Similarity=0.396  Sum_probs=22.0

Q ss_pred             CCCceeeeeccCCCChhHHHHHHHHH
Q psy1308         295 DHPLVFLFLGSSGIGKTELAKQLAFY  320 (607)
Q Consensus       295 ~~p~~~ll~G~~G~GKt~la~~la~~  320 (607)
                      .+|..++++|++|+|||++++.++..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            35678999999999999999988643

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=92.10  E-value=0.047  Score=47.27  Aligned_cols=32  Identities=28%  Similarity=0.348  Sum_probs=25.1

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecc
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMS  335 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a  335 (607)
                      ..++|.||||+||+++++.|++.+.      +..+++.
T Consensus         4 ~riil~G~pGSGKsT~a~~La~~~g------~~~i~~g   35 (190)
T d1ak2a1           4 VRAVLLGPPGAGKGTQAPKLAKNFC------VCHLATG   35 (190)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT------CEEEEHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC------CeEEeHH
Confidence            3566789999999999999998763      5555553

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=92.09  E-value=0.099  Score=46.94  Aligned_cols=24  Identities=29%  Similarity=0.570  Sum_probs=21.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.||+|+|||++.+.|+..+.
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            678999999999999999997754

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=91.92  E-value=0.042  Score=46.29  Aligned_cols=26  Identities=35%  Similarity=0.402  Sum_probs=23.2

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      ++.++|++|+|||+|++.|++.+..+
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            58899999999999999999988654

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=91.89  E-value=0.045  Score=47.63  Aligned_cols=34  Identities=15%  Similarity=0.382  Sum_probs=27.3

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhccCcCCceEEeeccc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSE  336 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~  336 (607)
                      |..+++.||||+||+++++.|++.+      +|..+++..
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~------g~~~is~g~   41 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKY------GYTHLSTGD   41 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHT------CCEEEEHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh------CCeeEeccH
Confidence            4578899999999999999999865      366666544

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=91.71  E-value=0.05  Score=46.56  Aligned_cols=24  Identities=21%  Similarity=0.355  Sum_probs=21.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+++.||||+|||++++.|++.+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            367899999999999999999873

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=91.47  E-value=0.055  Score=46.36  Aligned_cols=23  Identities=39%  Similarity=0.489  Sum_probs=20.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.||+|+|||++++.|++.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            46788999999999999999887

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=91.32  E-value=0.077  Score=45.27  Aligned_cols=26  Identities=19%  Similarity=0.371  Sum_probs=23.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      .+++.|++|+|||++++.|++.+...
T Consensus         3 iI~i~G~~GsGKsT~~~~L~~~l~~~   28 (190)
T d1khta_           3 VVVVTGVPGVGSTTSSQLAMDNLRKE   28 (190)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            57899999999999999999998665

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=91.26  E-value=0.064  Score=47.59  Aligned_cols=26  Identities=23%  Similarity=0.262  Sum_probs=22.6

Q ss_pred             CceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         297 PLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       297 p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ++.+.+.||+|+|||++|+.|++.+.
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45667889999999999999999874

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.21  E-value=0.061  Score=47.47  Aligned_cols=28  Identities=14%  Similarity=0.379  Sum_probs=24.9

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      .|..+.+.|++|+|||++++.|++.+..
T Consensus         1 ~P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           1 EPFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            3788999999999999999999998754

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.08  E-value=0.067  Score=45.82  Aligned_cols=24  Identities=25%  Similarity=0.429  Sum_probs=21.3

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHh
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      +.+++.||+|+|||++++.|++.+
T Consensus         3 mrIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           3 IRMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            456788999999999999999876

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=91.05  E-value=0.064  Score=45.99  Aligned_cols=24  Identities=21%  Similarity=0.311  Sum_probs=21.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+++.||||+|||++++.|++.+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            367899999999999999999873

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=90.37  E-value=0.11  Score=41.89  Aligned_cols=18  Identities=22%  Similarity=0.375  Sum_probs=14.8

Q ss_pred             CCeEEEEecCCccCHHHH
Q psy1308         370 PNAVVLFDEVDKAHPDVL  387 (607)
Q Consensus       370 ~~~vl~lDEiek~~~~~~  387 (607)
                      ..+.|++||++.+++.-.
T Consensus        98 ~~~lvIiDEaH~~~~~~~  115 (140)
T d1yksa1          98 NWEVIIMDEAHFLDPASI  115 (140)
T ss_dssp             CCSEEEETTTTCCSHHHH
T ss_pred             ceeEEEEccccccChhhH
Confidence            468999999999987744

