Psyllid ID: psy17974

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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---
Protein Sequence
MAKTAEKPQAFSTATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPGKQEGTSSILAEA
Secondary Structure (PSIPRED)
cccccccccEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEcccHHHHHHHccccccccccccHHHHHHHHHccccHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHccccEEEEEccccEEEEcccEEEEEEEccccccccccccccccccccEEEEcccccHHHHHHHHccccHHHHHHHHHHEEEEEccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHcccccccccccccEEEccHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccccccccccccEEEEEEcccccccccccccccccccccccccEEEEccHHHHHHHHHHHHHHHccccEEEEcccccHHHHHHHHHHHHccccccEEEEEEEEcccccHHHHHHHHHHHHHHHcccccccccccEEEEEEccccccccccccccccHHHHHHHHHccccccccccccEEEcccEEEEcccccccccccccHHHHcccEEEEcccccHHHHHHHHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
ccHHcccccEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcEccccEEEEccHHHHHHHHccccHHHHHHHHHHHHHHHHccccEEccccccccHHHcHccHHHHHHHHHHHHHHHHHHHHHcccEEEEEcccEEEEEcEEEEEEEcccccccccccHHHHHHHcccccEEcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccEEEEEEcccccccccHHHccccccccccccHHHHEcccHHHHHHHHHHHHHHHccccEEEEccccccHEHEHHHHHHHcccccccEEEEEcccccccHHHHHHHHHcHHHHHcccccccccccEEEEEEEccccccccccccccHHHHHHHHHHccccccHHcccHHHHcccEEEEEccccccccccccHHHHHHEEEEEcccccHHHHHHHHHHHHHHHHHcccHHHEEcc
Coil and Loop (DISEMBL)
maktaekpqafstatspdflpafqtNNAHLESILKSLESYLDVKrsafprfyflSNEELLEILGqarnpqavqphlgkcfdgiagwtPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAIHQMINLVPScaafitmnpgyagrtelpdNLKALFrpmammvpdyGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSeqlsqqdhyDFGMRAVKSVLVMAGslkranpdkneDVVLIRALrdsnlpkfladdaglFLVDVSKARMICSLMEstliepgmldrshnsentgplLVQTFLWSYLWAvggnltdeSRDRFEAFAReqftdepnvslgkdpdlrsyfvskdtkqltpwttitpiftydptmpffdmmvptidtIRFGSIMEKLLLvnhpvmftgvtgvGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKrtktllgaplgkrlavfvddvnmpkletygaqppiELLRQFLDfgglydrdKMFWKTLQDVVLCtacappgggrmpltprfvrhfgllslpsptedTLKVIFKVrtspgkqegtsSILAEA
Flexible Loop (DISEMBL)
maktaekpqafstatspdflPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAgslkranpdknedvVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAreqftdepnvslgkdpdLRSYfvskdtkqltpwttitpiftydpTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFsaqtssartqeilegkldkrtktllgaplgkrlavfvDDVNMPKLetygaqppieLLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLlslpsptedtLKVIFKVrtspgkqegtssilaea
Low Complexity Region (SEG)
MAKTAEKPQAFSTATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFtgvtgvgktvvARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPGKQEGTSSILAEA
Disordered region (IsUnstruct)
*******************LPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKR*****NEDVVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLMESTLIEPGM*********TGPLLVQTFLWSYLWAVGGNLTD***************************LRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ********ILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKV*****************
Disordered Region (DISOPRED)
*****EKPQAFSTATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPGKQEGTSS*****
Disordered Region (DISEMBL)
************TATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS**************
Disordered Region (DISPRO)
****AEKPQAFSTATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPGKQEGTSSILAEA
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAKTAEKPQAFSTATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPGKQEGTSSILAEA
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	583	2.2.26 [Sep-21-2011]
Q9C0G6	4158	Dynein heavy chain 6, axo	yes	N/A	0.500	0.070	0.535	2e-97
Q8WXX0	4024	Dynein heavy chain 7, axo	no	N/A	0.463	0.067	0.391	5e-50
Q9P2D7	4330	Dynein heavy chain 1, axo	no	N/A	0.319	0.042	0.525	2e-48
Q63170	4057	Dynein heavy chain 7, axo	no	N/A	0.461	0.066	0.376	4e-47
Q9P225	4427	Dynein heavy chain 2, axo	no	N/A	0.447	0.058	0.358	1e-46
Q8BW94	4083	Dynein heavy chain 3, axo	no	N/A	0.319	0.045	0.525	1e-46
P0C6F1	4456	Dynein heavy chain 2, axo	no	N/A	0.447	0.058	0.358	1e-46
Q9SMH3	4625	Dynein-1-alpha heavy chai	N/A	N/A	0.193	0.024	0.681	1e-46
Q8TD57	4116	Dynein heavy chain 3, axo	no	N/A	0.188	0.026	0.687	2e-46
Q9MBF8	4513	Dynein-1-beta heavy chain	N/A	N/A	0.449	0.058	0.4	2e-46

>sp|Q9C0G6|DYH6_HUMAN Dynein heavy chain 6, axonemal OS=Homo sapiens GN=DNAH6 PE=1 SV=3

 Score =  356 bits (914), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 158/295 (53%), Positives = 216/295 (73%)

Query: 271  VDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRF 330
            VD+SK   +C L+ES ++    ++ +        +L QTF++ YLW++GGNLT+   D F
Sbjct: 1954 VDISKVTTLCCLLESLILGKDGVNLAMEQTKLNTILCQTFVFCYLWSLGGNLTENYYDSF 2013

Query: 331  EAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTI 390
            + F R QF D P+  L    DL S  +  DTK+L PW  I P F Y+  +PFF+M+VPT 
Sbjct: 2014 DTFIRTQFDDNPDARLPNSGDLWSIHMDFDTKRLDPWERIIPTFKYNRDVPFFEMLVPTT 2073

Query: 391  DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA 450
            DT+R+G +MEKLL V H V+FTG+TGVGK+V+A+ +LNK+  S  +  + +NFSAQTSSA
Sbjct: 2074 DTVRYGYLMEKLLAVKHSVLFTGITGVGKSVIAKGLLNKIQESAGYVPVYLNFSAQTSSA 2133

Query: 451  RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY 510
            RTQEI+E KL+++ K +LGAP  KR+ +FVDD+NMP+L+ YG+QPPIELLRQ+ DFGG Y
Sbjct: 2134 RTQEIIESKLERKRKNILGAPGNKRIVIFVDDLNMPRLDRYGSQPPIELLRQYQDFGGFY 2193

Query: 511  DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
            DR+K+FWK +QDV + +ACAPPGGGR P+TPRF+RHF +L LP P+E +LK IF+
Sbjct: 2194 DRNKLFWKEIQDVTIISACAPPGGGRNPVTPRFIRHFSMLCLPMPSEHSLKQIFQ 2248

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP.
Homo sapiens (taxid: 9606)

>sp|Q8WXX0|DYH7_HUMAN Dynein heavy chain 7, axonemal OS=Homo sapiens GN=DNAH7 PE=1 SV=2

 Score =  199 bits (506), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 115/294 (39%), Positives = 159/294 (54%), Gaps = 24/294 (8%)

Query: 295  RSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRS 354
            +  N   T  LL   FL+S +W+VG + TD+ R +F    RE      +        L+S
Sbjct: 1834 KERNDRETYSLLEGIFLFSLIWSVGASCTDDDRLKFNKILRELMESPISDRTRNTFKLQS 1893

Query: 355  YFVSKDTKQLT-PWTTITPIFTYD-------------------PTMP----FFDMMVPTI 390
                  +K LT P+     I+ Y                    P +P    F +++VPT+
Sbjct: 1894 GTEQTSSKALTVPFPEKGTIYDYQFVTEGIGKWEPWIKKLKEAPPIPKDVMFNEIIVPTL 1953

Query: 391  DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA 450
            DTIR+ ++ME L     P +F G TG GK+V   + L   L    +  L INFSAQT++A
Sbjct: 1954 DTIRYSALMELLTTHQKPSIFVGPTGTGKSVYITNFLLNQLNKEIYKPLLINFSAQTTAA 2013

Query: 451  RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY 510
            +TQ I+  KLDKR K + G PLGKR+ VFVDDVNMP  E YGAQPPIELLRQ+LD    Y
Sbjct: 2014 QTQNIVMSKLDKRRKGVFGPPLGKRMVVFVDDVNMPAREVYGAQPPIELLRQWLDHWNWY 2073

Query: 511  DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIF 564
            D        L D+ +  A  PPGGGR P+TPR++RHF ++++   ++ ++  IF
Sbjct: 2074 DLKDCSMIKLVDIQIMCAMGPPGGGRNPVTPRYMRHFNIITINEFSDKSMYTIF 2127

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP.

Homo sapiens (taxid: 9606)

>sp|Q9P2D7|DYH1_HUMAN Dynein heavy chain 1, axonemal OS=Homo sapiens GN=DNAH1 PE=2 SV=4

 Score =  194 bits (492), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 102/194 (52%), Positives = 126/194 (64%), Gaps = 8/194 (4%)

Query: 76   LGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAI 135
            +GK F G+A       +W    FD+   I  E   V+              V +F    +
Sbjct: 1616 MGKFFKGLAS----AGAWA--CFDEFNRIDIEVLSVVAQQITTIQKAQQQRVERFMFEGV 1669

Query: 136  HQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESS 195
               I LVPSCA FITMNPGYAGRTELPDNLKALFRP+AMMVPDY +I E+ LYS GF  +
Sbjct: 1670 E--IPLVPSCAVFITMNPGYAGRTELPDNLKALFRPVAMMVPDYAMITEISLYSFGFNEA 1727

Query: 196  KNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRD 255
              LA+K+   +KL SEQLS QDHYDFGMRAVK+V+  AG+LKR NP  NE+++ +RA+RD
Sbjct: 1728 SVLAKKITTTFKLSSEQLSSQDHYDFGMRAVKTVISAAGNLKRENPSMNEELICLRAIRD 1787

Query: 256  SNLPKFLADDAGLF 269
             N+PKFL +D  LF
Sbjct: 1788 VNVPKFLQEDLKLF 1801

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Homo sapiens (taxid: 9606)

>sp|Q63170|DYH7_RAT Dynein heavy chain 7, axonemal OS=Rattus norvegicus GN=Dnah7 PE=2 SV=2

 Score =  189 bits (481), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 111/295 (37%), Positives = 160/295 (54%), Gaps = 26/295 (8%)

Query: 295  RSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDP-DLR 353
            +  N      LL   FL+S +W+VG + T + R ++    RE   + P   L ++   L 
Sbjct: 1867 KERNDRENFSLLEGIFLFSLIWSVGASCTADDRIKYNKILRE-LMEGPISDLTRNKFKLL 1925

Query: 354  SYFVSKDTKQLT-PWTTITPIFTYD-------------------PTMP----FFDMMVPT 389
            S      +K LT P+     I+ Y                    P +P    F +++VPT
Sbjct: 1926 SGTEQTSSKALTVPFPEKGTIYDYQFIPEGLGRWDQWIKKLADTPPIPKDVQFNEIIVPT 1985

Query: 390  IDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS 449
            +DT+R+ ++M  L     P +F G TG GK+V   + L   L  + +  L +NFSAQT++
Sbjct: 1986 LDTVRYSALMSLLTTHQKPSIFVGPTGTGKSVYIINFLLNQLNKDIYKPLIVNFSAQTTA 2045

Query: 450  ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGL 509
            A+TQ I+  KLDKR K + G PLGKR+ VFVDDVNMP  E YGAQPPIELLRQ+LD    
Sbjct: 2046 AQTQNIIMSKLDKRRKGVFGPPLGKRMIVFVDDVNMPAREVYGAQPPIELLRQWLDHWNW 2105

Query: 510  YDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIF 564
            YD        L D+ +  A  PPGGGR P+TPR++RHF ++++   ++ ++  IF
Sbjct: 2106 YDLKDCSMIKLVDIQIMCAMGPPGGGRNPITPRYMRHFNIITINEFSDKSMFTIF 2160

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP.

Rattus norvegicus (taxid: 10116)

>sp|Q9P225|DYH2_HUMAN Dynein heavy chain 2, axonemal OS=Homo sapiens GN=DNAH2 PE=2 SV=3

 Score =  188 bits (478), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 96/268 (35%), Positives = 159/268 (59%), Gaps = 7/268 (2%)

Query: 298  NSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFV 357
            + EN   ++  TF++S +W+V  ++ +E R R +++ RE     PN    KD  +  YFV
Sbjct: 2305 DGENYVTMVEMTFVFSMIWSVCASVDEEGRKRIDSYLREIEGSFPN----KDT-VYEYFV 2359

Query: 358  SKDTKQLTPWTTITP-IFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTG 416
                +  T +    P  + Y P  PF+ +MVPT+DT+R+  ++  L+   +P++  G  G
Sbjct: 2360 DPKIRSWTSFEDKLPKSWRYPPNAPFYKIMVPTVDTVRYNYLVSSLVANQNPILLVGPVG 2419

Query: 417  VGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRL 476
             GKT +A+S+L  L  S+ W+ L +N SAQT+S   Q I+E +++KRTK +     GK +
Sbjct: 2420 TGKTSIAQSVLQSL-PSSQWSVLVVNMSAQTTSNNVQSIIESRVEKRTKGVYVPFGGKSM 2478

Query: 477  AVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGR 536
              F+DD+NMP  + +G+QPP+EL+R ++D+G  YDR K   K ++++ L  A  PPGGGR
Sbjct: 2479 ITFMDDLNMPAKDMFGSQPPLELIRLWIDYGFWYDRTKQTIKYIREMFLMAAMGPPGGGR 2538

Query: 537  MPLTPRFVRHFGLLSLPSPTEDTLKVIF 564
              ++PR    F ++++  PT+  +  IF
Sbjct: 2539 TVISPRLRSRFNIINMTFPTKSQIIRIF 2566

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Homo sapiens (taxid: 9606)

>sp|Q8BW94|DYH3_MOUSE Dynein heavy chain 3, axonemal OS=Mus musculus GN=Dnah3 PE=1 SV=2

 Score =  188 bits (477), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 102/194 (52%), Positives = 125/194 (64%), Gaps = 8/194 (4%)

Query: 76   LGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAI 135
            +GK F G+A       +W    FD+   I  E   V+           +  +++F     
Sbjct: 1431 MGKFFKGLAQ----AGAWA--CFDEFNRIEVEVLSVVAQQILSIQQAIIRKLKRFIFEGT 1484

Query: 136  HQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESS 195
               +N  P+CA FITMNPGYAGR ELPDNLKALFR +AMMVPDY LI E+ LYS GF  S
Sbjct: 1485 ELSLN--PTCAVFITMNPGYAGRAELPDNLKALFRTVAMMVPDYALIGEISLYSMGFLDS 1542

Query: 196  KNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRD 255
            ++LAQK+V  Y+LCSEQLS Q HYD+GMRAVKSVL  AG+LK   P++NE V+L+RAL D
Sbjct: 1543 RSLAQKIVATYRLCSEQLSSQHHYDYGMRAVKSVLTAAGNLKLKYPEENESVLLLRALLD 1602

Query: 256  SNLPKFLADDAGLF 269
             NL KFLA D  LF
Sbjct: 1603 VNLAKFLAQDVPLF 1616

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Mus musculus (taxid: 10090)

>sp|P0C6F1|DYH2_MOUSE Dynein heavy chain 2, axonemal OS=Mus musculus GN=Dnah2 PE=2 SV=1

 Score =  188 bits (477), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 96/268 (35%), Positives = 161/268 (60%), Gaps = 7/268 (2%)

Query: 298  NSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFV 357
            ++EN   ++  TF++S +W+V  ++ ++ R + +++ RE     PN    KD  +  Y+V
Sbjct: 2334 DAENYSFMVEMTFVFSMIWSVCASVDEDGRKKIDSYLREIEGSFPN----KDT-VYEYYV 2388

Query: 358  SKDTKQLTPWTTITP-IFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTG 416
            +   +  T +    P  + Y P  PF+ +MVPT+DT+R+  ++  L+   +PV+  G  G
Sbjct: 2389 NPKMRTWTSFEEKLPKSWRYPPNAPFYKIMVPTVDTVRYNYLVSTLVANQNPVLLVGPVG 2448

Query: 417  VGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRL 476
             GKT +A+S+L  L  S+ W+ L +N SAQT+S   Q I+E +++KRTK +     GK +
Sbjct: 2449 TGKTSIAQSVLQSL-PSSQWSVLVVNMSAQTTSNNVQSIIESRVEKRTKGVYVPFGGKSM 2507

Query: 477  AVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGR 536
              F+DD+NMP  + +G+QPP+EL+R ++D+G  YDR K   K ++D+ L  A  PPGGGR
Sbjct: 2508 ITFMDDLNMPAKDMFGSQPPLELIRLWIDYGFWYDRVKQSIKHIRDMFLMAAMGPPGGGR 2567

Query: 537  MPLTPRFVRHFGLLSLPSPTEDTLKVIF 564
              ++PR    F ++++  PTE  +  IF
Sbjct: 2568 TVISPRLQSRFNIINMTFPTESQIIRIF 2595

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Mus musculus (taxid: 10090)

>sp|Q9SMH3|DYH1A_CHLRE Dynein-1-alpha heavy chain, flagellar inner arm I1 complex OS=Chlamydomonas reinhardtii GN=DHC1 PE=1 SV=1

 Score =  188 bits (477), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 90/132 (68%), Positives = 108/132 (81%)

Query: 139  INLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNL 198
            I++ P    FITMNPGYAGRTELPDNLKALFRP+ M+VPD   I E++L+SEGF+S+K L
Sbjct: 2048 ISIDPRTGIFITMNPGYAGRTELPDNLKALFRPVTMVVPDLEQICEIMLFSEGFDSAKVL 2107

Query: 199  AQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNL 258
            A+KM  +YKL  EQLS+Q HYDFG+RA+KSVLVMAGSLKR  PD +E +VL+RALRD NL
Sbjct: 2108 AKKMTVLYKLSREQLSKQHHYDFGLRALKSVLVMAGSLKRGAPDMSEQLVLMRALRDMNL 2167

Query: 259  PKFLADDAGLFL 270
            PKF+ DD  LFL
Sbjct: 2168 PKFIFDDVPLFL 2179

Force generating protein of eukaryotic cilia and flagella. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Required for assembly of the I1 inner arm complex and its targeting to the appropriate axoneme location. Also required for phototaxis.

Chlamydomonas reinhardtii (taxid: 3055)

>sp|Q8TD57|DYH3_HUMAN Dynein heavy chain 3, axonemal OS=Homo sapiens GN=DNAH3 PE=2 SV=1

 Score =  187 bits (476), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 90/131 (68%), Positives = 105/131 (80%)

Query: 139  INLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNL 198
            ++L P+CA FITMNPGYAGR ELPDNLKALFR +AMMVPDY LI E+ LYS GF  S++L
Sbjct: 1519 LSLNPTCAVFITMNPGYAGRAELPDNLKALFRTVAMMVPDYALIGEISLYSMGFLDSRSL 1578

Query: 199  AQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNL 258
            AQK+V  Y+LCSEQLS Q HYD+GMRAVKSVL  AG+LK   P++NE V+L+RAL D NL
Sbjct: 1579 AQKIVATYRLCSEQLSSQHHYDYGMRAVKSVLTAAGNLKLKYPEENESVLLLRALLDVNL 1638

Query: 259  PKFLADDAGLF 269
             KFLA D  LF
Sbjct: 1639 AKFLAQDVPLF 1649

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Homo sapiens (taxid: 9606)

>sp|Q9MBF8|DYH1B_CHLRE Dynein-1-beta heavy chain, flagellar inner arm I1 complex OS=Chlamydomonas reinhardtii GN=DHC10 PE=1 SV=1

 Score =  187 bits (475), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 108/270 (40%), Positives = 154/270 (57%), Gaps = 8/270 (2%)

Query: 297  HNSENTGPLLVQT-FLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSY 355
              S  TG  LV+  FL+  +W +GG L +E R +F+AF RE  T  P+        +  Y
Sbjct: 2384 ETSGGTGGNLVEMWFLFCLIWGIGGPLDEEGRKKFDAFMREMDTRYPSSDT-----VFEY 2438

Query: 356  FVSKDTKQLTPW-TTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGV 414
            FV    K    W T +T  F      PFF ++VPT+DT+R   +   L+ V+   +  G 
Sbjct: 2439 FVEPKAKSWLAWETKLTGAFKPAMDQPFFKILVPTVDTVRNRFVGSALVRVSQHTLIVGN 2498

Query: 415  TGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGK 474
             GVGKT++  S+L  L   +  +++TINFSAQTSS   Q+ +EGKL+KRTK +     GK
Sbjct: 2499 VGVGKTMIVGSLLEGL-PGDRMSSMTINFSAQTSSNSLQDTIEGKLEKRTKGVFAPAGGK 2557

Query: 475  RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG 534
            RL  F+DD+NMP+   +G  PP+ELL+ ++D G  YDR K   K ++D+ L  A APPGG
Sbjct: 2558 RLVCFIDDLNMPQKSKFGFIPPLELLKLWVDNGFWYDRAKCEVKHIKDMQLLAAMAPPGG 2617

Query: 535  GRMPLTPRFVRHFGLLSLPSPTEDTLKVIF 564
            GR   + R    F  L++ +P ++ LK IF
Sbjct: 2618 GRNAFSQRVQACFATLNVTAPNDNQLKRIF 2647

Force generating protein of eukaryotic cilia and flagella. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Required for assembly of the I1 inner arm complex and its targeting to the appropriate axoneme location. Also required for phototaxis.

Chlamydomonas reinhardtii (taxid: 3055)

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	583
345484602	4023	PREDICTED: dynein heavy chain 6, axonema	0.506	0.073	0.558	1e-104
332239322	4089	PREDICTED: dynein heavy chain 6, axonema	0.536	0.076	0.517	2e-97
350396924	4057	PREDICTED: dynein heavy chain 6, axonema	0.504	0.072	0.569	2e-97
340715862	3914	PREDICTED: dynein heavy chain 6, axonema	0.504	0.075	0.569	3e-97
242016193	3921	dynein-1-alpha heavy chain, flagellar in	0.511	0.076	0.525	5e-97
383866039	4033	PREDICTED: dynein heavy chain 6, axonema	0.504	0.072	0.576	6e-97
327282710	4157	PREDICTED: dynein heavy chain 6, axonema	0.497	0.069	0.549	8e-97
326663948	3988	PREDICTED: dynein heavy chain 6, axonema	0.500	0.073	0.549	3e-96
390353710	4188	PREDICTED: dynein heavy chain 6, axonema	0.512	0.071	0.543	3e-96
433383	1078	dynein heavy chain isotype 5A, partial [	0.506	0.273	0.547	4e-96

>gi|345484602|ref|XP_001603855.2| PREDICTED: dynein heavy chain 6, axonemal-like [Nasonia vitripennis]

 Score =  386 bits (992), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 168/301 (55%), Positives = 231/301 (76%)

Query: 265  DAGLFLVDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTD 324
            D  +  VD+SKA M+C+L+ES ++EPG +D++ +S      + Q F++SY+WA+GGN+ D
Sbjct: 1827 DHAMSQVDISKANMLCALLESIILEPGAIDKTADSSKVKTFVTQAFVFSYMWAIGGNILD 1886

Query: 325  ESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFD 384
             SR+ FE F ++QF +  +  +    DL   FV+   +++  W+ + P F+YD   PFF+
Sbjct: 1887 NSREAFELFVKDQFEENADARIPSSGDLWGLFVNTSDRRMDVWSKLMPTFSYDSEQPFFE 1946

Query: 385  MMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS 444
            ++VPT+DT+RFG +M+KL+ VN PV+FTG TG+GK+V+A+ +LN L  +  W  + +NFS
Sbjct: 1947 ILVPTVDTVRFGYVMQKLIQVNKPVLFTGGTGIGKSVIAKMVLNTLENTGDWVPIVLNFS 2006

Query: 445  AQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFL 504
            AQTSS RTQEILE KL+K+ KT +GAP+GKR+ +FVDDVNMPKL++YG+QPPIELLRQ L
Sbjct: 2007 AQTSSGRTQEILELKLEKKRKTAIGAPVGKRVCLFVDDVNMPKLDSYGSQPPIELLRQIL 2066

Query: 505  DFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIF 564
            D GGLYDRDK+FWK +QDVVL TACAPPGGGR PLT RFVRHFG+L +P+PTED+LK IF
Sbjct: 2067 DSGGLYDRDKLFWKDIQDVVLTTACAPPGGGRNPLTARFVRHFGMLVIPAPTEDSLKSIF 2126

Query: 565  K 565
            +
Sbjct: 2127 R 2127

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332239322|ref|XP_003268853.1| PREDICTED: dynein heavy chain 6, axonemal [Nomascus leucogenys]

 Score =  363 bits (931), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 165/319 (51%), Positives = 227/319 (71%), Gaps = 6/319 (1%)

Query: 271  VDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRF 330
            VD+SK   +C L+ES ++E   ++ +        +L QTF++ YLW++GGNLT+  RD F
Sbjct: 1886 VDISKVTTLCCLLESLILEKDGVNLAMEQTKLNTILCQTFVFCYLWSLGGNLTENCRDSF 1945

Query: 331  EAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTI 390
            + F R QF D P+  L    DL S  +  DTK+L PW  I P F Y+  +PFF+M+VPT 
Sbjct: 1946 DTFIRTQFDDNPDARLPSSGDLWSIHMDFDTKRLDPWERIIPTFKYNRDVPFFEMLVPTT 2005

Query: 391  DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA 450
            DT+R+G +MEKLL V H V+FTG+TGVGK+V+A+ +LNK+  S  +  + +NFSAQTSSA
Sbjct: 2006 DTVRYGYLMEKLLAVKHSVLFTGITGVGKSVIAKGLLNKIQESAGYVPVYLNFSAQTSSA 2065

Query: 451  RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY 510
            RTQEI+E KL+++ K +LGAP  KR+ +FVDD+NMP+L+ YG+QPPIELLRQ+ DFGG Y
Sbjct: 2066 RTQEIIESKLERKRKNILGAPGNKRIVIFVDDLNMPRLDRYGSQPPIELLRQYQDFGGFY 2125

Query: 511  DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS- 569
            DR+K+FWK +QDV + +ACAPPGGGR P+TPRF+RHF +L LP P+E +LK IF+   + 
Sbjct: 2126 DRNKLFWKEIQDVTIVSACAPPGGGRNPVTPRFIRHFSMLCLPMPSEHSLKQIFQAILNG 2185

Query: 570  -----PGKQEGTSSILAEA 583
                 P   + T+S + EA
Sbjct: 2186 FLSDFPAAVKQTASSIVEA 2204

Source: Nomascus leucogenys

Species: Nomascus leucogenys

Genus: Nomascus

Family: Hylobatidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|350396924|ref|XP_003484712.1| PREDICTED: dynein heavy chain 6, axonemal-like [Bombus impatiens]

 Score =  362 bits (930), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 168/295 (56%), Positives = 218/295 (73%), Gaps = 1/295 (0%)

Query: 271  VDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRF 330
            VD+SKA M CS++E  L EP  ++R+         L Q+F+++YLWAVGGN+ D SR  F
Sbjct: 1893 VDISKASMTCSILEYILNEPDAIERTTEKARIRTFLAQSFVFAYLWAVGGNVNDASRSVF 1952

Query: 331  EAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTI 390
            EAF R+QF D+ +  L    DL   +V+    +L  WT I P F YD  +PFFD++VPT+
Sbjct: 1953 EAFVRKQFEDDEDAFL-PSIDLWEIYVNVQQHRLDSWTDIMPQFIYDSEVPFFDILVPTV 2011

Query: 391  DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA 450
            DT+RFG +M+KL+ +N PV FTG TGVGK+V+ + +LN L  S  W  + + FSAQTSS 
Sbjct: 2012 DTVRFGYLMKKLVGINKPVFFTGDTGVGKSVITKVVLNNLEDSQLWVPINLIFSAQTSSG 2071

Query: 451  RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY 510
            RTQEILE KL++R +T+LGAP+GKR+ VFVDDVNMPKL+TYG+QPPIELLRQ LDF G+Y
Sbjct: 2072 RTQEILELKLERRKRTVLGAPIGKRVCVFVDDVNMPKLDTYGSQPPIELLRQLLDFHGMY 2131

Query: 511  DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
            D++K+FWK ++DVV   ACAPPGGGR PLTPRFVRHF +L +P+P E +LK IFK
Sbjct: 2132 DKEKLFWKHIEDVVFTVACAPPGGGRNPLTPRFVRHFAMLFIPAPIELSLKGIFK 2186

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340715862|ref|XP_003396426.1| PREDICTED: dynein heavy chain 6, axonemal-like [Bombus terrestris]

 Score =  362 bits (929), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 168/295 (56%), Positives = 218/295 (73%), Gaps = 1/295 (0%)

Query: 271  VDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRF 330
            VD+SKA M CS++E  L EP  ++R+         L Q+F+++YLWAVGGN+ D SR  F
Sbjct: 1767 VDISKASMTCSILEYILNEPDAIERTTEKARIRTFLAQSFVFAYLWAVGGNVNDASRGVF 1826

Query: 331  EAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTI 390
            EAF R+QF D+ +  L    DL   +V+    +L  WT I P F YD  +PFFD++VPT+
Sbjct: 1827 EAFVRKQFEDDEDTFL-PSIDLWEIYVNVQQHRLDSWTDIMPEFIYDSEVPFFDILVPTV 1885

Query: 391  DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA 450
            DT+RFG +M+KL+ +N PV FTG TGVGK+V+ + +LN L  S  W  + + FSAQTSS 
Sbjct: 1886 DTVRFGYLMKKLVGINKPVFFTGDTGVGKSVITKVVLNNLEDSQLWVPINLIFSAQTSSG 1945

Query: 451  RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY 510
            RTQEILE KL++R +T+LGAP+GKR+ VFVDDVNMPKL+TYG+QPPIELLRQ LDF G+Y
Sbjct: 1946 RTQEILELKLERRKRTVLGAPIGKRVCVFVDDVNMPKLDTYGSQPPIELLRQLLDFHGMY 2005

Query: 511  DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
            D++K+FWK ++DVV   ACAPPGGGR PLTPRFVRHF +L +P+P E +LK IFK
Sbjct: 2006 DKEKLFWKDIEDVVFTVACAPPGGGRNPLTPRFVRHFAMLFIPAPIELSLKGIFK 2060

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242016193|ref|XP_002428714.1| dynein-1-alpha heavy chain, flagellar inner arm I1 complex, putative [Pediculus humanus corporis] gi|212513391|gb|EEB15976.1| dynein-1-alpha heavy chain, flagellar inner arm I1 complex, putative [Pediculus humanus corporis]

 Score =  361 bits (927), Expect = 5e-97,   Method: Compositional matrix adjust.
 Identities = 157/299 (52%), Positives = 219/299 (73%)

Query: 267  GLFLVDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDES 326
            G+  VD+SK   +C L++S L+EP  +D+S +       + QTF +  +W +GGN+ ++ 
Sbjct: 1721 GINQVDISKVTALCKLIQSILMEPNSIDKSMDRSKIKSFIYQTFSFGLVWGLGGNINEQH 1780

Query: 327  RDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMM 386
            R+ +E F R  F D+ + +L    DL   ++    K++  W  I P F Y+P  P+F+++
Sbjct: 1781 RNMYELFLRTMFEDKEDANLSTAADLWDMYIDVQNKRMEQWLKIIPNFEYNPETPYFEIL 1840

Query: 387  VPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ 446
            VPT DT+RFG +MEKLL VN PVMFTG TGVGK+V+ ++++  ++A   W  +T+NFSAQ
Sbjct: 1841 VPTQDTVRFGYLMEKLLNVNQPVMFTGNTGVGKSVITKAVIQSIVAKGRWLPITLNFSAQ 1900

Query: 447  TSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDF 506
            TSSARTQE++E KL+++ KT+ GAP+GK+  VFVDDVNMPKL+TYG+QPPIELLRQ+LDF
Sbjct: 1901 TSSARTQEMIESKLERKKKTVFGAPMGKKFIVFVDDVNMPKLDTYGSQPPIELLRQYLDF 1960

Query: 507  GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
            GGLYDR+K+FWK + DV+L  ACAPPGGGR PLTPRFVRHF +  +PSP+E  LK+IF+
Sbjct: 1961 GGLYDREKLFWKEIHDVILSIACAPPGGGRNPLTPRFVRHFSMFLIPSPSEMALKMIFR 2019

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383866039|ref|XP_003708479.1| PREDICTED: dynein heavy chain 6, axonemal [Megachile rotundata]

 Score =  361 bits (926), Expect = 6e-97,   Method: Compositional matrix adjust.
 Identities = 170/295 (57%), Positives = 216/295 (73%), Gaps = 1/295 (0%)

Query: 271  VDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRF 330
            VD+SKA M CSL+E  L EP  ++++ +       L Q F+ +YLWAVGGN+ D SRD F
Sbjct: 1890 VDISKATMTCSLIECILKEPDAIEKTTDKSRIRMFLTQVFVITYLWAVGGNIDDASRDAF 1949

Query: 331  EAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTI 390
            EAF ++QF DE   +     DL   +V+    +L  W  I P F YD  +PFFD++VPT+
Sbjct: 1950 EAFVKKQF-DENEDAYLPSTDLWDLYVNVQAHRLDLWQDIMPEFVYDSEVPFFDILVPTV 2008

Query: 391  DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA 450
            DT+RFG IM+KL+  N PV FTG TGVGK+V+ + +L  L  S  W  +T+ FSAQTSS 
Sbjct: 2009 DTVRFGYIMKKLVESNKPVFFTGDTGVGKSVITKVVLTDLEHSQLWVPITLIFSAQTSSG 2068

Query: 451  RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY 510
            RTQEILE KL+KR +T+LGAP+GKR+ VFVDDVNMP+L+TYG+QPPIELLRQ LDF G+Y
Sbjct: 2069 RTQEILELKLEKRKRTVLGAPIGKRVCVFVDDVNMPRLDTYGSQPPIELLRQLLDFRGMY 2128

Query: 511  DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
            DR+K+FWK ++DVV   ACAPPGGGR PLTPRFVRHF +L +P+PTE +LK IFK
Sbjct: 2129 DREKLFWKDIEDVVFTVACAPPGGGRNPLTPRFVRHFAMLLIPAPTETSLKGIFK 2183

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|327282710|ref|XP_003226085.1| PREDICTED: dynein heavy chain 6, axonemal-like [Anolis carolinensis]

 Score =  360 bits (925), Expect = 8e-97,   Method: Compositional matrix adjust.
 Identities = 162/295 (54%), Positives = 216/295 (73%)

Query: 271  VDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRF 330
            VD+SK   +C L+ES LI  G             L+ QTF++ YLW+VGGNLT+   D F
Sbjct: 1957 VDISKVVTLCCLLESLLIGKGGPSMKLEQSRLNSLVCQTFVFCYLWSVGGNLTENFWDGF 2016

Query: 331  EAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTI 390
            + F R+QF D  +  L    DL S ++  DTK+L PW  I P F Y+  +PFF+M+VPT 
Sbjct: 2017 DTFIRQQFEDNADAKLPTSGDLWSVYIDFDTKRLDPWERIIPAFKYNHKLPFFEMLVPTT 2076

Query: 391  DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA 450
            DT+R+G +MEKLL V H V+FTG+TGVGK+VVA+++LN++     +  + INFSAQTSS+
Sbjct: 2077 DTVRYGFLMEKLLAVRHSVLFTGITGVGKSVVAKALLNRIQEEAGYVPVYINFSAQTSSS 2136

Query: 451  RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY 510
            RTQEI+E KL+K+ K +LGAP  KR+ +FVDD+NMPKL+ YG+QPPIELLRQ+ DFGG Y
Sbjct: 2137 RTQEIIESKLEKKRKNILGAPGKKRVVIFVDDLNMPKLDRYGSQPPIELLRQYQDFGGFY 2196

Query: 511  DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
            DR+K+FWK + DV +C+ACAPPGGGR P+TPRF+RHF +L LP+P+E +LK IF+
Sbjct: 2197 DREKLFWKEIHDVTICSACAPPGGGRNPVTPRFIRHFAMLCLPTPSEHSLKQIFQ 2251

Source: Anolis carolinensis

Species: Anolis carolinensis

Genus: Anolis

Family: Iguanidae

Order: Squamata

Phylum: Chordata

Superkingdom: Eukaryota

>gi|326663948|ref|XP_001921252.3| PREDICTED: dynein heavy chain 6, axonemal [Danio rerio]

 Score =  359 bits (921), Expect = 3e-96,   Method: Compositional matrix adjust.
 Identities = 162/295 (54%), Positives = 213/295 (72%)

Query: 271  VDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRF 330
            VD+SK   +C L+E+ L   G       S     +L QTF++ YLWAVGGNL +   D F
Sbjct: 1963 VDISKVTTLCCLLEALLFSDGAPSLKMESSKLNNVLCQTFVFCYLWAVGGNLIESHWDTF 2022

Query: 331  EAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTI 390
            + F R+QF D  +  L    DL S +++ D K L PW  I P+F+Y+  +PFF+M+VPT 
Sbjct: 2023 DTFVRQQFEDNTDAKLSSVGDLWSVYMNFDIKCLEPWERIIPVFSYNSEIPFFEMLVPTT 2082

Query: 391  DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA 450
            DT+R+G +MEKLL VNH V+FTG+TGVGK+VVAR++LN +     +  + INFSAQTSSA
Sbjct: 2083 DTVRYGYLMEKLLSVNHSVLFTGITGVGKSVVARALLNSVQEKAGYVPVYINFSAQTSSA 2142

Query: 451  RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY 510
            RTQEI+E KL+K+ K +LGAP  K++ VFVDD+NMPKL++YG+QPPIELLRQF DF G Y
Sbjct: 2143 RTQEIIESKLEKKRKNILGAPANKKIVVFVDDLNMPKLDSYGSQPPIELLRQFQDFHGFY 2202

Query: 511  DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
            DR+K FWK + D+ +  ACAPPGGGR P+TPRF+RHF +L LP+P+E +LK IFK
Sbjct: 2203 DREKFFWKEIHDMTIAAACAPPGGGRNPVTPRFIRHFSMLCLPTPSESSLKQIFK 2257

Source: Danio rerio

Species: Danio rerio

Genus: Danio

Family: Cyprinidae

Order: Cypriniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|390353710|ref|XP_786228.3| PREDICTED: dynein heavy chain 6, axonemal-like [Strongylocentrotus purpuratus]

 Score =  358 bits (920), Expect = 3e-96,   Method: Compositional matrix adjust.
 Identities = 163/300 (54%), Positives = 221/300 (73%), Gaps = 1/300 (0%)

Query: 267  GLFLVDVSKARMICSLMESTLI-EPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDE 325
             +  VDVSK   +C L+E+ L  E   ++    +    PL+  TF++SYLWA+GGNL + 
Sbjct: 1961 AIHQVDVSKVTTLCCLLEALLFHEKSNVNLKLETAKLHPLICSTFVFSYLWAIGGNLIES 2020

Query: 326  SRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDM 385
              D F+ F R QF D  +  L  + DL S ++  D+K++  W  I P F YDP +PFF+M
Sbjct: 2021 CWDAFDTFIRNQFEDNGDAKLPINGDLWSCYMDFDSKRMDLWEKIVPTFKYDPEVPFFEM 2080

Query: 386  MVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA 445
            +VPT+DT+RFG +MEKL+LVNH V+FTG TGVGK+V+AR++L  +     +  + +NFSA
Sbjct: 2081 LVPTMDTVRFGYLMEKLILVNHSVLFTGTTGVGKSVIARALLEGIQDKADYVPIFMNFSA 2140

Query: 446  QTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLD 505
            QTSS RTQEI+EGKL+K+ KT+LGAP+GKR+ +FVDD+NMPKL+TYG+QPPIELLRQ+ D
Sbjct: 2141 QTSSQRTQEIIEGKLEKKRKTILGAPIGKRVIIFVDDLNMPKLDTYGSQPPIELLRQYQD 2200

Query: 506  FGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
            FGG YDR+KMFWK +QDV L +ACAPPGGGR P+TPR +RHF +L +P+ ++ +LK IFK
Sbjct: 2201 FGGFYDREKMFWKDIQDVTLASACAPPGGGRNPVTPRLMRHFSMLCVPTASDHSLKHIFK 2260

Source: Strongylocentrotus purpuratus

Species: Strongylocentrotus purpuratus

Genus: Strongylocentrotus

Family: Strongylocentrotidae

Order: Echinoida

Class: Echinoidea

Phylum: Echinodermata

Superkingdom: Eukaryota

>gi|433383|gb|AAA63591.1| dynein heavy chain isotype 5A, partial [Tripneustes gratilla]