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=90.23  E-value=0.44  Score=44.23  Aligned_cols=49  Identities=18%  Similarity=0.277  Sum_probs=35.1

Q ss_pred             CCCCCCCCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeeccccc
Q psy1308         290 GWTDDDHPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSEYQ  338 (607)
Q Consensus       290 ~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~~~  338 (607)
                      +.....+|..+.+.|++|+|||++++.|...+.... ......+.+-.|.
T Consensus        73 ~~~~~k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~  122 (308)
T d1sq5a_          73 GTNGQRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             TCC-CCCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             cccCCCCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeE
Confidence            345566788999999999999999999999885421 2234455655554

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=90.14  E-value=0.082  Score=45.12  Aligned_cols=23  Identities=22%  Similarity=0.226  Sum_probs=20.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.||+|+|||++++.|++.+
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999999876

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=89.61  E-value=0.12  Score=46.27  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=20.7

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .++++||...|||.+.|.++-..
T Consensus        43 ~~iiTGpN~~GKSt~lk~i~l~~   65 (234)
T d1wb9a2          43 MLIITGPNMGGKSTYMRQTALIA   65 (234)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEeccCchhhHHHHHHHHHHH
Confidence            57899999999999999998764

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=89.36  E-value=0.16  Score=43.33  Aligned_cols=26  Identities=15%  Similarity=0.367  Sum_probs=22.9

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      .+++.|++|+|||++++.|++.+...
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            46789999999999999999998654

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.31  E-value=0.3  Score=44.84  Aligned_cols=30  Identities=27%  Similarity=0.420  Sum_probs=25.3

Q ss_pred             CCCCCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         293 DDDHPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       293 ~~~~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ...+|+.+-+.|++|+|||+++..|...+.
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l~~~L~   52 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQIYNHLM   52 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEeECCCCCCHHHHHHHHHHHHH
Confidence            345688899999999999999998877763

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=88.94  E-value=0.072  Score=46.22  Aligned_cols=30  Identities=27%  Similarity=0.501  Sum_probs=26.2

Q ss_pred             CCCCCceeeeeccCCCChhHHHHHHHHHhc
Q psy1308         293 DDDHPLVFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       293 ~~~~p~~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      ...+|..+.+.|+.|+|||++++.|++.++
T Consensus         5 ~~~kp~~I~ieG~~GsGKTTl~~~L~~~l~   34 (197)
T d2vp4a1           5 EGTQPFTVLIEGNIGSGKTTYLNHFEKYKN   34 (197)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGGGTT
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            456788899999999999999999998764

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=88.89  E-value=0.36  Score=45.28  Aligned_cols=89  Identities=19%  Similarity=0.328  Sum_probs=51.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEe-ecccccc--cchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEE
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRL-DMSEYQE--KHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVL  375 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l-~~a~~~~--~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~  375 (607)
                      .+++.|++|+|||.+.+++..++..  ....+.+ |..++.-  ...+..+.+  .+.+  .....+...++. ....++
T Consensus       168 nili~G~tgSGKTT~l~al~~~i~~--~~rivtiEd~~El~l~~~~~~~~~~~--~~~~--~~~~ll~~~lR~-~pd~ii  240 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFIPK--EERIISIEDTEEIVFKHHKNYTQLFF--GGNI--TSADCLKSCLRM-RPDRII  240 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSCT--TCCEEEEESSCCCCCSSCSSEEEEEC--BTTB--CHHHHHHHHTTS-CCSEEE
T ss_pred             CEEEEeeccccchHHHHHHhhhccc--ccceeeccchhhhhcccccccceecc--ccch--hHHHHHHHHhcc-CCCccc
Confidence            4889999999999999999987754  3334444 3333321  111222221  0101  111123334444 456889


Q ss_pred             EecCCccCHHHHHHHHHhhccc
Q psy1308         376 FDEVDKAHPDVLTVLLQLFDEG  397 (607)
Q Consensus       376 lDEiek~~~~~~~~Ll~~~~~~  397 (607)
                      +.|+-  .++... +++.+..|
T Consensus       241 vgEiR--~~ea~~-~l~a~~tG  259 (323)
T d1g6oa_         241 LGELR--SSEAYD-FYNVLCSG  259 (323)
T ss_dssp             ESCCC--STHHHH-HHHHHHTT
T ss_pred             CCccC--chhHHH-HHHHHHhc
Confidence            99997  356665 56787765

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=88.78  E-value=0.2  Score=44.46  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=20.5

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      ..+++||...|||.+.|.++-..
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~~   59 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALIA   59 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhHHHH
Confidence            57899999999999999988764

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=88.75  E-value=0.58  Score=40.58  Aligned_cols=23  Identities=22%  Similarity=0.125  Sum_probs=18.4

Q ss_pred             eeeeccCCCChhHHHHHHHHHhc
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .++..|+|+|||.++-.++..+.
T Consensus        88 ~ll~~~tG~GKT~~a~~~~~~~~  110 (206)
T d2fz4a1          88 GCIVLPTGSGKTHVAMAAINELS  110 (206)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHSC
T ss_pred             cEEEeCCCCCceehHHhHHHHhc
Confidence            45778999999999887776653

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=88.73  E-value=0.13  Score=45.42  Aligned_cols=24  Identities=38%  Similarity=0.477  Sum_probs=21.6

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      .+.+.||+|+||+++++.|++.+.
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            577889999999999999999874

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.35  E-value=0.12  Score=44.57  Aligned_cols=23  Identities=35%  Similarity=0.429  Sum_probs=20.3

Q ss_pred             eeeeccCCCChhHHHHHHHHHhc
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +.+.||+|+||+++++.|++...
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            56899999999999999988753

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.16  E-value=0.12  Score=44.46  Aligned_cols=23  Identities=35%  Similarity=0.443  Sum_probs=20.3

Q ss_pred             eeeeccCCCChhHHHHHHHHHhc
Q psy1308         300 FLFLGSSGIGKTELAKQLAFYIH  322 (607)
Q Consensus       300 ~ll~G~~G~GKt~la~~la~~l~  322 (607)
                      +++.||+|+||+.+++.|++...
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            67899999999999999987753

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=87.96  E-value=0.48  Score=44.44  Aligned_cols=41  Identities=27%  Similarity=0.421  Sum_probs=30.2

Q ss_pred             CCceeeeeccCCCChhHHHHHHHHHhccCc-CCceEEeeccc
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAFYIHRDK-KEAFIRLDMSE  336 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~~l~~~~-~~~~~~l~~a~  336 (607)
                      +...+-+.|+||+|||.|...+...+...+ +-+.+.+|-+.
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss   94 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSS   94 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCce
Confidence            456899999999999999999988775542 23455666543

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=87.17  E-value=0.73  Score=37.11  Aligned_cols=96  Identities=15%  Similarity=0.131  Sum_probs=45.1

Q ss_pred             eeeeccCCCChhH-HHHHHHHHhccCcCCceEEeeccccccc-chhHhhhcCCCCCccCCCCchhhHHHhhC----CCeE
Q psy1308         300 FLFLGSSGIGKTE-LAKQLAFYIHRDKKEAFIRLDMSEYQEK-HEVAKLIGAPPGYLGHDDGGQLTKRLKKC----PNAV  373 (607)
Q Consensus       300 ~ll~G~~G~GKt~-la~~la~~l~~~~~~~~~~l~~a~~~~~-~~~~~llg~~~g~~g~~~~~~l~~~~~~~----~~~v  373 (607)
                      -+++||..+|||. |.+.+.++...  ......+..+.=+.. ..+..-.|....-........+...+...    ...+
T Consensus         5 ~~i~GpMfsGKTteLi~~~~~~~~~--~~kv~~ikp~~D~R~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dv   82 (139)
T d2b8ta1           5 EFITGPMFAGKTAELIRRLHRLEYA--DVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKV   82 (139)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHT--TCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCE
T ss_pred             EEEEccccCHHHHHHHHHHHHHHHC--CCcEEEEEEcccccccceEEcccCceeeeEEeccchhhHHHHHhhccccCcCE
Confidence            3578999999998 67777666433  223444433321111 11111111100000001112223333322    3569


Q ss_pred             EEEecCCccCHHHHHHHHHhhccc
Q psy1308         374 VLFDEVDKAHPDVLTVLLQLFDEG  397 (607)
Q Consensus       374 l~lDEiek~~~~~~~~Ll~~~~~~  397 (607)
                      |++||+.=.+..+...+..+.+.|
T Consensus        83 I~IDE~QFf~d~i~~~~~~~~~~g  106 (139)
T d2b8ta1          83 IGIDEVQFFDDRICEVANILAENG  106 (139)
T ss_dssp             EEECSGGGSCTHHHHHHHHHHHTT
T ss_pred             EEechhhhcchhHHHHHHHHHhcC
Confidence            999999988754444333333433