 Score =  358 bits (919), Expect = 4e-96,   Method: Compositional matrix adjust.
 Identities = 162/296 (54%), Positives = 220/296 (74%), Gaps = 1/296 (0%)

Query: 271 VDVSKARMICSLMESTLI-EPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDR 329
           VD+SK   +C L+E+ L  E   ++    +    PL+  TF++SYLWA+GGNL +   D 
Sbjct: 523 VDISKVTTLCCLLEALLFQETSNVNLKLETAKLHPLICSTFVFSYLWAIGGNLIESCWDA 582

Query: 330 FEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPT 389
           F+ F R QF D  +  L  + DL S ++  D+K++  W  I P F YDP +PFF+M+VPT
Sbjct: 583 FDTFIRNQFEDNGDAKLPSNGDLWSCYMDFDSKRMDLWEKIVPTFKYDPEVPFFEMLVPT 642

Query: 390 IDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS 449
           +DT+RFG +MEKLLLV H V+FTG TGVGK+V+AR++L  +    ++  + +NFSAQTSS
Sbjct: 643 MDTVRFGYLMEKLLLVKHSVLFTGTTGVGKSVIARALLEGIQEKASYVPIFMNFSAQTSS 702

Query: 450 ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGL 509
            RTQEI+EGKL+K+ KT+LGAP+GKR+ +FVDD+NMPKL+TYG+QPPIELLRQ+ DFGG 
Sbjct: 703 QRTQEIIEGKLEKKRKTILGAPIGKRVIIFVDDLNMPKLDTYGSQPPIELLRQYQDFGGF 762

Query: 510 YDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
           YDR+KMFWK +QDV L +ACAPPGGGR P+TPR +RHF +L +P+ ++ +LK IFK
Sbjct: 763 YDREKMFWKDIQDVTLASACAPPGGGRNPVTPRLMRHFSMLCVPTASDHSLKHIFK 818

Source: Tripneustes gratilla

Species: Tripneustes gratilla

Genus: Tripneustes

Family: Toxopneustidae

Order: Temnopleuroida

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	583
ZFIN|ZDB-GENE-030616-623	3966	dnah7l "dynein, axonemal, heav	0.506	0.074	0.518	3.4e-162
UNIPROTKB|Q9C0G6	4158	DNAH6 "Dynein heavy chain 6, a	0.506	0.070	0.508	6.7e-162
UNIPROTKB|F1Q2N3	4158	DNAH6 "Uncharacterized protein	0.562	0.078	0.466	3.3e-160
UNIPROTKB|F1Q2P6	2801	DNAH6 "Uncharacterized protein	0.562	0.117	0.466	2.6e-136
FB|FBgn0013809	4081	Dhc16F "Dynein heavy chain at	0.490	0.070	0.476	5.1e-134
UNIPROTKB|F1N8N6	3888	DNAH1 "Uncharacterized protein	0.224	0.033	0.694	6.8e-106
UNIPROTKB|F1NWW4	4204	DNAH1 "Uncharacterized protein	0.224	0.031	0.694	4.8e-103
UNIPROTKB|I3LNF2	4320	DNAH1 "Uncharacterized protein	0.360	0.048	0.493	4.2e-101
UNIPROTKB|F1NLA9	3256	DNAH7 "Uncharacterized protein	0.224	0.040	0.648	6.5e-101
UNIPROTKB|F1MK55	4424	DNAH2 "Uncharacterized protein	0.476	0.062	0.347	2.5e-100

ZFIN|ZDB-GENE-030616-623 dnah7l "dynein, axonemal, heavy polypeptide 7 like" [Danio rerio (taxid:7955)]

 Score = 830 (297.2 bits), Expect = 3.4e-162, Sum P(3) = 3.4e-162
 Identities = 153/295 (51%), Positives = 202/295 (68%)

Query:   271 VDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRF 330
             VD+SK   +C L+E+ L   G       S     +L QTF++ YLWAVGGNL +   D F
Sbjct:  1970 VDISKVTTLCCLLEALLFSDGAPSLKMESSKLNNVLCQTFVFCYLWAVGGNLIESHWDTF 2029

Query:   331 EAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTI 390
             + F R+QF D  +  L    DL S +++ D K L PW  I P+F+Y+  +PFF+M+VPT 
Sbjct:  2030 DTFVRQQFEDNTDAKLSSVGDLWSVYMNFDIKCLEPWERIIPVFSYNSEIPFFEMLVPTT 2089

Query:   391 DTIRFGSIMEKLLLVNHPVMFXXXXXXXXXXXARSILNKLLASNTWAALTINFSAQTSSA 450
             DT+R+G +MEKLL VNH V+F           AR++LN +     +  + INFSAQTSSA
Sbjct:  2090 DTVRYGYLMEKLLSVNHSVLFTGITGVGKSVVARALLNSVQEKAGYVPVYINFSAQTSSA 2149

Query:   451 RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY 510
             RTQEI+E KL+K+ K +LGAP  K++ VFVDD+NMPKL++YG+QPPIELLRQF DF G Y
Sbjct:  2150 RTQEIIESKLEKKRKNILGAPANKKIVVFVDDLNMPKLDSYGSQPPIELLRQFQDFHGFY 2209

Query:   511 DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
             DR+K FWK + D+ +  ACAPPGGGR P+TPRF+RHF +L LP+P+E +LK IFK
Sbjct:  2210 DREKFFWKEIHDMTIAAACAPPGGGRNPVTPRFIRHFSMLCLPTPSESSLKQIFK 2264

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

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0030286 "dynein complex" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|Q9C0G6 DNAH6 "Dynein heavy chain 6, axonemal" [Homo sapiens (taxid:9606)]

 Score = 824 (295.1 bits), Expect = 6.7e-162, Sum P(3) = 6.7e-162
 Identities = 150/295 (50%), Positives = 205/295 (69%)

Query:   271 VDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRF 330
             VD+SK   +C L+ES ++    ++ +        +L QTF++ YLW++GGNLT+   D F
Sbjct:  1954 VDISKVTTLCCLLESLILGKDGVNLAMEQTKLNTILCQTFVFCYLWSLGGNLTENYYDSF 2013

Query:   331 EAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTI 390
             + F R QF D P+  L    DL S  +  DTK+L PW  I P F Y+  +PFF+M+VPT 
Sbjct:  2014 DTFIRTQFDDNPDARLPNSGDLWSIHMDFDTKRLDPWERIIPTFKYNRDVPFFEMLVPTT 2073

Query:   391 DTIRFGSIMEKLLLVNHPVMFXXXXXXXXXXXARSILNKLLASNTWAALTINFSAQTSSA 450
             DT+R+G +MEKLL V H V+F           A+ +LNK+  S  +  + +NFSAQTSSA
Sbjct:  2074 DTVRYGYLMEKLLAVKHSVLFTGITGVGKSVIAKGLLNKIQESAGYVPVYLNFSAQTSSA 2133

Query:   451 RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY 510
             RTQEI+E KL+++ K +LGAP  KR+ +FVDD+NMP+L+ YG+QPPIELLRQ+ DFGG Y
Sbjct:  2134 RTQEIIESKLERKRKNILGAPGNKRIVIFVDDLNMPRLDRYGSQPPIELLRQYQDFGGFY 2193

Query:   511 DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
             DR+K+FWK +QDV + +ACAPPGGGR P+TPRF+RHF +L LP P+E +LK IF+
Sbjct:  2194 DRNKLFWKEIQDVTIISACAPPGGGRNPVTPRFIRHFSMLCLPMPSEHSLKQIFQ 2248

GO:0001539 "ciliary or flagellar motility" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005874 "microtubule" evidence=IEA

GO:0035085 "cilium axoneme" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=NAS

UNIPROTKB|F1Q2N3 DNAH6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 811 (290.5 bits), Expect = 3.3e-160, Sum P(3) = 3.3e-160
 Identities = 155/332 (46%), Positives = 216/332 (65%)

Query:   237 KRANPDKNEDVV-LIRALRDSNLPKFLADDAGLFL--VDVSKARMICSLMESTLIEPGML 293
             K+ N +  E ++ L +   D  L  F+    G  +  VD+SK   +C L+ES ++    +
Sbjct:  1915 KKLNEETQEYILNLFQRYVDDGL-HFINKKCGQAIPQVDISKVTTLCCLLESLILGKDGV 1973

Query:   294 DRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLR 353
             + +        +L QTF++ YLW++GGNLT+   D F+ F R QF D P+  L    DL 
Sbjct:  1974 NLTMEQTKLNTVLCQTFVFCYLWSLGGNLTENYWDSFDTFIRAQFDDNPDARLPSSGDLW 2033

Query:   354 SYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFXX 413
             S  +  DTK+L PW  I P F Y   +PFF+M+VPT DT+RFG +MEKLL V H V+F  
Sbjct:  2034 SIHMDFDTKRLDPWERIIPTFKYSRDIPFFEMLVPTTDTVRFGYLMEKLLAVRHSVLFTG 2093

Query:   414 XXXXXXXXXARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLG 473
                      A+ +LN++  +  +  + +NFSAQTSSARTQEI+E KL+++ K +LGAP  
Sbjct:  2094 ITGVGKSVIAKGLLNRIQETAAYVPVYLNFSAQTSSARTQEIIESKLERKRKNILGAPGN 2153

Query:   474 KRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG 533
             K + +FVDD+NMP+L+ YG+QPPIELLRQ+ DFGG YDR K+FWK +QDV + +ACAPPG
Sbjct:  2154 KHVVIFVDDLNMPRLDRYGSQPPIELLRQYQDFGGFYDRSKLFWKDIQDVTIVSACAPPG 2213

Query:   534 GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
             GGR P+T RF+RHF +L LP P+E +LK IF+
Sbjct:  2214 GGRNPVTSRFIRHFSMLCLPMPSEHSLKQIFQ 2245

GO:0005524 "ATP binding" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0001539 "ciliary or flagellar motility" evidence=IEA

UNIPROTKB|F1Q2P6 DNAH6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 811 (290.5 bits), Expect = 2.6e-136, Sum P(2) = 2.6e-136
 Identities = 155/332 (46%), Positives = 216/332 (65%)

Query:   237 KRANPDKNEDVV-LIRALRDSNLPKFLADDAGLFL--VDVSKARMICSLMESTLIEPGML 293
             K+ N +  E ++ L +   D  L  F+    G  +  VD+SK   +C L+ES ++    +
Sbjct:   561 KKLNEETQEYILNLFQRYVDDGL-HFINKKCGQAIPQVDISKVTTLCCLLESLILGKDGV 619

Query:   294 DRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLR 353
             + +        +L QTF++ YLW++GGNLT+   D F+ F R QF D P+  L    DL 
Sbjct:   620 NLTMEQTKLNTVLCQTFVFCYLWSLGGNLTENYWDSFDTFIRAQFDDNPDARLPSSGDLW 679

Query:   354 SYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFXX 413
             S  +  DTK+L PW  I P F Y   +PFF+M+VPT DT+RFG +MEKLL V H V+F  
Sbjct:   680 SIHMDFDTKRLDPWERIIPTFKYSRDIPFFEMLVPTTDTVRFGYLMEKLLAVRHSVLFTG 739

Query:   414 XXXXXXXXXARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLG 473
                      A+ +LN++  +  +  + +NFSAQTSSARTQEI+E KL+++ K +LGAP  
Sbjct:   740 ITGVGKSVIAKGLLNRIQETAAYVPVYLNFSAQTSSARTQEIIESKLERKRKNILGAPGN 799

Query:   474 KRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG 533
             K + +FVDD+NMP+L+ YG+QPPIELLRQ+ DFGG YDR K+FWK +QDV + +ACAPPG
Sbjct:   800 KHVVIFVDDLNMPRLDRYGSQPPIELLRQYQDFGGFYDRSKLFWKDIQDVTIVSACAPPG 859

Query:   534 GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK 565
             GGR P+T RF+RHF +L LP P+E +LK IF+
Sbjct:   860 GGRNPVTSRFIRHFSMLCLPMPSEHSLKQIFQ 891

GO:0005524 "ATP binding" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0001539 "ciliary or flagellar motility" evidence=IEA

FB|FBgn0013809 Dhc16F "Dynein heavy chain at 16F" [Drosophila melanogaster (taxid:7227)]

 Score = 654 (235.3 bits), Expect = 5.1e-134, Sum P(3) = 5.1e-134
 Identities = 139/292 (47%), Positives = 176/292 (60%)

Query:   274 SKARMICSLMESTLIEPGMLDRSHNSENTGPLLV-QTFLWSYLWAVGGNLTDESRDRFEA 332
             SK R+ C L  S   E   +  S  SE  G  LV + F W+ LWA+  NL D  +  FE 
Sbjct:  1897 SKVRLCCEL-NSAQFEA--VKWSAMSEEQGKELVTKIFAWAVLWAIASNLKDAEKVSFEE 1953

Query:   333 FAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDT 392
                +     PN++L  +  L +Y +  +      W  I   F +DP   ++DM VPT+DT
Sbjct:  1954 QWSKAIAQHPNMTL-PNFTLWNYRIDLEKMDWGSWIDIMAKFVFDPETSYYDMQVPTVDT 2012

Query:   393 IRFGSIMEKLLLVNHPVMFXXXXXXXXXXXARSILNKLLASNTWAALTINFSAQTSSART 452
              ++G + + L     PVM            A S + +L   N    + +NFSAQTSS RT
Sbjct:  2013 TKYGYVSDLLFKRGMPVMVTGDTGVGKTVLAISCMKRLSQGNVIPVI-LNFSAQTSSNRT 2071

Query:   453 QEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDR 512
             QE++EG L+KR KT LGAP+GK + VF+DDVNMPKL+TYGA P IELLRQFLDF G YDR
Sbjct:  2072 QEMIEGPLEKRKKTQLGAPVGKTVIVFIDDVNMPKLDTYGASPAIELLRQFLDFKGFYDR 2131

Query:   513 DKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIF 564
             +K++WK + DVVL  ACAPPGGGR PLTPRFVRHF L SLP P E+TL  IF
Sbjct:  2132 EKLYWKEILDVVLGCACAPPGGGRNPLTPRFVRHFALFSLPKPNEETLTQIF 2183

GO:0005875 "microtubule associated complex" evidence=ISS

GO:0005858 "axonemal dynein complex" evidence=ISS

GO:0003774 "motor activity" evidence=ISS

GO:0042623 "ATPase activity, coupled" evidence=ISS

GO:0007018 "microtubule-based movement" evidence=IEA;ISS

GO:0005524 "ATP binding" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

UNIPROTKB|F1N8N6 DNAH1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 482 (174.7 bits), Expect = 6.8e-106, Sum P(3) = 6.8e-106
 Identities = 91/131 (69%), Positives = 109/131 (83%)

Query:   139 INLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNL 198
             I LVPSCA FITMNPGYAGRTELPDNLKALFRP+AMMVPDY +IAE+ LYS GF  +K L
Sbjct:  1323 IPLVPSCAVFITMNPGYAGRTELPDNLKALFRPVAMMVPDYSMIAEISLYSFGFNEAKVL 1382

Query:   199 AQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNL 258
             A+K+   +KL SEQLS QDHYDFGMRAVK+V+  AG+LK+ NP  +ED++ +RA+RD+N+
Sbjct:  1383 AKKITTTFKLLSEQLSTQDHYDFGMRAVKTVISTAGNLKKENPTMDEDLICLRAIRDANI 1442

Query:   259 PKFLADDAGLF 269
             PKFL DD  LF
Sbjct:  1443 PKFLQDDLKLF 1453

GO:0001539 "ciliary or flagellar motility" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|F1NWW4 DNAH1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 482 (174.7 bits), Expect = 4.8e-103, Sum P(3) = 4.8e-103
 Identities = 91/131 (69%), Positives = 109/131 (83%)

Query:   139 INLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNL 198
             I LVPSCA FITMNPGYAGRTELPDNLKALFRP+AMMVPDY +IAE+ LYS GF  +K L
Sbjct:  1556 IPLVPSCAVFITMNPGYAGRTELPDNLKALFRPVAMMVPDYSMIAEISLYSFGFNEAKVL 1615

Query:   199 AQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNL 258
             A+K+   +KL SEQLS QDHYDFGMRAVK+V+  AG+LK+ NP  +ED++ +RA+RD+N+
Sbjct:  1616 AKKITTTFKLLSEQLSTQDHYDFGMRAVKTVISTAGNLKKENPTMDEDLICLRAIRDANI 1675

Query:   259 PKFLADDAGLF 269
             PKFL DD  LF
Sbjct:  1676 PKFLQDDLKLF 1686

GO:0001539 "ciliary or flagellar motility" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|I3LNF2 DNAH1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 480 (174.0 bits), Expect = 4.2e-101, Sum P(3) = 4.2e-101
 Identities = 109/221 (49%), Positives = 140/221 (63%)

Query:    76 LGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAI 135
             +GK F G+A       +W    FD+   I  E   V+              V +F    +
Sbjct:  1617 MGKFFKGLAS----SGAWA--CFDEFNRIDIEVLSVVAQQITTIQKAQQQRVDRFMFEGV 1670

Query:   136 HQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESS 195
                I LVPSCA FITMNPGYAGRTELPDNLKALFRP+AMMVPDY +IAE+ LYS GF  +
Sbjct:  1671 E--IPLVPSCAVFITMNPGYAGRTELPDNLKALFRPVAMMVPDYAMIAEISLYSFGFNEA 1728

Query:   196 KNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRD 255
               LA+K+   +KL SEQLS QDHYDFGMRAVK+V+  AG+LKR NP  NE+++ +RA+RD
Sbjct:  1729 SVLAKKITTTFKLSSEQLSSQDHYDFGMRAVKTVISAAGNLKRENPSMNEELICLRAIRD 1788

Query:   256 SNLPKFLADDAGLFLVDVSKARMICSLMESTLIEPGMLDRS 296
              N+PKFL +D  LF   VS   +  ++ E    + G+LD++
Sbjct:  1789 VNVPKFLQEDLKLFSGIVSD--LFPTIKEDET-DYGILDKA 1826

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0001539 "ciliary or flagellar motility" evidence=IEA

UNIPROTKB|F1NLA9 DNAH7 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 444 (161.4 bits), Expect = 6.5e-101, Sum P(4) = 6.5e-101
 Identities = 85/131 (64%), Positives = 107/131 (81%)

Query:   139 INLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNL 198
             + L P+CA FITMNPGYAGR+ELPDNLKALFR +AMMVPDY +IAE+VLYS GF S++ L
Sbjct:   677 LKLNPTCAVFITMNPGYAGRSELPDNLKALFRTVAMMVPDYAMIAEIVLYSCGFVSARPL 736

Query:   199 AQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNL 258
             + K+V  Y+LCSEQLS Q HYD+GMRAVKSVL  AG+LK   P ++E+++L+R++ D NL
Sbjct:   737 SVKIVATYRLCSEQLSSQHHYDYGMRAVKSVLTAAGNLKLKYPMEDEEILLLRSITDVNL 796

Query:   259 PKFLADDAGLF 269
             PKFL+ D  LF
Sbjct:   797 PKFLSHDLPLF 807

GO:0005509 "calcium ion binding" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0001539 "ciliary or flagellar motility" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005929 "cilium" evidence=IEA

UNIPROTKB|F1MK55 DNAH2 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 463 (168.0 bits), Expect = 2.5e-100, Sum P(3) = 2.5e-100
 Identities = 100/288 (34%), Positives = 163/288 (56%)

Query:   279 ICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQF 338
             +C L  S L  P       +SEN   ++  TF++S +W+V  ++ +E R + +++ RE  
Sbjct:  2284 LCKLY-SALATPENGVNPADSENFASMVELTFVFSMIWSVCASVDEEGRKKIDSYLREIE 2342

Query:   339 TDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITP-IFTYDPTMPFFDMMVPTIDTIRFGS 397
                PN    KD  +  YFV    +  T +    P  + Y P  PF+ ++VPT+DT+R+  
Sbjct:  2343 GTFPN----KDT-VYEYFVDPKIRSWTSFEDKLPKSWRYPPNSPFYKIVVPTVDTVRYNY 2397

Query:   398 IMEKLLLVNHPVMFXXXXXXXXXXXARSILNKLLASNTWAALTINFSAQTSSARTQEILE 457
             ++  ++   +PV+            A+S+L  L  S+ W+ LT+N SAQT+S   Q I+E
Sbjct:  2398 LVSTMVASQNPVLLVGPVGTGKTSIAQSVLQSL-PSSQWSVLTVNMSAQTTSNNVQSIIE 2456

Query:   458 GKLDKRTKTLLGAPLG-KRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMF 516
              +++KRTK +   P G K +  F+DD+NMP  +T+G+QPP+EL+R ++D+G  YDR K  
Sbjct:  2457 SRVEKRTKGVY-VPFGGKSMITFMDDLNMPAKDTFGSQPPLELIRLWIDYGFWYDRTKQT 2515

Query:   517 WKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIF 564
              K ++D+ L  A  PPGGGR  ++PR    F ++++  PTE  +  IF
Sbjct:  2516 IKYIRDMFLMAAMGPPGGGRTVISPRLQSRFNIINMTFPTESQIIRIF 2563

GO:0005524 "ATP binding" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0001539 "ciliary or flagellar motility" 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)
Q9C0G6	DYH6_HUMAN	No assigned EC number	0.5355	0.5008	0.0702	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	583
pfam12774	231	pfam12774, AAA_6, Hydrolytic ATP binding site of d	3e-44
pfam08393	408	pfam08393, DHC_N2, Dynein heavy chain, N-terminal	3e-34
pfam12775	272	pfam12775, AAA_7, P-loop containing dynein motor r	2e-32
COG5245	3164	COG5245, DYN1, Dynein, heavy chain [Cytoskeleton]	7e-20
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	4e-05
COG5245	3164	COG5245, DYN1, Dynein, heavy chain [Cytoskeleton]	1e-04
pfam07728	135	pfam07728, AAA_5, AAA domain (dynein-related subfa	2e-04

>gnl|CDD|193250 pfam12774, AAA_6, Hydrolytic ATP binding site of dynein motor region D1

 Score =  156 bits (396), Expect = 3e-44
 Identities = 68/105 (64%), Positives = 88/105 (83%)

Query: 137 QMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSK 196
           + I+L+PS   FITMNPGYAGRTELP+NLKALFRP AM+VPD+ LI E++L +EGF  ++
Sbjct: 127 EEISLIPSVGIFITMNPGYAGRTELPENLKALFRPCAMVVPDFELICEIMLVAEGFLEAR 186

Query: 197 NLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANP 241
            LA+K + +Y LC E LS+QDHYD+G+RA+KSVLV+AGSLKR +P
Sbjct: 187 LLARKFITLYTLCKELLSKQDHYDWGLRAIKSVLVVAGSLKRGDP 231

the 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures described previously, and two are modules in which the P loop has been lost in evolution. This particular family is the D1 unit of the motor and contains the hydrolytic ATP binding site. Length = 231

>gnl|CDD|219818 pfam08393, DHC_N2, Dynein heavy chain, N-terminal region 2

 Score =  133 bits (338), Expect = 3e-34
 Identities = 44/84 (52%), Positives = 54/84 (64%)

Query: 1   MAKTAEKPQAFSTATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELL 60
           M K  + P        P  L   +  N  LE I KSL  YL+ KRSAFPRFYFLSN++LL
Sbjct: 264 MKKANKDPNVLEVCNIPGLLEKLEKLNEQLEKIQKSLNEYLESKRSAFPRFYFLSNDDLL 323

Query: 61  EILGQARNPQAVQPHLGKCFDGIA 84
           EIL Q+++P AVQPHL K F+GI+
Sbjct: 324 EILSQSKDPTAVQPHLKKLFEGIS 347

Dyneins are described as motor proteins of eukaryotic cells, as they can convert energy derived from the hydrolysis of ATP to force and movement along cytoskeletal polymers, such as microtubules. This region is found C-terminal to the dynein heavy chain N-terminal region 1 (pfam08385) in many members of this family. No functions seem to have been attributed specifically to this region. Length = 408

>gnl|CDD|193251 pfam12775, AAA_7, P-loop containing dynein motor region D3

 Score =  125 bits (316), Expect = 2e-32
 Identities = 71/197 (36%), Positives = 106/197 (53%), Gaps = 10/197 (5%)

Query: 374 FTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLAS 433
           F  DP MP    +V T +TIR    M+ L+    PVM  G  G GK+V+   + +KL + 
Sbjct: 1   FELDPEMPLQACLVHTSETIRVRYFMDLLMERQRPVMLVGNAGTGKSVL---VGDKLASL 57

Query: 434 NTWAALTIN--FSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETY 491
           +  A L  N  F+  T+SA  Q +LE  L+K+     G P  K+L  F+DD+NMP+++ Y
Sbjct: 58  DPDAYLVKNVPFNYYTTSAMLQAVLEKPLEKKAGRNYGPPGTKKLVYFIDDMNMPEVDAY 117

Query: 492 GAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLC--TACAPPGGGRMPLTPRFVRHFGL 549
           G   P  L+RQ +D+G  YDR K+   TL+++  C   +C  P  G   +  R  RHF +
Sbjct: 118 GTVQPHTLIRQHMDYGHWYDRSKL---TLKEIHNCQYVSCMNPTAGSFTINSRLQRHFCV 174

Query: 550 LSLPSPTEDTLKVIFKV 566
            +L  P +D L  I+ +
Sbjct: 175 FALSFPGQDALSTIYNI 191

the 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures described previously, and two are modules in which the P loop has been lost in evolution. This particular family is the D3 and is an ATP binding site. Length = 272

>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton]

 Score = 94.3 bits (234), Expect = 7e-20
 Identities = 59/267 (22%), Positives = 101/267 (37%), Gaps = 25/267 (9%)

Query: 313  SYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVS------KDTKQLTP 366
                 + G+   ES  RF            +  L KD + RS +          +  +T 
Sbjct: 1402 VLKLRIFGDKCRESTPRF--------YLISDGDLIKDLNERSDYEEMLIMMFNISAVITN 1453

Query: 367  WTTITPIFTYDPT--MPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVAR 424
              +I   F       M   ++++PT DT    S   + L      ++ G  G GK ++  
Sbjct: 1454 NGSI-AGFELRGERVMLRKEVVIPTSDTGFVDSFSNEALNTLRSYIYCGPPGSGKEML-- 1510

Query: 425  SILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKT----LLGAPLGKRLAVFV 480
             +   L +         NFS  T +     +LE + +    T    L   P+ K L +F 
Sbjct: 1511 -MCPSLRSELITEVKYFNFSTCTMTPSKLSVLERETEYYPNTGVVRLYPKPVVKDLVLFC 1569

Query: 481  DDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPL 539
            D++N+P    Y     I  LR  ++  G +    + W T+  ++L  AC P    GR+  
Sbjct: 1570 DEINLPYGFEYYPPTVIVFLRPLVERQGFWSSIAVSWVTICGIILYGACNPGTDEGRVKY 1629

Query: 540  TPRFVRHFGLLSLPSPTEDTLKVIFKV 566
              RF+R    +    P   +L+ I++ 
Sbjct: 1630 YERFIRKPVFVFCCYPELASLRNIYEA 1656

Length = 3164

>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 = 43.7 bits (103), Expect = 4e-05
 Identities = 27/143 (18%), Positives = 47/143 (32%), Gaps = 15/143 (10%)

Query: 408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTL 467
            ++  G  G GKT +AR+I N+L        L +N S         E+    L +    L
Sbjct: 21  NLLLYGPPGTGKTTLARAIANELFRPGA-PFLYLNASDLLEGLVVAELFGHFLVRLLFEL 79

Query: 468 LGAPLGKRLAVFVDDVN-MPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLC 526
             A   K   +F+D+++ + +           +L    D     +  +        V+  
Sbjct: 80  --AEKAKPGVLFIDEIDSLSRGAQNALL---RVLETLNDLRIDRENVR--------VIGA 126

Query: 527 TACAPPGGGRMPLTPRFVRHFGL 549
           T     G     L  R      +
Sbjct: 127 TNRPLLGDLDRALYDRLDIRIVI 149

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|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton]

 Score = 45.0 bits (106), Expect = 1e-04
 Identities = 12/98 (12%), Positives = 30/98 (30%), Gaps = 16/98 (16%)

Query: 133  TAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGF 192
            +A+ +     PS    + +N     R  + +  +         +P +G I          
Sbjct: 1024 SAVVEHGLKSPSTPVEMIINE----RNIVLEIGRRALDMFLSNIP-FGAIKSR------- 1071

Query: 193  ESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVL 230
               ++L +++            ++D   F    +   L
Sbjct: 1072 --RESLDREIGAFNNEVDGIAREEDELMF--YPMFKSL 1105

Length = 3164

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

 Score = 41.1 bits (97), Expect = 2e-04
 Identities = 21/143 (14%), Positives = 40/143 (27%), Gaps = 11/143 (7%)

Query: 408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILE--GKLDKRTK 465
            V+  G  G GK+ +A  +   L   +      +  +  T+    +              
Sbjct: 1   GVLLVGPPGTGKSELAERLAAAL---SNRPVFYVQLTRDTTEEDLKGRRNIDPGGASWVD 57

Query: 466 TLLGAPLGKRLAVFVDDVNMPKLETYGAQ-PPIELLRQFLDFGGLYDRDKMFWKTLQDVV 524
             L     +     +D++N    +   +    ++  R  L  GG   +            
Sbjct: 58  GPLVRAAREGEIAVLDEINRANPDVLNSLLSLLDERRLLLPEGGELVKAAPD-----GFR 112

Query: 525 LCTACAPPGGGRMPLTPRFVRHF 547
           L     P   G   L+P     F
Sbjct: 113 LIATMNPLDRGLNELSPALRSRF 135

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	583
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	100.0
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	100.0
KOG3595|consensus	1395		100.0
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	100.0
PF08393	408	DHC_N2: Dynein heavy chain, N-terminal region 2; I	99.87
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	99.73
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	99.66
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.57
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.55
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.53
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.43
PHA02244	383	ATPase-like protein	99.36
COG0714	329	MoxR-like ATPases [General function prediction onl	99.32
KOG0733|consensus	802		99.3
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.25
KOG0734|consensus	752		99.23
KOG1808|consensus	1856		99.21
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.19
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.18
KOG0733|consensus	802		99.15
KOG0730|consensus	693		99.15
KOG0731|consensus	774		99.13
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.11
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.11
PF07726	131	AAA_3: ATPase family associated with various cellu	99.1
CHL00195	489	ycf46 Ycf46; Provisional	99.1
KOG0738|consensus	491		99.1
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.1
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.09
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.09
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.08
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.07
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	99.07
KOG0736|consensus	953		99.07
KOG0737|consensus	386		99.07
KOG0727|consensus	408		99.06
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.04
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.04
PF00004	132	AAA: ATPase family associated with various cellula	99.03
PRK10865	857	protein disaggregation chaperone; Provisional	99.01
PLN03025	319	replication factor C subunit; Provisional	99.01
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.0
KOG0726|consensus	440		98.99
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.99
KOG2028|consensus	554		98.97
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	98.97
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.96
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.95
PRK13342	413	recombination factor protein RarA; Reviewed	98.95
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.93
KOG0652|consensus	424		98.93
CHL00176	638	ftsH cell division protein; Validated	98.92
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	98.92
CHL00181	287	cbbX CbbX; Provisional	98.92
PRK04195	482	replication factor C large subunit; Provisional	98.92
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.92
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.91
CHL00206	2281	ycf2 Ycf2; Provisional	98.91
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.91
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.91
PRK08084	235	DNA replication initiation factor; Provisional	98.91
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.9
PHA02544	316	44 clamp loader, small subunit; Provisional	98.89
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.88
PRK09862	506	putative ATP-dependent protease; Provisional	98.84
PRK13341	725	recombination factor protein RarA/unknown domain f	98.84
CHL00095	821	clpC Clp protease ATP binding subunit	98.83
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.83
KOG0739|consensus	439		98.83
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	98.82
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.79
KOG0735|consensus	952		98.79
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.79
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.78
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	98.77
PRK13531	498	regulatory ATPase RavA; Provisional	98.76
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.75
KOG0740|consensus	428		98.74
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.74
PRK12402	337	replication factor C small subunit 2; Reviewed	98.73
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	98.73
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	98.72
KOG0729|consensus	435		98.72
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.71
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.7
PRK06893	229	DNA replication initiation factor; Validated	98.7
PRK12422	445	chromosomal replication initiation protein; Provis	98.69
PRK08727	233	hypothetical protein; Validated	98.69
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.69
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.68
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.67
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.66
KOG0728|consensus	404		98.66
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.66
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	98.65
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.64
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.64
KOG0743|consensus	457		98.63
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.62
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.6
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.59
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.59
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	98.59
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.59
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.58
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.58
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.57
smart00350	509	MCM minichromosome maintenance proteins.	98.57
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.56
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.56
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.55
KOG0742|consensus	630		98.55
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.53
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.52
PRK10865	857	protein disaggregation chaperone; Provisional	98.51
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	98.51
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	98.51
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.51
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.5
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.49
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	98.49
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.49
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.48
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.48
PRK06620	214	hypothetical protein; Validated	98.47
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.46
CHL00095	821	clpC Clp protease ATP binding subunit	98.46
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.46
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.46
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.45
KOG0991|consensus	333		98.45
PRK05642	234	DNA replication initiation factor; Validated	98.44
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.42
PF13173	128	AAA_14: AAA domain	98.41
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.41
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.41
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.41
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.4
PRK11608	326	pspF phage shock protein operon transcriptional ac	98.4
PRK08181	269	transposase; Validated	98.39
KOG0735|consensus	952		98.38
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.38
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.37
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.35
PF05729	166	NACHT: NACHT domain	98.35
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	98.35
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	98.35
PRK09087	226	hypothetical protein; Validated	98.35
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.34
smart00382	148	AAA ATPases associated with a variety of cellular	98.34
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.34
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	98.33
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	98.33
KOG0989|consensus	346		98.33
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.32
KOG0744|consensus	423		98.31
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.3
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.3
KOG0651|consensus	388		98.3
KOG2004|consensus	906		98.3
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.29
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.29
PRK15424	538	propionate catabolism operon regulatory protein Pr	98.28
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.27
PRK06526	254	transposase; Provisional	98.25
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.23
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	98.22
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.22
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.2
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	98.2
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.19
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.18
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	98.18
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.17
COG1221	403	PspF Transcriptional regulators containing an AAA-	98.17
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.17
KOG1969|consensus	877		98.17
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.16
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.15
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.15
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.14
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.14
PRK09183	259	transposase/IS protein; Provisional	98.13
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	98.12
KOG0730|consensus	693		98.1
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.1
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.09
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.07
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.06
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	98.06
COG2204	464	AtoC Response regulator containing CheY-like recei	98.05
KOG0736|consensus	953		98.05
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.03
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	98.02
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.0
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.0
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.97
KOG1051|consensus	898		97.95
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.93
PRK08116	268	hypothetical protein; Validated	97.93
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.92
PF14516	331	AAA_35: AAA-like domain	97.92
PRK04132	846	replication factor C small subunit; Provisional	97.91
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	97.9
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.89
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.85
PRK06835	329	DNA replication protein DnaC; Validated	97.85
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.85
PRK09112	351	DNA polymerase III subunit delta'; Validated	97.83
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.81
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.81
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.81
KOG2035|consensus	351		97.79
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	97.76
PRK12377	248	putative replication protein; Provisional	97.74
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	97.7
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.7
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.69
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	97.68
COG1241	682	MCM2 Predicted ATPase involved in replication cont	97.67
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	97.65
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	97.64
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.62
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	97.62
PRK15115	444	response regulator GlrR; Provisional	97.62
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.61
PRK07471	365	DNA polymerase III subunit delta'; Validated	97.59
PRK06921	266	hypothetical protein; Provisional	97.57
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	97.55
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	97.52
PRK08939	306	primosomal protein DnaI; Reviewed	97.52
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.48
KOG0741|consensus	744		97.48
KOG0745|consensus	564		97.45
PRK07952	244	DNA replication protein DnaC; Validated	97.43
KOG0990|consensus	360		97.37
KOG0732|consensus	1080		97.37
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.36
KOG1051|consensus	898		97.35
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.31
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.27
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.26
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.26
KOG2227|consensus	529		97.26
PRK10365	441	transcriptional regulatory protein ZraR; Provision	97.26
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.25
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	97.24
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.21
cd01128	249	rho_factor Transcription termination factor rho is	97.19
KOG0478|consensus	804		97.12
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.06
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	97.05
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.01
KOG1514|consensus	767		97.0
KOG0480|consensus	764		96.96
PRK06090	319	DNA polymerase III subunit delta'; Validated	96.96
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.9
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	96.9
PRK13851	344	type IV secretion system protein VirB11; Provision	96.87
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.86
TIGR00767	415	rho transcription termination factor Rho. Members	96.82
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	96.81
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.8
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.78
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	96.77
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.74
KOG1970|consensus	634		96.72
PRK09376	416	rho transcription termination factor Rho; Provisio	96.69
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	96.68
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.68
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.63
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.55
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.55
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	96.54
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.47
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.47
PRK04296	190	thymidine kinase; Provisional	96.45
KOG0477|consensus	854		96.43
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.43
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	96.38
PF13245	76	AAA_19: Part of AAA domain	96.37
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	96.35
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	96.32
PHA02774	613	E1; Provisional	96.31
PRK12608	380	transcription termination factor Rho; Provisional	96.31
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.26
PRK04841	903	transcriptional regulator MalT; Provisional	96.17
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.1
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.1
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	96.06
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.05
KOG2228|consensus	408		96.02
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	95.99
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.96
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.93
KOG3347|consensus	176		95.93
PRK08118	167	topology modulation protein; Reviewed	95.89
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.87
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	95.85
PRK13764	602	ATPase; Provisional	95.85
PHA02624	647	large T antigen; Provisional	95.85
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.83
PRK00131	175	aroK shikimate kinase; Reviewed	95.78
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	95.73
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	95.73
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.72
KOG0482|consensus	721		95.71
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	95.65
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.61
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.6
PRK10536	262	hypothetical protein; Provisional	95.59
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.56
PRK14530	215	adenylate kinase; Provisional	95.53
PRK07132	299	DNA polymerase III subunit delta'; Validated	95.52
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.51
PHA00729	226	NTP-binding motif containing protein	95.51
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.5
TIGR02237	209	recomb_radB DNA repair and recombination protein R	95.49
KOG1808|consensus	1856		95.49
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	95.49
PRK14532	188	adenylate kinase; Provisional	95.48
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.47
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	95.46
PRK07261	171	topology modulation protein; Provisional	95.46
PF13555	62	AAA_29: P-loop containing region of AAA domain	95.41
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	95.39
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.35
PRK03839	180	putative kinase; Provisional	95.35
KOG0741|consensus	744		95.34
PRK14531	183	adenylate kinase; Provisional	95.34
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.33
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.29
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.28
PRK05541	176	adenylylsulfate kinase; Provisional	95.28
PRK13947	171	shikimate kinase; Provisional	95.28
COG1485	367	Predicted ATPase [General function prediction only	95.27
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.27
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.24
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	95.23
COG0630	312	VirB11 Type IV secretory pathway, VirB11 component	95.23
PRK00625	173	shikimate kinase; Provisional	95.23
PRK05917	290	DNA polymerase III subunit delta'; Validated	95.22
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	95.22
TIGR03819	340	heli_sec_ATPase helicase/secretion neighborhood AT	95.21
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.21
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.2
PRK14737	186	gmk guanylate kinase; Provisional	95.17
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.14
PRK06762	166	hypothetical protein; Provisional	95.14
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.14
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.14
COG4525	259	TauB ABC-type taurine transport system, ATPase com	95.13
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.12
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.07
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.06
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.05
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	95.05
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.01
PRK00300	205	gmk guanylate kinase; Provisional	94.99
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	94.97
PRK13765	637	ATP-dependent protease Lon; Provisional	94.94
PRK10646	153	ADP-binding protein; Provisional	94.92
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	94.91
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	94.89
PRK13949	169	shikimate kinase; Provisional	94.89
TIGR02533	486	type_II_gspE general secretory pathway protein E.	94.89
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.89
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.88
PLN02772	398	guanylate kinase	94.87
KOG2543|consensus	438		94.87
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	94.87
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	94.81
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	94.81
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	94.8
PRK08233	182	hypothetical protein; Provisional	94.8
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	94.76
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	94.75
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.73
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	94.7
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	94.69
PRK10436	462	hypothetical protein; Provisional	94.67
PRK14738	206	gmk guanylate kinase; Provisional	94.65
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	94.64
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	94.64
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	94.63
PRK05057	172	aroK shikimate kinase I; Reviewed	94.61
PF00005	137	ABC_tran: ABC transporter This structure is on hol	94.58
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.52
PRK06217	183	hypothetical protein; Validated	94.51
KOG0060|consensus	659		94.48
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	94.48
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	94.45
PRK14527	191	adenylate kinase; Provisional	94.45
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	94.45
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	94.44
cd01918	149	HprK_C HprK/P, the bifunctional histidine-containi	94.42
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.42
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	94.41
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	94.41
KOG1942|consensus	456		94.4
PTZ00088	229	adenylate kinase 1; Provisional	94.39
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	94.39
PRK13889	988	conjugal transfer relaxase TraA; Provisional	94.37
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	94.37
PRK08533	230	flagellar accessory protein FlaH; Reviewed	94.36
PRK02496	184	adk adenylate kinase; Provisional	94.36
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	94.36
KOG0922|consensus	674		94.35
COG4650	531	RtcR Sigma54-dependent transcription regulator con	94.33
PRK14528	186	adenylate kinase; Provisional	94.33
PRK10875	615	recD exonuclease V subunit alpha; Provisional	94.3
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	94.25
PLN02674	244	adenylate kinase	94.22
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	94.2
PRK04040	188	adenylate kinase; Provisional	94.2
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	94.19
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	94.16
PHA02530	300	pseT polynucleotide kinase; Provisional	94.15
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	94.14
PLN02200	234	adenylate kinase family protein	94.14
PRK06547	172	hypothetical protein; Provisional	94.12
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	94.11
PRK04328	249	hypothetical protein; Provisional	94.1
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	94.09
PRK05480	209	uridine/cytidine kinase; Provisional	94.08
PRK06696	223	uridine kinase; Validated	94.06
COG4619	223	ABC-type uncharacterized transport system, ATPase	94.02
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	94.02
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	94.02
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	94.02
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	94.0
PRK00889	175	adenylylsulfate kinase; Provisional	94.0
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	94.0
PRK06851	367	hypothetical protein; Provisional	93.98
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	93.97
PRK07667	193	uridine kinase; Provisional	93.96
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	93.95
PRK00279	215	adk adenylate kinase; Reviewed	93.93
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	93.93
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	93.91
COG4962	355	CpaF Flp pilus assembly protein, ATPase CpaF [Intr	93.91
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	93.91
PRK05973	237	replicative DNA helicase; Provisional	93.89
PTZ00301	210	uridine kinase; Provisional	93.85
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	93.82
PRK01184	184	hypothetical protein; Provisional	93.81
TIGR02236	310	recomb_radA DNA repair and recombination protein R	93.8
KOG1968|consensus	871		93.79
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	93.79
PRK03731	171	aroL shikimate kinase II; Reviewed	93.76
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	93.75
PF00270	169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	93.74
PRK06851	367	hypothetical protein; Provisional	93.7
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	93.69
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	93.69
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	93.68
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	93.66
PRK04301	317	radA DNA repair and recombination protein RadA; Va	93.65
TIGR00235	207	udk uridine kinase. Model contains a number of lon	93.64
PF09439	181	SRPRB: Signal recognition particle receptor beta s	93.63
PRK13946	184	shikimate kinase; Provisional	93.63
PLN03210	1153	Resistant to P. syringae 6; Provisional	93.6
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	93.6
PRK09825	176	idnK D-gluconate kinase; Provisional	93.57
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	93.56
TIGR00376	637	DNA helicase, putative. The gene product may repre	93.55
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	93.53
PF12846	304	AAA_10: AAA-like domain	93.51
KOG0925|consensus	699		93.49
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	93.47
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	93.44
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	93.44
COG0802	149	Predicted ATPase or kinase [General function predi	93.43
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	93.41
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	93.41
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	93.4
cd03269	210	ABC_putative_ATPase This subfamily is involved in	93.39
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	93.39
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	93.38
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	93.38
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	93.37
COG4178	604	ABC-type uncharacterized transport system, permeas	93.35
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	93.35
PRK14526	211	adenylate kinase; Provisional	93.32
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	93.31
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	93.3
PRK15455	644	PrkA family serine protein kinase; Provisional	93.28
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	93.28
TIGR00101	199	ureG urease accessory protein UreG. This model rep	93.27
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	93.27
PRK08356	195	hypothetical protein; Provisional	93.27
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	93.25
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	93.24
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	93.24
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	93.22
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	93.22
KOG0479|consensus	818		93.21
PRK10416	318	signal recognition particle-docking protein FtsY;	93.19
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	93.18
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	93.18

>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=100.00  E-value=1.9e-51  Score=418.48  Aligned_cols=199  Identities=46%  Similarity=0.917  Sum_probs=164.4

Q ss_pred             cccCCCCCCccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHH
Q psy17974        374 FTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQ  453 (583)
Q Consensus       374 ~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq  453 (583)
                      ++++|+.++++++|||+||+|+.++++.++++++||||+||+|||||++++++++++ +.+.+.+..++||+.|++..+|
T Consensus         1 ~~~~~~~~~~~~~VpT~dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~li~~~l~~l-~~~~~~~~~~~~s~~Tts~~~q   79 (272)
T PF12775_consen    1 FEYDPEMPFNEILVPTVDTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSLIQNFLSSL-DSDKYLVITINFSAQTTSNQLQ   79 (272)
T ss_dssp             ------------T---HHHHHHHHHHHHHHHCTEEEEEESSTTSSHHHHHHHHHHCS-TTCCEEEEEEES-TTHHHHHHH
T ss_pred             CCcccccccceEEeCcHHHHHHHHHHHHHHHcCCcEEEECCCCCchhHHHHhhhccC-CccccceeEeeccCCCCHHHHH
Confidence            457888999999999999999999999999999999999999999999999999987 4567788899999999999999


Q ss_pred             HHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        454 EILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       454 ~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      +++|+++++++|++|||++||++|+||||+|||.+|+||+|+|+|+|||++|+|||||+++.+|+.++|+++||||+|+ 
T Consensus        80 ~~ie~~l~k~~~~~~gP~~~k~lv~fiDDlN~p~~d~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~-  158 (272)
T PF12775_consen   80 KIIESKLEKRRGRVYGPPGGKKLVLFIDDLNMPQPDKYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPT-  158 (272)
T ss_dssp             HCCCTTECECTTEEEEEESSSEEEEEEETTT-S---TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESST-
T ss_pred             HHHhhcEEcCCCCCCCCCCCcEEEEEecccCCCCCCCCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCC-
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999999975 


Q ss_pred             CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcccccC
Q psy17974        534 GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPGKQE  574 (583)
Q Consensus       534 ~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~~l~~  574 (583)
                      +||+++++||+|||+++++++|+.++|.+||++++.+||..
T Consensus       159 ~Gr~~is~R~~r~f~i~~~~~p~~~sl~~If~~il~~~l~~  199 (272)
T PF12775_consen  159 GGRNPISPRFLRHFNILNIPYPSDESLNTIFSSILQSHLKN  199 (272)
T ss_dssp             TT--SHHHHHHTTEEEEE----TCCHHHHHHHHHHHHHTCH
T ss_pred             CCCCCCChHHhhheEEEEecCCChHHHHHHHHHHHhhhccc
Confidence            58899999999999999999999999999999999999863

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=100.00  E-value=2e-41  Score=379.64  Aligned_cols=258  Identities=20%  Similarity=0.253  Sum_probs=214.1

Q ss_pred             hHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCCCCCCCCC-----CCCcceEEEECCCCceeeccccCCccccCC
Q psy17974        304 PLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGK-----DPDLRSYFVSKDTKQLTPWTTITPIFTYDP  378 (583)
Q Consensus       304 ~~i~~~f~fa~iWs~Gg~L~~~~r~~Fd~~i~~~~~~~~~~~~P~-----~~~vfdy~~d~~~~~w~~W~~~~~~~~~~~  378 (583)
                      ..++......+.|.+.|.-+.++++.|-.++..-+..    .+|+     .-.+.++-++..+..|.+-.    .+++..
T Consensus      1393 ~~mk~~I~~vL~~~~~gD~~~es~~rf~~~~~~~~~~----dl~e~sdye~~~i~~f~is~~~~~~~~Ia----g~~l~~ 1464 (3164)
T COG5245        1393 VEMKRGINDVLKLRIFGDKCRESTPRFYLISDGDLIK----DLNERSDYEEMLIMMFNISAVITNNGSIA----GFELRG 1464 (3164)
T ss_pred             HHHHHHHHHHHHHHHhcCcccccchhHHHhhhhhhhh----ccchhhhhHHHHHhhcccceEeecccccC----Cceech
Confidence            3466677788889999999999999999988876543    2333     23455566665555555432    233322


Q ss_pred             -CCCCc-cceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHH
Q psy17974        379 -TMPFF-DMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEIL  456 (583)
Q Consensus       379 -~~~~~-~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~i  456 (583)
                       ...+. ++++||.||+++..+.+-++...+.+++|||||||||+++...+++   ...+.++.+|||..|+.......+
T Consensus      1465 ~~vm~~~~vVipt~dt~~~~~f~n~~lnt~R~~i~cGppGSgK~mlM~~sLrs---~~~~ev~~~Nfs~~t~T~s~ls~L 1541 (3164)
T COG5245        1465 ERVMLRKEVVIPTSDTGFVDSFSNEALNTLRSYIYCGPPGSGKEMLMCPSLRS---ELITEVKYFNFSTCTMTPSKLSVL 1541 (3164)
T ss_pred             hhhcccCCeecccccchhHHHHHHHHHhccceEEEECCCCCccchhcchhhhh---hhheeeeEEeeccccCCHHHHHHH
Confidence             23333 7999999999999999999999999999999999999999877764   346889999999999999988899


Q ss_pred             Hhhhhhhc--Cc-cccC-CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC
Q psy17974        457 EGKLDKRT--KT-LLGA-PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP  532 (583)
Q Consensus       457 e~~l~~~~--~~-~~~p-~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~  532 (583)
                      ++..++-+  |+ .+.| +.-|.+|+|+|+||||..+.|++|.++-+|||++++.|||.+...+|+.++++.++||||||
T Consensus      1542 er~t~yy~~tg~~~l~PK~~vK~lVLFcDeInLp~~~~y~~~~vI~FlR~l~e~QGfw~s~~~~wvTI~~i~l~Gacnp~ 1621 (3164)
T COG5245        1542 ERETEYYPNTGVVRLYPKPVVKDLVLFCDEINLPYGFEYYPPTVIVFLRPLVERQGFWSSIAVSWVTICGIILYGACNPG 1621 (3164)
T ss_pred             HhhceeeccCCeEEEccCcchhheEEEeeccCCccccccCCCceEEeeHHHHHhcccccchhhhHhhhcceEEEccCCCC
Confidence            98887643  32 2345 35678999999999999999999999999999999999999988999999999999999999


Q ss_pred             C-CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        533 G-GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       533 ~-~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      + .||.+.+.||+||-..+++++|+..+|.+||..++.+-+
T Consensus      1622 td~gRv~~~eRf~r~~v~vf~~ype~~SL~~Iyea~l~~s~ 1662 (3164)
T COG5245        1622 TDEGRVKYYERFIRKPVFVFCCYPELASLRNIYEAVLMGSY 1662 (3164)
T ss_pred             CCcccCccHHHHhcCceEEEecCcchhhHHHHHHHHHHHHH
Confidence            8 599999999999999999999999999999999988654

>KOG3595|consensus

Probab=100.00  E-value=8.6e-39  Score=386.09  Aligned_cols=254  Identities=43%  Similarity=0.783  Sum_probs=238.0

Q ss_pred             hhHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCCCCCCCCCCCCcceEEEECCCCceeeccccCCccccCCCCCC
Q psy17974        303 GPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDPTMPF  382 (583)
Q Consensus       303 ~~~i~~~f~fa~iWs~Gg~L~~~~r~~Fd~~i~~~~~~~~~~~~P~~~~vfdy~~d~~~~~w~~W~~~~~~~~~~~~~~~  382 (583)
                      ..+++..|+||++|++||.++.+.|.+|..|++..+.           ++++||++...+.|.+|.++++ +...+... 
T Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-  104 (1395)
T KOG3595|consen   38 KSHLERLFLFALIWALGGDLDADSREKFREFLRRLIN-----------IIDLYYIDEEIGDWEPWIDKVP-FELLEDHE-  104 (1395)
T ss_pred             HHHHHHHHHHHHHHHhhcccchhHHHHHHHHHHHHHh-----------hhhheeeeeccccccchhhhCc-cccccccc-
Confidence            5678899999999999999999999999999999875           5778999999999999999999 76666555 


Q ss_pred             ccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh
Q psy17974        383 FDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK  462 (583)
Q Consensus       383 ~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~  462 (583)
                       +++|||.||+|+.+++..++..+++++++||+|+|||.++...+....+.+.+.   +|||..|+++.+|.++++++++
T Consensus       105 -~~~v~t~dt~r~~~~~~~~~~~~k~~~~~g~~g~gk~~~~~~~~~~~~~~~~~~---~~fs~~ts~~~~q~~~~~~~~k  180 (1395)
T KOG3595|consen  105 -DILVPTIDTVRYDRLLKLLLAHGKPVLLVGPTGTGKTVLVLSELRSLQDREVYL---LNFSSVTSSELLQEIIESKLDK  180 (1395)
T ss_pred             -ceecCccceeeHHHHHHHHHHhCCeEEEEcCCCCCeeeehHHHHHhcccchheE---EeeeeeccHHHHHHHHHHHHHH
Confidence             999999999999999999999999999999999999999999888763332222   9999999999999999999999


Q ss_pred             hcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChh
Q psy17974        463 RTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPR  542 (583)
Q Consensus       463 ~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~R  542 (583)
                      ++++.|||+.++.+++||||+|||..|.||+|++++++||++|++||||+.+..|+.+.|+++++||+||++||+++++|
T Consensus       181 ~~~~~~~~~~~~~~~~f~ddinmp~~~~yg~q~~~~~lrq~~e~~g~~~~~~~~~~~i~~i~~~~a~~~~~~gr~~i~~r  260 (1395)
T KOG3595|consen  181 RRSGNYGPPLGKKLVLFVDDINMPALDKYGDQPPIELLRQMLEHGGFYDRKKSEWVEIENVQLVGAMNPPGGGRNDITER  260 (1395)
T ss_pred             hcccCCCCCCCceeEEEEeccCCchhhhcCCccHHHHHHHHHHhceeecccccceeEEeeeEEEeecCCCCCccCcccHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccceEEEeCCCCHHHHHHHHHHHhccccc
Q psy17974        543 FVRHFGLLSLPSPTEDTLKVIFKVRTSPGKQ  573 (583)
Q Consensus       543 llr~f~vi~i~~p~~~sl~~I~~~~l~~~l~  573 (583)
                      |+|||.+++++.|+.+++.+||+.++.+|+.
T Consensus       261 ~~r~f~~~~~~~~~~~sl~~if~~~~~~~~~  291 (1395)
T KOG3595|consen  261 FLRHFLIVSLNYPSQESLTQIFNTILTGHLR  291 (1395)
T ss_pred             HHHHeeeEeeCCCChhhHHHHHHHHHhcccC
Confidence            9999999999999999999999999999977

>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=100.00  E-value=3e-36  Score=299.15  Aligned_cols=105  Identities=70%  Similarity=1.184  Sum_probs=85.4

Q ss_pred             eeeeecccccEEEEecCCCCCCCCCchHHHhcccceeeecCCcchhHHHHhhcccccchHHHHHHHHHHHHHHHhhCCCC
Q psy17974        137 QMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQ  216 (583)
Q Consensus       137 ~~I~L~~~~~ifiTmnp~y~gr~eLP~nlk~lfr~~~m~~pd~~~I~e~~l~~~gf~~a~~l~~k~~~~~~~~~~~ls~q  216 (583)
                      ++|++++++++||||||||+||++||+|||++||||+|++||+++|+|++|++.||++|+.||+|++.+|++|+++||+|
T Consensus       127 ~~i~l~~~~~iFiT~np~y~gr~~LP~nLk~lFRpvam~~PD~~~I~ei~L~s~GF~~a~~La~kl~~l~~l~~~~lS~q  206 (231)
T PF12774_consen  127 QEIKLNPNCGIFITMNPGYAGRSELPENLKALFRPVAMMVPDLSLIAEILLLSQGFKDAKSLAKKLVSLFQLCKEQLSKQ  206 (231)
T ss_dssp             CEEE--TT-EEEEEE-B-CCCC--S-HHHCTTEEEEE--S--HHHHHHHHHHCCCTSSHHHHHHHHHHHHHHHHHCS-SS
T ss_pred             CEEEEccceeEEEeeccccCCcccCCHhHHHHhheeEEeCCCHHHHHHHHHHHcCchhHHHHHHHHHHHHHHHHHhhccC
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccchhHHHHHHHhhhhhhhCC
Q psy17974        217 DHYDFGMRAVKSVLVMAGSLKRANP  241 (583)
Q Consensus       217 ~hydfglR~lk~vl~~a~~~~~~~~  241 (583)
                      +|||||||++|+||.+||.+||.+|
T Consensus       207 ~hydfgLRalk~vl~~a~~~kr~~p  231 (231)
T PF12774_consen  207 DHYDFGLRALKSVLRMAGSLKRGDP  231 (231)
T ss_dssp             TT---SHHHHHHHHHHHHHHHT---
T ss_pred             ccccccHHHHHHHHHHHHHHhcccC
Confidence            9999999999999999999999875

>PF08393 DHC_N2: Dynein heavy chain, N-terminal region 2; InterPro: IPR013602 Dyneins are described as motor proteins of eukaryotic cells, as they can convert energy derived from the hydrolysis of ATP to force and movement along cytoskeletal polymers, such as microtubules

Probab=99.87  E-value=6.7e-23  Score=221.50  Aligned_cols=101  Identities=47%  Similarity=0.859  Sum_probs=92.6

Q ss_pred             CcccccCcceeeeccCCChHHHHHHHHHHHHHHHHHHHHHHhhhhccCCceEecCchHHHHHHhcCCCCcchhcchhhhc
Q psy17974          1 MAKTAEKPQAFSTATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCF   80 (583)
Q Consensus         1 m~~~~~~~~v~~~~~~~~~~~~l~~~~~~l~~i~k~l~~yLe~kR~~FpRf~Fls~~ell~il~~~~~~~~i~~~l~k~f   80 (583)
                      |+++.++|+|+++|..+++.+.|+.+++.|+.|+|+|++|||+||..|||||||||+|||+|||+++||..+|+|++|||
T Consensus       264 ~~~~~~~~~v~~~~~~~~~~~~l~~~~~~l~~i~k~L~~~Le~kR~~FPRfyFlsd~eLl~ils~~~~~~~i~~~l~k~F  343 (408)
T PF08393_consen  264 MKRAQKDPNVLSVCSNPDLLEKLESINESLEKIQKSLNDYLESKREAFPRFYFLSDDELLEILSQSKDPEQIQPHLKKCF  343 (408)
T ss_dssp             HHHHHCT-CCHHHCCSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCCHHHC-HHHHHHHHHTTTTCHHHHHHHHHCC
T ss_pred             HHHHHhCcchhHHhhHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHhhccceeecCcHHHHHHHHcCCChHHHHHHHHHHH
Confidence            56788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcccCc----------------------------CccHHHHHH----HHHHhH
Q psy17974         81 DGIAGW----------------------------TPYVKSWLN----LLFDKV  101 (583)
Q Consensus        81 ~~i~~~----------------------------~~~ve~WL~----~m~~tl  101 (583)
                      +||+++                            +|.||.||+    +|+.||
T Consensus       344 ~~i~~l~~~~~~~~i~~~~s~~gE~~~l~~~v~~~~~ve~WL~~le~~m~~tl  396 (408)
T PF08393_consen  344 PGIKSLEFDENNNSITGMISAEGETLPLDKPVSIEGPVEEWLNELEEEMKSTL  396 (408)
T ss_dssp             SSEEEEEE-TTSSEEEEEEETTS-EEEEEEEEESSS-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccchhhhhhhcCCCCCeEEeCCcccCCCcHHHHHHHHHHHHHHHH
Confidence            999932                            889999999    777665

Dyneins generally contain one to three heavy chains, where each heavy chain consists of a C-terminal globular head, a flexible microtubule-binding stalk, and a flexible N-terminal tail known as the cargo-binding domain []. The two categories of dyneins are the axonemal dyneins, which produce the bending motions that propagate along cilia and flagella, and the cytosolic dyneins, which drive a variety of fundamental cellular processes including nuclear migration, organisation of the mitotic spindle, chromosome separation during mitosis, and the positioning and function of many intracellular organelles. Cytoplasmic dyneins contain several accessory subunits ranging from light to intermediate chains. This entry represents a region found C-terminal to the dynein heavy chain N-terminal region 1 (IPR013594 from INTERPRO) in many members of this family. No functions seem to have been attributed specifically to this region. ; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=99.73  E-value=3.4e-16  Score=179.14  Aligned_cols=348  Identities=21%  Similarity=0.294  Sum_probs=209.0

Q ss_pred             eeeeecccccEEEEecCC-CCCCCCCchHHHhcccceee----ecCCcchhHHHHhhcccccchHHHHHHHHHHHHHHHh
Q psy17974        137 QMINLVPSCAAFITMNPG-YAGRTELPDNLKALFRPMAM----MVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSE  211 (583)
Q Consensus       137 ~~I~L~~~~~ifiTmnp~-y~gr~eLP~nlk~lfr~~~m----~~pd~~~I~e~~l~~~gf~~a~~l~~k~~~~~~~~~~  211 (583)
                      .++.-+.++.+|.||||| ..|+.||.+.|+..|.++++    --.|...|+++.|. .   +-..||+.++..++....
T Consensus      1333 ~~vtA~dgF~ffATMNPGGDyGKkELSPALRNRFTEiwvp~m~D~~d~~~iv~~~l~-~---~~vdla~p~ve~~kw~a~ 1408 (4600)
T COG5271        1333 EEVTAHDGFRFFATMNPGGDYGKKELSPALRNRFTEIWVPVMSDEADLIFIVLVDLR-F---GEVDLAKPSVETFKWLAR 1408 (4600)
T ss_pred             ceeeeccCceEEEeeCCCCccchhhCCHHHhcccceEeecccccccchhhhhhhhhh-c---CcccccchHHHHHHHHHH
Confidence            567788999999999996 77999999999999998886    23456666666665 2   356799999999987655


Q ss_pred             hCCCCcccc--ccchhHHHHHHHhhhhhhhCCCCchHHHHHHHHHhcCCCcccccccccccchhhhHHHHHHHHHHccCC
Q psy17974        212 QLSQQDHYD--FGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLMESTLIE  289 (583)
Q Consensus       212 ~ls~q~hyd--fglR~lk~vl~~a~~~~~~~~~~~E~~i~l~al~d~~lPKl~~~D~~lF~~~~~~v~s~~~ll~~ll~~  289 (583)
                      .+    -|.  .++|.+.++..-....+..               |.        ...||    |-+ ++ -.+|+|-..
T Consensus      1409 ~l----~~~~vISiRd~l~~VEFIn~~~i~---------------d~--------~~~l~----~~~-sm-vfidalG~f 1455 (4600)
T COG5271        1409 SL----LYNDVISIRDLLLIVEFINRREIL---------------DL--------NLVLF----NAV-SM-VFIDALGEF 1455 (4600)
T ss_pred             Hh----hccCceeHHHHHHHHHHHHHHHhh---------------hh--------hhHhh----hhh-hH-HHHHHhccc
Confidence            54    343  4677776665322221111               11        11111    000 10 112333210


Q ss_pred             CCCCCCCCCCCChhhHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCCCCCCCCCCCCcceEEEECC---CCcee-
Q psy17974        290 PGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKD---TKQLT-  365 (583)
Q Consensus       290 ~~~~~~~~~~~~~~~~i~~~f~fa~iWs~Gg~L~~~~r~~Fd~~i~~~~~~~~~~~~P~~~~vfdy~~d~~---~~~w~-  365 (583)
                      . +..-.-+...    ++..=.-|++|-.                 .+-+.  ++..-. ..+-..|+..+   .|.|. 
T Consensus      1456 s-t~~laen~~d----l~s~r~~c~v~l~-----------------~L~g~--~i~~~~-~~~n~i~f~d~~~f~g~f~i 1510 (4600)
T COG5271        1456 S-TVALAENGLD----LESERQRCFVWLE-----------------ALEGA--GIKGIE-ADVNAIYFEDERMFGGDFVI 1510 (4600)
T ss_pred             c-hhHHhhcccc----hhHHHHHHHHHHH-----------------HhccC--Cceeee-cccceeEecccceecccccc
Confidence            0 0000000011    1122223334421                 11111  000000 00111122111   11111 


Q ss_pred             eccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc
Q psy17974        366 PWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA  445 (583)
Q Consensus       366 ~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~  445 (583)
                      |.-..+.     ...+ .+.--||  |.-+..-+-..++.++|+||-|.||+|||+++.++++..    +...++||.|.
T Consensus      1511 P~~~~~~-----S~Ss-f~l~spT--T~~Nl~rVlRAmqv~kpilLEGsPGVGKTSlItaLAr~t----G~kliRINLSe 1578 (4600)
T COG5271        1511 PYLVEHH-----SSSS-FDLESPT--TTVNLRRVLRAMQVGKPILLEGSPGVGKTSLITALARKT----GKKLIRINLSE 1578 (4600)
T ss_pred             ccccccc-----cCcc-ccccCCc--hHHhHHHHHHHHhcCCceeecCCCCccHHHHHHHHHHHh----cCceEEeeccc
Confidence            1111110     0111 1222233  333333344567789999999999999999999999976    44688999999


Q ss_pred             CCChHHHHHHHHhhhhhhcCcccc---C------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCe-eecC-C
Q psy17974        446 QTSSARTQEILEGKLDKRTKTLLG---A------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGL-YDRD-K  514 (583)
Q Consensus       446 ~Tt~~~lq~~ie~~l~~~~~~~~~---p------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~-yd~~-~  514 (583)
                      ||.--+   ++.+.+---++|-|.   +      ..|.|  +.+||+|++      +|+++|-|...+||.+= |-++ +
T Consensus      1579 QTdL~D---LfGsd~Pve~~Gef~w~dapfL~amr~G~W--VlLDEiNLa------SQSVlEGLNacLDhR~eayIPEld 1647 (4600)
T COG5271        1579 QTDLCD---LFGSDLPVEEGGEFRWMDAPFLHAMRDGGW--VLLDEINLA------SQSVLEGLNACLDHRREAYIPELD 1647 (4600)
T ss_pred             cchHHH---HhCCCCCcccCceeEecccHHHHHhhcCCE--EEeehhhhh------HHHHHHHHHHHHhhcccccccccc
Confidence            997444   444444322444432   1      24444  568999996      58999999999999763 5444 4


Q ss_pred             CeeEeecCeEEEEecCCC--CCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        515 MFWKTLQDVVLCTACAPP--GGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       515 ~~~~~i~~i~~iaa~~p~--~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      ..+..-.|+.+.||.||.  ||||+-+|..|+.||+|+.++..+.+++..|-...+.
T Consensus      1648 ~~f~~HpnfrVFAaqNPq~qggGRKgLPkSF~nRFsvV~~d~lt~dDi~~Ia~~~yp 1704 (4600)
T COG5271        1648 KTFDVHPNFRVFAAQNPQDQGGGRKGLPKSFLNRFSVVKMDGLTTDDITHIANKMYP 1704 (4600)
T ss_pred             ceeeccCCeeeeeecCchhcCCCcccCCHHHhhhhheEEecccccchHHHHHHhhCC
Confidence            477777899999999996  5899999999999999999999999999999887765

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=99.66  E-value=7.4e-15  Score=168.44  Aligned_cols=346  Identities=21%  Similarity=0.256  Sum_probs=221.9

Q ss_pred             eeeeecccccEEEEecCC-CCCCCCCchHHHhcccceeeecCCcch-----hHHHHhhcccccchHHHHHHHHHHHHHHH
Q psy17974        137 QMINLVPSCAAFITMNPG-YAGRTELPDNLKALFRPMAMMVPDYGL-----IAEVVLYSEGFESSKNLAQKMVNMYKLCS  210 (583)
Q Consensus       137 ~~I~L~~~~~ifiTmnp~-y~gr~eLP~nlk~lfr~~~m~~pd~~~-----I~e~~l~~~gf~~a~~l~~k~~~~~~~~~  210 (583)
                      +.|+.+|++.+|-.|||| ..|+.+||..+++-|..+-+-.|+.++     |+.-.+-+..- ...-.+++|..+|..++
T Consensus       675 ~Pi~~Hp~FrlFgCMNP~tDvGKr~le~~~rsrFteIyVhsp~~~l~DllsII~kyig~y~I-s~E~v~~~IaElyleaK  753 (4600)
T COG5271         675 RPIRIHPGFRLFGCMNPGTDVGKRKLEGSFRSRFTEIYVHSPSTSLKDLLSIIHKYIGRYEI-SEERVSRKIAELYLEAK  753 (4600)
T ss_pred             cccccCCCceEEeecCCCcccccccCCcccccceeEEEEeCccccHHHHHHHHHHHHhheec-chHHHhHHHHHHHHHHH
Confidence            678999999999999996 779999999999999999998887654     44444422222 24456789999997665


Q ss_pred             hhC-----CC--CccccccchhHHHHHHHhhhhhhhCCCCchHHHHHHHHHhcCCCcccccccccccchhhhHHHHHHHH
Q psy17974        211 EQL-----SQ--QDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLM  283 (583)
Q Consensus       211 ~~l-----s~--q~hydfglR~lk~vl~~a~~~~~~~~~~~E~~i~l~al~d~~lPKl~~~D~~lF~~~~~~v~s~~~ll  283 (583)
                      ..-     ..  .....|.-|++..+|.+-.+.       .|..=+-||+.                      -.+|.-|
T Consensus       754 slsl~~~lvdga~q~Ph~s~RTL~RtL~yVt~i-------~~iyglrrSlY----------------------egFcmsf  804 (4600)
T COG5271         754 SLSLGKELVDGAVQEPHVSGRTLVRTLNYVTNI-------GEIYGLRRSLY----------------------EGFCMSF  804 (4600)
T ss_pred             HhccCCeeccCcCCCcccchHhHHHHHHHHhhh-------hHHHHHHHHHH----------------------HHHHHHH
Confidence            432     11  223345678888777544321       12111222221                      2233322


Q ss_pred             HHccCCCCCCCCCCCCCChhhHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCCCCCCCCCCCCcceEEEECCCCc
Q psy17974        284 ESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQ  363 (583)
Q Consensus       284 ~~ll~~~~~~~~~~~~~~~~~~i~~~f~fa~iWs~Gg~L~~~~r~~Fd~~i~~~~~~~~~~~~P~~~~vfdy~~d~~~~~  363 (583)
                      -+++...+       +.-...++.+.++        |-+.. .        ....+.  ..+.|..    +| +     .
T Consensus       805 lTlLD~~S-------esil~~~~~kftl--------g~l~~-~--------~ai~kq--~p~~p~~----~y-i-----~  848 (4600)
T COG5271         805 LTLLDFVS-------ESILVSLLSKFTL--------GLLES-Q--------NAIEKQ--KPKVPDH----SY-I-----A  848 (4600)
T ss_pred             HHHHHhhH-------HHHHHHHHHHHHh--------ccccc-c--------hhhhhc--CCCCCCc----cH-H-----H
Confidence            23332111       0111122222221        22221 1        011111  1223321    11 1     1


Q ss_pred             eee-ccccCCccccCCCCCCccceeeCchhhh-HHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEE
Q psy17974        364 LTP-WTTITPIFTYDPTMPFFDMMVPTIDTIR-FGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTI  441 (583)
Q Consensus       364 w~~-W~~~~~~~~~~~~~~~~~i~VpT~dt~r-~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i  441 (583)
                      |.+ |...-+ +.+.    -...+|-||-..+ +..+++.....+.|+|+-||+.||||+.+..+++..    +..+++|
T Consensus       849 f~hyw~~~g~-~~ve----eq~hyIiTPfVqkn~ln~~Ra~s~~~fP~LiQGpTSSGKTSMI~yla~~t----ghkfVRI  919 (4600)
T COG5271         849 FCHYWKHGGS-FPVE----EQEHYIITPFVQKNYLNTMRAASLSNFPLLIQGPTSSGKTSMILYLARET----GHKFVRI  919 (4600)
T ss_pred             HHHHHHhcCC-Cchh----hcceeEecHHHHHHHHHHHHHHhhcCCcEEEecCCCCCcchHHHHHHHHh----CccEEEe
Confidence            111 222111 1111    1345777777666 678888888899999999999999999999999875    5578999


Q ss_pred             EeccCCChHHHHHHHHhhhhhhcC------ccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHh-CCeeecCC
Q psy17974        442 NFSAQTSSARTQEILEGKLDKRTK------TLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDF-GGLYDRDK  514 (583)
Q Consensus       442 ~fS~~Tt~~~lq~~ie~~l~~~~~------~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~-~g~yd~~~  514 (583)
                      |-..+|.   +|+.|...+....|      |++.....+...+.+||+|++..|      ++|.|..++|. ...|-+++
T Consensus       920 NNHEHTd---lqeYiGTyvTdd~G~lsFkEGvLVeAlR~GyWIVLDELNLApTD------VLEaLNRLLDDNRelfIPET  990 (4600)
T COG5271         920 NNHEHTD---LQEYIGTYVTDDDGSLSFKEGVLVEALRRGYWIVLDELNLAPTD------VLEALNRLLDDNRELFIPET  990 (4600)
T ss_pred             cCcccch---HHHHhhceeecCCCceeeehhHHHHHHhcCcEEEeeccccCcHH------HHHHHHHhhccccceecCCc
Confidence            9999885   67777766544332      333222222233568999999887      89999888865 46788888


Q ss_pred             CeeEee-cCeEEEEecCCCC--CCCCCCChhhhccceEEEeCCCCHHHHHHHHHH
Q psy17974        515 MFWKTL-QDVVLCTACAPPG--GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       515 ~~~~~i-~~i~~iaa~~p~~--~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~  566 (583)
                      .+.+.. .++.+.||.||||  |||+.++.+|..||--++++...+++|..|...
T Consensus       991 qevV~PHp~F~lFATQNppg~YgGRK~LSrAFRNRFlE~hFddipedEle~ILh~ 1045 (4600)
T COG5271         991 QEVVVPHPNFRLFATQNPPGGYGGRKGLSRAFRNRFLEMHFDDIPEDELEEILHG 1045 (4600)
T ss_pred             ceeeccCCCeeEEeecCCCccccchHHHHHHHHhhhHhhhcccCcHHHHHHHHhc
Confidence            877655 5899999999998  799999999999999999999999999988764

>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=99.57  E-value=3.8e-15  Score=136.67  Aligned_cols=130  Identities=22%  Similarity=0.251  Sum_probs=89.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh--hhhhcCccccCCCCCeEEEEecCCCC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK--LDKRTKTLLGAPLGKRLAVFVDDVNM  485 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~--l~~~~~~~~~p~~gk~~vlfiDDln~  485 (583)
                      ||||+||||||||++++.+++.+    ......+++++.|+..++.....-.  -.+...+.+.....+..++++||+|.
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~----~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~   76 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALL----GRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINR   76 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH----TCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh----hcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCccc
Confidence            79999999999999999999987    4567889999999998876432211  01111122222234678999999999


Q ss_pred             CCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeec-------CeEEEEecCCCCCCCCCCChhhhccc
Q psy17974        486 PKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQ-------DVVLCTACAPPGGGRMPLTPRFVRHF  547 (583)
Q Consensus       486 p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~-------~i~~iaa~~p~~~gr~~l~~Rllr~f  547 (583)
                      +.++      +++.|.++++.+.+.......-....       ++.+||||||.+.++..++++|++||
T Consensus        77 a~~~------v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~~Rf  139 (139)
T PF07728_consen   77 APPE------VLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALLDRF  139 (139)
T ss_dssp             --HH------HHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHHTT-
T ss_pred             CCHH------HHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHHhhC
Confidence            8755      78889999998877644333323233       49999999999888999999999998

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.55  E-value=4.4e-14  Score=143.87  Aligned_cols=173  Identities=18%  Similarity=0.176  Sum_probs=124.4

Q ss_pred             eeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHH--------
Q psy17974        386 MVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILE--------  457 (583)
Q Consensus       386 ~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie--------  457 (583)
                      ||+|+...+...-+..++..+.|+||.||||||||++++.+++.+    +..+..++++..+++.++.....        
T Consensus         1 ~~~t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la~~l----g~~~~~i~~~~~~~~~dllg~~~~~~~~~~~   76 (262)
T TIGR02640         1 FIETDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAMHVARKR----DRPVMLINGDAELTTSDLVGSYAGYTRKKVH   76 (262)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHHHHHHHh----CCCEEEEeCCccCCHHHHhhhhcccchhhHH
Confidence            477777777777778888899999999999999999999998865    45678899998887766533211        


Q ss_pred             -hh---hhhhc---Cccc--cCC---CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCC---CeeEee-c
Q psy17974        458 -GK---LDKRT---KTLL--GAP---LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDK---MFWKTL-Q  521 (583)
Q Consensus       458 -~~---l~~~~---~~~~--~p~---~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~---~~~~~i-~  521 (583)
                       ..   +.+..   +..|  ||-   ..+..++++||+|...++      ....|-.+++.+.+.-...   .+.+.+ .
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~g~l~~A~~~g~~lllDEi~r~~~~------~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~  150 (262)
T TIGR02640        77 DQFIHNVVKLEDIVRQNWVDNRLTLAVREGFTLVYDEFTRSKPE------TNNVLLSVFEEGVLELPGKRGTSRYVDVHP  150 (262)
T ss_pred             HHHHHHhhhhhcccceeecCchHHHHHHcCCEEEEcchhhCCHH------HHHHHHHHhcCCeEEccCCCCCCceEecCC
Confidence             00   00000   0011  221   122358899999997766      4566777888765443221   233322 5


Q ss_pred             CeEEEEecCCCC-CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHh
Q psy17974        522 DVVLCTACAPPG-GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRT  568 (583)
Q Consensus       522 ~i~~iaa~~p~~-~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l  568 (583)
                      ++.+|+|+||+. .|...+++.|.++|..+.+++|+.++...|.....
T Consensus       151 ~frvIaTsN~~~~~g~~~l~~aL~~R~~~i~i~~P~~~~e~~Il~~~~  198 (262)
T TIGR02640       151 EFRVIFTSNPVEYAGVHETQDALLDRLITIFMDYPDIDTETAILRAKT  198 (262)
T ss_pred             CCEEEEeeCCccccceecccHHHHhhcEEEECCCCCHHHHHHHHHHhh
Confidence            899999999975 68888999999999999999999999999988753

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).

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.53  E-value=5.9e-14  Score=145.09  Aligned_cols=171  Identities=16%  Similarity=0.224  Sum_probs=126.0

Q ss_pred             ceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh-h
Q psy17974        385 MMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK-R  463 (583)
Q Consensus       385 i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~-~  463 (583)
                      -++..+++.+.   +...+..++++||.||||||||++++.++..+    ++..+.++++..+++.++.+.-.-.++. .
T Consensus        46 ~y~f~~~~~~~---vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l----~~~~~rV~~~~~l~~~DliG~~~~~l~~g~  118 (327)
T TIGR01650        46 AYLFDKATTKA---ICAGFAYDRRVMVQGYHGTGKSTHIEQIAARL----NWPCVRVNLDSHVSRIDLVGKDAIVLKDGK  118 (327)
T ss_pred             CccCCHHHHHH---HHHHHhcCCcEEEEeCCCChHHHHHHHHHHHH----CCCeEEEEecCCCChhhcCCCceeeccCCc
Confidence            47777777653   44555678999999999999999999999988    4678899999999887755421001111 0


Q ss_pred             cCccc--cCC---CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeee-cCCCeeEeec-CeEEEEecCCCC---
Q psy17974        464 TKTLL--GAP---LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYD-RDKMFWKTLQ-DVVLCTACAPPG---  533 (583)
Q Consensus       464 ~~~~~--~p~---~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd-~~~~~~~~i~-~i~~iaa~~p~~---  533 (583)
                      ....|  ||-   ..+.+++++||+|...++      +...|..++|++|... .+..+....+ ++.++||+||.+   
T Consensus       119 ~~~~f~~GpL~~A~~~g~illlDEin~a~p~------~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd  192 (327)
T TIGR01650       119 QITEFRDGILPWALQHNVALCFDEYDAGRPD------VMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGD  192 (327)
T ss_pred             ceeEEecCcchhHHhCCeEEEechhhccCHH------HHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCC
Confidence            00122  331   245678999999998766      5778888999776553 3444555454 899999999965   


Q ss_pred             -----CCCCCCChhhhccceE-EEeCCCCHHHHHHHHHHHh
Q psy17974        534 -----GGRMPLTPRFVRHFGL-LSLPSPTEDTLKVIFKVRT  568 (583)
Q Consensus       534 -----~gr~~l~~Rllr~f~v-i~i~~p~~~sl~~I~~~~l  568 (583)
                           .|.+.+++.++.||.+ +.++||+.++-..|.....
T Consensus       193 ~~G~y~Gt~~l~~A~lDRF~i~~~~~Yp~~e~E~~Il~~~~  233 (327)
T TIGR01650       193 TTGLYHGTQQINQAQMDRWSIVTTLNYLEHDNEAAIVLAKA  233 (327)
T ss_pred             CCcceeeeecCCHHHHhheeeEeeCCCCCHHHHHHHHHhhc
Confidence                 3788999999999985 6899999999999987654

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.