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=86.48  E-value=0.78  Score=41.56  Aligned_cols=91  Identities=12%  Similarity=0.226  Sum_probs=50.3

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEeecccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEec
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLDMSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFDE  378 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  378 (607)
                      .++++||+++|||.++..|...+..     ...++-+  +.+...+                      .....-++++||
T Consensus       106 ~~~l~G~~~tGKS~f~~~i~~~lg~-----~~~~~~~--~~~f~l~----------------------~l~~k~~~~~~e  156 (267)
T d1u0ja_         106 TIWLFGPATTGKTNIAEAIAHTVPF-----YGCVNWT--NENFPFN----------------------DCVDKMVIWWEE  156 (267)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSC-----EEECCTT--CSSCTTG----------------------GGSSCSEEEECS
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhcc-----hhhcccc--CCCcccc----------------------ccCCCEEEEEeC
Confidence            6889999999999999999988732     1111111  1111111                      122335889999


Q ss_pred             CCccCHHHHHHHHHhhccceeec--CCCcEEecCce-EEEEecC
Q psy1308         379 VDKAHPDVLTVLLQLFDEGRLTD--GKGKTIECKDA-IFVMTSN  419 (607)
Q Consensus       379 iek~~~~~~~~Ll~~~~~~~~~~--~~g~~~~~~~~-~iI~tsn  419 (607)
                      ...-. .....+-+++....+.-  .....+.+... ++|+|+|
T Consensus       157 ~~~~~-~~~~~~K~l~gGd~i~v~~K~k~~~~~~~~p~li~s~n  199 (267)
T d1u0ja_         157 GKMTA-KVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNT  199 (267)
T ss_dssp             CCEET-TTHHHHHHHHTTCCEEC------CCEECCCCEEEEESS
T ss_pred             CCccc-cHHHHHHHhcCCCceEeecccCCCcEeeCCeEEEEeCC
Confidence            87654 44556666666333332  11223344444 5555555

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=86.06  E-value=0.2  Score=42.67  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=20.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.||+|+||+++++.|.+..
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            57799999999999999998765

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=85.26  E-value=0.91  Score=43.89  Aligned_cols=93  Identities=15%  Similarity=0.191  Sum_probs=53.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccCcCCceEEee-cccccccchhHhhhcCCCCCccCCCCchhhHHHhhCCCeEEEEe
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRDKKEAFIRLD-MSEYQEKHEVAKLIGAPPGYLGHDDGGQLTKRLKKCPNAVVLFD  377 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~~~~~~~~l~-~a~~~~~~~~~~llg~~~g~~g~~~~~~l~~~~~~~~~~vl~lD  377 (607)
                      .+++.||+|+|||.....+.+.++.. ...++.+. --+|.-......-+.   +-.+..-...+..+++..| .||++.
T Consensus       160 liLvtGpTGSGKSTTl~~~l~~~~~~-~~~i~tiEdPiE~~~~~~~q~~v~---~~~~~~~~~~l~~~lR~dP-Dvi~ig  234 (401)
T d1p9ra_         160 IILVTGPTGSGKSTTLYAGLQELNSS-ERNILTVEDPIEFDIDGIGQTQVN---PRVDMTFARGLRAILRQDP-DVVMVG  234 (401)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHCCT-TSCEEEEESSCCSCCSSSEEEECB---GGGTBCHHHHHHHHGGGCC-SEEEES
T ss_pred             eEEEEcCCCCCccHHHHHHhhhhcCC-CceEEEeccCcccccCCCCeeeec---CCcCCCHHHHHHHHHhhcC-CEEEec
Confidence            78999999999999999999988654 23344442 222211110000000   0000001123444555555 699999


Q ss_pred             cCCccCHHHHHHHHHhhccce
Q psy1308         378 EVDKAHPDVLTVLLQLFDEGR  398 (607)
Q Consensus       378 Eiek~~~~~~~~Ll~~~~~~~  398 (607)
                      ||-  +++.....++.-..|.
T Consensus       235 EiR--d~~ta~~a~~aa~tGh  253 (401)
T d1p9ra_         235 EIR--DLETAQIAVQASLTGH  253 (401)
T ss_dssp             CCC--SHHHHHHHHHHHHTTC
T ss_pred             CcC--ChHHHHHHHHHHhcCC
Confidence            998  5666677777777665