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.43  E-value=5.7e-13  Score=136.35  Aligned_cols=148  Identities=22%  Similarity=0.348  Sum_probs=105.7

Q ss_pred             HHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEE
Q psy17974        400 EKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAV  478 (583)
Q Consensus       400 ~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vl  478 (583)
                      +.-+..-+.|||+||||||||++++++++.-    +..++.+     ..++-+|+.|... .+-.+..|. +....++|+
T Consensus       179 ~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T----~AtFIrv-----vgSElVqKYiGEG-aRlVRelF~lArekaPsII  248 (406)
T COG1222         179 ELGIDPPKGVLLYGPPGTGKTLLAKAVANQT----DATFIRV-----VGSELVQKYIGEG-ARLVRELFELAREKAPSII  248 (406)
T ss_pred             HcCCCCCCceEeeCCCCCcHHHHHHHHHhcc----CceEEEe-----ccHHHHHHHhccc-hHHHHHHHHHHhhcCCeEE
Confidence            3346667899999999999999999999864    2334444     3456777776321 111123343 345678999


Q ss_pred             EecCCCCCCcccCCCCC---------hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc
Q psy17974        479 FVDDVNMPKLETYGAQP---------PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF  547 (583)
Q Consensus       479 fiDDln~p~~d~yg~q~---------~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f  547 (583)
                      |||||+.-....+.++.         .+|||.|+   .||-.        ..|+.+|+|+|.+.    .|+|+++|  ||
T Consensus       249 FiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~ql---DGFD~--------~~nvKVI~ATNR~D----~LDPALLRPGR~  313 (406)
T COG1222         249 FIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQL---DGFDP--------RGNVKVIMATNRPD----ILDPALLRPGRF  313 (406)
T ss_pred             EEechhhhhcccccCCCCchHHHHHHHHHHHHhc---cCCCC--------CCCeEEEEecCCcc----ccChhhcCCCcc
Confidence            99999987655543322         46676665   35432        35899999999986    79999999  55


Q ss_pred             -eEEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        548 -GLLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       548 -~vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                       +.|-+|.|+.+.-..||..+-+.+-
T Consensus       314 DRkIEfplPd~~gR~~Il~IHtrkM~  339 (406)
T COG1222         314 DRKIEFPLPDEEGRAEILKIHTRKMN  339 (406)
T ss_pred             cceeecCCCCHHHHHHHHHHHhhhcc
Confidence             4799999999999999999876553

>PHA02244 ATPase-like protein

Probab=99.36  E-value=4.9e-12  Score=132.31  Aligned_cols=147  Identities=16%  Similarity=0.214  Sum_probs=101.9

Q ss_pred             HHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc--C--
Q psy17974        395 FGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG--A--  470 (583)
Q Consensus       395 ~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~--p--  470 (583)
                      ....+..++..+.||||.||||||||+++++++..+    +..++.++  ..++...+...+      ...+.+.  |  
T Consensus       108 ~~~ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~l----g~pfv~In--~l~d~~~L~G~i------~~~g~~~dgpLl  175 (383)
T PHA02244        108 ETADIAKIVNANIPVFLKGGAGSGKNHIAEQIAEAL----DLDFYFMN--AIMDEFELKGFI------DANGKFHETPFY  175 (383)
T ss_pred             HHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHh----CCCEEEEe--cChHHHhhcccc------cccccccchHHH
Confidence            334557789999999999999999999999998876    23444554  222211111111      1112222  1  


Q ss_pred             -CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-C------CCCCCChh
Q psy17974        471 -PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-G------GRMPLTPR  542 (583)
Q Consensus       471 -~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~------gr~~l~~R  542 (583)
                       ...+..++++||+|...++      +...|..+++++ .++........-.++++|||+||++ |      |++.+++.
T Consensus       176 ~A~~~GgvLiLDEId~a~p~------vq~~L~~lLd~r-~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~A  248 (383)
T PHA02244        176 EAFKKGGLFFIDEIDASIPE------ALIIINSAIANK-FFDFADERVTAHEDFRVISAGNTLGKGADHIYVARNKIDGA  248 (383)
T ss_pred             HHhhcCCEEEEeCcCcCCHH------HHHHHHHHhccC-eEEecCcEEecCCCEEEEEeeCCCccCcccccCCCcccCHH
Confidence             1223458999999988766      567788888865 5665544444447899999999975 2      68999999


Q ss_pred             hhccceEEEeCCCCHHHH
Q psy17974        543 FVRHFGLLSLPSPTEDTL  560 (583)
Q Consensus       543 llr~f~vi~i~~p~~~sl  560 (583)
                      ++.||.++.+++|++.+.
T Consensus       249 llDRFv~I~~dyp~~~E~  266 (383)
T PHA02244        249 TLDRFAPIEFDYDEKIEH  266 (383)
T ss_pred             HHhhcEEeeCCCCcHHHH
Confidence            999999999999985444

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.32  E-value=2.5e-11  Score=127.74  Aligned_cols=168  Identities=17%  Similarity=0.176  Sum_probs=114.5

Q ss_pred             eeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh--h
Q psy17974        386 MVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK--R  463 (583)
Q Consensus       386 ~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~--~  463 (583)
                      ++...++   ...+...+..+.|+||.||||||||++++.++..+    +.....++|++.+++.++.....-....  .
T Consensus        26 ~~g~~~~---~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l----~~~~~~i~~t~~l~p~d~~G~~~~~~~~~~~   98 (329)
T COG0714          26 VVGDEEV---IELALLALLAGGHVLLEGPPGVGKTLLARALARAL----GLPFVRIQCTPDLLPSDLLGTYAYAALLLEP   98 (329)
T ss_pred             eeccHHH---HHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHh----CCCeEEEecCCCCCHHHhcCchhHhhhhccC
Confidence            5553333   34556677789999999999999999999999987    3678899999999999877543322221  1


Q ss_pred             cCccc--cCC-CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCC
Q psy17974        464 TKTLL--GAP-LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPL  539 (583)
Q Consensus       464 ~~~~~--~p~-~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l  539 (583)
                      ....|  ||- .+-+.++|+||||.+.++      ....|-+.++.+..+........--..+.++||.||.. .|..++
T Consensus        99 ~~~~~~~gpl~~~~~~ill~DEInra~p~------~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e~~g~~~l  172 (329)
T COG0714          99 GEFRFVPGPLFAAVRVILLLDEINRAPPE------VQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPL  172 (329)
T ss_pred             CeEEEecCCcccccceEEEEeccccCCHH------HHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccccCCCcCC
Confidence            11122  221 111259999999998776      34445566665555443322233345688888889754 688999


Q ss_pred             Chhhhccc-eEEEeCCCCHHHHHHHHHH
Q psy17974        540 TPRFVRHF-GLLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       540 ~~Rllr~f-~vi~i~~p~~~sl~~I~~~  566 (583)
                      +..+++|| -.+++++|..+....+...
T Consensus       173 ~eA~ldRf~~~~~v~yp~~~~e~~~i~~  200 (329)
T COG0714         173 PEALLDRFLLRIYVDYPDSEEEERIILA  200 (329)
T ss_pred             CHHHHhhEEEEEecCCCCchHHHHHHHH
Confidence            99999999 7899999955544444333

>KOG0733|consensus

Probab=99.30  E-value=1.8e-11  Score=132.13  Aligned_cols=146  Identities=22%  Similarity=0.402  Sum_probs=106.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEec
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVD  481 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiD  481 (583)
                      +..-..|||+||||||||.++++++++-    +     +||=+.-.++.+-+. -+.-++..+.+|. +....+||||+|
T Consensus       542 i~~PsGvLL~GPPGCGKTLlAKAVANEa----g-----~NFisVKGPELlNkY-VGESErAVR~vFqRAR~saPCVIFFD  611 (802)
T KOG0733|consen  542 IDAPSGVLLCGPPGCGKTLLAKAVANEA----G-----ANFISVKGPELLNKY-VGESERAVRQVFQRARASAPCVIFFD  611 (802)
T ss_pred             CCCCCceEEeCCCCccHHHHHHHHhhhc----c-----CceEeecCHHHHHHH-hhhHHHHHHHHHHHhhcCCCeEEEec
Confidence            4456789999999999999999999863    2     333333445444333 2333333444553 456789999999


Q ss_pred             CCCC--CCcccCCCCChHHHHHHHH-HhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEeCCC
Q psy17974        482 DVNM--PKLETYGAQPPIELLRQFL-DFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSLPSP  555 (583)
Q Consensus       482 Dln~--p~~d~yg~q~~lElLRq~l-d~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i~~p  555 (583)
                      |++.  |..+..|+...--++.|++ |..|.-++        .++.+|||+|.|.    -|+|.++|  || .+++++.|
T Consensus       612 EiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R--------~gV~viaATNRPD----iIDpAiLRPGRlDk~LyV~lP  679 (802)
T KOG0733|consen  612 EIDALVPRRSDEGSSVSSRVVNQLLTELDGLEER--------RGVYVIAATNRPD----IIDPAILRPGRLDKLLYVGLP  679 (802)
T ss_pred             chhhcCcccCCCCchhHHHHHHHHHHHhcccccc--------cceEEEeecCCCc----ccchhhcCCCccCceeeecCC
Confidence            9996  5555566666667788877 44555443        4688999999997    79999998  55 48999999


Q ss_pred             CHHHHHHHHHHHhcc
Q psy17974        556 TEDTLKVIFKVRTSP  570 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~  570 (583)
                      +.++-..|..++.+.
T Consensus       680 n~~eR~~ILK~~tkn  694 (802)
T KOG0733|consen  680 NAEERVAILKTITKN  694 (802)
T ss_pred             CHHHHHHHHHHHhcc
Confidence            999999999999885

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=99.25  E-value=3e-11  Score=129.59  Aligned_cols=148  Identities=16%  Similarity=0.254  Sum_probs=98.6

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHHhhcccCC-ceEEEEEeccCCChHHHHHHHH-hhhhh-hcCccc-----cC--C
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILNKLLASNT-WAALTINFSAQTSSARTQEILE-GKLDK-RTKTLL-----GA--P  471 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~-~~~~~i~fS~~Tt~~~lq~~ie-~~l~~-~~~~~~-----~p--~  471 (583)
                      .+..+++++|+||||||||++++.++..+..... ..+..+.|+...+..++..-+. ..... ...|.|     .+  .
T Consensus       190 ~L~~~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~~vgy~~~~G~f~~~~~~A~~~  269 (459)
T PRK11331        190 RLTIKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQ  269 (459)
T ss_pred             HHhcCCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCCCCCeEecCchHHHHHHHHHhc
Confidence            3447899999999999999999998887632211 2344577777666555432110 00110 111221     01  1


Q ss_pred             CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhC--C-------eeecCC-CeeEeecCeEEEEecCCCCCCCCCCCh
Q psy17974        472 LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFG--G-------LYDRDK-MFWKTLQDVVLCTACAPPGGGRMPLTP  541 (583)
Q Consensus       472 ~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~--g-------~yd~~~-~~~~~i~~i~~iaa~~p~~~gr~~l~~  541 (583)
                      ++++.+++|||+|++..++     +..-+++++|++  |       .|+..+ ..+....|+.+|||||....+-..++.
T Consensus       270 p~~~~vliIDEINRani~k-----iFGel~~lLE~~~rg~~~~v~l~y~e~d~e~f~iP~Nl~IIgTMNt~Drs~~~lD~  344 (459)
T PRK11331        270 PEKKYVFIIDEINRANLSK-----VFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVPENVYIIGLMNTADRSLAVVDY  344 (459)
T ss_pred             ccCCcEEEEehhhccCHHH-----hhhhhhhhccccccccccceeeeccccccccccCCCCeEEEEecCccccchhhccH
Confidence            3467899999999999876     233346777764  2       233222 346667899999999998766668999


Q ss_pred             hhhccceEEEeCC
Q psy17974        542 RFVRHFGLLSLPS  554 (583)
Q Consensus       542 Rllr~f~vi~i~~  554 (583)
                      +|.|||..+.+.+
T Consensus       345 AlrRRF~fi~i~p  357 (459)
T PRK11331        345 ALRRRFSFIDIEP  357 (459)
T ss_pred             HHHhhhheEEecC
Confidence            9999999998876

>KOG0734|consensus

Probab=99.23  E-value=1.4e-11  Score=131.16  Aligned_cols=146  Identities=21%  Similarity=0.317  Sum_probs=104.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccC-CCCCeEEEEecCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGA-PLGKRLAVFVDDVNM  485 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p-~~gk~~vlfiDDln~  485 (583)
                      +.|||+||||||||+++++++.+-    +..+  +..    +.+.+.+++-+-=.+|.+..|.. ....+||||||||+.
T Consensus       338 KGVLLvGPPGTGKTlLARAvAGEA----~VPF--F~~----sGSEFdEm~VGvGArRVRdLF~aAk~~APcIIFIDEiDa  407 (752)
T KOG0734|consen  338 KGVLLVGPPGTGKTLLARAVAGEA----GVPF--FYA----SGSEFDEMFVGVGARRVRDLFAAAKARAPCIIFIDEIDA  407 (752)
T ss_pred             CceEEeCCCCCchhHHHHHhhccc----CCCe--Eec----cccchhhhhhcccHHHHHHHHHHHHhcCCeEEEEechhh
Confidence            689999999999999999998753    2222  222    23455666555445566666754 356699999999997


Q ss_pred             CCccc--CCCCChHHHHHHHH-HhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEeCCCCHHH
Q psy17974        486 PKLET--YGAQPPIELLRQFL-DFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSLPSPTEDT  559 (583)
Q Consensus       486 p~~d~--yg~q~~lElLRq~l-d~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i~~p~~~s  559 (583)
                      -....  ...+-.-..|.|++ |..||-.        -+.|.+|||+|-|.    .+++.|+|  ||- .|.+|.|+-.-
T Consensus       408 vG~kR~~~~~~y~kqTlNQLLvEmDGF~q--------NeGiIvigATNfpe----~LD~AL~RPGRFD~~v~Vp~PDv~G  475 (752)
T KOG0734|consen  408 VGGKRNPSDQHYAKQTLNQLLVEMDGFKQ--------NEGIIVIGATNFPE----ALDKALTRPGRFDRHVTVPLPDVRG  475 (752)
T ss_pred             hcccCCccHHHHHHHHHHHHHHHhcCcCc--------CCceEEEeccCChh----hhhHHhcCCCccceeEecCCCCccc
Confidence            54322  11112345566665 5566632        35899999999987    78888888  674 69999999999


Q ss_pred             HHHHHHHHhcccccC
Q psy17974        560 LKVIFKVRTSPGKQE  574 (583)
Q Consensus       560 l~~I~~~~l~~~l~~  574 (583)
                      ...|+..++......
T Consensus       476 R~eIL~~yl~ki~~~  490 (752)
T KOG0734|consen  476 RTEILKLYLSKIPLD  490 (752)
T ss_pred             HHHHHHHHHhcCCcc
Confidence            999999999877644

>KOG1808|consensus

Probab=99.21  E-value=1e-10  Score=141.01  Aligned_cols=170  Identities=20%  Similarity=0.269  Sum_probs=132.4

Q ss_pred             cceeeCchhhhHHHHHHHHHhcC-CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh
Q psy17974        384 DMMVPTIDTIRFGSIMEKLLLVN-HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK  462 (583)
Q Consensus       384 ~i~VpT~dt~r~~~ll~~~l~~~-~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~  462 (583)
                      ..+|+|+...++..-+......| .|+||.||+|||||++++.+++..    ++..+.||-...|+   +|+.|.++...
T Consensus       417 ~~~i~T~~vq~~la~~~~a~~~~~~pillqG~tssGKtsii~~la~~~----g~~~vrinnhehtd---~qeyig~y~~~  489 (1856)
T KOG1808|consen  417 THYIITPRVQKNLADLARAISSGKFPILLQGPTSSGKTSIIKELARAT----GKNIVRINNHEHTD---LQEYIGTYVAD  489 (1856)
T ss_pred             ceeeccHHHHHHHHHHHHHHhcCCCCeEEecCcCcCchhHHHHHHHHh----ccCceehhccccch---HHHHHHhhhcC
Confidence            35899999998887777777766 799999999999999999999976    45678888888775   56666655543


Q ss_pred             hcCcc-c-----cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHh-CCeeecCCCeeEee-cCeEEEEecCCCC-
Q psy17974        463 RTKTL-L-----GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDF-GGLYDRDKMFWKTL-QDVVLCTACAPPG-  533 (583)
Q Consensus       463 ~~~~~-~-----~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~-~g~yd~~~~~~~~i-~~i~~iaa~~p~~-  533 (583)
                      ..++. +     .....+-..+++|+||++..|      ++|.|.+++|. .+.|-+++.+.+.. .+..+.|+-||++ 
T Consensus       490 ~~g~l~freg~LV~Alr~G~~~vlD~lnla~~d------vL~aLnrllddnRel~ipe~~rlv~~h~~f~lfatqn~~~~  563 (1856)
T KOG1808|consen  490 DNGDLVFREGVLVQALRNGDWIVLDELNLAPHD------VLEALNRLLDDNRELFIPETQRLVKAHPEFMLFATQNPPGT  563 (1856)
T ss_pred             CCCCeeeehhHHHHHHHhCCEEEeccccccchH------HHHHHHhhhhhhccccccccceeeccCcchhhhhhccCccc
Confidence            33321 1     112222345689999999877      79999998887 78988887765544 4688889999996 


Q ss_pred             -CCCCCCChhhhccceEEEeCCCCHHHHHHHHHH
Q psy17974        534 -GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       534 -~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~  566 (583)
                       +||..++..|..+|..+++....++.+..|+..
T Consensus       564 y~grk~lsRa~~~rf~e~~f~~~~e~e~~~i~~~  597 (1856)
T KOG1808|consen  564 YGGRKILSRALRNRFIELHFDDIGEEELEEILEH  597 (1856)
T ss_pred             cchhhhhhhcccccchhhhhhhcCchhhhhhhcc
Confidence             799999999999999999998888887777653

>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=99.19  E-value=2.7e-10  Score=111.43  Aligned_cols=131  Identities=24%  Similarity=0.282  Sum_probs=83.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc--CCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA--QTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNM  485 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~--~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~  485 (583)
                      ++||+||||+|||++++-+++++.    ....  .+|+  -..+.++...+.+ +            +++-|+||||||.
T Consensus        52 h~lf~GPPG~GKTTLA~IIA~e~~----~~~~--~~sg~~i~k~~dl~~il~~-l------------~~~~ILFIDEIHR  112 (233)
T PF05496_consen   52 HMLFYGPPGLGKTTLARIIANELG----VNFK--ITSGPAIEKAGDLAAILTN-L------------KEGDILFIDEIHR  112 (233)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHCT------EE--EEECCC--SCHHHHHHHHT---------------TT-EEEECTCCC
T ss_pred             eEEEECCCccchhHHHHHHHhccC----CCeE--eccchhhhhHHHHHHHHHh-c------------CCCcEEEEechhh
Confidence            799999999999999999999872    2222  2343  2334555554322 2            1345999999998


Q ss_pred             CCcccCCCCChHHHHHHHHHhCCeee--cCC--C--eeEeecCeEEEEecCCCCCCCCCCChhhhccceEE-EeCCCCHH
Q psy17974        486 PKLETYGAQPPIELLRQFLDFGGLYD--RDK--M--FWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLL-SLPSPTED  558 (583)
Q Consensus       486 p~~d~yg~q~~lElLRq~ld~~g~yd--~~~--~--~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi-~i~~p~~~  558 (583)
                      -.+.      .-|.|=..+|.+...-  ...  .  --..+..+++|||++..|    .+++.|..+|-++ .+++.+.+
T Consensus       113 lnk~------~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g----~ls~pLrdRFgi~~~l~~Y~~~  182 (233)
T PF05496_consen  113 LNKA------QQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAG----LLSSPLRDRFGIVLRLEFYSEE  182 (233)
T ss_dssp             --HH------HHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGC----CTSHCCCTTSSEEEE----THH
T ss_pred             ccHH------HHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeecccc----ccchhHHhhcceecchhcCCHH
Confidence            7654      4688888999654311  111  1  223567899999999886    7999999999875 79999999


Q ss_pred             HHHHHHHHH
Q psy17974        559 TLKVIFKVR  567 (583)
Q Consensus       559 sl~~I~~~~  567 (583)
                      +|..|...-
T Consensus       183 el~~Iv~r~  191 (233)
T PF05496_consen  183 ELAKIVKRS  191 (233)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            999998654

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.

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=99.18  E-value=1.8e-10  Score=119.94  Aligned_cols=135  Identities=25%  Similarity=0.384  Sum_probs=99.1

Q ss_pred             HHHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh-HHHHHHHHhhhhhhcCccccCCCCC
Q psy17974        398 IMEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS-ARTQEILEGKLDKRTKTLLGAPLGK  474 (583)
Q Consensus       398 ll~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~-~~lq~~ie~~l~~~~~~~~~p~~gk  474 (583)
                      .+..++++++  +++|.||||||||++++.++....      .-+..+|+.++. ++++++++..-..+       ..|+
T Consensus        38 ~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~------~~f~~~sAv~~gvkdlr~i~e~a~~~~-------~~gr  104 (436)
T COG2256          38 PLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTN------AAFEALSAVTSGVKDLREIIEEARKNR-------LLGR  104 (436)
T ss_pred             hHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhC------CceEEeccccccHHHHHHHHHHHHHHH-------hcCC
Confidence            3567788774  899999999999999999888652      234667886653 56777766542211       1267


Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCC-CCCCCCCCChhhhccceEEEeC
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAP-PGGGRMPLTPRFVRHFGLLSLP  553 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p-~~~gr~~l~~Rllr~f~vi~i~  553 (583)
                      +.|+||||+|.-.+.+   |   ++|=-.+|.|              .+.+|||++. |+   +.+++.+++|+.|+.+.
T Consensus       105 ~tiLflDEIHRfnK~Q---Q---D~lLp~vE~G--------------~iilIGATTENPs---F~ln~ALlSR~~vf~lk  161 (436)
T COG2256         105 RTILFLDEIHRFNKAQ---Q---DALLPHVENG--------------TIILIGATTENPS---FELNPALLSRARVFELK  161 (436)
T ss_pred             ceEEEEehhhhcChhh---h---hhhhhhhcCC--------------eEEEEeccCCCCC---eeecHHHhhhhheeeee
Confidence            8999999999876543   1   2333444433              4788888653 33   68999999999999999


Q ss_pred             CCCHHHHHHHHHHHh
Q psy17974        554 SPTEDTLKVIFKVRT  568 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l  568 (583)
                      +.+.+++..+.+.-+
T Consensus       162 ~L~~~di~~~l~ra~  176 (436)
T COG2256         162 PLSSEDIKKLLKRAL  176 (436)
T ss_pred             cCCHHHHHHHHHHHH
Confidence            999999999998843

>KOG0733|consensus

Probab=99.15  E-value=9.8e-11  Score=126.52  Aligned_cols=152  Identities=24%  Similarity=0.300  Sum_probs=101.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEec
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVD  481 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiD  481 (583)
                      +..-+.|||.||||||||+++++++.++    +..++.|  |+-    .+..-+-+.-+++-+.+|. +....+||+|||
T Consensus       220 v~PprGvLlHGPPGCGKT~lA~AiAgel----~vPf~~i--sAp----eivSGvSGESEkkiRelF~~A~~~aPcivFiD  289 (802)
T KOG0733|consen  220 VRPPRGVLLHGPPGCGKTSLANAIAGEL----GVPFLSI--SAP----EIVSGVSGESEKKIRELFDQAKSNAPCIVFID  289 (802)
T ss_pred             CCCCCceeeeCCCCccHHHHHHHHhhhc----CCceEee--cch----hhhcccCcccHHHHHHHHHHHhccCCeEEEee
Confidence            3445789999999999999999999987    2333333  331    1111112223444444554 345679999999


Q ss_pred             CCCCCCcccCCCCChHH--HHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEeCCCC
Q psy17974        482 DVNMPKLETYGAQPPIE--LLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSLPSPT  556 (583)
Q Consensus       482 Dln~p~~d~yg~q~~lE--lLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i~~p~  556 (583)
                      ||+.-.+..-++|.-+|  .+-|++..-   |.-..+-..-.++.+|||+|.|.    .++|.|.|  || +-|.+.-|+
T Consensus       290 eIDAI~pkRe~aqreMErRiVaQLlt~m---D~l~~~~~~g~~VlVIgATnRPD----slDpaLRRaGRFdrEI~l~vP~  362 (802)
T KOG0733|consen  290 EIDAITPKREEAQREMERRIVAQLLTSM---DELSNEKTKGDPVLVIGATNRPD----SLDPALRRAGRFDREICLGVPS  362 (802)
T ss_pred             cccccccchhhHHHHHHHHHHHHHHHhh---hcccccccCCCCeEEEecCCCCc----ccCHHHhccccccceeeecCCc
Confidence            99987776656665444  344544311   11111111124699999999987    78998887  66 479999999


Q ss_pred             HHHHHHHHHHHhccc
Q psy17974        557 EDTLKVIFKVRTSPG  571 (583)
Q Consensus       557 ~~sl~~I~~~~l~~~  571 (583)
                      +.+-..|...+.++.
T Consensus       363 e~aR~~IL~~~~~~l  377 (802)
T KOG0733|consen  363 ETAREEILRIICRGL  377 (802)
T ss_pred             hHHHHHHHHHHHhhC
Confidence            999999999998854

>KOG0730|consensus

Probab=99.15  E-value=1.3e-10  Score=127.06  Aligned_cols=152  Identities=19%  Similarity=0.308  Sum_probs=102.3

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEE
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLA  477 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~v  477 (583)
                      .+.-++.-+.|||+||||||||++++++++.-    ...++.+     --++-+-+.+ +.=|+.-+.+|. +....++|
T Consensus       461 ~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~----~~nFlsv-----kgpEL~sk~v-GeSEr~ir~iF~kAR~~aP~I  530 (693)
T KOG0730|consen  461 ARFGISPPKGVLLYGPPGCGKTLLAKALANEA----GMNFLSV-----KGPELFSKYV-GESERAIREVFRKARQVAPCI  530 (693)
T ss_pred             HHhcCCCCceEEEECCCCcchHHHHHHHhhhh----cCCeeec-----cCHHHHHHhc-CchHHHHHHHHHHHhhcCCeE
Confidence            44446778999999999999999999999864    2233333     2222222111 111121122222 22344689


Q ss_pred             EEecCCCCCCcccCCCCC--hHHHHHHHHH-hCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEE
Q psy17974        478 VFVDDVNMPKLETYGAQP--PIELLRQFLD-FGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLS  551 (583)
Q Consensus       478 lfiDDln~p~~d~yg~q~--~lElLRq~ld-~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~  551 (583)
                      +|+|||+.-.....|...  .--.|-|++. ..|.-.        -.++.+|||+|.|.    .|++.++|  || .+|+
T Consensus       531 iFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~--------~k~V~ViAATNRpd----~ID~ALlRPGRlD~iiy  598 (693)
T KOG0730|consen  531 IFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEA--------LKNVLVIAATNRPD----MIDPALLRPGRLDRIIY  598 (693)
T ss_pred             EehhhHHhHhhccCCCccchHHHHHHHHHHHcccccc--------cCcEEEEeccCChh----hcCHHHcCCcccceeEe
Confidence            999999987666544322  3445666653 334422        25899999999997    89999999  78 4999


Q ss_pred             eCCCCHHHHHHHHHHHhcccc
Q psy17974        552 LPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       552 i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      +|.|+.++-..|++...+..-
T Consensus       599 VplPD~~aR~~Ilk~~~kkmp  619 (693)
T KOG0730|consen  599 VPLPDLEARLEILKQCAKKMP  619 (693)
T ss_pred             ecCccHHHHHHHHHHHHhcCC
Confidence            999999999999999987654

>KOG0731|consensus

Probab=99.13  E-value=1.9e-10  Score=129.19  Aligned_cols=148  Identities=23%  Similarity=0.350  Sum_probs=102.3

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEec
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVD  481 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiD  481 (583)
                      .+.-+.|||+||||||||.++++++.+-    +..+  ++.|+    +.+.+++-+--.-+.+..|. +..+.++++|||
T Consensus       341 AKiPkGvLL~GPPGTGKTLLAKAiAGEA----gVPF--~svSG----SEFvE~~~g~~asrvr~lf~~ar~~aP~iifid  410 (774)
T KOG0731|consen  341 AKIPKGVLLVGPPGTGKTLLAKAIAGEA----GVPF--FSVSG----SEFVEMFVGVGASRVRDLFPLARKNAPSIIFID  410 (774)
T ss_pred             CcCcCceEEECCCCCcHHHHHHHHhccc----CCce--eeech----HHHHHHhcccchHHHHHHHHHhhccCCeEEEec
Confidence            3445899999999999999999999853    3333  33333    23333322211223334443 346779999999


Q ss_pred             CCCCCCcccC-----CCCC-hHHHHHHHH-HhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEE
Q psy17974        482 DVNMPKLETY-----GAQP-PIELLRQFL-DFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLS  551 (583)
Q Consensus       482 Dln~p~~d~y-----g~q~-~lElLRq~l-d~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~  551 (583)
                      ||+.+.....     |.|+ --..|.|++ +..||-.        -.++.++||||.|.    .+++.|+|  || +.|+
T Consensus       411 eida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~--------~~~vi~~a~tnr~d----~ld~allrpGRfdr~i~  478 (774)
T KOG0731|consen  411 EIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFET--------SKGVIVLAATNRPD----ILDPALLRPGRFDRQIQ  478 (774)
T ss_pred             ccccccccccccccCCCChHHHHHHHHHHHHhcCCcC--------CCcEEEEeccCCcc----ccCHHhcCCCcccccee
Confidence            9999876652     3333 334677776 5556632        14688999999987    68888887  56 4799


Q ss_pred             eCCCCHHHHHHHHHHHhcccc
Q psy17974        552 LPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       552 i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      ++.|+...-..||..++...-
T Consensus       479 i~~p~~~~r~~i~~~h~~~~~  499 (774)
T KOG0731|consen  479 IDLPDVKGRASILKVHLRKKK  499 (774)
T ss_pred             ccCCchhhhHHHHHHHhhccC
Confidence            999999999999999887543

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.11  E-value=2.4e-10  Score=125.47  Aligned_cols=150  Identities=19%  Similarity=0.309  Sum_probs=91.7

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhccc----CCceEEEEEeccCC--------ChHHHHHHHHhhhhhhcCccccCC
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLAS----NTWAALTINFSAQT--------SSARTQEILEGKLDKRTKTLLGAP  471 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~----~~~~~~~i~fS~~T--------t~~~lq~~ie~~l~~~~~~~~~p~  471 (583)
                      ...+++||+||||||||++++++++.+...    ......+++.+...        +...+..+++ ....      ...
T Consensus       214 ~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~eLl~kyvGete~~ir~iF~-~Ar~------~a~  286 (512)
T TIGR03689       214 KPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPELLNKYVGETERQIRLIFQ-RARE------KAS  286 (512)
T ss_pred             CCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchhhcccccchHHHHHHHHHH-HHHH------Hhh
Confidence            345789999999999999999999987321    01123333433211        0011111111 1110      012


Q ss_pred             CCCeEEEEecCCCCCCccc-CC-CCCh-HHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--
Q psy17974        472 LGKRLAVFVDDVNMPKLET-YG-AQPP-IELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--  545 (583)
Q Consensus       472 ~gk~~vlfiDDln~p~~d~-yg-~q~~-lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--  545 (583)
                      .++++|+||||++...... .| +... -.++-|++.. .|+.        ...++.+|||+|.+.    .|+++++|  
T Consensus       287 ~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~--------~~~~ViVI~ATN~~d----~LDpALlRpG  354 (512)
T TIGR03689       287 DGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVE--------SLDNVIVIGASNRED----MIDPAILRPG  354 (512)
T ss_pred             cCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccc--------cCCceEEEeccCChh----hCCHhhcCcc
Confidence            4578999999999754322 11 1111 1123333321 2221        124688999999986    79999999  


Q ss_pred             cce-EEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        546 HFG-LLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       546 ~f~-vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      ||. .|.++.|+.+....||..++...+
T Consensus       355 RfD~~I~~~~Pd~e~r~~Il~~~l~~~l  382 (512)
T TIGR03689       355 RLDVKIRIERPDAEAAADIFSKYLTDSL  382 (512)
T ss_pred             ccceEEEeCCCCHHHHHHHHHHHhhccC
Confidence            885 699999999999999999987543

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.11  E-value=2.6e-10  Score=133.38  Aligned_cols=152  Identities=18%  Similarity=0.283  Sum_probs=100.0

Q ss_pred             HHHHHHhc-CCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCC----ChHHHHHHHHhhhhhhcCc
Q psy17974        398 IMEKLLLV-NHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQT----SSARTQEILEGKLDKRTKT  466 (583)
Q Consensus       398 ll~~~l~~-~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~T----t~~~lq~~ie~~l~~~~~~  466 (583)
                      +++.+... ..+++|+||||||||++++.+++.+...      .+.....+.++.-.    ....+.+-+..-++.-.+ 
T Consensus       199 ~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~ge~e~~lk~ii~e~~~-  277 (852)
T TIGR03345       199 MIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVKGEFENRLKSVIDEVKA-  277 (852)
T ss_pred             HHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccchHHHHHHHHHHHHHHh-
Confidence            33433333 4699999999999999999998876211      12334455554321    122233333333332111 


Q ss_pred             cccCCCCCeEEEEecCCCCCCcc--cCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhh
Q psy17974        467 LLGAPLGKRLAVFVDDVNMPKLE--TYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRF  543 (583)
Q Consensus       467 ~~~p~~gk~~vlfiDDln~p~~d--~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rl  543 (583)
                           .+++.|+||||+|.-...  .-|.+.+-.+|...++.|              .+++|||++++. .-...+++.|
T Consensus       278 -----~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G--------------~l~~IgaTT~~e~~~~~~~d~AL  338 (852)
T TIGR03345       278 -----SPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARG--------------ELRTIAATTWAEYKKYFEKDPAL  338 (852)
T ss_pred             -----cCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCC--------------CeEEEEecCHHHHhhhhhccHHH
Confidence                 135789999999986432  124455556777777644              578999998854 2235689999


Q ss_pred             hccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        544 VRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       544 lr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      .|||.+|.+++|+.++...|+..+..
T Consensus       339 ~rRf~~i~v~eps~~~~~~iL~~~~~  364 (852)
T TIGR03345       339 TRRFQVVKVEEPDEETAIRMLRGLAP  364 (852)
T ss_pred             HHhCeEEEeCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999765554

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.

>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=99.10  E-value=2e-10  Score=102.93  Aligned_cols=125  Identities=20%  Similarity=0.283  Sum_probs=66.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCc----cccCCCCCeEEEEecCC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKT----LLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~----~~~p~~gk~~vlfiDDl  483 (583)
                      ||||.|+||+|||++++++++.+    +..+.+|.|++...++++...   .+-....+    ..||--.  -|+++|||
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~----~~~f~RIq~tpdllPsDi~G~---~v~~~~~~~f~~~~GPif~--~ill~DEi   71 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSL----GLSFKRIQFTPDLLPSDILGF---PVYDQETGEFEFRPGPIFT--NILLADEI   71 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHT----T--EEEEE--TT--HHHHHEE---EEEETTTTEEEEEE-TT-S--SEEEEETG
T ss_pred             CEeeECCCccHHHHHHHHHHHHc----CCceeEEEecCCCCcccceee---eeeccCCCeeEeecChhhh--ceeeeccc
Confidence            68999999999999999999987    346778999988888886643   21111112    1234332  38899999


Q ss_pred             CCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhccce
Q psy17974        484 NMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVRHFG  548 (583)
Q Consensus       484 n~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr~f~  548 (583)
                      |.+.+..   |+  .+| +.++.+.. ......+.--..+.+|||+||.. .|..+++..++.||.
T Consensus        72 Nrappkt---Qs--AlL-eam~Er~V-t~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~DRF~  130 (131)
T PF07726_consen   72 NRAPPKT---QS--ALL-EAMEERQV-TIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLDRFM  130 (131)
T ss_dssp             GGS-HHH---HH--HHH-HHHHHSEE-EETTEEEE--SS-EEEEEE-TT--S------HHHHTTSS
T ss_pred             ccCCHHH---HH--HHH-HHHHcCeE-EeCCEEEECCCcEEEEEecCccccCceecCCHHHhcccc
Confidence            9987652   22  244 34443322 11222344445699999999975 689999999999985

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.10  E-value=4.8e-10  Score=123.12  Aligned_cols=139  Identities=19%  Similarity=0.325  Sum_probs=90.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC------ChHHHHHHHHhhhhhhcCccccCCCCCeEEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT------SSARTQEILEGKLDKRTKTLLGAPLGKRLAV  478 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T------t~~~lq~~ie~~l~~~~~~~~~p~~gk~~vl  478 (583)
                      ..+++||+||||||||+++++++...    +...+.++.+...      +...+.+++    ..       ....+++|+
T Consensus       258 ~pkGILL~GPpGTGKTllAkaiA~e~----~~~~~~l~~~~l~~~~vGese~~l~~~f----~~-------A~~~~P~IL  322 (489)
T CHL00195        258 TPRGLLLVGIQGTGKSLTAKAIANDW----QLPLLRLDVGKLFGGIVGESESRMRQMI----RI-------AEALSPCIL  322 (489)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHh----CCCEEEEEhHHhcccccChHHHHHHHHH----HH-------HHhcCCcEE
Confidence            35789999999999999999999976    3445555543311      111222221    11       112357899


Q ss_pred             EecCCCCCCc--ccCCC-CChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEe
Q psy17974        479 FVDDVNMPKL--ETYGA-QPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSL  552 (583)
Q Consensus       479 fiDDln~p~~--d~yg~-q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i  552 (583)
                      ||||++..-.  +..|. ......+.+++.   |.+..+      .++.+|||+|.+.    .+++.++|  +|. ++++
T Consensus       323 ~IDEID~~~~~~~~~~d~~~~~rvl~~lL~---~l~~~~------~~V~vIaTTN~~~----~Ld~allR~GRFD~~i~v  389 (489)
T CHL00195        323 WIDEIDKAFSNSESKGDSGTTNRVLATFIT---WLSEKK------SPVFVVATANNID----LLPLEILRKGRFDEIFFL  389 (489)
T ss_pred             EehhhhhhhccccCCCCchHHHHHHHHHHH---HHhcCC------CceEEEEecCChh----hCCHHHhCCCcCCeEEEe
Confidence            9999985322  22221 122333333332   222111      3688999999886    79999998  885 8999


Q ss_pred             CCCCHHHHHHHHHHHhccc
Q psy17974        553 PSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       553 ~~p~~~sl~~I~~~~l~~~  571 (583)
                      +.|+.++...|+..++...
T Consensus       390 ~lP~~~eR~~Il~~~l~~~  408 (489)
T CHL00195        390 DLPSLEEREKIFKIHLQKF  408 (489)
T ss_pred             CCcCHHHHHHHHHHHHhhc
Confidence            9999999999999998764

>KOG0738|consensus

Probab=99.10  E-value=2.2e-10  Score=118.29  Aligned_cols=145  Identities=17%  Similarity=0.266  Sum_probs=96.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHH----HHHHhhhhhhcCccccCCCCCeEEE
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQ----EILEGKLDKRTKTLLGAPLGKRLAV  478 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq----~~ie~~l~~~~~~~~~p~~gk~~vl  478 (583)
                      ...=+.||++||||||||+|+++++.+.      .+.++|.|+.|-.+.-.    +++.--++  -...|.|     .+|
T Consensus       242 rrPWkgvLm~GPPGTGKTlLAKAvATEc------~tTFFNVSsstltSKwRGeSEKlvRlLFe--mARfyAP-----StI  308 (491)
T KOG0738|consen  242 RRPWKGVLMVGPPGTGKTLLAKAVATEC------GTTFFNVSSSTLTSKWRGESEKLVRLLFE--MARFYAP-----STI  308 (491)
T ss_pred             ccccceeeeeCCCCCcHHHHHHHHHHhh------cCeEEEechhhhhhhhccchHHHHHHHHH--HHHHhCC-----cee
Confidence            3334789999999999999999999875      25677777765332221    11110111  1123444     489


Q ss_pred             EecCCCCCCcccCCCCC-------hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EE
Q psy17974        479 FVDDVNMPKLETYGAQP-------PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LL  550 (583)
Q Consensus       479 fiDDln~p~~d~yg~q~-------~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi  550 (583)
                      |||||+..-....|+..       --|||-|+-.-++-.+.       -.-|.++||+|-|=    +|+..|+|+|- -|
T Consensus       309 FiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~-------~k~VmVLAATN~PW----diDEAlrRRlEKRI  377 (491)
T KOG0738|consen  309 FIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLEN-------SKVVMVLAATNFPW----DIDEALRRRLEKRI  377 (491)
T ss_pred             ehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhcccccccc-------ceeEEEEeccCCCc----chHHHHHHHHhhhe
Confidence            99999975443333211       24677666433332221       12378889999987    89999999996 79


Q ss_pred             EeCCCCHHHHHHHHHHHhccc
Q psy17974        551 SLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       551 ~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      +||.|+.+.-...+...|...
T Consensus       378 yIPLP~~~~R~~Li~~~l~~~  398 (491)
T KOG0738|consen  378 YIPLPDAEARSALIKILLRSV  398 (491)
T ss_pred             eeeCCCHHHHHHHHHHhhccc
Confidence            999999999998888877654

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.10  E-value=1.3e-09  Score=107.45  Aligned_cols=161  Identities=22%  Similarity=0.331  Sum_probs=110.3

Q ss_pred             eeeCchhhhHHHHHHHHHhc--------CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHH
Q psy17974        386 MVPTIDTIRFGSIMEKLLLV--------NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILE  457 (583)
Q Consensus       386 ~VpT~dt~r~~~ll~~~l~~--------~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie  457 (583)
                      +|--.+..|-..++-..+++        .++||+.||||||||+++++++++.    +...+.++  +    .   ++|.
T Consensus       123 ViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~----kvp~l~vk--a----t---~liG  189 (368)
T COG1223         123 VIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA----KVPLLLVK--A----T---ELIG  189 (368)
T ss_pred             hhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc----CCceEEec--h----H---HHHH
Confidence            44455666666677667665        4799999999999999999999865    22222221  1    1   1222


Q ss_pred             hhh---hhhcCcccc-CCCCCeEEEEecCCCCCCccc-CCC--CChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEec
Q psy17974        458 GKL---DKRTKTLLG-APLGKRLAVFVDDVNMPKLET-YGA--QPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTAC  529 (583)
Q Consensus       458 ~~l---~~~~~~~~~-p~~gk~~vlfiDDln~p~~d~-yg~--q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~  529 (583)
                      .++   .++-+..|. +....+||+||||++.-..|. |..  ..+-|.+..++.. .|.        +.-+++..|||+
T Consensus       190 ehVGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi--------~eneGVvtIaaT  261 (368)
T COG1223         190 EHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGI--------KENEGVVTIAAT  261 (368)
T ss_pred             HHhhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCc--------ccCCceEEEeec
Confidence            222   122223332 345668999999999887775 321  2366777777642 222        234578999999


Q ss_pred             CCCCCCCCCCChhhhccce-EEEeCCCCHHHHHHHHHHHhccc
Q psy17974        530 APPGGGRMPLTPRFVRHFG-LLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       530 ~p~~~gr~~l~~Rllr~f~-vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      |.|.    -+++...++|- -|-+-.|+.++...|...+.+.+
T Consensus       262 N~p~----~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~  300 (368)
T COG1223         262 NRPE----LLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKF  300 (368)
T ss_pred             CChh----hcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhC
Confidence            9986    79999999996 68888999999999998887654

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.09  E-value=2.6e-10  Score=118.69  Aligned_cols=148  Identities=16%  Similarity=0.136  Sum_probs=91.4

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccC------CCCCeEE
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGA------PLGKRLA  477 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p------~~gk~~v  477 (583)
                      +....++|.||||||||.+++++++++    +..++.++-+.-.+      -.-+.-++.-+..|..      ..++++|
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el----g~~~i~vsa~eL~s------k~vGEsEk~IR~~F~~A~~~a~~~~aPcV  215 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM----GIEPIVMSAGELES------ENAGEPGKLIRQRYREAADIIKKKGKMSC  215 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc----CCCeEEEEHHHhhc------CcCCcHHHHHHHHHHHHHHHhhccCCCeE
Confidence            445678999999999999999999987    33444443332221      0000111111122210      2467899


Q ss_pred             EEecCCCCCCcccCCCCCh------HHHHHHHHHh------CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc
Q psy17974        478 VFVDDVNMPKLETYGAQPP------IELLRQFLDF------GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR  545 (583)
Q Consensus       478 lfiDDln~p~~d~yg~q~~------lElLRq~ld~------~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr  545 (583)
                      ||||||+.-....-++|..      ...|=.++|.      +|.|+..    ....++.+|||+|.|.    .|++.|+|
T Consensus       216 LFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~----~~~~~V~VIaTTNrpd----~LDpALlR  287 (413)
T PLN00020        216 LFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREK----EEIPRVPIIVTGNDFS----TLYAPLIR  287 (413)
T ss_pred             EEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCcccccccccccc----ccCCCceEEEeCCCcc----cCCHhHcC
Confidence            9999999643322223322      1222233443      4444211    1245789999999887    89999999


Q ss_pred             --cceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        546 --HFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       546 --~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        ||-.. +..|+.++...|+..+++.
T Consensus       288 pGRfDk~-i~lPd~e~R~eIL~~~~r~  313 (413)
T PLN00020        288 DGRMEKF-YWAPTREDRIGVVHGIFRD  313 (413)
T ss_pred             CCCCCce-eCCCCHHHHHHHHHHHhcc
Confidence              88754 3579999999999988764

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=99.09  E-value=3.7e-10  Score=121.38  Aligned_cols=143  Identities=22%  Similarity=0.310  Sum_probs=88.2

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecC
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDD  482 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDD  482 (583)
                      ...+++||+||||||||++++++++.+.    ...+.+..+.     ..++.+.. -++.-+..|. .....++|+||||
T Consensus       177 ~~pkgvLL~GppGTGKT~LAkalA~~l~----~~fi~i~~s~-----l~~k~~ge-~~~~lr~lf~~A~~~~P~ILfIDE  246 (398)
T PTZ00454        177 DPPRGVLLYGPPGTGKTMLAKAVAHHTT----ATFIRVVGSE-----FVQKYLGE-GPRMVRDVFRLARENAPSIIFIDE  246 (398)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHhcC----CCEEEEehHH-----HHHHhcch-hHHHHHHHHHHHHhcCCeEEEEEC
Confidence            3468999999999999999999998752    2233332221     11111110 0010111111 1234578999999


Q ss_pred             CCCCCcccCCCC---------ChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEE
Q psy17974        483 VNMPKLETYGAQ---------PPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLL  550 (583)
Q Consensus       483 ln~p~~d~yg~q---------~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi  550 (583)
                      ++......++.+         ...++|+++-   |+        ....++.+|+|+|.|.    .++++++|  +| ..|
T Consensus       247 ID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld---~~--------~~~~~v~VI~aTN~~d----~LDpAllR~GRfd~~I  311 (398)
T PTZ00454        247 VDSIATKRFDAQTGADREVQRILLELLNQMD---GF--------DQTTNVKVIMATNRAD----TLDPALLRPGRLDRKI  311 (398)
T ss_pred             HhhhccccccccCCccHHHHHHHHHHHHHhh---cc--------CCCCCEEEEEecCCch----hCCHHHcCCCcccEEE
Confidence            997543332221         1233333321   21        1124688999999886    89999998  66 369


Q ss_pred             EeCCCCHHHHHHHHHHHhccc
Q psy17974        551 SLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       551 ~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      .++.|+.++...|+..++..+
T Consensus       312 ~~~~P~~~~R~~Il~~~~~~~  332 (398)
T PTZ00454        312 EFPLPDRRQKRLIFQTITSKM  332 (398)
T ss_pred             EeCCcCHHHHHHHHHHHHhcC
Confidence            999999999999999887643

>TIGR00763 lon ATP-dependent protease La

Probab=99.08  E-value=3.9e-10  Score=131.36  Aligned_cols=150  Identities=17%  Similarity=0.165  Sum_probs=99.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCc-------cccCCCCCeEEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKT-------LLGAPLGKRLAV  478 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~-------~~~p~~gk~~vl  478 (583)
                      +.+++|+||||||||++++.+++.+.    .....++++...+...+..    .-....+.       .+.-...+..|+
T Consensus       347 ~~~lll~GppG~GKT~lAk~iA~~l~----~~~~~i~~~~~~~~~~i~g----~~~~~~g~~~g~i~~~l~~~~~~~~vi  418 (775)
T TIGR00763       347 GPILCLVGPPGVGKTSLGKSIAKALN----RKFVRFSLGGVRDEAEIRG----HRRTYVGAMPGRIIQGLKKAKTKNPLF  418 (775)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhc----CCeEEEeCCCcccHHHHcC----CCCceeCCCCchHHHHHHHhCcCCCEE
Confidence            45799999999999999999999872    3455666655444332211    00000000       000011223388


Q ss_pred             EecCCCCCCcccCCCCChHHHHHHHHHh---CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCC
Q psy17974        479 FVDDVNMPKLETYGAQPPIELLRQFLDF---GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSP  555 (583)
Q Consensus       479 fiDDln~p~~d~yg~q~~lElLRq~ld~---~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p  555 (583)
                      |+||++....+..|  .+...|.+++|.   +.|.|..-..-....++.||+|+|++.    .+++.|++||.+|.++.|
T Consensus       419 llDEidk~~~~~~~--~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~TtN~~~----~i~~~L~~R~~vi~~~~~  492 (775)
T TIGR00763       419 LLDEIDKIGSSFRG--DPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATANSID----TIPRPLLDRMEVIELSGY  492 (775)
T ss_pred             EEechhhcCCccCC--CHHHHHHHhcCHHhcCccccccCCceeccCCEEEEEecCCch----hCCHHHhCCeeEEecCCC
Confidence            99999988765433  255666677763   444443222223456889999999865    799999999999999999


Q ss_pred             CHHHHHHHHHHHhc
Q psy17974        556 TEDTLKVIFKVRTS  569 (583)
Q Consensus       556 ~~~sl~~I~~~~l~  569 (583)
                      +.++...|...++.
T Consensus       493 ~~~e~~~I~~~~l~  506 (775)
T TIGR00763       493 TEEEKLEIAKKYLI  506 (775)
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999988773

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.

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

Probab=99.07  E-value=3.2e-10  Score=131.31  Aligned_cols=156  Identities=15%  Similarity=0.210  Sum_probs=99.0

Q ss_pred             HHHHHHhc-CCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccC
Q psy17974        398 IMEKLLLV-NHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGA  470 (583)
Q Consensus       398 ll~~~l~~-~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p  470 (583)
                      +++.+... +.+++|+||||||||++++.++..+...      .+..+..++.++........+-.+.++    +.++.-
T Consensus       194 ~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e~~l----~~i~~~  269 (731)
T TIGR02639       194 TIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFEERL----KAVVSE  269 (731)
T ss_pred             HHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHHHHH----HHHHHH
Confidence            44444433 4699999999999999999998865211      134455555444321111111112222    111110


Q ss_pred             -CCCCeEEEEecCCCCCCccc---CCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhc
Q psy17974        471 -PLGKRLAVFVDDVNMPKLET---YGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVR  545 (583)
Q Consensus       471 -~~gk~~vlfiDDln~p~~d~---yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr  545 (583)
                       ...++.|+||||+|.-....   .|+...-.+|+..++.|              .+++|||+|++. .-....++.|.|
T Consensus       270 ~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g--------------~i~~IgaTt~~e~~~~~~~d~al~r  335 (731)
T TIGR02639       270 IEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSG--------------KLRCIGSTTYEEYKNHFEKDRALSR  335 (731)
T ss_pred             HhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCC--------------CeEEEEecCHHHHHHHhhhhHHHHH
Confidence             11236799999999653221   22333556787777633              578999999754 222467999999


Q ss_pred             cceEEEeCCCCHHHHHHHHHHHhccc
Q psy17974        546 HFGLLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       546 ~f~vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      ||.+|.+++|+.++...|+..+...+
T Consensus       336 Rf~~i~v~~p~~~~~~~il~~~~~~~  361 (731)
T TIGR02639       336 RFQKIDVGEPSIEETVKILKGLKEKY  361 (731)
T ss_pred             hCceEEeCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999877654

>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=99.07  E-value=1.6e-09  Score=107.98  Aligned_cols=163  Identities=20%  Similarity=0.191  Sum_probs=104.9

Q ss_pred             ceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhc
Q psy17974        385 MMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRT  464 (583)
Q Consensus       385 i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~  464 (583)
                      -+|-|+.|.|.-.-+...+..+....+.||+|||||.+++++.+.+    +..++.+||+..++...+.+++.+-..-  
T Consensus        11 rlv~Tplt~r~~~~l~~al~~~~~~~~~GpagtGKtetik~La~~l----G~~~~vfnc~~~~~~~~l~ril~G~~~~--   84 (231)
T PF12774_consen   11 RLVITPLTDRCFLTLTQALSLNLGGALSGPAGTGKTETIKDLARAL----GRFVVVFNCSEQMDYQSLSRILKGLAQS--   84 (231)
T ss_dssp             -----HHHHHHHHHHHHHHCTTTEEEEESSTTSSHHHHHHHHHHCT----T--EEEEETTSSS-HHHHHHHHHHHHHH--
T ss_pred             CceechHHHHHHHHHHHHhccCCCCCCcCCCCCCchhHHHHHHHHh----CCeEEEecccccccHHHHHHHHHHHhhc--
Confidence            5899999999888888888889999999999999999999999987    4467889999999999988887655442  


Q ss_pred             CccccCCCCCeEEEEecCCCCCCcccCC--CCChHHHHHHHHH-hCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCCh
Q psy17974        465 KTLLGAPLGKRLAVFVDDVNMPKLETYG--AQPPIELLRQFLD-FGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTP  541 (583)
Q Consensus       465 ~~~~~p~~gk~~vlfiDDln~p~~d~yg--~q~~lElLRq~ld-~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~  541 (583)
                              |-|  +.+||+|.-..+.-.  +|. +..+++.+. ...-+.....+..-..++.+..+|||...||.++|+
T Consensus        85 --------GaW--~cfdefnrl~~~vLS~i~~~-i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~gr~~LP~  153 (231)
T PF12774_consen   85 --------GAW--LCFDEFNRLSEEVLSVISQQ-IQSIQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYAGRSELPE  153 (231)
T ss_dssp             --------T-E--EEEETCCCSSHHHHHHHHHH-HHHHHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CCCC--S-H
T ss_pred             --------Cch--hhhhhhhhhhHHHHHHHHHH-HHHHHHhhcccccccccCCCEEEEccceeEEEeeccccCCcccCCH
Confidence                    334  457999987655210  111 122222222 222233333344444578888999998899999999


Q ss_pred             hhhccceEEEeCCCCHHHHHHHH
Q psy17974        542 RFVRHFGLLSLPSPTEDTLKVIF  564 (583)
Q Consensus       542 Rllr~f~vi~i~~p~~~sl~~I~  564 (583)
                      .+...|+.+.+..||...+..|.
T Consensus       154 nLk~lFRpvam~~PD~~~I~ei~  176 (231)
T PF12774_consen  154 NLKALFRPVAMMVPDLSLIAEIL  176 (231)
T ss_dssp             HHCTTEEEEE--S--HHHHHHHH
T ss_pred             hHHHHhheeEEeCCCHHHHHHHH
Confidence            99999999999999987766654

>KOG0736|consensus

Probab=99.07  E-value=4.7e-10  Score=124.13  Aligned_cols=159  Identities=19%  Similarity=0.351  Sum_probs=105.6

Q ss_pred             HHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCC
Q psy17974        396 GSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGK  474 (583)
Q Consensus       396 ~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk  474 (583)
                      -.++..-+..+..|||+||||||||.++|+++.++         .++|=+.-.++-+ .+.-+.=|+..+.+|. ++..+
T Consensus       695 peLfssglrkRSGILLYGPPGTGKTLlAKAVATEc---------sL~FlSVKGPELL-NMYVGqSE~NVR~VFerAR~A~  764 (953)
T KOG0736|consen  695 PELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC---------SLNFLSVKGPELL-NMYVGQSEENVREVFERARSAA  764 (953)
T ss_pred             hhhhhccccccceeEEECCCCCchHHHHHHHHhhc---------eeeEEeecCHHHH-HHHhcchHHHHHHHHHHhhccC
Confidence            34444445556789999999999999999999876         2444343445444 3333444555556664 45778


Q ss_pred             eEEEEecCCCCCCcccC--C-CCChHH-HHHHHH-HhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc
Q psy17974        475 RLAVFVDDVNMPKLETY--G-AQPPIE-LLRQFL-DFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF  547 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~y--g-~q~~lE-lLRq~l-d~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f  547 (583)
                      +||||+||++.-.+.+.  | +.-++. ..-|++ |-.|.-|.      ...++.+|||+|.|.    -|+|.|+|  ||
T Consensus       765 PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~------~s~~VFViGATNRPD----LLDpALLRPGRF  834 (953)
T KOG0736|consen  765 PCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDS------SSQDVFVIGATNRPD----LLDPALLRPGRF  834 (953)
T ss_pred             CeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCC------CCCceEEEecCCCcc----ccChhhcCCCcc
Confidence            99999999998666542  2 112222 333443 33455432      235799999999997    78999999  78


Q ss_pred             e-EEEeCCCCH-HHHHHHHHHHhcccccC
Q psy17974        548 G-LLSLPSPTE-DTLKVIFKVRTSPGKQE  574 (583)
Q Consensus       548 ~-vi~i~~p~~-~sl~~I~~~~l~~~l~~  574 (583)
                      - .+++..++. ++-.+|..++-+.+--+
T Consensus       835 DKLvyvG~~~d~esk~~vL~AlTrkFkLd  863 (953)
T KOG0736|consen  835 DKLVYVGPNEDAESKLRVLEALTRKFKLD  863 (953)
T ss_pred             ceeEEecCCccHHHHHHHHHHHHHHccCC
Confidence            5 788887754 56667888876655333

>KOG0737|consensus

Probab=99.07  E-value=1.6e-10  Score=119.13  Aligned_cols=150  Identities=23%  Similarity=0.274  Sum_probs=102.1

Q ss_pred             HHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEE
Q psy17974        400 EKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAV  478 (583)
Q Consensus       400 ~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vl  478 (583)
                      ..++...++|||.||||||||+++++++++.    +...+.+..|.-|+ ..+     +.-+|-.+.+|. |..=+++++
T Consensus       121 g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akea----ga~fInv~~s~lt~-KWf-----gE~eKlv~AvFslAsKl~P~iI  190 (386)
T KOG0737|consen  121 GKLLRPPKGILLYGPPGTGKTMLAKAIAKEA----GANFINVSVSNLTS-KWF-----GEAQKLVKAVFSLASKLQPSII  190 (386)
T ss_pred             cccccCCccceecCCCCchHHHHHHHHHHHc----CCCcceeeccccch-hhH-----HHHHHHHHHHHhhhhhcCccee
Confidence            3455578899999999999999999999864    34555566666554 333     122233333443 334568899


Q ss_pred             EecCCCCCCcccCCCCChHHHHH----HHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeC
Q psy17974        479 FVDDVNMPKLETYGAQPPIELLR----QFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLP  553 (583)
Q Consensus       479 fiDDln~p~~d~yg~q~~lElLR----q~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~  553 (583)
                      |||+++.--..+ ++ .-.|..+    |++-   -||.-  .-+.-+.+.++||+|.|.    +++.+.+||+. +++|+
T Consensus       191 FIDEvds~L~~R-~s-~dHEa~a~mK~eFM~---~WDGl--~s~~~~rVlVlgATNRP~----DlDeAiiRR~p~rf~V~  259 (386)
T KOG0737|consen  191 FIDEVDSFLGQR-RS-TDHEATAMMKNEFMA---LWDGL--SSKDSERVLVLGATNRPF----DLDEAIIRRLPRRFHVG  259 (386)
T ss_pred             ehhhHHHHHhhc-cc-chHHHHHHHHHHHHH---Hhccc--cCCCCceEEEEeCCCCCc----cHHHHHHHhCcceeeeC
Confidence            999998644333 21 1234433    3333   23321  112223588999999986    89999999995 89999


Q ss_pred             CCCHHHHHHHHHHHhcc
Q psy17974        554 SPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~~  570 (583)
                      -|+..+-..|+..+|+.
T Consensus       260 lP~~~qR~kILkviLk~  276 (386)
T KOG0737|consen  260 LPDAEQRRKILKVILKK  276 (386)
T ss_pred             CCchhhHHHHHHHHhcc
Confidence            99999999999999974

>KOG0727|consensus

Probab=99.06  E-value=2.7e-10  Score=111.52  Aligned_cols=145  Identities=24%  Similarity=0.360  Sum_probs=101.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEec
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVD  481 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiD  481 (583)
                      +...+.|||+||||||||+++++.++.-    ...++.++     .++-+|+.+... -+-.+.+|. +..+.+.|+|||
T Consensus       186 idpprgvllygppg~gktml~kava~~t----~a~firvv-----gsefvqkylgeg-prmvrdvfrlakenapsiifid  255 (408)
T KOG0727|consen  186 IDPPRGVLLYGPPGTGKTMLAKAVANHT----TAAFIRVV-----GSEFVQKYLGEG-PRMVRDVFRLAKENAPSIIFID  255 (408)
T ss_pred             CCCCcceEEeCCCCCcHHHHHHHHhhcc----chheeeec-----cHHHHHHHhccC-cHHHHHHHHHHhccCCcEEEee
Confidence            5556899999999999999999998743    22344443     344566554221 011123443 346678899999


Q ss_pred             CCCCCCcccCCCCC---------hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc---eE
Q psy17974        482 DVNMPKLETYGAQP---------PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF---GL  549 (583)
Q Consensus       482 Dln~p~~d~yg~q~---------~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f---~v  549 (583)
                      |++.-....|.+|.         .+|+|.|+   .|| |.       -.|+.+|.|+|...    .++|.++|--   +-
T Consensus       256 eidaiatkrfdaqtgadrevqril~ellnqm---dgf-dq-------~~nvkvimatnrad----tldpallrpgrldrk  320 (408)
T KOG0727|consen  256 EIDAIATKRFDAQTGADREVQRILIELLNQM---DGF-DQ-------TTNVKVIMATNRAD----TLDPALLRPGRLDRK  320 (408)
T ss_pred             hhhhHhhhhccccccccHHHHHHHHHHHHhc---cCc-Cc-------ccceEEEEecCccc----ccCHhhcCCcccccc
Confidence            99988777777665         46777665   344 22       24788898888765    7889888854   35


Q ss_pred             EEeCCCCHHHHHHHHHHHhcccc
Q psy17974        550 LSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      |.+|.|+.-.-+-+|+++...+.
T Consensus       321 iefplpdrrqkrlvf~titskm~  343 (408)
T KOG0727|consen  321 IEFPLPDRRQKRLVFSTITSKMN  343 (408)
T ss_pred             ccCCCCchhhhhhhHHhhhhccc
Confidence            89999999999999999976553

>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=99.04  E-value=1.6e-09  Score=105.21  Aligned_cols=127  Identities=23%  Similarity=0.243  Sum_probs=70.2

Q ss_pred             HHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcc---cCCceEE----------------EEEeccCCChHHHHHH
Q psy17974        395 FGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLA---SNTWAAL----------------TINFSAQTSSARTQEI  455 (583)
Q Consensus       395 ~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~---~~~~~~~----------------~i~fS~~Tt~~~lq~~  455 (583)
                      ....+......++++|+.||||||||++++.+..-++.   .+.....                ...|-+--.+.....+
T Consensus        11 aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~~~~~~~~~~~~~Pfr~phhs~s~~~l   90 (206)
T PF01078_consen   11 AKRALEIAAAGGHHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVAGLGPDEGLIRQRPFRAPHHSASEAAL   90 (206)
T ss_dssp             HHHHHHHHHHCC--EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT---S---EEEE---EEEE-TT--HHHH
T ss_pred             HHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhccccccccCCCCCceecCCCcccCCCCcCHHHH
Confidence            34456677778999999999999999999988654421   1111111                1111000000011111


Q ss_pred             HHhhhhhhcCccccCC---CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCee-ecCCCeeEeecCeEEEEecCC
Q psy17974        456 LEGKLDKRTKTLLGAP---LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY-DRDKMFWKTLQDVVLCTACAP  531 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~---~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~y-d~~~~~~~~i~~i~~iaa~~p  531 (583)
                      +.+.      ..+.|-   ...+.|+|+||+|.-...      ++|.|||.++.|-.. .+.........++++||||||
T Consensus        91 iGgg------~~~~PGeislAh~GVLflDE~~ef~~~------vld~Lr~ple~g~v~i~R~~~~~~~Pa~f~lv~a~NP  158 (206)
T PF01078_consen   91 IGGG------RPPRPGEISLAHRGVLFLDELNEFDRS------VLDALRQPLEDGEVTISRAGGSVTYPARFLLVAAMNP  158 (206)
T ss_dssp             HEEG------GGEEE-CGGGGTTSEEEECETTTS-HH------HHHHHHHHHHHSBEEEEETTEEEEEB--EEEEEEE-S
T ss_pred             hCCC------cCCCcCHHHHhcCCEEEechhhhcCHH------HHHHHHHHHHCCeEEEEECCceEEEecccEEEEEecc
Confidence            1111      111111   234669999999987654      899999999988665 455556777889999999999


Q ss_pred             CC
Q psy17974        532 PG  533 (583)
Q Consensus       532 ~~  533 (583)
                      --
T Consensus       159 cp  160 (206)
T PF01078_consen  159 CP  160 (206)
T ss_dssp             --
T ss_pred             cc
Confidence            53

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.04  E-value=1.3e-09  Score=117.38  Aligned_cols=144  Identities=19%  Similarity=0.269  Sum_probs=89.5

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC--hHHHHHHHHhhhhhhcCccccCCCCCeEEEEecC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS--SARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt--~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDD  482 (583)
                      ..++|||+||||||||++++++++.+.    ..++.++.+....  .....+.+..-++.       .....++|+||||
T Consensus       164 ~p~gvLL~GppGtGKT~lAkaia~~~~----~~~i~v~~~~l~~~~~g~~~~~i~~~f~~-------a~~~~p~IlfiDE  232 (389)
T PRK03992        164 PPKGVLLYGPPGTGKTLLAKAVAHETN----ATFIRVVGSELVQKFIGEGARLVRELFEL-------AREKAPSIIFIDE  232 (389)
T ss_pred             CCCceEEECCCCCChHHHHHHHHHHhC----CCEEEeehHHHhHhhccchHHHHHHHHHH-------HHhcCCeEEEEec
Confidence            346899999999999999999998762    2334443332110  00000111111111       1123467999999


Q ss_pred             CCCCCcccC-----CCCChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEeC
Q psy17974        483 VNMPKLETY-----GAQPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSLP  553 (583)
Q Consensus       483 ln~p~~d~y-----g~q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i~  553 (583)
                      ++.-.....     |.......+.+++.. .|+-+        -.++.+|||+|.+.    .+++.++|  +| ..|.++
T Consensus       233 iD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~--------~~~v~VI~aTn~~~----~ld~allRpgRfd~~I~v~  300 (389)
T PRK03992        233 IDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDP--------RGNVKIIAATNRID----ILDPAILRPGRFDRIIEVP  300 (389)
T ss_pred             hhhhhcccccCCCCccHHHHHHHHHHHHhccccCC--------CCCEEEEEecCChh----hCCHHHcCCccCceEEEEC
Confidence            997533221     112233345555532 22211        23688999999875    78999987  77 479999


Q ss_pred             CCCHHHHHHHHHHHhccc
Q psy17974        554 SPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~~~  571 (583)
                      .|+.+....|+..++...
T Consensus       301 ~P~~~~R~~Il~~~~~~~  318 (389)
T PRK03992        301 LPDEEGRLEILKIHTRKM  318 (389)
T ss_pred             CCCHHHHHHHHHHHhccC
Confidence            999999999999887654

>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=99.03  E-value=7.2e-10  Score=99.69  Aligned_cols=125  Identities=19%  Similarity=0.351  Sum_probs=76.9

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC--ChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT--SSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T--t~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      |||+||||||||++++.+++.+    ++.++.++.+...  ......+.+...+.+-.+.      ++++|+||||++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l----~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~------~~~~vl~iDe~d~l   70 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL----GFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKS------AKPCVLFIDEIDKL   70 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT----TSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHT------STSEEEEEETGGGT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc----cccccccccccccccccccccccccccccccccc------ccceeeeeccchhc
Confidence            6999999999999999999987    3556667666543  2233333444433331111      15789999999987


Q ss_pred             CcccCCCCC--hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhh-ccce-EEEeC
Q psy17974        487 KLETYGAQP--PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFV-RHFG-LLSLP  553 (583)
Q Consensus       487 ~~d~yg~q~--~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rll-r~f~-vi~i~  553 (583)
                      ..+......  .-+++++++..-......      -.++.+|+++|.+.    .+++++. ++|. .+.+|
T Consensus        71 ~~~~~~~~~~~~~~~~~~L~~~l~~~~~~------~~~~~vI~ttn~~~----~i~~~l~~~rf~~~i~~~  131 (132)
T PF00004_consen   71 FPKSQPSSSSFEQRLLNQLLSLLDNPSSK------NSRVIVIATTNSPD----KIDPALLRSRFDRRIEFP  131 (132)
T ss_dssp             SHHCSTSSSHHHHHHHHHHHHHHHTTTTT------SSSEEEEEEESSGG----GSCHHHHSTTSEEEEEE-
T ss_pred             ccccccccccccccccceeeecccccccc------cccceeEEeeCChh----hCCHhHHhCCCcEEEEcC
Confidence            666411111  223444444311111111      23588999999865    7999999 8886 46654

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 ....

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.01  E-value=1e-09  Score=128.74  Aligned_cols=154  Identities=18%  Similarity=0.252  Sum_probs=99.6

Q ss_pred             HHHHHHHhc-CCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCChH----HHHHHHHhhhhhhcC
Q psy17974        397 SIMEKLLLV-NHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSSA----RTQEILEGKLDKRTK  465 (583)
Q Consensus       397 ~ll~~~l~~-~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~~----~lq~~ie~~l~~~~~  465 (583)
                      .+++.|... +.+++|+||||||||++++.++..+...      .++.++.+++++.....    .+.+.+..-++...+
T Consensus       189 ~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~~~g~~e~~lk~~~~~~~~  268 (857)
T PRK10865        189 RTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLNDLAK  268 (857)
T ss_pred             HHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccchhhhhHHHHHHHHHHHHH
Confidence            334444444 3499999999999999999998876321      14566666666532211    122222222221111


Q ss_pred             ccccCCCCCeEEEEecCCCCCCcc--cCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-CCCCCChh
Q psy17974        466 TLLGAPLGKRLAVFVDDVNMPKLE--TYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLTPR  542 (583)
Q Consensus       466 ~~~~p~~gk~~vlfiDDln~p~~d--~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-gr~~l~~R  542 (583)
                            .+++.|+||||+|+-...  ..|+...-.+|...+..|              .+++|||++++.- -...+++.
T Consensus       269 ------~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g--------------~l~~IgaTt~~e~r~~~~~d~a  328 (857)
T PRK10865        269 ------QEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--------------ELHCVGATTLDEYRQYIEKDAA  328 (857)
T ss_pred             ------cCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhcC--------------CCeEEEcCCCHHHHHHhhhcHH
Confidence                  135689999999975432  123333456666655433              5789999988652 22468999


Q ss_pred             hhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        543 FVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       543 llr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      +.|||..|.++.|+.++...|+..+...
T Consensus       329 l~rRf~~i~v~eP~~~~~~~iL~~l~~~  356 (857)
T PRK10865        329 LERRFQKVFVAEPSVEDTIAILRGLKER  356 (857)
T ss_pred             HHhhCCEEEeCCCCHHHHHHHHHHHhhh
Confidence            9999999999999999999999877543

>PLN03025 replication factor C subunit; Provisional

Probab=99.01  E-value=4.2e-09  Score=110.43  Aligned_cols=169  Identities=16%  Similarity=0.272  Sum_probs=105.6

Q ss_pred             eeccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhcccCCc--eEEE
Q psy17974        365 TPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLLASNTW--AALT  440 (583)
Q Consensus       365 ~~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~--~~~~  440 (583)
                      .||.+++.+..++.       +|.-.+.+.   .+..++..+  .++||+||||||||++++.+++.+.. +.+  .+..
T Consensus         1 ~~w~~kyrP~~l~~-------~~g~~~~~~---~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~-~~~~~~~~e   69 (319)
T PLN03025          1 LPWVEKYRPTKLDD-------IVGNEDAVS---RLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG-PNYKEAVLE   69 (319)
T ss_pred             CChhhhcCCCCHHH-------hcCcHHHHH---HHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhc-ccCccceee
Confidence            37888765432222       233333322   244455554  47999999999999999999988632 222  2334


Q ss_pred             EEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEee
Q psy17974        441 INFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTL  520 (583)
Q Consensus       441 i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i  520 (583)
                      +|-|.....+.+++.+......  +  .....+++-|++|||++.-..+      .-+.|+..++.   |.         
T Consensus        70 ln~sd~~~~~~vr~~i~~~~~~--~--~~~~~~~~kviiiDE~d~lt~~------aq~aL~~~lE~---~~---------  127 (319)
T PLN03025         70 LNASDDRGIDVVRNKIKMFAQK--K--VTLPPGRHKIVILDEADSMTSG------AQQALRRTMEI---YS---------  127 (319)
T ss_pred             ecccccccHHHHHHHHHHHHhc--c--ccCCCCCeEEEEEechhhcCHH------HHHHHHHHHhc---cc---------
Confidence            4444444445555554332211  1  1122355668999999986544      23556666662   11         


Q ss_pred             cCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        521 QDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       521 ~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      ..+.|+.+||.+.    .+.+.+.+++.++.++.|+.+++......+.+.
T Consensus       128 ~~t~~il~~n~~~----~i~~~L~SRc~~i~f~~l~~~~l~~~L~~i~~~  173 (319)
T PLN03025        128 NTTRFALACNTSS----KIIEPIQSRCAIVRFSRLSDQEILGRLMKVVEA  173 (319)
T ss_pred             CCceEEEEeCCcc----ccchhHHHhhhcccCCCCCHHHHHHHHHHHHHH
Confidence            2345777787654    577889999999999999999999888877653

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.00  E-value=5.5e-09  Score=109.96  Aligned_cols=137  Identities=22%  Similarity=0.175  Sum_probs=92.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .+++|+||||||||++++.+++.+.    .....++.+....+..+...+.. +            ++..|+||||++.-
T Consensus        52 ~~~ll~GppG~GKT~la~~ia~~l~----~~~~~~~~~~~~~~~~l~~~l~~-l------------~~~~vl~IDEi~~l  114 (328)
T PRK00080         52 DHVLLYGPPGLGKTTLANIIANEMG----VNIRITSGPALEKPGDLAAILTN-L------------EEGDVLFIDEIHRL  114 (328)
T ss_pred             CcEEEECCCCccHHHHHHHHHHHhC----CCeEEEecccccChHHHHHHHHh-c------------ccCCEEEEecHhhc
Confidence            5799999999999999999999872    22333333333333344333211 1            23458999999975


Q ss_pred             CcccCCCCChHHHHHHHHHhCCee---ecCC--Cee-EeecCeEEEEecCCCCCCCCCCChhhhccc-eEEEeCCCCHHH
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLY---DRDK--MFW-KTLQDVVLCTACAPPGGGRMPLTPRFVRHF-GLLSLPSPTEDT  559 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~y---d~~~--~~~-~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f-~vi~i~~p~~~s  559 (583)
                      ..+      ..|.++.+++.....   +...  ... ..+.++.+|+|+++++    .+++++.+|| .++.+++++.++
T Consensus       115 ~~~------~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~----~l~~~L~sRf~~~~~l~~~~~~e  184 (328)
T PRK00080        115 SPV------VEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAG----LLTSPLRDRFGIVQRLEFYTVEE  184 (328)
T ss_pred             chH------HHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcc----cCCHHHHHhcCeeeecCCCCHHH
Confidence            432      467888888765432   1110  111 1345688999998875    6888999998 478999999999


Q ss_pred             HHHHHHHHhcc
Q psy17974        560 LKVIFKVRTSP  570 (583)
Q Consensus       560 l~~I~~~~l~~  570 (583)
                      +..|+......
T Consensus       185 ~~~il~~~~~~  195 (328)
T PRK00080        185 LEKIVKRSARI  195 (328)
T ss_pred             HHHHHHHHHHH
Confidence            99999987664

>KOG0726|consensus

Probab=98.99  E-value=8.7e-10  Score=110.04  Aligned_cols=150  Identities=28%  Similarity=0.360  Sum_probs=102.6

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCe
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKR  475 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~  475 (583)
                      |.-+.-++..+.|+|+|+||||||.+++++++.-  .       -+|=..+.++.+|+.+... -+-.+..|. +....+
T Consensus       210 ~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqT--S-------ATFlRvvGseLiQkylGdG-pklvRqlF~vA~e~ap  279 (440)
T KOG0726|consen  210 YYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQT--S-------ATFLRVVGSELIQKYLGDG-PKLVRELFRVAEEHAP  279 (440)
T ss_pred             HHHHcCCCCCCeeEEeCCCCCchhHHHHHHhccc--c-------hhhhhhhhHHHHHHHhccc-hHHHHHHHHHHHhcCC
Confidence            3344557778999999999999999999998742  1       1122224445555543211 001112232 224557


Q ss_pred             EEEEecCCCCCCcccCCCCC---------hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhcc
Q psy17974        476 LAVFVDDVNMPKLETYGAQP---------PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRH  546 (583)
Q Consensus       476 ~vlfiDDln~p~~d~yg~q~---------~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~  546 (583)
                      .|+|||||+.-....|.+++         .+|+|.|+   .||-++        .|+.+|.|+|.-.    .++|.|.|-
T Consensus       280 SIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQl---dGFdsr--------gDvKvimATnrie----~LDPaLiRP  344 (440)
T KOG0726|consen  280 SIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQL---DGFDSR--------GDVKVIMATNRIE----TLDPALIRP  344 (440)
T ss_pred             ceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhc---cCcccc--------CCeEEEEeccccc----ccCHhhcCC
Confidence            79999999998888887654         57888887   455443        4788999988765    789998886


Q ss_pred             ce---EEEeCCCCHHHHHHHHHHHhccc
Q psy17974        547 FG---LLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       547 f~---vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      -+   -|-++.|+..+-+.||+-+-..+
T Consensus       345 GrIDrKIef~~pDe~TkkkIf~IHTs~M  372 (440)
T KOG0726|consen  345 GRIDRKIEFPLPDEKTKKKIFQIHTSRM  372 (440)
T ss_pred             CccccccccCCCchhhhceeEEEeeccc
Confidence            54   48999999999999998665443

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

Probab=98.99  E-value=7.7e-10  Score=127.30  Aligned_cols=152  Identities=15%  Similarity=0.254  Sum_probs=92.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccC------CceEEEEEeccCCChHHHHHHHHhhhhhhcCccccC-CCCCeEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASN------TWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGA-PLGKRLA  477 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~------~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p-~~gk~~v  477 (583)
                      .+.|+||+||||||||++++.+.......+      +.....++.++.....    ...+..+++-+.++.- ...++.|
T Consensus       206 ~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~----~~~Ge~e~rl~~l~~~l~~~~~~I  281 (758)
T PRK11034        206 RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGT----KYRGDFEKRFKALLKQLEQDTNSI  281 (758)
T ss_pred             CCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhccc----chhhhHHHHHHHHHHHHHhcCCCE
Confidence            467999999999999999999887542111      1112111111100000    0011112111111110 1123569


Q ss_pred             EEecCCCCCCccc---CCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-CCCCCChhhhccceEEEeC
Q psy17974        478 VFVDDVNMPKLET---YGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLTPRFVRHFGLLSLP  553 (583)
Q Consensus       478 lfiDDln~p~~d~---yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-gr~~l~~Rllr~f~vi~i~  553 (583)
                      +||||+|.-....   .|.+.+..+|+.++..|              ++++|||++++.- .....++.|.|||..|.++
T Consensus       282 LfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g--------------~i~vIgATt~~E~~~~~~~D~AL~rRFq~I~v~  347 (758)
T PRK11034        282 LFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG--------------KIRVIGSTTYQEFSNIFEKDRALARRFQKIDIT  347 (758)
T ss_pred             EEeccHHHHhccCCCCCcHHHHHHHHHHHHhCC--------------CeEEEecCChHHHHHHhhccHHHHhhCcEEEeC
Confidence            9999999643221   12334556788777643              5789999998742 2346899999999999999