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.59  E-value=0.26  Score=41.86  Aligned_cols=23  Identities=22%  Similarity=0.528  Sum_probs=19.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+.+.||+|+||+.|.+.|.+..
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             cEEEECCCCCCHHHHHHHHHHhC
Confidence            47789999999999999888653

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=84.07  E-value=0.32  Score=40.57  Aligned_cols=26  Identities=27%  Similarity=0.342  Sum_probs=22.8

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhccC
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHRD  324 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~~  324 (607)
                      .+.++|++|+|||+++..|+..+..+
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            46799999999999999999988654

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=83.77  E-value=0.44  Score=42.28  Aligned_cols=25  Identities=32%  Similarity=0.736  Sum_probs=22.0

Q ss_pred             eeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      ++++.|++|+|||+|.+.+.+.+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~   26 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLED   26 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Confidence            5789999999999999999987644

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=82.78  E-value=0.34  Score=42.22  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=20.4

Q ss_pred             eeeeeccCCCChhHHHHHHHHHh
Q psy1308         299 VFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       299 ~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      .+++.||+|+||++|.+.|.+..
T Consensus         4 livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            57899999999999999988764

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=82.73  E-value=0.48  Score=39.09  Aligned_cols=26  Identities=27%  Similarity=0.399  Sum_probs=23.5

Q ss_pred             ceeeeeccCCCChhHHHHHHHHHhcc
Q psy1308         298 LVFLFLGSSGIGKTELAKQLAFYIHR  323 (607)
Q Consensus       298 ~~~ll~G~~G~GKt~la~~la~~l~~  323 (607)
                      ..++|.|+-|+|||.++|.+++.+..
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             eEEEEecCCCccHHHHHHHHHhhccc
Confidence            37899999999999999999999854

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=82.69  E-value=0.37  Score=41.16  Aligned_cols=24  Identities=33%  Similarity=0.560  Sum_probs=21.4

Q ss_pred             CCceeeeeccCCCChhHHHHHHHH
Q psy1308         296 HPLVFLFLGSSGIGKTELAKQLAF  319 (607)
Q Consensus       296 ~p~~~ll~G~~G~GKt~la~~la~  319 (607)
                      .|+.+.++|++|+|||++|+.+.+
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            478889999999999999998864

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=82.46  E-value=0.89  Score=40.14  Aligned_cols=43  Identities=33%  Similarity=0.397  Sum_probs=32.0

Q ss_pred             hhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         271 VGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       271 ~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      -.|..+++.+...+....        |...+++|.+|+|||+++-..+...
T Consensus        58 ~~Q~~~~~~i~~~~~~~~--------~~~~LL~GdvGsGKT~V~~~a~~~~  100 (233)
T d2eyqa3          58 PDQAQAINAVLSDMCQPL--------AMDRLVCGDVGFGKTEVAMRAAFLA  100 (233)
T ss_dssp             HHHHHHHHHHHHHHHSSS--------CCEEEEECCCCTTTHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccC--------ccCeEEEcCCCCCcHHHHHHHHHHH
Confidence            347777777766665443        6688999999999999997666554

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=80.19  E-value=0.85  Score=41.15  Aligned_cols=43  Identities=26%  Similarity=0.274  Sum_probs=32.1

Q ss_pred             hhhHHHHHHHHHHHHHhhCCCCCCCCCceeeeeccCCCChhHHHHHHHHHh
Q psy1308         271 VGQESAINIISAAIKRKENGWTDDDHPLVFLFLGSSGIGKTELAKQLAFYI  321 (607)
Q Consensus       271 ~Gq~~ai~~l~~~i~~~~~~~~~~~~p~~~ll~G~~G~GKt~la~~la~~l  321 (607)
                      -.|..++..+...+....        |...++.|.+|+|||.++-..+...
T Consensus        86 ~~Q~~ai~ei~~d~~~~~--------~m~rLL~GdvGSGKT~Va~~a~~~~  128 (264)
T d1gm5a3          86 NAQKRAHQEIRNDMISEK--------PMNRLLQGDVGSGKTVVAQLAILDN  128 (264)
T ss_dssp             HHHHHHHHHHHHHHHSSS--------CCCCEEECCSSSSHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHhhccC--------cceeeeeccccccccHHHHHHHHHH
Confidence            457777777766665443        5678999999999999997666543