Q ss_pred             CCCHHHHHHHHHHHhcccccC
Q psy17974        554 SPTEDTLKVIFKVRTSPGKQE  574 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~~~l~~  574 (583)
                      +|+.++...|...+...+-..
T Consensus       348 ePs~~~~~~IL~~~~~~ye~~  368 (758)
T PRK11034        348 EPSIEETVQIINGLKPKYEAH  368 (758)
T ss_pred             CCCHHHHHHHHHHHHHHhhhc
Confidence            999999999999876554443

>KOG2028|consensus

Probab=98.97  E-value=5.7e-09  Score=107.07  Aligned_cols=149  Identities=15%  Similarity=0.242  Sum_probs=102.5

Q ss_pred             hhhHHHHHHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC-ChHHHHHHHHhhhhhhcCccc
Q psy17974        392 TIRFGSIMEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT-SSARTQEILEGKLDKRTKTLL  468 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T-t~~~lq~~ie~~l~~~~~~~~  468 (583)
                      .+...-++..+++.+.  .++|.||||||||++++-++.+-. ...|  .+|..|+.+ +..++.+++|+.-..+     
T Consensus       146 lv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk-~~Sy--rfvelSAt~a~t~dvR~ife~aq~~~-----  217 (554)
T KOG2028|consen  146 LVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSK-KHSY--RFVELSATNAKTNDVRDIFEQAQNEK-----  217 (554)
T ss_pred             hcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcC-CCce--EEEEEeccccchHHHHHHHHHHHHHH-----
Confidence            3344566788888875  889999999999999999988652 3334  455667643 3466777776542211     


Q ss_pred             cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce
Q psy17974        469 GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG  548 (583)
Q Consensus       469 ~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~  548 (583)
                       .-.+++.|+||||+|.-.+-    |+-           -|.     -.+.-.+|.+|||++.  +-.+++...|++++.
T Consensus       218 -~l~krkTilFiDEiHRFNks----QQD-----------~fL-----P~VE~G~I~lIGATTE--NPSFqln~aLlSRC~  274 (554)
T KOG2028|consen  218 -SLTKRKTILFIDEIHRFNKS----QQD-----------TFL-----PHVENGDITLIGATTE--NPSFQLNAALLSRCR  274 (554)
T ss_pred             -hhhcceeEEEeHHhhhhhhh----hhh-----------ccc-----ceeccCceEEEecccC--CCccchhHHHHhccc
Confidence             12356789999999975432    110           010     1122236899998753  123689999999999


Q ss_pred             EEEeCCCCHHHHHHHHHHHhccc
Q psy17974        549 LLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       549 vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      |+.+.....+.+.+|...-+...
T Consensus       275 VfvLekL~~n~v~~iL~raia~l  297 (554)
T KOG2028|consen  275 VFVLEKLPVNAVVTILMRAIASL  297 (554)
T ss_pred             eeEeccCCHHHHHHHHHHHHHhh
Confidence            99999999999999998866533

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=98.97  E-value=2.6e-09  Score=118.61  Aligned_cols=147  Identities=22%  Similarity=0.307  Sum_probs=94.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEec
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVD  481 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiD  481 (583)
                      +...+.+||+||||||||+++++++...    +..++.+..+..++ ..+     +..++.-+..|. +...+++|+|+|
T Consensus       273 ~~~~~giLl~GpPGtGKT~lAkava~~~----~~~fi~v~~~~l~s-k~v-----Gesek~ir~~F~~A~~~~p~iiFiD  342 (494)
T COG0464         273 LRPPKGVLLYGPPGTGKTLLAKAVALES----RSRFISVKGSELLS-KWV-----GESEKNIRELFEKARKLAPSIIFID  342 (494)
T ss_pred             CCCCCeeEEECCCCCCHHHHHHHHHhhC----CCeEEEeeCHHHhc-ccc-----chHHHHHHHHHHHHHcCCCcEEEEE
Confidence            4455689999999999999999999854    33455554442221 111     111222222222 124568899999


Q ss_pred             CCCCCCcccCCC-CCh-HHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEeCCCC
Q psy17974        482 DVNMPKLETYGA-QPP-IELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSLPSPT  556 (583)
Q Consensus       482 Dln~p~~d~yg~-q~~-lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i~~p~  556 (583)
                      |++.-....-++ ... ...+.|++.   +.|.-    ....++.+|||+|.|.    .+++.++|  +|. +++++.|+
T Consensus       343 EiDs~~~~r~~~~~~~~~r~~~~lL~---~~d~~----e~~~~v~vi~aTN~p~----~ld~a~lR~gRfd~~i~v~~pd  411 (494)
T COG0464         343 EIDSLASGRGPSEDGSGRRVVGQLLT---ELDGI----EKAEGVLVIAATNRPD----DLDPALLRPGRFDRLIYVPLPD  411 (494)
T ss_pred             chhhhhccCCCCCchHHHHHHHHHHH---HhcCC----CccCceEEEecCCCcc----ccCHhhcccCccceEeecCCCC
Confidence            999754443211 111 233334432   11111    1235688999999987    79999999  996 89999999


Q ss_pred             HHHHHHHHHHHhcc
Q psy17974        557 EDTLKVIFKVRTSP  570 (583)
Q Consensus       557 ~~sl~~I~~~~l~~  570 (583)
                      .++...||..++..
T Consensus       412 ~~~r~~i~~~~~~~  425 (494)
T COG0464         412 LEERLEIFKIHLRD  425 (494)
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999999874

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.96  E-value=1.5e-08  Score=109.04  Aligned_cols=166  Identities=20%  Similarity=0.201  Sum_probs=105.6

Q ss_pred             hhHHHHHHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhcccC-CceEEEEEeccCCChHHHHHHHHhhhhhh---cCc
Q psy17974        393 IRFGSIMEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLLASN-TWAALTINFSAQTSSARTQEILEGKLDKR---TKT  466 (583)
Q Consensus       393 ~r~~~ll~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~~-~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~---~~~  466 (583)
                      ......+...+..+  .+++++||||||||++++.+++.+.... .+.++.+|+...+++..+...+-..+...   ..+
T Consensus        40 ~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~  119 (394)
T PRK00411         40 EELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPPPSSG  119 (394)
T ss_pred             HHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCCCCCC
Confidence            34445555556543  5699999999999999999998763322 57788899887777655544443333210   000


Q ss_pred             -----cc------cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        467 -----LL------GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       467 -----~~------~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                           .+      ....++++|++|||++... +..+.+....++|.+-+..+            .++.+|+++++..- 
T Consensus       120 ~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~-~~~~~~~l~~l~~~~~~~~~------------~~v~vI~i~~~~~~-  185 (394)
T PRK00411        120 LSFDELFDKIAEYLDERDRVLIVALDDINYLF-EKEGNDVLYSLLRAHEEYPG------------ARIGVIGISSDLTF-  185 (394)
T ss_pred             CCHHHHHHHHHHHHHhcCCEEEEEECCHhHhh-ccCCchHHHHHHHhhhccCC------------CeEEEEEEECCcch-
Confidence                 00      0123567899999999865 22233333444443332111            15778888776541 


Q ss_pred             CCCCChhhhccc--eEEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        536 RMPLTPRFVRHF--GLLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       536 r~~l~~Rllr~f--~vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      ...+++|..++|  ..+.+++++.+++..|+...++..+
T Consensus       186 ~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~  224 (394)
T PRK00411        186 LYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGF  224 (394)
T ss_pred             hhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhc
Confidence            112677777766  4789999999999999998876443

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=98.95  E-value=2.7e-09  Score=115.65  Aligned_cols=141  Identities=25%  Similarity=0.360  Sum_probs=87.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEecC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDD  482 (583)
                      ....|||+||||||||++++++++.+.    ...+.+..|.....  ......+...+..       ...+.++|+||||
T Consensus       216 ~p~gVLL~GPPGTGKT~LAraIA~el~----~~fi~V~~seL~~k~~Ge~~~~vr~lF~~-------A~~~~P~ILfIDE  284 (438)
T PTZ00361        216 PPKGVILYGPPGTGKTLLAKAVANETS----ATFLRVVGSELIQKYLGDGPKLVRELFRV-------AEENAPSIVFIDE  284 (438)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhhC----CCEEEEecchhhhhhcchHHHHHHHHHHH-------HHhCCCcEEeHHH
Confidence            456899999999999999999998762    22333332221110  0000111111111       1234578999999


Q ss_pred             CCCCCcccC-----CCCC----hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEE
Q psy17974        483 VNMPKLETY-----GAQP----PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLL  550 (583)
Q Consensus       483 ln~p~~d~y-----g~q~----~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi  550 (583)
                      ++......+     |...    .+++|.++-   |+-        .-.++.+|+|+|.+.    .++++++|  +| ..|
T Consensus       285 ID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ld---g~~--------~~~~V~VI~ATNr~d----~LDpaLlRpGRfd~~I  349 (438)
T PTZ00361        285 IDAIGTKRYDATSGGEKEIQRTMLELLNQLD---GFD--------SRGDVKVIMATNRIE----SLDPALIRPGRIDRKI  349 (438)
T ss_pred             HHHHhccCCCCCCcccHHHHHHHHHHHHHHh---hhc--------ccCCeEEEEecCChH----HhhHHhccCCeeEEEE
Confidence            986543322     1111    234443331   221        124688999998775    78999987  66 479


Q ss_pred             EeCCCCHHHHHHHHHHHhccc
Q psy17974        551 SLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       551 ~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      .++.|+.+....|+..++...
T Consensus       350 ~~~~Pd~~~R~~Il~~~~~k~  370 (438)
T PTZ00361        350 EFPNPDEKTKRRIFEIHTSKM  370 (438)
T ss_pred             EeCCCCHHHHHHHHHHHHhcC
Confidence            999999999999999887544

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.95  E-value=7.7e-09  Score=112.28  Aligned_cols=146  Identities=16%  Similarity=0.273  Sum_probs=94.9

Q ss_pred             hhhhHHHHHHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc
Q psy17974        391 DTIRFGSIMEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL  468 (583)
Q Consensus       391 dt~r~~~ll~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~  468 (583)
                      +.+.....+..++..+.  +++|+||||||||++++.+++...    .....++.+. ...+.+...++..-..      
T Consensus        19 ~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~----~~~~~l~a~~-~~~~~ir~ii~~~~~~------   87 (413)
T PRK13342         19 HLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATD----APFEALSAVT-SGVKDLREVIEEARQR------   87 (413)
T ss_pred             HHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhC----CCEEEEeccc-ccHHHHHHHHHHHHHh------
Confidence            33333444556666654  799999999999999999988752    2233343322 2234444444332111      


Q ss_pred             cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce
Q psy17974        469 GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG  548 (583)
Q Consensus       469 ~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~  548 (583)
                       ...|++.|+||||++....+      ..+.|...++.+              .+.+++|++..  ....+++.+.+++.
T Consensus        88 -~~~g~~~vL~IDEi~~l~~~------~q~~LL~~le~~--------------~iilI~att~n--~~~~l~~aL~SR~~  144 (413)
T PRK13342         88 -RSAGRRTILFIDEIHRFNKA------QQDALLPHVEDG--------------TITLIGATTEN--PSFEVNPALLSRAQ  144 (413)
T ss_pred             -hhcCCceEEEEechhhhCHH------HHHHHHHHhhcC--------------cEEEEEeCCCC--hhhhccHHHhccce
Confidence             11346779999999975443      234555666532              24566664331  12368899999999


Q ss_pred             EEEeCCCCHHHHHHHHHHHhcc
Q psy17974        549 LLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       549 vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      ++.++.++.+++..++...+..
T Consensus       145 ~~~~~~ls~e~i~~lL~~~l~~  166 (413)
T PRK13342        145 VFELKPLSEEDIEQLLKRALED  166 (413)
T ss_pred             eeEeCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999988754

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.93  E-value=3.2e-09  Score=117.83  Aligned_cols=144  Identities=22%  Similarity=0.317  Sum_probs=86.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecCCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDDVN  484 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDDln  484 (583)
                      .+++||+||||||||+++++++...    +...+.++.+      .+.......-.++-+..|. .....++|+||||++
T Consensus        88 ~~giLL~GppGtGKT~la~alA~~~----~~~~~~i~~~------~~~~~~~g~~~~~l~~~f~~a~~~~p~Il~iDEid  157 (495)
T TIGR01241        88 PKGVLLVGPPGTGKTLLAKAVAGEA----GVPFFSISGS------DFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEID  157 (495)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHc----CCCeeeccHH------HHHHHHhcccHHHHHHHHHHHHhcCCCEEEEechh
Confidence            4589999999999999999999865    2333333322      2221110000000111111 112346799999998


Q ss_pred             CCCccc-CC----CCChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEeCCC
Q psy17974        485 MPKLET-YG----AQPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSLPSP  555 (583)
Q Consensus       485 ~p~~d~-yg----~q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i~~p  555 (583)
                      .-.... .|    .+..-..+.+++.. .|+..        -.++.+|||+|.|.    .++++++|  +| ..+.++.|
T Consensus       158 ~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~--------~~~v~vI~aTn~~~----~ld~al~r~gRfd~~i~i~~P  225 (495)
T TIGR01241       158 AVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGT--------NTGVIVIAATNRPD----VLDPALLRPGRFDRQVVVDLP  225 (495)
T ss_pred             hhhhccccCcCCccHHHHHHHHHHHhhhccccC--------CCCeEEEEecCChh----hcCHHHhcCCcceEEEEcCCC
Confidence            754322 11    11112233333321 22221        13578999999986    79999998  67 47999999


Q ss_pred             CHHHHHHHHHHHhccc
Q psy17974        556 TEDTLKVIFKVRTSPG  571 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~~  571 (583)
                      +.++...|+..++...
T Consensus       226 d~~~R~~il~~~l~~~  241 (495)
T TIGR01241       226 DIKGREEILKVHAKNK  241 (495)
T ss_pred             CHHHHHHHHHHHHhcC
Confidence            9999999999988654

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.

>KOG0652|consensus

Probab=98.93  E-value=2.5e-09  Score=105.22  Aligned_cols=159  Identities=19%  Similarity=0.304  Sum_probs=103.7

Q ss_pred             ceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhc
Q psy17974        385 MMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRT  464 (583)
Q Consensus       385 i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~  464 (583)
                      ++.|...-.|.   -++-+...+.||++||||||||.++++.+..-  ..       +|=....+..+|..|... .+-.
T Consensus       187 iVLpmth~ekF---~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT--~a-------TFLKLAgPQLVQMfIGdG-AkLV  253 (424)
T KOG0652|consen  187 IVLPMTHKEKF---ENLGIRPPKGVLMYGPPGTGKTLMARACAAQT--NA-------TFLKLAGPQLVQMFIGDG-AKLV  253 (424)
T ss_pred             hccccccHHHH---HhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc--cc-------hHHHhcchHHHhhhhcch-HHHH
Confidence            44554433333   34456677899999999999999999987642  11       122223445566555321 1112


Q ss_pred             Ccccc-CCCCCeEEEEecCCCCCCcccC-----CCC----ChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC
Q psy17974        465 KTLLG-APLGKRLAVFVDDVNMPKLETY-----GAQ----PPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG  534 (583)
Q Consensus       465 ~~~~~-p~~gk~~vlfiDDln~p~~d~y-----g~q----~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~  534 (583)
                      +..|. +....+.|+||||++.-....+     |..    ..+|+|.|+-   ||-.        -.++.+|||+|.-. 
T Consensus       254 RDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLD---GFss--------~~~vKviAATNRvD-  321 (424)
T KOG0652|consen  254 RDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLD---GFSS--------DDRVKVIAATNRVD-  321 (424)
T ss_pred             HHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhc---CCCC--------ccceEEEeeccccc-
Confidence            22332 3456689999999998665444     322    2588998873   4422        35788999988754 


Q ss_pred             CCCCCChhhhccc---eEEEeCCCCHHHHHHHHHHHhccc
Q psy17974        535 GRMPLTPRFVRHF---GLLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       535 gr~~l~~Rllr~f---~vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                         -++|.++|--   +-|.+|.|+++...+|.+-+-+.+
T Consensus       322 ---iLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKM  358 (424)
T KOG0652|consen  322 ---ILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKM  358 (424)
T ss_pred             ---ccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhc
Confidence               6788888754   359999999999999888775533

>CHL00176 ftsH cell division protein; Validated

Probab=98.92  E-value=7e-09  Score=117.46  Aligned_cols=143  Identities=22%  Similarity=0.310  Sum_probs=89.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecCCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDDVN  484 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDDln  484 (583)
                      .++|||+||||||||+++++++...    ...++.++.+.      +.....+.-..+-+..|. ...+.++|+||||++
T Consensus       216 p~gVLL~GPpGTGKT~LAralA~e~----~~p~i~is~s~------f~~~~~g~~~~~vr~lF~~A~~~~P~ILfIDEID  285 (638)
T CHL00176        216 PKGVLLVGPPGTGKTLLAKAIAGEA----EVPFFSISGSE------FVEMFVGVGAARVRDLFKKAKENSPCIVFIDEID  285 (638)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHh----CCCeeeccHHH------HHHHhhhhhHHHHHHHHHHHhcCCCcEEEEecch
Confidence            4589999999999999999998865    33344444332      111110000000011111 123557899999998


Q ss_pred             CCCccc----CCC-CChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEeCCC
Q psy17974        485 MPKLET----YGA-QPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSLPSP  555 (583)
Q Consensus       485 ~p~~d~----yg~-q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i~~p  555 (583)
                      .-....    -|. +..-..|.+++.. .|+-.        -.++.+|||+|.|.    .++++++|  +| ..+.++.|
T Consensus       286 ~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~--------~~~ViVIaaTN~~~----~LD~ALlRpGRFd~~I~v~lP  353 (638)
T CHL00176        286 AVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKG--------NKGVIVIAATNRVD----ILDAALLRPGRFDRQITVSLP  353 (638)
T ss_pred             hhhhcccCCCCCCcHHHHHHHHHHHhhhccccC--------CCCeeEEEecCchH----hhhhhhhccccCceEEEECCC
Confidence            754321    111 2223445555532 22211        13688999999886    68888987  56 58999999


Q ss_pred             CHHHHHHHHHHHhcc
Q psy17974        556 TEDTLKVIFKVRTSP  570 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~  570 (583)
                      +.++...|+..+++.
T Consensus       354 d~~~R~~IL~~~l~~  368 (638)
T CHL00176        354 DREGRLDILKVHARN  368 (638)
T ss_pred             CHHHHHHHHHHHHhh
Confidence            999999999998865

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=98.92  E-value=7.7e-09  Score=117.99  Aligned_cols=140  Identities=21%  Similarity=0.352  Sum_probs=92.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC------CChHHHHHHHHhhhhhhcCccccCCCCCeEEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ------TSSARTQEILEGKLDKRTKTLLGAPLGKRLAV  478 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~------Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vl  478 (583)
                      ..++++|+||||||||++++.++...    ....+.++.+..      .+...+..+++..           ....++|+
T Consensus       184 ~~~gill~G~~G~GKt~~~~~~a~~~----~~~f~~is~~~~~~~~~g~~~~~~~~~f~~a-----------~~~~P~Ii  248 (644)
T PRK10733        184 IPKGVLMVGPPGTGKTLLAKAIAGEA----KVPFFTISGSDFVEMFVGVGASRVRDMFEQA-----------KKAAPCII  248 (644)
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHc----CCCEEEEehHHhHHhhhcccHHHHHHHHHHH-----------HhcCCcEE
Confidence            35679999999999999999998875    223444433221      1222222222111           12346899


Q ss_pred             EecCCCCCCccc-----CCCCChHHHHHHHH-HhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eE
Q psy17974        479 FVDDVNMPKLET-----YGAQPPIELLRQFL-DFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GL  549 (583)
Q Consensus       479 fiDDln~p~~d~-----yg~q~~lElLRq~l-d~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~v  549 (583)
                      ||||++.-....     .|....-..+.+++ +..|+.+        -+++.+|||+|+|.    .++++++|  || ..
T Consensus       249 fIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~--------~~~vivIaaTN~p~----~lD~Al~RpgRfdr~  316 (644)
T PRK10733        249 FIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG--------NEGIIVIAATNRPD----VLDPALLRPGRFDRQ  316 (644)
T ss_pred             EehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccC--------CCCeeEEEecCChh----hcCHHHhCCcccceE
Confidence            999998754322     11222233455543 4445543        24689999999987    78999987  77 58


Q ss_pred             EEeCCCCHHHHHHHHHHHhccc
Q psy17974        550 LSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      +.++.|+.++...|+..++...
T Consensus       317 i~v~~Pd~~~R~~Il~~~~~~~  338 (644)
T PRK10733        317 VVVGLPDVRGREQILKVHMRRV  338 (644)
T ss_pred             EEcCCCCHHHHHHHHHHHhhcC
Confidence            9999999999999999888654

>CHL00181 cbbX CbbX; Provisional

Probab=98.92  E-value=2.8e-09  Score=110.02  Aligned_cols=144  Identities=23%  Similarity=0.286  Sum_probs=86.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCc----eEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEec
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTW----AALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVD  481 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~----~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiD  481 (583)
                      +.|++|.||||||||++++.++..+.. .++    .++.++      ...+...+.+....+.++.+....  ..|+|||
T Consensus        59 ~~~ill~G~pGtGKT~lAr~la~~~~~-~g~~~~~~~~~v~------~~~l~~~~~g~~~~~~~~~l~~a~--ggVLfID  129 (287)
T CHL00181         59 GLHMSFTGSPGTGKTTVALKMADILYK-LGYIKKGHLLTVT------RDDLVGQYIGHTAPKTKEVLKKAM--GGVLFID  129 (287)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHH-cCCCCCCceEEec------HHHHHHHHhccchHHHHHHHHHcc--CCEEEEE
Confidence            567999999999999999999775421 111    123332      222222111111111112221111  2499999


Q ss_pred             CCCCCC-cc---cCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhccce-EEEeCCC
Q psy17974        482 DVNMPK-LE---TYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVRHFG-LLSLPSP  555 (583)
Q Consensus       482 Dln~p~-~d---~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr~f~-vi~i~~p  555 (583)
                      |++... ++   .+| ..+.+.|.++++.+.            .++.+|+|.++.. .--..++|.|.|||. +|.++++
T Consensus       130 E~~~l~~~~~~~~~~-~e~~~~L~~~me~~~------------~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~  196 (287)
T CHL00181        130 EAYYLYKPDNERDYG-SEAIEILLQVMENQR------------DDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDY  196 (287)
T ss_pred             ccchhccCCCccchH-HHHHHHHHHHHhcCC------------CCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCc
Confidence            998742 11   133 345677777777431            3577888755421 111234689999997 7999999


Q ss_pred             CHHHHHHHHHHHhccc
Q psy17974        556 TEDTLKVIFKVRTSPG  571 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~~  571 (583)
                      +.+++..|+..+++..
T Consensus       197 t~~el~~I~~~~l~~~  212 (287)
T CHL00181        197 TPEELLQIAKIMLEEQ  212 (287)
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            9999999999998753

>PRK04195 replication factor C large subunit; Provisional

Probab=98.92  E-value=1.9e-08  Score=111.30  Aligned_cols=170  Identities=14%  Similarity=0.227  Sum_probs=109.0

Q ss_pred             eccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHhc--CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        366 PWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLV--NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       366 ~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~--~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      +|.++..+-      .+.+++.+.....+...++..+...  .+++||+||||||||++++.+++.+    ++.++.+|.
T Consensus         3 ~W~eKyrP~------~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el----~~~~ielna   72 (482)
T PRK04195          3 PWVEKYRPK------TLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY----GWEVIELNA   72 (482)
T ss_pred             CchhhcCCC------CHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc----CCCEEEEcc
Confidence            677765432      2344555554455556666666533  5789999999999999999999987    466777887


Q ss_pred             ccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCe
Q psy17974        444 SAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDV  523 (583)
Q Consensus       444 S~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i  523 (583)
                      |...+...+...+.....  ....++   .++-||+|||++.-...  +.....+.|+.+++..              +.
T Consensus        73 sd~r~~~~i~~~i~~~~~--~~sl~~---~~~kvIiIDEaD~L~~~--~d~~~~~aL~~~l~~~--------------~~  131 (482)
T PRK04195         73 SDQRTADVIERVAGEAAT--SGSLFG---ARRKLILLDEVDGIHGN--EDRGGARAILELIKKA--------------KQ  131 (482)
T ss_pred             cccccHHHHHHHHHHhhc--cCcccC---CCCeEEEEecCcccccc--cchhHHHHHHHHHHcC--------------CC
Confidence            766655555554433221  111222   24568899999864331  1112234445555422              23


Q ss_pred             EEEEecCCCCCCCCCCCh-hhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        524 VLCTACAPPGGGRMPLTP-RFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       524 ~~iaa~~p~~~gr~~l~~-Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .+|++||.+.    .+.+ .+.+++..|.++.|+.+++..+...++..
T Consensus       132 ~iIli~n~~~----~~~~k~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~  175 (482)
T PRK04195        132 PIILTANDPY----DPSLRELRNACLMIEFKRLSTRSIVPVLKRICRK  175 (482)
T ss_pred             CEEEeccCcc----ccchhhHhccceEEEecCCCHHHHHHHHHHHHHH
Confidence            4667777764    3444 56778889999999999999998888753

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.92  E-value=5e-09  Score=111.89  Aligned_cols=144  Identities=20%  Similarity=0.301  Sum_probs=86.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecCCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDDVN  484 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDDln  484 (583)
                      .+.+||+||||||||++++++++.+.    ...+.+..     +......+.. ..+..+..+. .....++|+||||++
T Consensus       156 p~gvLL~GppGtGKT~lakaia~~l~----~~~~~v~~-----~~l~~~~~g~-~~~~i~~~f~~a~~~~p~il~iDEiD  225 (364)
T TIGR01242       156 PKGVLLYGPPGTGKTLLAKAVAHETN----ATFIRVVG-----SELVRKYIGE-GARLVREIFELAKEKAPSIIFIDEID  225 (364)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhCC----CCEEecch-----HHHHHHhhhH-HHHHHHHHHHHHHhcCCcEEEhhhhh
Confidence            45799999999999999999998762    12222221     1111111111 0011111111 112346799999998


Q ss_pred             CCCcccC-----CCCChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEeCCC
Q psy17974        485 MPKLETY-----GAQPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSLPSP  555 (583)
Q Consensus       485 ~p~~d~y-----g~q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i~~p  555 (583)
                      .-.....     |.......+.+++.. .|+ +.       ..++.+|||+|.+.    .++++++|  +| ..+.++.|
T Consensus       226 ~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~-~~-------~~~v~vI~ttn~~~----~ld~al~r~grfd~~i~v~~P  293 (364)
T TIGR01242       226 AIAAKRTDSGTSGDREVQRTLMQLLAELDGF-DP-------RGNVKVIAATNRPD----ILDPALLRPGRFDRIIEVPLP  293 (364)
T ss_pred             hhccccccCCCCccHHHHHHHHHHHHHhhCC-CC-------CCCEEEEEecCChh----hCChhhcCcccCceEEEeCCc
Confidence            7543221     111122334444432 222 11       23688999999875    68899987  56 47999999


Q ss_pred             CHHHHHHHHHHHhccc
Q psy17974        556 TEDTLKVIFKVRTSPG  571 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~~  571 (583)
                      +.++...|+..+....
T Consensus       294 ~~~~r~~Il~~~~~~~  309 (364)
T TIGR01242       294 DFEGRLEILKIHTRKM  309 (364)
T ss_pred             CHHHHHHHHHHHHhcC
Confidence            9999999999887554

Many proteins may score above the trusted cutoff because an internal

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.91  E-value=3e-09  Score=125.10  Aligned_cols=147  Identities=17%  Similarity=0.213  Sum_probs=94.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCChH----HHHHHHHhhhhhhcCccccCCCCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSSA----RTQEILEGKLDKRTKTLLGAPLGK  474 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~~----~lq~~ie~~l~~~~~~~~~p~~gk  474 (583)
                      .+.+++|+||||||||++++.++..+...      .++.+..++.++.....    .+.+.+..-+..-.      ..++
T Consensus       193 ~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~~~~~g~~e~~l~~~l~~~~------~~~~  266 (852)
T TIGR03346       193 TKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAGAKYRGEFEERLKAVLNEVT------KSEG  266 (852)
T ss_pred             CCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhcchhhhhHHHHHHHHHHHHH------hcCC
Confidence            44699999999999999999998875321      13455555554432111    11111211122111      1135


Q ss_pred             eEEEEecCCCCCCcc--cCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC-CCCCChhhhccceEEE
Q psy17974        475 RLAVFVDDVNMPKLE--TYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG-RMPLTPRFVRHFGLLS  551 (583)
Q Consensus       475 ~~vlfiDDln~p~~d--~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g-r~~l~~Rllr~f~vi~  551 (583)
                      +.|+||||+|.-...  .-|+.....+|+..+..              .++++|||++++.-- -..+++.+.|+|.+|.
T Consensus       267 ~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~--------------g~i~~IgaTt~~e~r~~~~~d~al~rRf~~i~  332 (852)
T TIGR03346       267 QIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR--------------GELHCIGATTLDEYRKYIEKDAALERRFQPVF  332 (852)
T ss_pred             CeEEEeccHHHhhcCCCCcchhHHHHHhchhhhc--------------CceEEEEeCcHHHHHHHhhcCHHHHhcCCEEE
Confidence            789999999975321  12333345666655442              258899999886422 2468999999999999


Q ss_pred             eCCCCHHHHHHHHHHHhccc
Q psy17974        552 LPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       552 i~~p~~~sl~~I~~~~l~~~  571 (583)
                      ++.|+.++...|+..+...+
T Consensus       333 v~~p~~~~~~~iL~~~~~~~  352 (852)
T TIGR03346       333 VDEPTVEDTISILRGLKERY  352 (852)
T ss_pred             eCCCCHHHHHHHHHHHHHHh
Confidence            99999999999998775443

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.

>CHL00206 ycf2 Ycf2; Provisional

Probab=98.91  E-value=3.3e-09  Score=127.53  Aligned_cols=153  Identities=9%  Similarity=0.143  Sum_probs=92.6

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh---------------HH------H-----
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS---------------AR------T-----  452 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~---------------~~------l-----  452 (583)
                      +..-+...+.|||+||||||||.+|++++.+.    ....+.+..|.-...               +.      +     
T Consensus      1623 lrLGl~pPKGILLiGPPGTGKTlLAKALA~es----~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~ 1698 (2281)
T CHL00206       1623 LRLALSPSRGILVIGSIGTGRSYLVKYLATNS----YVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLD 1698 (2281)
T ss_pred             HHcCCCCCCceEEECCCCCCHHHHHHHHHHhc----CCceEEEEHHHHhhcccccccccccccccccccccccccccccc
Confidence            34445667899999999999999999999864    345555544432210               00      0     


Q ss_pred             ---HHH-------HHhhhhh-hcCcccc-CCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEee
Q psy17974        453 ---QEI-------LEGKLDK-RTKTLLG-APLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTL  520 (583)
Q Consensus       453 ---q~~-------ie~~l~~-~~~~~~~-p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i  520 (583)
                         .++       +...... +-+..|. +....+|||||||||.-..+.-..+.+..+|.. +|  |.-+.     ..-
T Consensus      1699 ~e~~e~~n~~~~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~ds~~ltL~qLLne-LD--g~~~~-----~s~ 1770 (2281)
T CHL00206       1699 TELLTMMNALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVNESNYLSLGLLVNS-LS--RDCER-----CST 1770 (2281)
T ss_pred             hhhhhhcchhhhhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCCccceehHHHHHHH-hc--ccccc-----CCC
Confidence               000       0000000 0111232 234568999999999876552111222333332 22  21111     112


Q ss_pred             cCeEEEEecCCCCCCCCCCChhhhc--cce-EEEeCCCCHHHHHHHHHHH
Q psy17974        521 QDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       521 ~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i~~p~~~sl~~I~~~~  567 (583)
                      +++.+|||+|.|.    .|+|+++|  ||. .|.++.|+...-..|+..+
T Consensus      1771 ~~VIVIAATNRPD----~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~IL 1816 (2281)
T CHL00206       1771 RNILVIASTHIPQ----KVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTL 1816 (2281)
T ss_pred             CCEEEEEeCCCcc----cCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHH
Confidence            4789999999997    89999999  885 7999999988777777654

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.91  E-value=4e-09  Score=107.47  Aligned_cols=145  Identities=19%  Similarity=0.217  Sum_probs=83.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhccc---CCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLAS---NTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~---~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDD  482 (583)
                      ..|++|+||||||||++++.+++.+...   ....++.++.+.      +.....+....+.+..+....  ..|+||||
T Consensus        42 ~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~------l~~~~~g~~~~~~~~~~~~a~--~~VL~IDE  113 (261)
T TIGR02881        42 VLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERAD------LVGEYIGHTAQKTREVIKKAL--GGVLFIDE  113 (261)
T ss_pred             cceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHH------hhhhhccchHHHHHHHHHhcc--CCEEEEec
Confidence            3589999999999999999998764211   111222222222      111000000111111111111  24899999


Q ss_pred             CCCCCccc---CCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhccc-eEEEeCCCCH
Q psy17974        483 VNMPKLET---YGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVRHF-GLLSLPSPTE  557 (583)
Q Consensus       483 ln~p~~d~---yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr~f-~vi~i~~p~~  557 (583)
                      ++....+.   +| ...++.|.+.++.+.            .++.+++|..+.. ..-..++|++.++| ..+.++.++.
T Consensus       114 ~~~L~~~~~~~~~-~~~i~~Ll~~~e~~~------------~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~  180 (261)
T TIGR02881       114 AYSLARGGEKDFG-KEAIDTLVKGMEDNR------------NEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTV  180 (261)
T ss_pred             hhhhccCCccchH-HHHHHHHHHHHhccC------------CCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCH
Confidence            99754321   12 123454555555321            3466776655433 12235789999999 4699999999


Q ss_pred             HHHHHHHHHHhccc
Q psy17974        558 DTLKVIFKVRTSPG  571 (583)
Q Consensus       558 ~sl~~I~~~~l~~~  571 (583)
                      +++..|+..++...
T Consensus       181 ~el~~Il~~~~~~~  194 (261)
T TIGR02881       181 EELMEIAERMVKER  194 (261)
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999999988753

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.91  E-value=1.2e-08  Score=106.17  Aligned_cols=137  Identities=23%  Similarity=0.229  Sum_probs=90.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .+++|+||||||||++++.+++.+. .   ....+.-+.......+...+..             .+...++||||++..
T Consensus        31 ~~~ll~Gp~G~GKT~la~~ia~~~~-~---~~~~~~~~~~~~~~~l~~~l~~-------------~~~~~vl~iDEi~~l   93 (305)
T TIGR00635        31 DHLLLYGPPGLGKTTLAHIIANEMG-V---NLKITSGPALEKPGDLAAILTN-------------LEEGDVLFIDEIHRL   93 (305)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC-C---CEEEeccchhcCchhHHHHHHh-------------cccCCEEEEehHhhh
Confidence            4699999999999999999998762 1   2222222222233333332211             122358999999975


Q ss_pred             CcccCCCCChHHHHHHHHHhCCee---ec--CCCeeE-eecCeEEEEecCCCCCCCCCCChhhhccce-EEEeCCCCHHH
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLY---DR--DKMFWK-TLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLPSPTEDT  559 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~y---d~--~~~~~~-~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~~p~~~s  559 (583)
                      ..+      ..|.|+.+++..+..   +.  ....+. ...++.+++|++.+.    .+++++.+||. ++.++.++.++
T Consensus        94 ~~~------~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~----~l~~~l~sR~~~~~~l~~l~~~e  163 (305)
T TIGR00635        94 SPA------VEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAG----MLTSPLRDRFGIILRLEFYTVEE  163 (305)
T ss_pred             CHH------HHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCcc----ccCHHHHhhcceEEEeCCCCHHH
Confidence            543      467888888765421   10  011222 234578888888764    68888988884 67999999999


Q ss_pred             HHHHHHHHhcc
Q psy17974        560 LKVIFKVRTSP  570 (583)
Q Consensus       560 l~~I~~~~l~~  570 (583)
                      +..|+......
T Consensus       164 ~~~il~~~~~~  174 (305)
T TIGR00635       164 LAEIVSRSAGL  174 (305)
T ss_pred             HHHHHHHHHHH
Confidence            99999887653

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.

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.91  E-value=9.4e-09  Score=103.11  Aligned_cols=154  Identities=12%  Similarity=0.158  Sum_probs=92.4

Q ss_pred             cceeeCchhhhHHHHHHHHHh--cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhh
Q psy17974        384 DMMVPTIDTIRFGSIMEKLLL--VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLD  461 (583)
Q Consensus       384 ~i~VpT~dt~r~~~ll~~~l~--~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~  461 (583)
                      +-+++..... ....+..+..  .+.+++|+||+|||||++++++.+... ..+..+.+++++...+.  ..+.+ ..++
T Consensus        22 d~f~~~~n~~-a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~-~~~~~v~y~~~~~~~~~--~~~~~-~~~~   96 (235)
T PRK08084         22 ASFYPGDNDS-LLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS-QRGRAVGYVPLDKRAWF--VPEVL-EGME   96 (235)
T ss_pred             cccccCccHH-HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEEHHHHhhh--hHHHH-HHhh
Confidence            3455553333 3344444443  346899999999999999999887653 23456667776552211  11111 1111


Q ss_pred             hhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecC-CCCCCCCCCC
Q psy17974        462 KRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACA-PPGGGRMPLT  540 (583)
Q Consensus       462 ~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~-p~~~gr~~l~  540 (583)
                      .            .-+++|||++....++-..+....+++...+.|              ..++|.|++ ||. .-..+.
T Consensus        97 ~------------~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g--------------~~~li~ts~~~p~-~l~~~~  149 (235)
T PRK08084         97 Q------------LSLVCIDNIECIAGDELWEMAIFDLYNRILESG--------------RTRLLITGDRPPR-QLNLGL  149 (235)
T ss_pred             h------------CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcC--------------CCeEEEeCCCChH-HcCccc
Confidence            0            127899999976543211122345555555533              223455444 443 222467


Q ss_pred             hhhhccc---eEEEeCCCCHHHHHHHHHHHhc
Q psy17974        541 PRFVRHF---GLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       541 ~Rllr~f---~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      +++.+|+   .++.+.+|+.+++..|......
T Consensus       150 ~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~  181 (235)
T PRK08084        150 PDLASRLDWGQIYKLQPLSDEEKLQALQLRAR  181 (235)
T ss_pred             HHHHHHHhCCceeeecCCCHHHHHHHHHHHHH
Confidence            9999999   7999999999999999877443

>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=98.90  E-value=2e-08  Score=90.69  Aligned_cols=129  Identities=20%  Similarity=0.166  Sum_probs=76.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHh---hhhhhcCccccCCCCCeEEEEec
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEG---KLDKRTKTLLGAPLGKRLAVFVD  481 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~---~l~~~~~~~~~p~~gk~~vlfiD  481 (583)
                      .+.+++++||||||||++++.+++.+. .....++.++++...........++.   ....     ......++.++++|
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~-~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~lilD   91 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELF-RPGAPFLYLNASDLLEGLVVAELFGHFLVRLLF-----ELAEKAKPGVLFID   91 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhh-cCCCCeEEEehhhhhhhhHHHHHhhhhhHhHHH-----HhhccCCCeEEEEe
Confidence            378999999999999999999998763 23456666766654443333322221   1100     01123446789999


Q ss_pred             CCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc-eEEEeC
Q psy17974        482 DVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF-GLLSLP  553 (583)
Q Consensus       482 Dln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f-~vi~i~  553 (583)
                      |++....+      ..+-+.++++....+.      ....++.+|++++++..  ..+.+++.++| ..+.++
T Consensus        92 e~~~~~~~------~~~~~~~~i~~~~~~~------~~~~~~~ii~~~~~~~~--~~~~~~~~~r~~~~i~~~  150 (151)
T cd00009          92 EIDSLSRG------AQNALLRVLETLNDLR------IDRENVRVIGATNRPLL--GDLDRALYDRLDIRIVIP  150 (151)
T ss_pred             ChhhhhHH------HHHHHHHHHHhcCcee------ccCCCeEEEEecCcccc--CCcChhHHhhhccEeecC
Confidence            99976332      2233344444322211      12357888999887653  34666777777 455554

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.89  E-value=1.6e-08  Score=105.65  Aligned_cols=140  Identities=14%  Similarity=0.173  Sum_probs=91.2

Q ss_pred             HHHHHhcCC--ce-EEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCe
Q psy17974        399 MEKLLLVNH--PV-MFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKR  475 (583)
Q Consensus       399 l~~~l~~~~--~v-LL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~  475 (583)
                      +..+++.++  ++ |++||||+|||++++.+.+.+.    ..+..++++. ...+.+++.+.......      |..+.+
T Consensus        33 l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~----~~~~~i~~~~-~~~~~i~~~l~~~~~~~------~~~~~~  101 (316)
T PHA02544         33 FKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVG----AEVLFVNGSD-CRIDFVRNRLTRFASTV------SLTGGG  101 (316)
T ss_pred             HHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhC----ccceEeccCc-ccHHHHHHHHHHHHHhh------cccCCC
Confidence            344444553  34 4489999999999999988752    2455677766 33333333332222111      111334


Q ss_pred             EEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCC
Q psy17974        476 LAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSP  555 (583)
Q Consensus       476 ~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p  555 (583)
                      -|++|||++.-..     ....+.|+.+++..            -.++.+|.+++.+.    .+.+++.++|.++.++.|
T Consensus       102 ~vliiDe~d~l~~-----~~~~~~L~~~le~~------------~~~~~~Ilt~n~~~----~l~~~l~sR~~~i~~~~p  160 (316)
T PHA02544        102 KVIIIDEFDRLGL-----ADAQRHLRSFMEAY------------SKNCSFIITANNKN----GIIEPLRSRCRVIDFGVP  160 (316)
T ss_pred             eEEEEECcccccC-----HHHHHHHHHHHHhc------------CCCceEEEEcCChh----hchHHHHhhceEEEeCCC
Confidence            5889999976422     12457788887742            13567888888654    688999999999999999


Q ss_pred             CHHHHHHHHHHHhcc
Q psy17974        556 TEDTLKVIFKVRTSP  570 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~  570 (583)
                      +.+....|...++.+
T Consensus       161 ~~~~~~~il~~~~~~  175 (316)
T PHA02544        161 TKEEQIEMMKQMIVR  175 (316)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999888777665443

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.88  E-value=3.5e-09  Score=109.16  Aligned_cols=145  Identities=23%  Similarity=0.255  Sum_probs=86.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccC---CceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASN---TWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~---~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDD  482 (583)
                      +.|++|.||||||||++++.++..+....   .-.++.++.+      .+...+.+.-..+.++.+...  ...|+||||
T Consensus        58 ~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~------~l~~~~~g~~~~~~~~~~~~a--~~gvL~iDE  129 (284)
T TIGR02880        58 TLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRD------DLVGQYIGHTAPKTKEILKRA--MGGVLFIDE  129 (284)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHH------HHhHhhcccchHHHHHHHHHc--cCcEEEEec
Confidence            56899999999999999988776552111   1123333321      111111111011111111111  225999999


Q ss_pred             CCCCCcc----cCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhccce-EEEeCCCC
Q psy17974        483 VNMPKLE----TYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVRHFG-LLSLPSPT  556 (583)
Q Consensus       483 ln~p~~d----~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr~f~-vi~i~~p~  556 (583)
                      ++.-...    .++ +...+.|-++++.+.            .++.+|+|.+++. ..-..++|.|.++|. .|.+|.++
T Consensus       130 i~~L~~~~~~~~~~-~~~~~~Ll~~le~~~------------~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~  196 (284)
T TIGR02880       130 AYYLYRPDNERDYG-QEAIEILLQVMENQR------------DDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYS  196 (284)
T ss_pred             hhhhccCCCccchH-HHHHHHHHHHHhcCC------------CCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcC
Confidence            9854211    122 234556666776431            4678888876542 112246899999995 79999999


Q ss_pred             HHHHHHHHHHHhccc
Q psy17974        557 EDTLKVIFKVRTSPG  571 (583)
Q Consensus       557 ~~sl~~I~~~~l~~~  571 (583)
                      .+++..|+..+++..
T Consensus       197 ~edl~~I~~~~l~~~  211 (284)
T TIGR02880       197 EAELLVIAGLMLKEQ  211 (284)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999998764

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.

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.84  E-value=1.6e-08  Score=111.33  Aligned_cols=153  Identities=20%  Similarity=0.252  Sum_probs=94.8

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh--------------hc
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK--------------RT  464 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~--------------~~  464 (583)
                      +...+..|++++|+||+|||||++++.+..-+.....-  ..+..+.-.+...... ....+.+              --
T Consensus       203 l~laa~~G~~llliG~~GsGKTtLak~L~gllpp~~g~--e~le~~~i~s~~g~~~-~~~~~~~rPfr~ph~~~s~~~l~  279 (506)
T PRK09862        203 LEITAAGGHNLLLIGPPGTGKTMLASRINGLLPDLSNE--EALESAAILSLVNAES-VQKQWRQRPFRSPHHSASLTAMV  279 (506)
T ss_pred             hheeccCCcEEEEECCCCCcHHHHHHHHhccCCCCCCc--EEEecchhhhhhcccc-ccCCcCCCCccCCCccchHHHHh
Confidence            45567789999999999999999999876644211110  0111111100000000 0000000              00


Q ss_pred             CccccCC-----CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCee-ecCCCeeEeecCeEEEEecCCCCCCC--
Q psy17974        465 KTLLGAP-----LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY-DRDKMFWKTLQDVVLCTACAPPGGGR--  536 (583)
Q Consensus       465 ~~~~~p~-----~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~y-d~~~~~~~~i~~i~~iaa~~p~~~gr--  536 (583)
                      ||-..+.     .....++|+||++....      ..++.|||.+|.|.++ .+.........++++||||||...|.  
T Consensus       280 GGg~~~~pG~l~~A~gGvLfLDEi~e~~~------~~~~~L~~~LE~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~  353 (506)
T PRK09862        280 GGGAIPGPGEISLAHNGVLFLDELPEFER------RTLDALREPIESGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQ  353 (506)
T ss_pred             CCCceehhhHhhhccCCEEecCCchhCCH------HHHHHHHHHHHcCcEEEecCCcceeccCCEEEEEeecCccceecC
Confidence            1111111     22356999999986544      3789999999999987 45555666678999999999964332  


Q ss_pred             ---------------CCCChhhhccceE-EEeCCCCHHHH
Q psy17974        537 ---------------MPLTPRFVRHFGL-LSLPSPTEDTL  560 (583)
Q Consensus       537 ---------------~~l~~Rllr~f~v-i~i~~p~~~sl  560 (583)
                                     ..++..++.||.+ +.+++|+.+.+
T Consensus       354 ~~~c~c~~~~~~~Y~~~ls~plLDRfdL~v~v~~~~~~~l  393 (506)
T PRK09862        354 GNHNRCTPEQTLRYLNRLSGPFLDRFDLSLEIPLPPPGIL  393 (506)
T ss_pred             CCCCCcCHHHHHHHHhhCCHhHHhhccEEEEeCCCCHHHH
Confidence                           2488899999985 89999876643

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.84  E-value=1.8e-08  Score=115.68  Aligned_cols=179  Identities=18%  Similarity=0.225  Sum_probs=104.5

Q ss_pred             cceEEEECCCCceeeccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHhcC--CceEEEccCCCcHHHHHHHHHHh
Q psy17974        352 LRSYFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVN--HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       352 vfdy~~d~~~~~w~~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +|++..+.....-.||.+++.+..+      .+ +|--...+.-...+..+++.+  .+++|+||||||||++++.+.+.
T Consensus         3 lf~~~~~~~~~~~~PLaek~RP~tl------dd-~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~   75 (725)
T PRK13341          3 LFAFHGEQMSQSEAPLADRLRPRTL------EE-FVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANH   75 (725)
T ss_pred             chhhcccccccccCChHHhcCCCcH------HH-hcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            3444333333333478776643222      22 222222232233445555555  38999999999999999999886


Q ss_pred             hcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCe
Q psy17974        430 LLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGL  509 (583)
Q Consensus       430 l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~  509 (583)
                      ..    .....++.+. .....+...++.-.+.      .+..+++.++||||+|.-..+.      .+.|+..++.|  
T Consensus        76 ~~----~~f~~lna~~-~~i~dir~~i~~a~~~------l~~~~~~~IL~IDEIh~Ln~~q------QdaLL~~lE~g--  136 (725)
T PRK13341         76 TR----AHFSSLNAVL-AGVKDLRAEVDRAKER------LERHGKRTILFIDEVHRFNKAQ------QDALLPWVENG--  136 (725)
T ss_pred             hc----Ccceeehhhh-hhhHHHHHHHHHHHHH------hhhcCCceEEEEeChhhCCHHH------HHHHHHHhcCc--
Confidence            52    1233344332 1122333333221110      0112356789999998754431      34555566533  


Q ss_pred             eecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        510 YDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       510 yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                                  .+.+|+++++..  ...+.+++.+|+.++.+++++.+++..|...++..
T Consensus       137 ------------~IiLI~aTTenp--~~~l~~aL~SR~~v~~l~pLs~edi~~IL~~~l~~  183 (725)
T PRK13341        137 ------------TITLIGATTENP--YFEVNKALVSRSRLFRLKSLSDEDLHQLLKRALQD  183 (725)
T ss_pred             ------------eEEEEEecCCCh--HhhhhhHhhccccceecCCCCHHHHHHHHHHHHHH
Confidence                        256777665421  13578999999999999999999999999998863

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.83  E-value=5.5e-09  Score=122.52  Aligned_cols=145  Identities=17%  Similarity=0.230  Sum_probs=94.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCC----hHHHHHHHHhhhhhhcCccccCCCCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTS----SARTQEILEGKLDKRTKTLLGAPLGK  474 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt----~~~lq~~ie~~l~~~~~~~~~p~~gk  474 (583)
                      ...+++|+||||||||++++.++..+...      .+..+..++.+....    ...+.+-+..-++.-       ...+
T Consensus       199 ~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~~~ge~e~rl~~i~~~~-------~~~~  271 (821)
T CHL00095        199 TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEFEERLKRIFDEI-------QENN  271 (821)
T ss_pred             ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCCccHHHHHHHHHHHHH-------HhcC
Confidence            45699999999999999999998765211      134555565543211    111222222222211       1124


Q ss_pred             eEEEEecCCCCCCcc--cCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC-CCCCChhhhccceEEE
Q psy17974        475 RLAVFVDDVNMPKLE--TYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG-RMPLTPRFVRHFGLLS  551 (583)
Q Consensus       475 ~~vlfiDDln~p~~d--~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g-r~~l~~Rllr~f~vi~  551 (583)
                      ++|+||||+|.--..  ..|...+..+|+..+..|              ++++|||++++.-- ....++.|.|+|.+|.
T Consensus       272 ~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg--------------~l~~IgaTt~~ey~~~ie~D~aL~rRf~~I~  337 (821)
T CHL00095        272 NIILVIDEVHTLIGAGAAEGAIDAANILKPALARG--------------ELQCIGATTLDEYRKHIEKDPALERRFQPVY  337 (821)
T ss_pred             CeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCC--------------CcEEEEeCCHHHHHHHHhcCHHHHhcceEEe
Confidence            679999999964322  124445667777766643              57899999886421 2357899999999999


Q ss_pred             eCCCCHHHHHHHHHHHhcc
Q psy17974        552 LPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       552 i~~p~~~sl~~I~~~~l~~  570 (583)
                      ++.|+.++...|+..+...
T Consensus       338 v~ep~~~e~~aILr~l~~~  356 (821)
T CHL00095        338 VGEPSVEETIEILFGLRSR  356 (821)
T ss_pred             cCCCCHHHHHHHHHHHHHH
Confidence            9999999999998876543

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.83  E-value=9.3e-09  Score=119.41  Aligned_cols=146  Identities=23%  Similarity=0.359  Sum_probs=89.7

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecC
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDD  482 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDD  482 (583)
                      ...+.+||+||||||||+++++++..+    +...+.+..+...+     +.+ +.-++.-+.+|. +....++|+||||
T Consensus       485 ~~~~giLL~GppGtGKT~lakalA~e~----~~~fi~v~~~~l~~-----~~v-Gese~~i~~~f~~A~~~~p~iifiDE  554 (733)
T TIGR01243       485 RPPKGVLLFGPPGTGKTLLAKAVATES----GANFIAVRGPEILS-----KWV-GESEKAIREIFRKARQAAPAIIFFDE  554 (733)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHhc----CCCEEEEehHHHhh-----ccc-CcHHHHHHHHHHHHHhcCCEEEEEEC
Confidence            345679999999999999999999876    23344443322111     000 001111111221 2234578999999


Q ss_pred             CCCCCcccC--CCCCh-HHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEeCCC
Q psy17974        483 VNMPKLETY--GAQPP-IELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSLPSP  555 (583)
Q Consensus       483 ln~p~~d~y--g~q~~-lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i~~p  555 (583)
                      ++.-....-  +.... -.++.|++.. .|.-        ...++.+|||+|.|.    .+++.++|  +|. +++++.|
T Consensus       555 id~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~--------~~~~v~vI~aTn~~~----~ld~allRpgRfd~~i~v~~P  622 (733)
T TIGR01243       555 IDAIAPARGARFDTSVTDRIVNQLLTEMDGIQ--------ELSNVVVIAATNRPD----ILDPALLRPGRFDRLILVPPP  622 (733)
T ss_pred             hhhhhccCCCCCCccHHHHHHHHHHHHhhccc--------CCCCEEEEEeCCChh----hCCHhhcCCCccceEEEeCCc
Confidence            986433221  11111 2234444321 1221        124789999999986    79999998  885 8999999


Q ss_pred             CHHHHHHHHHHHhccc
Q psy17974        556 TEDTLKVIFKVRTSPG  571 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~~  571 (583)
                      +.++...|+..+.+..
T Consensus       623 d~~~R~~i~~~~~~~~  638 (733)
T TIGR01243       623 DEEARKEIFKIHTRSM  638 (733)
T ss_pred             CHHHHHHHHHHHhcCC
Confidence            9999999998776543

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.

>KOG0739|consensus

Probab=98.83  E-value=6.6e-09  Score=104.16  Aligned_cols=139  Identities=22%  Similarity=0.300  Sum_probs=91.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDDVNM  485 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDDln~  485 (583)
                      +.+||+||||||||.++++++.+-    +  ..++  |-  +++++..--.+.-++-.++.|. ++..|+.|||||||+.
T Consensus       167 rgiLLyGPPGTGKSYLAKAVATEA----n--STFF--Sv--SSSDLvSKWmGESEkLVknLFemARe~kPSIIFiDEiDs  236 (439)
T KOG0739|consen  167 RGILLYGPPGTGKSYLAKAVATEA----N--STFF--SV--SSSDLVSKWMGESEKLVKNLFEMARENKPSIIFIDEIDS  236 (439)
T ss_pred             eeEEEeCCCCCcHHHHHHHHHhhc----C--CceE--Ee--ehHHHHHHHhccHHHHHHHHHHHHHhcCCcEEEeehhhh
Confidence            378999999999999999998864    1  1122  22  2233332222233444445553 4578899999999996


Q ss_pred             CCcccC-CCCC-----hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeCCCCHH
Q psy17974        486 PKLETY-GAQP-----PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLPSPTED  558 (583)
Q Consensus       486 p~~d~y-g~q~-----~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~~p~~~  558 (583)
                      .-.... |...     --|||=|+-   |.=.       .-..+.++||+|-|-    .++..+.|||- -|+||.|+..
T Consensus       237 lcg~r~enEseasRRIKTEfLVQMq---GVG~-------d~~gvLVLgATNiPw----~LDsAIRRRFekRIYIPLPe~~  302 (439)
T KOG0739|consen  237 LCGSRSENESEASRRIKTEFLVQMQ---GVGN-------DNDGVLVLGATNIPW----VLDSAIRRRFEKRIYIPLPEAH  302 (439)
T ss_pred             hccCCCCCchHHHHHHHHHHHHhhh---cccc-------CCCceEEEecCCCch----hHHHHHHHHhhcceeccCCcHH
Confidence            432211 1111     135665553   3221       124688999999987    79999999996 7999999999


Q ss_pred             HHHHHHHHHhc
Q psy17974        559 TLKVIFKVRTS  569 (583)
Q Consensus       559 sl~~I~~~~l~  569 (583)
                      ...++|.-.+.
T Consensus       303 AR~~MF~lhlG  313 (439)
T KOG0739|consen  303 ARARMFKLHLG  313 (439)
T ss_pred             HhhhhheeccC
Confidence            99998877664

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=98.82  E-value=2.2e-08  Score=116.12  Aligned_cols=154  Identities=18%  Similarity=0.168  Sum_probs=100.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcc---ccCCCCCeEEEEec
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTL---LGAPLGKRLAVFVD  481 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~---~~p~~gk~~vlfiD  481 (583)
                      .+..++|+||||+|||++++.++..+.    .....++++...+...+...-........+..   +...+...-|+++|
T Consensus       348 ~g~~i~l~GppG~GKTtl~~~ia~~l~----~~~~~i~~~~~~d~~~i~g~~~~~~g~~~G~~~~~l~~~~~~~~villD  423 (784)
T PRK10787        348 KGPILCLVGPPGVGKTSLGQSIAKATG----RKYVRMALGGVRDEAEIRGHRRTYIGSMPGKLIQKMAKVGVKNPLFLLD  423 (784)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhC----CCEEEEEcCCCCCHHHhccchhccCCCCCcHHHHHHHhcCCCCCEEEEE
Confidence            356799999999999999999998762    34566777665554333221100000000000   00111123478999


Q ss_pred             CCCCCCcccCCCCChHHHHHHHHHhC---CeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHH
Q psy17974        482 DVNMPKLETYGAQPPIELLRQFLDFG---GLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTED  558 (583)
Q Consensus       482 Dln~p~~d~yg~q~~lElLRq~ld~~---g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~  558 (583)
                      |++-...+.-|  .|...|-+++|-+   .|-|.--..-..+.++.||||+|.-     .|+++|+.|+.+|.+..++.+
T Consensus       424 Eidk~~~~~~g--~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~-----~i~~aLl~R~~ii~~~~~t~e  496 (784)
T PRK10787        424 EIDKMSSDMRG--DPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSM-----NIPAPLLDRMEVIRLSGYTED  496 (784)
T ss_pred             ChhhcccccCC--CHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCC-----CCCHHHhcceeeeecCCCCHH
Confidence            99987766433  3567777777753   2322211111245789999988653     499999999999999999999


Q ss_pred             HHHHHHHHHhc
Q psy17974        559 TLKVIFKVRTS  569 (583)
Q Consensus       559 sl~~I~~~~l~  569 (583)
                      ++..|...++.
T Consensus       497 ek~~Ia~~~L~  507 (784)
T PRK10787        497 EKLNIAKRHLL  507 (784)
T ss_pred             HHHHHHHHhhh
Confidence            99999999885

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.79  E-value=6.5e-08  Score=106.25  Aligned_cols=142  Identities=18%  Similarity=0.251  Sum_probs=91.8

Q ss_pred             HHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..++..++   .+||+||||||||++++.+++.+....                    ...+..++-+.....+.+.++
T Consensus        26 L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~aa~~~gid~iR~i  105 (472)
T PRK14962         26 IINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELDAASNRGIDEIRKI  105 (472)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEeCcccCCHHHHHHH
Confidence            444555553   379999999999999999988763110                    112333433323334444433


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      . ....      +.|..+++-|++|||+|+-..+      ....|...++..            ...+.+|+|++.|.  
T Consensus       106 ~-~~~~------~~p~~~~~kVvIIDE~h~Lt~~------a~~~LLk~LE~p------------~~~vv~Ilattn~~--  158 (472)
T PRK14962        106 R-DAVG------YRPMEGKYKVYIIDEVHMLTKE------AFNALLKTLEEP------------PSHVVFVLATTNLE--  158 (472)
T ss_pred             H-HHHh------hChhcCCeEEEEEEChHHhHHH------HHHHHHHHHHhC------------CCcEEEEEEeCChH--
Confidence            2 2221      2344566779999999986543      234445555521            12456666666443  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                        .+++++.+|+.++.+..++.+++..+...+..
T Consensus       159 --kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~  190 (472)
T PRK14962        159 --KVPPTIISRCQVIEFRNISDELIIKRLQEVAE  190 (472)
T ss_pred             --hhhHHHhcCcEEEEECCccHHHHHHHHHHHHH
Confidence              68999999999999999999999998888775

>KOG0735|consensus

Probab=98.79  E-value=3.2e-08  Score=109.00  Aligned_cols=150  Identities=19%  Similarity=0.278  Sum_probs=99.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEec
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVD  481 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiD  481 (583)
                      +....++||+||||||||.++.+++.+.    ++.++     +.-.|+.+-+.|.. -++..+..|. +...++||+|+|
T Consensus       698 lr~~~giLLyGppGcGKT~la~a~a~~~----~~~fi-----svKGPElL~KyIGa-SEq~vR~lF~rA~~a~PCiLFFD  767 (952)
T KOG0735|consen  698 LRLRTGILLYGPPGCGKTLLASAIASNS----NLRFI-----SVKGPELLSKYIGA-SEQNVRDLFERAQSAKPCILFFD  767 (952)
T ss_pred             cccccceEEECCCCCcHHHHHHHHHhhC----CeeEE-----EecCHHHHHHHhcc-cHHHHHHHHHHhhccCCeEEEec
Confidence            4456799999999999999999998864    22332     22456665555432 2223334443 457889999999


Q ss_pred             CCCCCCcccCC--CCChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhcc--c-eEEEeCCC
Q psy17974        482 DVNMPKLETYG--AQPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRH--F-GLLSLPSP  555 (583)
Q Consensus       482 Dln~p~~d~yg--~q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~--f-~vi~i~~p  555 (583)
                      |++.-.+.+..  |.-.=-...|++.. .|-        -.+.++.++||+..|.    -|+|+|+|-  + ..+++|.|
T Consensus       768 EfdSiAPkRGhDsTGVTDRVVNQlLTelDG~--------Egl~GV~i~aaTsRpd----liDpALLRpGRlD~~v~C~~P  835 (952)
T KOG0735|consen  768 EFDSIAPKRGHDSTGVTDRVVNQLLTELDGA--------EGLDGVYILAATSRPD----LIDPALLRPGRLDKLVYCPLP  835 (952)
T ss_pred             cccccCcccCCCCCCchHHHHHHHHHhhccc--------cccceEEEEEecCCcc----ccCHhhcCCCccceeeeCCCC
Confidence            99986654311  11122334444431 111        1256788999988876    789999984  3 36999999


Q ss_pred             CHHHHHHHHHHHhcccccC
Q psy17974        556 TEDTLKVIFKVRTSPGKQE  574 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~~l~~  574 (583)
                      ++.+...|++.+-+.....
T Consensus       836 ~~~eRl~il~~ls~s~~~~  854 (952)
T KOG0735|consen  836 DEPERLEILQVLSNSLLKD  854 (952)
T ss_pred             CcHHHHHHHHHHhhccCCc
Confidence            9999999999987755543

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.79  E-value=1.2e-07  Score=100.96  Aligned_cols=165  Identities=18%  Similarity=0.219  Sum_probs=102.1

Q ss_pred             hhHHHHHHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhccc-C----CceEEEEEeccCCChHHHHHHHHhhhhh---
Q psy17974        393 IRFGSIMEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLLAS-N----TWAALTINFSAQTSSARTQEILEGKLDK---  462 (583)
Q Consensus       393 ~r~~~ll~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~-~----~~~~~~i~fS~~Tt~~~lq~~ie~~l~~---  462 (583)
                      .+....+...+..+  .+++++||||||||++++.+++.+... .    .+.++.+|+....+...+...+-..+..   
T Consensus        25 ~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~  104 (365)
T TIGR02928        25 EELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQLRGSGE  104 (365)
T ss_pred             HHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHHHHHhhcCC
Confidence            34445555555543  579999999999999999998865311 1    1567788887766655544333344421   


Q ss_pred             h--cCc---------cc--cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEec
Q psy17974        463 R--TKT---------LL--GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTAC  529 (583)
Q Consensus       463 ~--~~~---------~~--~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~  529 (583)
                      .  ..+         .+  -...+++.|++|||++.-...   .+.   +|-++..   |++....   .-.++.+|+++
T Consensus       105 ~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~---~~~---~L~~l~~---~~~~~~~---~~~~v~lI~i~  172 (365)
T TIGR02928       105 EVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGD---DDD---LLYQLSR---ARSNGDL---DNAKVGVIGIS  172 (365)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccC---CcH---HHHhHhc---cccccCC---CCCeEEEEEEE
Confidence            0  000         00  112456789999999986421   122   3333332   2111110   01357888888


Q ss_pred             CCCCCCCCCCChhhhccc--eEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        530 APPGGGRMPLTPRFVRHF--GLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       530 ~p~~~gr~~l~~Rllr~f--~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      |.+.- ...+.+|+.++|  ..+.+++++.+++..|....++.
T Consensus       173 n~~~~-~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~  214 (365)
T TIGR02928       173 NDLKF-RENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEK  214 (365)
T ss_pred             CCcch-HhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHh
Confidence            87641 235788888888  47999999999999999988863

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.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.78  E-value=7e-08  Score=104.95  Aligned_cols=143  Identities=17%  Similarity=0.194  Sum_probs=93.1

Q ss_pred             HHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccC------------------C--ceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASN------------------T--WAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~------------------~--~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..++..++   .+||+||+|||||++++.+++.+.-..                  +  ..++.++-+.....+.+.++
T Consensus        30 L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~dviEIdaas~~gVd~IReL  109 (484)
T PRK14956         30 LQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGISSDVLEIDAASNRGIENIREL  109 (484)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCCccceeechhhcccHHHHHHH
Confidence            444455543   379999999999999999998763110                  0  01222222222333444333


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++ ++      .+.|..|++-|++|||+|+-..+      ..+.|...+|.-            ...+.||.|++.+.  
T Consensus       110 ~e-~l------~~~p~~g~~KV~IIDEah~Ls~~------A~NALLKtLEEP------------p~~viFILaTte~~--  162 (484)
T PRK14956        110 RD-NV------KFAPMGGKYKVYIIDEVHMLTDQ------SFNALLKTLEEP------------PAHIVFILATTEFH--  162 (484)
T ss_pred             HH-HH------HhhhhcCCCEEEEEechhhcCHH------HHHHHHHHhhcC------------CCceEEEeecCChh--
Confidence            22 11      13455667779999999998665      233334444421            24677888877654  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        .|.+++++|+..+.+..++.+++......++..
T Consensus       163 --kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~  195 (484)
T PRK14956        163 --KIPETILSRCQDFIFKKVPLSVLQDYSEKLCKI  195 (484)
T ss_pred             --hccHHHHhhhheeeecCCCHHHHHHHHHHHHHH
Confidence              799999999999999999999998887777653

>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=98.77  E-value=1.1e-08  Score=97.45  Aligned_cols=123  Identities=19%  Similarity=0.257  Sum_probs=78.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .++||+||+|||||.+++.+.+.+.-...-..+.++++..+........+. ++.....+..+.  ....|||+||+.-+
T Consensus         4 ~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~~~~~~~~-~l~~~~~~~v~~--~~~gVVllDEidKa   80 (171)
T PF07724_consen    4 SNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGDDVESSVS-KLLGSPPGYVGA--EEGGVVLLDEIDKA   80 (171)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHHHCSCHCH-HHHHHTTCHHHH--HHHTEEEEETGGGC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccchHHhhhh-hhhhcccceeec--cchhhhhhHHHhhc
Confidence            478999999999999999999887312345788999999888333222211 111111111110  01129999999887


Q ss_pred             CcccCCC-----CChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        487 KLETYGA-----QPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       487 ~~d~yg~-----q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      .+..-++     ..+...|-|++|.|-+.|... .-+...++.||+|+|-.+
T Consensus        81 ~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g-~~vd~~n~ifI~Tsn~~~  131 (171)
T PF07724_consen   81 HPSNSGGADVSGEGVQNSLLQLLEGGTLTDSYG-RTVDTSNIIFIMTSNFGA  131 (171)
T ss_dssp             SHTTTTCSHHHHHHHHHHHHHHHHHSEEEETTC-CEEEGTTEEEEEEESSST
T ss_pred             cccccccchhhHHHHHHHHHHHhcccceecccc-eEEEeCCceEEEeccccc
Confidence            6511110     125677789999776666443 567789999999988643

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 ....

>PRK13531 regulatory ATPase RavA; Provisional

Probab=98.76  E-value=1.1e-07  Score=103.27  Aligned_cols=156  Identities=13%  Similarity=0.127  Sum_probs=84.1

Q ss_pred             HHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCC---
Q psy17974        398 IMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLG---  473 (583)
Q Consensus       398 ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~g---  473 (583)
                      ++...+..+.||||.||||||||++++.+.........+....+.|+   ++.++-+.+.-+ ..+..+.|. ...|   
T Consensus        31 lll~aalag~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~ft---tp~DLfG~l~i~-~~~~~g~f~r~~~G~L~  106 (498)
T PRK13531         31 LCLLAALSGESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFS---TPEEVFGPLSIQ-ALKDEGRYQRLTSGYLP  106 (498)
T ss_pred             HHHHHHccCCCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeec---CcHHhcCcHHHh-hhhhcCchhhhcCCccc
Confidence            34556678999999999999999999999886532222334444443   344433221000 001122221 1111   


Q ss_pred             CeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEe
Q psy17974        474 KRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSL  552 (583)
Q Consensus       474 k~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i  552 (583)
                      .--++|+||||-..+.      ....|=+.++.+.++. .. .-..+..-.+++|+|+... ....-+.+.-||. .+.+
T Consensus       107 ~A~lLfLDEI~rasp~------~QsaLLeam~Er~~t~-g~-~~~~lp~rfiv~ATN~LPE-~g~~leAL~DRFliri~v  177 (498)
T PRK13531        107 EAEIVFLDEIWKAGPA------ILNTLLTAINERRFRN-GA-HEEKIPMRLLVTASNELPE-ADSSLEALYDRMLIRLWL  177 (498)
T ss_pred             cccEEeecccccCCHH------HHHHHHHHHHhCeEec-CC-eEEeCCCcEEEEECCCCcc-cCCchHHhHhhEEEEEEC
Confidence            1228999999965544      2333334566566554 22 2233333334555565221 1122235666665 4899


Q ss_pred             CCCC-HHHHHHHHHH
Q psy17974        553 PSPT-EDTLKVIFKV  566 (583)
Q Consensus       553 ~~p~-~~sl~~I~~~  566 (583)
                      |+|+ .++...|...
T Consensus       178 p~l~~~~~e~~lL~~  192 (498)
T PRK13531        178 DKVQDKANFRSMLTS  192 (498)
T ss_pred             CCCCchHHHHHHHHc
Confidence            9997 4665656544

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=98.75  E-value=6.3e-08  Score=97.00  Aligned_cols=133  Identities=24%  Similarity=0.237  Sum_probs=90.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPK  487 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~  487 (583)
                      ||||+||||.|||+++.-+++++.    .......-..--.+.++-.++ +.++.            .-|+||||||...
T Consensus        54 HvLl~GPPGlGKTTLA~IIA~Emg----vn~k~tsGp~leK~gDlaaiL-t~Le~------------~DVLFIDEIHrl~  116 (332)
T COG2255          54 HVLLFGPPGLGKTTLAHIIANELG----VNLKITSGPALEKPGDLAAIL-TNLEE------------GDVLFIDEIHRLS  116 (332)
T ss_pred             eEEeeCCCCCcHHHHHHHHHHHhc----CCeEecccccccChhhHHHHH-hcCCc------------CCeEEEehhhhcC
Confidence            899999999999999999999883    111111111122344444433 22332            3489999999865


Q ss_pred             cccCCCCChHHHHHHHHHhCCeeec---C----CCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeCCCCHHH
Q psy17974        488 LETYGAQPPIELLRQFLDFGGLYDR---D----KMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLPSPTEDT  559 (583)
Q Consensus       488 ~d~yg~q~~lElLRq~ld~~g~yd~---~----~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~~p~~~s  559 (583)
                      +.      +-|.|--.+|.- ..|.   +    +.--..+..+++|||++..|    .++..|..||- +.++.+.+.++
T Consensus       117 ~~------vEE~LYpaMEDf-~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G----~lt~PLrdRFGi~~rlefY~~~e  185 (332)
T COG2255         117 PA------VEEVLYPAMEDF-RLDIIIGKGPAARSIRLDLPPFTLIGATTRAG----MLTNPLRDRFGIIQRLEFYTVEE  185 (332)
T ss_pred             hh------HHHHhhhhhhhe-eEEEEEccCCccceEeccCCCeeEeeeccccc----cccchhHHhcCCeeeeecCCHHH
Confidence            43      567777666531 1121   1    11223467899999998887    78888988996 68999999999


Q ss_pred             HHHHHHHHh
Q psy17974        560 LKVIFKVRT  568 (583)
Q Consensus       560 l~~I~~~~l  568 (583)
                      |..|...--
T Consensus       186 L~~Iv~r~a  194 (332)
T COG2255         186 LEEIVKRSA  194 (332)
T ss_pred             HHHHHHHHH
Confidence            999987764

>KOG0740|consensus

Probab=98.74  E-value=1.4e-08  Score=108.31  Aligned_cols=142  Identities=23%  Similarity=0.287  Sum_probs=93.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDDVNM  485 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDDln~  485 (583)
                      +.+||.||||+|||+++++++.+.    .  ..+++.|+....+.    .-+.-++--+.+|. +...++.|+||||++.
T Consensus       187 rglLLfGPpgtGKtmL~~aiAsE~----~--atff~iSassLtsK----~~Ge~eK~vralf~vAr~~qPsvifidEids  256 (428)
T KOG0740|consen  187 RGLLLFGPPGTGKTMLAKAIATES----G--ATFFNISASSLTSK----YVGESEKLVRALFKVARSLQPSVIFIDEIDS  256 (428)
T ss_pred             chhheecCCCCchHHHHHHHHhhh----c--ceEeeccHHHhhhh----ccChHHHHHHHHHHHHHhcCCeEEEechhHH
Confidence            578999999999999999999865    1  33445554321111    11111221222221 3455678999999997


Q ss_pred             CCcccC-CCCC-----hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeCCCCHH
Q psy17974        486 PKLETY-GAQP-----PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLPSPTED  558 (583)
Q Consensus       486 p~~d~y-g~q~-----~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~~p~~~  558 (583)
                      .-..+- +.+.     -.|+|=|+.-   .-...      =.++.++||+|.|-    .++..+.|+|. ++++|.|+.+
T Consensus       257 lls~Rs~~e~e~srr~ktefLiq~~~---~~s~~------~drvlvigaTN~P~----e~Dea~~Rrf~kr~yiplPd~e  323 (428)
T KOG0740|consen  257 LLSKRSDNEHESSRRLKTEFLLQFDG---KNSAP------DDRVLVIGATNRPW----ELDEAARRRFVKRLYIPLPDYE  323 (428)
T ss_pred             HHhhcCCcccccchhhhhHHHhhhcc---ccCCC------CCeEEEEecCCCch----HHHHHHHHHhhceeeecCCCHH
Confidence            543321 1111     2466656542   11111      12689999999996    89999999997 8999999999


Q ss_pred             HHHHHHHHHhccc
Q psy17974        559 TLKVIFKVRTSPG  571 (583)
Q Consensus       559 sl~~I~~~~l~~~  571 (583)
                      +...++..+|..+
T Consensus       324 tr~~~~~~ll~~~  336 (428)
T KOG0740|consen  324 TRSLLWKQLLKEQ  336 (428)
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999999877

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

Probab=98.74  E-value=2.4e-08  Score=115.13  Aligned_cols=152  Identities=20%  Similarity=0.263  Sum_probs=105.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh---hhhhcCccccC--CCCCeEEEEecC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK---LDKRTKTLLGA--PLGKRLAVFVDD  482 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~---l~~~~~~~~~p--~~gk~~vlfiDD  482 (583)
                      ++||+||||||||.+++.++..+.    ...+.+++|..+....+.+++...   .....++.+..  ......|+|+||
T Consensus       490 ~~Lf~GP~GvGKT~lAk~LA~~l~----~~~i~id~se~~~~~~~~~LiG~~~gyvg~~~~g~L~~~v~~~p~sVlllDE  565 (758)
T PRK11034        490 SFLFAGPTGVGKTEVTVQLSKALG----IELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDE  565 (758)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC----CCcEEeechhhcccccHHHHcCCCCCcccccccchHHHHHHhCCCcEEEecc
Confidence            489999999999999999988772    356778888765543333333211   11111111110  012347999999


Q ss_pred             CCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-------CC--------------CCCCCh
Q psy17974        483 VNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-------GG--------------RMPLTP  541 (583)
Q Consensus       483 ln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-------~g--------------r~~l~~  541 (583)
                      ++...++      +...|.|++|.|-+.|.. ..-....++.+|+|+|...       -|              +..+.|
T Consensus       566 ieka~~~------v~~~LLq~ld~G~ltd~~-g~~vd~rn~iiI~TsN~g~~~~~~~~~g~~~~~~~~~~~~~~~~~f~p  638 (758)
T PRK11034        566 IEKAHPD------VFNLLLQVMDNGTLTDNN-GRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTP  638 (758)
T ss_pred             HhhhhHH------HHHHHHHHHhcCeeecCC-CceecCCCcEEEEeCCcCHHHHhhcccCcccchhhHHHHHHHHHhcCH
Confidence            9988765      678999999987776643 3345667888999988431       01              134778


Q ss_pred             hhhccce-EEEeCCCCHHHHHHHHHHHhcc
Q psy17974        542 RFVRHFG-LLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       542 Rllr~f~-vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .|+.|+. ++.+++.+.+++..|....+..
T Consensus       639 efl~Rid~ii~f~~L~~~~l~~I~~~~l~~  668 (758)
T PRK11034        639 EFRNRLDNIIWFDHLSTDVIHQVVDKFIVE  668 (758)
T ss_pred             HHHccCCEEEEcCCCCHHHHHHHHHHHHHH
Confidence            8999995 8999999999999999887753

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.73  E-value=1.7e-07  Score=98.59  Aligned_cols=148  Identities=14%  Similarity=0.188  Sum_probs=89.1

Q ss_pred             HHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhcccC-CceEEEEEeccCCCh--HHH--------------------H
Q psy17974        399 MEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLASN-TWAALTINFSAQTSS--ART--------------------Q  453 (583)
Q Consensus       399 l~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~~-~~~~~~i~fS~~Tt~--~~l--------------------q  453 (583)
                      +..+++.+.  +++|+||||||||++++.+++.+.... ....+.++++.....  ..+                    .
T Consensus        27 L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  106 (337)
T PRK12402         27 LSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKKYLVEDPRFAHFLGTDKRIRSSKI  106 (337)
T ss_pred             HHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcchhhhhcCcchhhhhhhhhhhccchH
Confidence            555667776  899999999999999999988763221 122445555431100  000                    0


Q ss_pred             HHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        454 EILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       454 ~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      +.+..-+..  ...+.|..+.+-+++|||++.-..+      ..+.|+.+++...            .++.+|.+++.+.
T Consensus       107 ~~~~~~~~~--~~~~~~~~~~~~vlilDe~~~l~~~------~~~~L~~~le~~~------------~~~~~Il~~~~~~  166 (337)
T PRK12402        107 DNFKHVLKE--YASYRPLSADYKTILLDNAEALRED------AQQALRRIMEQYS------------RTCRFIIATRQPS  166 (337)
T ss_pred             HHHHHHHHH--HHhcCCCCCCCcEEEEeCcccCCHH------HHHHHHHHHHhcc------------CCCeEEEEeCChh
Confidence            011100000  0112343344558999999865432      3455666666321            1344666655432


Q ss_pred             CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        534 GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       534 ~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                          .+.+.+.+++..+.+.+|+.+++..+...++..
T Consensus       167 ----~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~  199 (337)
T PRK12402        167 ----KLIPPIRSRCLPLFFRAPTDDELVDVLESIAEA  199 (337)
T ss_pred             ----hCchhhcCCceEEEecCCCHHHHHHHHHHHHHH
Confidence                466778889999999999999999888887654

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=98.73  E-value=9.3e-08  Score=100.39  Aligned_cols=84  Identities=24%  Similarity=0.423  Sum_probs=61.9

Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCe-eecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEe
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGL-YDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSL  552 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~-yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i  552 (583)
                      ..++|+||+|....+      ..+.|++.++.|.. +.+.......-.++.++|++||..+   .+++.++.+|. .+.+
T Consensus       129 ~GiL~lDEInrl~~~------~q~~Lle~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~---~l~~aLldRF~~~v~v  199 (334)
T PRK13407        129 RGYLYIDEVNLLEDH------IVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEG---ELRPQLLDRFGLSVEV  199 (334)
T ss_pred             CCeEEecChHhCCHH------HHHHHHHHHHcCCeEEEECCeEEecCCCEEEEecCCcccC---CCCHHHHhhcceEEEc
Confidence            358999999987654      57788889987754 3344444455568999999998642   58999999997 5888


Q ss_pred             CCCCH-HHHHHHHHHH
Q psy17974        553 PSPTE-DTLKVIFKVR  567 (583)
Q Consensus       553 ~~p~~-~sl~~I~~~~  567 (583)
                      ++|.. ++-..|....
T Consensus       200 ~~~~~~~e~~~il~~~  215 (334)
T PRK13407        200 RSPRDVETRVEVIRRR  215 (334)
T ss_pred             CCCCcHHHHHHHHHHh
Confidence            88877 6666666654

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.72  E-value=2.5e-08  Score=110.41  Aligned_cols=146  Identities=21%  Similarity=0.339  Sum_probs=96.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDDV  483 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDDl  483 (583)
                      -.+.|||+||||||||.++++.+.+-    +.....+      +.+++.++.-+-=..|.+..|- +....+||+|||++
T Consensus       182 iPkGvlLvGpPGTGKTLLAkAvAgEA----~VPFf~i------SGS~FVemfVGvGAsRVRdLF~qAkk~aP~IIFIDEi  251 (596)
T COG0465         182 IPKGVLLVGPPGTGKTLLAKAVAGEA----GVPFFSI------SGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEI  251 (596)
T ss_pred             cccceeEecCCCCCcHHHHHHHhccc----CCCceec------cchhhhhhhcCCCcHHHHHHHHHhhccCCCeEEEehh
Confidence            34799999999999999999998754    3333332      2233333322211222222332 23455799999999


Q ss_pred             CCCCcccC----CCCC-hHHHHHHHH-HhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc---cceEEEeCC
Q psy17974        484 NMPKLETY----GAQP-PIELLRQFL-DFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR---HFGLLSLPS  554 (583)
Q Consensus       484 n~p~~d~y----g~q~-~lElLRq~l-d~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr---~f~vi~i~~  554 (583)
                      +.-.....    |... --..|+|++ |..||...        +.+.++||+|.|.    .+++.|+|   +.+.|.++.
T Consensus       252 DAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~--------~gviviaaTNRpd----VlD~ALlRpgRFDRqI~V~~  319 (596)
T COG0465         252 DAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN--------EGVIVIAATNRPD----VLDPALLRPGRFDRQILVEL  319 (596)
T ss_pred             hhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC--------CceEEEecCCCcc----cchHhhcCCCCcceeeecCC
Confidence            98766541    1211 224677776 55677632        4688999999886    67888876   446899999


Q ss_pred             CCHHHHHHHHHHHhcccc
Q psy17974        555 PTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       555 p~~~sl~~I~~~~l~~~l  572 (583)
                      |+-.-..+|...+++...
T Consensus       320 PDi~gRe~IlkvH~~~~~  337 (596)
T COG0465         320 PDIKGREQILKVHAKNKP  337 (596)
T ss_pred             cchhhHHHHHHHHhhcCC
Confidence            999999999997776443

>KOG0729|consensus

Probab=98.72  E-value=4.2e-08  Score=97.04  Aligned_cols=148  Identities=20%  Similarity=0.297  Sum_probs=97.3

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCe
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKR  475 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~  475 (583)
                      .+..+-+...+.|||+||||||||.+++++++.-    +..++.+     ..++.+|+.+..... -.+..|. +...|-
T Consensus       202 rfv~lgidppkgvllygppgtgktl~aravanrt----dacfirv-----igselvqkyvgegar-mvrelf~martkka  271 (435)
T KOG0729|consen  202 RFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT----DACFIRV-----IGSELVQKYVGEGAR-MVRELFEMARTKKA  271 (435)
T ss_pred             HHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc----CceEEee-----hhHHHHHHHhhhhHH-HHHHHHHHhcccce
Confidence            4456667778999999999999999999999853    2233333     455677776532211 1122333 334567


Q ss_pred             EEEEecCCCCCCcccCC-----CC----ChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhcc
Q psy17974        476 LAVFVDDVNMPKLETYG-----AQ----PPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRH  546 (583)
Q Consensus       476 ~vlfiDDln~p~~d~yg-----~q----~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~  546 (583)
                      |++|+||++.-.-..|.     .+    ..+|++.|+-   || |+.       .|+.++.|+|.|.    .++|.|+|-
T Consensus       272 ciiffdeidaiggarfddg~ggdnevqrtmleli~qld---gf-dpr-------gnikvlmatnrpd----tldpallrp  336 (435)
T KOG0729|consen  272 CIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLD---GF-DPR-------GNIKVLMATNRPD----TLDPALLRP  336 (435)
T ss_pred             EEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhcc---CC-CCC-------CCeEEEeecCCCC----CcCHhhcCC
Confidence            99999999986544332     11    2467777763   43 322       3688888889886    788988875


Q ss_pred             ce---EEEeCCCCHHHHHHHHHHHhc
Q psy17974        547 FG---LLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       547 f~---vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      -+   -+.+..|+-+.-.+||.-+-+
T Consensus       337 grldrkvef~lpdlegrt~i~kihak  362 (435)
T KOG0729|consen  337 GRLDRKVEFGLPDLEGRTHIFKIHAK  362 (435)
T ss_pred             cccccceeccCCcccccceeEEEecc
Confidence            43   477777888877777765543

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.71  E-value=2.3e-07  Score=96.72  Aligned_cols=143  Identities=13%  Similarity=0.227  Sum_probs=89.2

Q ss_pred             HHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhcccCCce--EEEEEeccCCChHHHHHHHHhhhhhhcCccccCCC-C
Q psy17974        399 MEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLLASNTWA--ALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPL-G  473 (583)
Q Consensus       399 l~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~--~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~-g  473 (583)
                      +..+++.+  .+++|+||+|||||++++.+++.+. ...+.  .+.++.+.......+++.+..-...      .|.. +
T Consensus        29 l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~-~~~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~------~~~~~~  101 (319)
T PRK00440         29 LKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY-GEDWRENFLELNASDERGIDVIRNKIKEFART------APVGGA  101 (319)
T ss_pred             HHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc-CCccccceEEeccccccchHHHHHHHHHHHhc------CCCCCC
Confidence            44555554  3699999999999999999998763 22332  3333333333333333333222111      1222 3


Q ss_pred             CeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeC
Q psy17974        474 KRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLP  553 (583)
Q Consensus       474 k~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~  553 (583)
                      .+-+++|||++.-..+      ..+.|+.+++..            ..++.+|.+++.+.    .+.+.+.+++.++.++
T Consensus       102 ~~~vviiDe~~~l~~~------~~~~L~~~le~~------------~~~~~lIl~~~~~~----~l~~~l~sr~~~~~~~  159 (319)
T PRK00440        102 PFKIIFLDEADNLTSD------AQQALRRTMEMY------------SQNTRFILSCNYSS----KIIDPIQSRCAVFRFS  159 (319)
T ss_pred             CceEEEEeCcccCCHH------HHHHHHHHHhcC------------CCCCeEEEEeCCcc----ccchhHHHHhheeeeC
Confidence            4568899998765432      245566666532            12345666666442    5677899999999999


Q ss_pred             CCCHHHHHHHHHHHhcc
Q psy17974        554 SPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~~  570 (583)
                      .++.+++..+...++..
T Consensus       160 ~l~~~ei~~~l~~~~~~  176 (319)
T PRK00440        160 PLKKEAVAERLRYIAEN  176 (319)
T ss_pred             CCCHHHHHHHHHHHHHH
Confidence            99999999888887753

>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=98.70  E-value=1.7e-07  Score=89.12  Aligned_cols=148  Identities=19%  Similarity=0.191  Sum_probs=89.4

Q ss_pred             hhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-C
Q psy17974        392 TIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-A  470 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p  470 (583)
                      ..+....++.+.....||||+|++||||+.+++.+-+.. ...+-..+.+||+.. +.+.    ++..+--..++.|. +
T Consensus         8 m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s-~r~~~pfi~vnc~~~-~~~~----~e~~LFG~~~~~~~~~   81 (168)
T PF00158_consen    8 MKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS-PRKNGPFISVNCAAL-PEEL----LESELFGHEKGAFTGA   81 (168)
T ss_dssp             HHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS-TTTTS-EEEEETTTS--HHH----HHHHHHEBCSSSSTTT
T ss_pred             HHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh-hcccCCeEEEehhhh-hcch----hhhhhhcccccccccc
Confidence            455667778888899999999999999999999987754 233457888999875 3333    33343222222221 1


Q ss_pred             C--------CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC---CCCCC
Q psy17974        471 P--------LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG---GRMPL  539 (583)
Q Consensus       471 ~--------~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~---gr~~l  539 (583)
                      .        .....++|+||++.-.++      .-+-|-++++.+.+......... -.|+++|+|++.+-.   ....+
T Consensus        82 ~~~~~G~l~~A~~GtL~Ld~I~~L~~~------~Q~~Ll~~l~~~~~~~~g~~~~~-~~~~RiI~st~~~l~~~v~~g~f  154 (168)
T PF00158_consen   82 RSDKKGLLEQANGGTLFLDEIEDLPPE------LQAKLLRVLEEGKFTRLGSDKPV-PVDVRIIASTSKDLEELVEQGRF  154 (168)
T ss_dssp             SSEBEHHHHHTTTSEEEEETGGGS-HH------HHHHHHHHHHHSEEECCTSSSEE-E--EEEEEEESS-HHHHHHTTSS
T ss_pred             ccccCCceeeccceEEeecchhhhHHH------HHHHHHHHHhhchhccccccccc-cccceEEeecCcCHHHHHHcCCC
Confidence            0        112458999999876554      34566677887776654433333 359999999886510   11235


Q ss_pred             ChhhhccceEEEe
Q psy17974        540 TPRFVRHFGLLSL  552 (583)
Q Consensus       540 ~~Rllr~f~vi~i  552 (583)
                      .+.|..+.+++.+
T Consensus       155 r~dLy~rL~~~~i  167 (168)
T PF00158_consen  155 REDLYYRLNVFTI  167 (168)
T ss_dssp             -HHHHHHHTTEEE
T ss_pred             hHHHHHHhceEec
Confidence            5666666665544

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 ....

>PRK06893 DNA replication initiation factor; Validated

Probab=98.70  E-value=1.2e-07  Score=94.64  Aligned_cols=140  Identities=17%  Similarity=0.233  Sum_probs=79.1

Q ss_pred             HHHHhcCCc-eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEE
Q psy17974        400 EKLLLVNHP-VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAV  478 (583)
Q Consensus       400 ~~~l~~~~~-vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vl  478 (583)
                      +.+.....| ++|+||||||||++++++.+.+.. ....+.+++++..      .......++.     +    .+.-++
T Consensus        32 ~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~-~~~~~~y~~~~~~------~~~~~~~~~~-----~----~~~dlL   95 (229)
T PRK06893         32 KNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLL-NQRTAIYIPLSKS------QYFSPAVLEN-----L----EQQDLV   95 (229)
T ss_pred             HHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHH-cCCCeEEeeHHHh------hhhhHHHHhh-----c----ccCCEE
Confidence            333333345 699999999999999999887532 2344555655421      1110111111     1    122388


Q ss_pred             EecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce---EEEeCCC
Q psy17974        479 FVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG---LLSLPSP  555 (583)
Q Consensus       479 fiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~---vi~i~~p  555 (583)
                      +|||++....+........+++....+.|+             .+.++++..+|..- ....+++.+++.   ++.++.|
T Consensus        96 ilDDi~~~~~~~~~~~~l~~l~n~~~~~~~-------------~illits~~~p~~l-~~~~~~L~sRl~~g~~~~l~~p  161 (229)
T PRK06893         96 CLDDLQAVIGNEEWELAIFDLFNRIKEQGK-------------TLLLISADCSPHAL-SIKLPDLASRLTWGEIYQLNDL  161 (229)
T ss_pred             EEeChhhhcCChHHHHHHHHHHHHHHHcCC-------------cEEEEeCCCChHHc-cccchhHHHHHhcCCeeeCCCC
Confidence            999999754332111112333333333211             12344454455421 124478888886   8999999


Q ss_pred             CHHHHHHHHHHHhc
Q psy17974        556 TEDTLKVIFKVRTS  569 (583)
Q Consensus       556 ~~~sl~~I~~~~l~  569 (583)
                      +.++...|+.....
T Consensus       162 d~e~~~~iL~~~a~  175 (229)
T PRK06893        162 TDEQKIIVLQRNAY  175 (229)
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999987764

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.69  E-value=7.4e-08  Score=105.21  Aligned_cols=171  Identities=15%  Similarity=0.213  Sum_probs=93.2

Q ss_pred             cCCCCCCccceeeCchhhhHHHHHHHHHh-----cC---CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC
Q psy17974        376 YDPTMPFFDMMVPTIDTIRFGSIMEKLLL-----VN---HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT  447 (583)
Q Consensus       376 ~~~~~~~~~i~VpT~dt~r~~~ll~~~l~-----~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T  447 (583)
                      +++...|.+ ||...........+..+..     .+   .|++|+||+|+|||++++++.+.+. ..+..+.+++.    
T Consensus       104 l~~~~tFdn-Fv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~-~~~~~v~yi~~----  177 (445)
T PRK12422        104 LDPLMTFAN-FLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALR-ESGGKILYVRS----  177 (445)
T ss_pred             CCccccccc-eeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHH-HcCCCEEEeeH----
Confidence            344444444 4544444333334444432     12   5899999999999999999998763 22445555543    


Q ss_pred             ChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEE
Q psy17974        448 SSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCT  527 (583)
Q Consensus       448 t~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~ia  527 (583)
                        +.+...+...+.......+...-.+.-+++|||++.-.......+....++..+.+.|               .++|.
T Consensus       178 --~~f~~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~---------------k~IIl  240 (445)
T PRK12422        178 --ELFTEHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEG---------------KLIVI  240 (445)
T ss_pred             --HHHHHHHHHHHhcchHHHHHHHcccCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCC---------------CcEEE
Confidence              2222111111111000011111123448999999885432211111222333332211               13444


Q ss_pred             ecC-CCCCCCCCCChhhhccc---eEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        528 ACA-PPGGGRMPLTPRFVRHF---GLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       528 a~~-p~~~gr~~l~~Rllr~f---~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      |++ +|.. -..+.+|+.+||   .++.+++|+.+++..|.....+.
T Consensus       241 ts~~~p~~-l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~  286 (445)
T PRK12422        241 SSTCAPQD-LKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEA  286 (445)
T ss_pred             ecCCCHHH-HhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHH
Confidence            444 4432 124789999999   58999999999999999887765

>PRK08727 hypothetical protein; Validated

Probab=98.69  E-value=2.6e-07  Score=92.58  Aligned_cols=132  Identities=15%  Similarity=0.167  Sum_probs=79.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .+++|+||+|||||+++.++...+.. .++.+.++++..      +...+...+++.         .+.-+++|||++..
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~-~~~~~~y~~~~~------~~~~~~~~~~~l---------~~~dlLiIDDi~~l  105 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQ-AGRSSAYLPLQA------AAGRLRDALEAL---------EGRSLVALDGLESI  105 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHH-cCCcEEEEeHHH------hhhhHHHHHHHH---------hcCCEEEEeCcccc
Confidence            57999999999999999998776532 345566665432      111111112211         11237899999876


Q ss_pred             CcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhcc---ceEEEeCCCCHHHHHHH
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRH---FGLLSLPSPTEDTLKVI  563 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~---f~vi~i~~p~~~sl~~I  563 (583)
                      ..+...   ..+++ .+++..  |+         .+..+|.|++-+-..-..+.+++.+|   ..++.++.|+.+++..|
T Consensus       106 ~~~~~~---~~~lf-~l~n~~--~~---------~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~i  170 (233)
T PRK08727        106 AGQRED---EVALF-DFHNRA--RA---------AGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAV  170 (233)
T ss_pred             cCChHH---HHHHH-HHHHHH--HH---------cCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHH
Confidence            543211   12233 233211  11         12346666653322223467899888   46899999999999999


Q ss_pred             HHHHhc
Q psy17974        564 FKVRTS  569 (583)
Q Consensus       564 ~~~~l~  569 (583)
                      ......
T Consensus       171 L~~~a~  176 (233)
T PRK08727        171 LRERAQ  176 (233)
T ss_pred             HHHHHH
Confidence            998543

>TIGR00368 Mg chelatase-related protein

Probab=98.69  E-value=1.1e-07  Score=104.97  Aligned_cols=156  Identities=17%  Similarity=0.140  Sum_probs=92.9

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHH---HHH-hhhh---------hh
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQE---ILE-GKLD---------KR  463 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~---~ie-~~l~---------~~  463 (583)
                      .-++..+..+++++|.||||||||++++.+..-++....-  ..+..+...+......   -+. ..+.         ..
T Consensus       202 ~al~~aa~~g~~vlliG~pGsGKTtlar~l~~llp~~~~~--~~le~~~i~s~~g~~~~~~~~~~~Pf~~p~~s~s~~~~  279 (499)
T TIGR00368       202 RALEIAAAGGHNLLLFGPPGSGKTMLASRLQGILPPLTNE--EAIETARIWSLVGKLIDRKQIKQRPFRSPHHSASKPAL  279 (499)
T ss_pred             hhhhhhccCCCEEEEEecCCCCHHHHHHHHhcccCCCCCc--EEEeccccccchhhhccccccccCCccccccccchhhh
Confidence            3466677889999999999999999999876644211111  1111111111000000   000 0000         00


Q ss_pred             cCccccCC-----CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCee-ecCCCeeEeecCeEEEEecCCCCCCC-
Q psy17974        464 TKTLLGAP-----LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY-DRDKMFWKTLQDVVLCTACAPPGGGR-  536 (583)
Q Consensus       464 ~~~~~~p~-----~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~y-d~~~~~~~~i~~i~~iaa~~p~~~gr-  536 (583)
                      -+|.-.+.     .....++|+||++.-..      ..++.|||.+|.+.+. .+.........++++||||||...|+ 
T Consensus       280 ~ggg~~~~pG~i~lA~~GvLfLDEi~e~~~------~~~~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa~Npcpcg~~  353 (499)
T TIGR00368       280 VGGGPIPLPGEISLAHNGVLFLDELPEFKR------SVLDALREPIEDGSISISRASAKIFYPARFQLVAAMNPCPCGHY  353 (499)
T ss_pred             hCCccccchhhhhccCCCeEecCChhhCCH------HHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEecCCcccCcC
Confidence            01100011     22357999999986443      3789999999988764 44444555567999999999842221 


Q ss_pred             ------------------CCCChhhhccce-EEEeCCCCHHHH
Q psy17974        537 ------------------MPLTPRFVRHFG-LLSLPSPTEDTL  560 (583)
Q Consensus       537 ------------------~~l~~Rllr~f~-vi~i~~p~~~sl  560 (583)
                                        ..++..|+.||. .+.++.++.+++
T Consensus       354 ~~~~~~c~c~~~~~~~y~~~is~pllDR~dl~~~~~~~~~~~l  396 (499)
T TIGR00368       354 GGKNTHCRCSPQQISRYWNKLSGPFLDRIDLSVEVPLLPPEKL  396 (499)
T ss_pred             CCCcccccCCHHHHHHHhhhccHhHHhhCCEEEEEcCCCHHHH
Confidence                              258999999998 478887766654

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>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=98.68  E-value=5.1e-08  Score=96.74  Aligned_cols=162  Identities=15%  Similarity=0.218  Sum_probs=85.7

Q ss_pred             ceeeCchhhhHHHHHHHHHhc-C---CceEEEccCCCcHHHHHHHHHHhhcc-cCCceEEEEEeccCCChHHHHHHHHhh
Q psy17974        385 MMVPTIDTIRFGSIMEKLLLV-N---HPVMFTGVTGVGKTVVARSILNKLLA-SNTWAALTINFSAQTSSARTQEILEGK  459 (583)
Q Consensus       385 i~VpT~dt~r~~~ll~~~l~~-~---~~vLL~Gp~GtGKT~li~~~l~~l~~-~~~~~~~~i~fS~~Tt~~~lq~~ie~~  459 (583)
                      -+|+...........+.+.+. +   .|++|+||+|+|||.+++++.+.+.. ..+..++.++.      ..+...+...
T Consensus         9 nfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~------~~f~~~~~~~   82 (219)
T PF00308_consen    9 NFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA------EEFIREFADA   82 (219)
T ss_dssp             CS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH------HHHHHHHHHH
T ss_pred             cCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH------HHHHHHHHHH
Confidence            345454444444444445443 3   37999999999999999999876532 12445555532      2222222111


Q ss_pred             hhhhc----CccccCCCCCeEEEEecCCCCCCcccCCCC-ChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC
Q psy17974        460 LDKRT----KTLLGAPLGKRLAVFVDDVNMPKLETYGAQ-PPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG  534 (583)
Q Consensus       460 l~~~~----~~~~~p~~gk~~vlfiDDln~p~~d~yg~q-~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~  534 (583)
                      +....    +..|.    .--+++|||++.-.... .+| ....++..+.+.|+              -.++++-.+|..
T Consensus        83 ~~~~~~~~~~~~~~----~~DlL~iDDi~~l~~~~-~~q~~lf~l~n~~~~~~k--------------~li~ts~~~P~~  143 (219)
T PF00308_consen   83 LRDGEIEEFKDRLR----SADLLIIDDIQFLAGKQ-RTQEELFHLFNRLIESGK--------------QLILTSDRPPSE  143 (219)
T ss_dssp             HHTTSHHHHHHHHC----TSSEEEEETGGGGTTHH-HHHHHHHHHHHHHHHTTS--------------EEEEEESS-TTT
T ss_pred             HHcccchhhhhhhh----cCCEEEEecchhhcCch-HHHHHHHHHHHHHHhhCC--------------eEEEEeCCCCcc
Confidence            11100    00011    12278999998754321 112 23445555555442              124444355542


Q ss_pred             CCCCCChhhhccce---EEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        535 GRMPLTPRFVRHFG---LLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       535 gr~~l~~Rllr~f~---vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                       -..+.+|+.+||.   ++.+..|+.++...|........-
T Consensus       144 -l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~  183 (219)
T PF00308_consen  144 -LSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERG  183 (219)
T ss_dssp             -TTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT
T ss_pred             -ccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhC
Confidence             2247899988874   899999999999999998876543

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.

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.67  E-value=1.5e-07  Score=105.25  Aligned_cols=144  Identities=21%  Similarity=0.265  Sum_probs=97.2

Q ss_pred             HHHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHH
Q psy17974        398 IMEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQE  454 (583)
Q Consensus       398 ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~  454 (583)
                      .+..++..+   +.+||+||+|+|||++++.+++.+.-..                    ...++.++-+..+..+++.+
T Consensus        26 ~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviEIDAAs~~~VddIRe  105 (702)
T PRK14960         26 ALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIEIDAASRTKVEDTRE  105 (702)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEEecccccCCHHHHHH
Confidence            345555555   4669999999999999999988762110                    11344455444555666655


Q ss_pred             HHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC
Q psy17974        455 ILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG  534 (583)
Q Consensus       455 ~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~  534 (583)
                      +++. .      .|.|..|++-|++|||+|+-..+      ....|+..++..            ...+.||.+++.+. 
T Consensus       106 li~~-~------~y~P~~gk~KV~IIDEVh~LS~~------A~NALLKtLEEP------------P~~v~FILaTtd~~-  159 (702)
T PRK14960        106 LLDN-V------PYAPTQGRFKVYLIDEVHMLSTH------SFNALLKTLEEP------------PEHVKFLFATTDPQ-  159 (702)
T ss_pred             HHHH-H------hhhhhcCCcEEEEEechHhcCHH------HHHHHHHHHhcC------------CCCcEEEEEECChH-
Confidence            5432 1      23455567778999999997654      234455566531            13456777776543 


Q ss_pred             CCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        535 GRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       535 gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                         .+++.+++|+.++.+..++.+++......+++.
T Consensus       160 ---kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~k  192 (702)
T PRK14960        160 ---KLPITVISRCLQFTLRPLAVDEITKHLGAILEK  192 (702)
T ss_pred             ---hhhHHHHHhhheeeccCCCHHHHHHHHHHHHHH
Confidence               467888899999999999999999888887754

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=3.9e-07  Score=97.32  Aligned_cols=143  Identities=19%  Similarity=0.244  Sum_probs=91.2

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccCC--------------------ceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASNT--------------------WAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~~--------------------~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +...+..+   +.+||+||+|+|||++++.+++.+.-...                    ..+..++-+..+..+++.++
T Consensus        28 l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~~~~~~~~~~~v~~ir~i  107 (363)
T PRK14961         28 ISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDLIEIDAASRTKVEEMREI  107 (363)
T ss_pred             HHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceEEecccccCCHHHHHHH
Confidence            34444444   34699999999999999999987631100                    12222333333455555554


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++ .+.      +.|..+++-|++|||+++...+      ..+.|...++..            ...+.+|.+++.+.  
T Consensus       108 ~~-~~~------~~p~~~~~kviIIDEa~~l~~~------a~naLLk~lEe~------------~~~~~fIl~t~~~~--  160 (363)
T PRK14961        108 LD-NIY------YSPSKSRFKVYLIDEVHMLSRH------SFNALLKTLEEP------------PQHIKFILATTDVE--  160 (363)
T ss_pred             HH-HHh------cCcccCCceEEEEEChhhcCHH------HHHHHHHHHhcC------------CCCeEEEEEcCChH--
Confidence            43 222      3455566778999999986543      233334444421            12456676665443  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        .+.+++.+|+.++.+++++.+++..+...+++.
T Consensus       161 --~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~  193 (363)
T PRK14961        161 --KIPKTILSRCLQFKLKIISEEKIFNFLKYILIK  193 (363)
T ss_pred             --hhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHH
Confidence              588999999999999999999999888776654

>KOG0728|consensus

Probab=98.66  E-value=1.3e-07  Score=92.98  Aligned_cols=141  Identities=22%  Similarity=0.307  Sum_probs=92.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEec
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVD  481 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiD  481 (583)
                      +...+.|||.||||+|||.++++.+..-    ...+  |..   +.++.+|+.|...-. -.+..|. +....+.++|.|
T Consensus       178 IaQPKGvlLygppgtGktLlaraVahht----~c~f--irv---sgselvqk~igegsr-mvrelfvmarehapsiifmd  247 (404)
T KOG0728|consen  178 IAQPKGVLLYGPPGTGKTLLARAVAHHT----DCTF--IRV---SGSELVQKYIGEGSR-MVRELFVMAREHAPSIIFMD  247 (404)
T ss_pred             CCCCcceEEecCCCCchhHHHHHHHhhc----ceEE--EEe---chHHHHHHHhhhhHH-HHHHHHHHHHhcCCceEeee
Confidence            5567899999999999999999988732    2233  333   345678877642211 0112221 234456799999


Q ss_pred             CCCCCCccc-----CCC---C-ChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce---E
Q psy17974        482 DVNMPKLET-----YGA---Q-PPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG---L  549 (583)
Q Consensus       482 Dln~p~~d~-----yg~---q-~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~---v  549 (583)
                      ||+.-....     .|.   | ..+|+|.|+-   ||-.        -.++.+|.|+|.-.    -++|.++|--+   -
T Consensus       248 eidsigs~r~e~~~ggdsevqrtmlellnqld---gfea--------tknikvimatnrid----ild~allrpgridrk  312 (404)
T KOG0728|consen  248 EIDSIGSSRVESGSGGDSEVQRTMLELLNQLD---GFEA--------TKNIKVIMATNRID----ILDPALLRPGRIDRK  312 (404)
T ss_pred             cccccccccccCCCCccHHHHHHHHHHHHhcc---cccc--------ccceEEEEeccccc----cccHhhcCCCccccc
Confidence            999765432     122   1 2578888873   4422        34788888887654    57888888554   4


Q ss_pred             EEeCCCCHHHHHHHHHHHh
Q psy17974        550 LSLPSPTEDTLKVIFKVRT  568 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~~l  568 (583)
                      |.+|+|+++.-..|..-+-
T Consensus       313 iefp~p~e~ar~~ilkihs  331 (404)
T KOG0728|consen  313 IEFPPPNEEARLDILKIHS  331 (404)
T ss_pred             ccCCCCCHHHHHHHHHHhh
Confidence            8999999998877776553

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.66  E-value=3.1e-07  Score=103.86  Aligned_cols=143  Identities=16%  Similarity=0.184  Sum_probs=97.5

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..++..+   +.+||+||+|+|||++++.+++.+.-..                    ...++.++-+.....+++.++
T Consensus        28 L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEIDAas~rgVDdIReL  107 (830)
T PRK07003         28 LTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMDAASNRGVDEMAAL  107 (830)
T ss_pred             HHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEecccccccHHHHHHH
Confidence            44455554   3569999999999999999988762110                    012344444444455555555


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++.-       .|.|..+++-|++|||+|+-..+.     ...+|+. +|.-            -.++.||.+|+.+.  
T Consensus       108 Ie~a-------~~~P~~gr~KVIIIDEah~LT~~A-----~NALLKt-LEEP------------P~~v~FILaTtd~~--  160 (830)
T PRK07003        108 LERA-------VYAPVDARFKVYMIDEVHMLTNHA-----FNAMLKT-LEEP------------PPHVKFILATTDPQ--  160 (830)
T ss_pred             HHHH-------HhccccCCceEEEEeChhhCCHHH-----HHHHHHH-HHhc------------CCCeEEEEEECChh--
Confidence            5322       244556667789999999976542     3456664 4421            13577888888765  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        .|.+.+++||..+.+..++.+++...+..+++.
T Consensus       161 --KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~  193 (830)
T PRK07003        161 --KIPVTVLSRCLQFNLKQMPAGHIVSHLERILGE  193 (830)
T ss_pred             --hccchhhhheEEEecCCcCHHHHHHHHHHHHHH
Confidence              688899999999999999999999888887753

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=98.65  E-value=2e-07  Score=104.28  Aligned_cols=156  Identities=18%  Similarity=0.194  Sum_probs=93.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcc------cCCceEEEEEeccC-CChHHHH-HHHHhhhh--hhcCcccc-----
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLA------SNTWAALTINFSAQ-TSSARTQ-EILEGKLD--KRTKTLLG-----  469 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~------~~~~~~~~i~fS~~-Tt~~~lq-~~ie~~l~--~~~~~~~~-----  469 (583)
                      ...||||+||||||||++++.+.+....      ..+...+.++++.. .+...+. ..+.+-.+  ....+.+|     
T Consensus        85 ~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~  164 (531)
T TIGR02902        85 NPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATTARFDERGIADPLIGSVHDPIYQGAGPLGIAGIP  164 (531)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEccccccCCccccchhhcCCcccchhccccccccCCcc
Confidence            4589999999999999999988653210      11234566666431 1221111 11111000  00011111     


Q ss_pred             -CC-----CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhC------CeeecCCCe----------eEeecCeEEEE
Q psy17974        470 -AP-----LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFG------GLYDRDKMF----------WKTLQDVVLCT  527 (583)
Q Consensus       470 -p~-----~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~------g~yd~~~~~----------~~~i~~i~~ia  527 (583)
                       |.     .....++||||++....+      ..+.|.+.++.+      ++|+..+..          -..-.|+.+|+
T Consensus       165 ~~~~G~l~~a~gG~L~IdEI~~L~~~------~q~~LL~~Le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~rlI~  238 (531)
T TIGR02902       165 QPKPGAVTRAHGGVLFIDEIGELHPV------QMNKLLKVLEDRKVFLDSAYYNSENPNIPSHIHDIFQNGLPADFRLIG  238 (531)
T ss_pred             cccCchhhccCCcEEEEechhhCCHH------HHHHHHHHHHhCeeeeccccccccCcccccchhhhcccCcccceEEEE
Confidence             11     123469999999987655      344555566654      334432210          01124778888


Q ss_pred             ecCC-CCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        528 ACAP-PGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       528 a~~p-~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      |++. |.    .+++.+.+|+..+.+++++.+++..|....++.
T Consensus       239 ATt~~p~----~L~paLrsR~~~I~f~pL~~eei~~Il~~~a~k  278 (531)
T TIGR02902       239 ATTRNPE----EIPPALRSRCVEIFFRPLLDEEIKEIAKNAAEK  278 (531)
T ss_pred             EecCCcc----cCChHHhhhhheeeCCCCCHHHHHHHHHHHHHH
Confidence            7664 43    699999999999999999999999999988764

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.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.64  E-value=4e-07  Score=104.73  Aligned_cols=143  Identities=22%  Similarity=0.262  Sum_probs=93.8

Q ss_pred             HHHHHhcCC--c-eEEEccCCCcHHHHHHHHHHhhcccCCc------------------eEEEEEecc--CCChHHHHHH
Q psy17974        399 MEKLLLVNH--P-VMFTGVTGVGKTVVARSILNKLLASNTW------------------AALTINFSA--QTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~~--~-vLL~Gp~GtGKT~li~~~l~~l~~~~~~------------------~~~~i~fS~--~Tt~~~lq~~  455 (583)
                      +..++..++  + .||+||+|||||++++.+++.+.-....                  ....+.+.+  .+..+.+..+
T Consensus        28 LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviEidAas~~kVDdIReL  107 (944)
T PRK14949         28 LTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIEVDAASRTKVDDTREL  107 (944)
T ss_pred             HHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEEeccccccCHHHHHHH
Confidence            444455542  3 5899999999999999999887321110                  011122233  2444555544


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++ .+.      +.|..|++-|++|||+++-..+      ..+.|+..+|.-            ...+.||.+|+.+.  
T Consensus       108 ie-~v~------~~P~~gk~KViIIDEAh~LT~e------AqNALLKtLEEP------------P~~vrFILaTTe~~--  160 (944)
T PRK14949        108 LD-NVQ------YRPSRGRFKVYLIDEVHMLSRS------SFNALLKTLEEP------------PEHVKFLLATTDPQ--  160 (944)
T ss_pred             HH-HHH------hhhhcCCcEEEEEechHhcCHH------HHHHHHHHHhcc------------CCCeEEEEECCCch--
Confidence            42 222      3344567779999999997655      345555566521            23567787777654  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        .|.+-+++|+.++.+..++.+++......++..
T Consensus       161 --kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~  193 (944)
T PRK14949        161 --KLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQ  193 (944)
T ss_pred             --hchHHHHHhheEEeCCCCCHHHHHHHHHHHHHH
Confidence              588889999999999999999999888777653

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.64  E-value=2.3e-07  Score=107.85  Aligned_cols=141  Identities=24%  Similarity=0.330  Sum_probs=86.6

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC------hHHHHHHHHhhhhhhcCccccCCCCCeEE
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS------SARTQEILEGKLDKRTKTLLGAPLGKRLA  477 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt------~~~lq~~ie~~l~~~~~~~~~p~~gk~~v  477 (583)
                      ..++++||+||||||||++++.+++.+    ....+.++.+...+      ...+..++    +.       +..+.+.|
T Consensus       210 ~~~~giLL~GppGtGKT~laraia~~~----~~~~i~i~~~~i~~~~~g~~~~~l~~lf----~~-------a~~~~p~i  274 (733)
T TIGR01243       210 EPPKGVLLYGPPGTGKTLLAKAVANEA----GAYFISINGPEIMSKYYGESEERLREIF----KE-------AEENAPSI  274 (733)
T ss_pred             CCCceEEEECCCCCChHHHHHHHHHHh----CCeEEEEecHHHhcccccHHHHHHHHHH----HH-------HHhcCCcE
Confidence            346789999999999999999999876    23345555432111      11122221    11       11234679


Q ss_pred             EEecCCCCCCcccCCC--CChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEE
Q psy17974        478 VFVDDVNMPKLETYGA--QPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLS  551 (583)
Q Consensus       478 lfiDDln~p~~d~yg~--q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~  551 (583)
                      +||||++.........  ......+.+++.. .+...        -.++.+|||+|++.    .+++.+.|  +| ..+.
T Consensus       275 l~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~--------~~~vivI~atn~~~----~ld~al~r~gRfd~~i~  342 (733)
T TIGR01243       275 IFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKG--------RGRVIVIGATNRPD----ALDPALRRPGRFDREIV  342 (733)
T ss_pred             EEeehhhhhcccccCCcchHHHHHHHHHHHHhhcccc--------CCCEEEEeecCChh----hcCHHHhCchhccEEEE
Confidence            9999998754432111  1112233333321 12111        13578899999886    68888877  66 4799


Q ss_pred             eCCCCHHHHHHHHHHHhccc
Q psy17974        552 LPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       552 i~~p~~~sl~~I~~~~l~~~  571 (583)
                      ++.|+.+....|+.......
T Consensus       343 i~~P~~~~R~~Il~~~~~~~  362 (733)
T TIGR01243       343 IRVPDKRARKEILKVHTRNM  362 (733)
T ss_pred             eCCcCHHHHHHHHHHHhcCC
Confidence            99999999999998766543

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.

>KOG0743|consensus

Probab=98.63  E-value=2.6e-07  Score=98.11  Aligned_cols=136  Identities=15%  Similarity=0.275  Sum_probs=93.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNM  485 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~  485 (583)
                      ++.-||+||||||||+++.++++.|    +|.+.-++.++...-+++.+++...             ..+.||.|+||+-
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L----~ydIydLeLt~v~~n~dLr~LL~~t-------------~~kSIivIEDIDc  297 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYL----NYDIYDLELTEVKLDSDLRHLLLAT-------------PNKSILLIEDIDC  297 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhc----CCceEEeeeccccCcHHHHHHHHhC-------------CCCcEEEEeeccc
Confidence            3577999999999999999999988    6889999998876666666654221             1255889999997


Q ss_pred             CCc--cc--------CC--CCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cceE-E
Q psy17974        486 PKL--ET--------YG--AQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFGL-L  550 (583)
Q Consensus       486 p~~--d~--------yg--~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~v-i  550 (583)
                      .-.  ++        .|  +.-.+.-|=-++|  |.|.....     ++|. |-|+|...    .|+|+|+|  |.-+ |
T Consensus       298 s~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiD--GlwSscg~-----ERIi-vFTTNh~E----kLDPALlRpGRmDmhI  365 (457)
T KOG0743|consen  298 SFDLRERRKKKKENFEGDLSRVTLSGLLNFLD--GLWSSCGD-----ERII-VFTTNHKE----KLDPALLRPGRMDMHI  365 (457)
T ss_pred             ccccccccccccccccCCcceeehHHhhhhhc--cccccCCC-----ceEE-EEecCChh----hcCHhhcCCCcceeEE
Confidence            521  11        11  1122333333343  33332211     4554 45667665    79999999  4443 9


Q ss_pred             EeCCCCHHHHHHHHHHHhcc
Q psy17974        551 SLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       551 ~i~~p~~~sl~~I~~~~l~~  570 (583)
                      ++.+-+.+.++..++.+|..
T Consensus       366 ~mgyCtf~~fK~La~nYL~~  385 (457)
T KOG0743|consen  366 YMGYCTFEAFKTLASNYLGI  385 (457)
T ss_pred             EcCCCCHHHHHHHHHHhcCC
Confidence            99999999999999999874

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.62  E-value=2.2e-07  Score=92.07  Aligned_cols=135  Identities=15%  Similarity=0.113  Sum_probs=78.7

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      ..+.+++|+||+|||||++++.+++... ......+.++++....  ...+.+    +.     +    .+.-+++|||+
T Consensus        36 ~~~~~lll~G~~G~GKT~la~~~~~~~~-~~~~~~~~i~~~~~~~--~~~~~~----~~-----~----~~~~lLvIDdi   99 (226)
T TIGR03420        36 KGDRFLYLWGESGSGKSHLLQAACAAAE-ERGKSAIYLPLAELAQ--ADPEVL----EG-----L----EQADLVCLDDV   99 (226)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHH-hcCCcEEEEeHHHHHH--hHHHHH----hh-----c----ccCCEEEEeCh
Confidence            4567899999999999999999988653 2344566666654332  111111    11     0    11237899999


Q ss_pred             CCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc---eEEEeCCCCHHHH
Q psy17974        484 NMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF---GLLSLPSPTEDTL  560 (583)
Q Consensus       484 n~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f---~vi~i~~p~~~sl  560 (583)
                      +....+..    -.+.|..+++..  ++.         +..+|.+++.+........+++.+++   .++.+++|+.+++
T Consensus       100 ~~l~~~~~----~~~~L~~~l~~~--~~~---------~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~  164 (226)
T TIGR03420       100 EAIAGQPE----WQEALFHLYNRV--REA---------GGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEK  164 (226)
T ss_pred             hhhcCChH----HHHHHHHHHHHH--HHc---------CCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHH
Confidence            97543311    134444444421  110         12355555543211111226777666   4799999999999


Q ss_pred             HHHHHHHhc
Q psy17974        561 KVIFKVRTS  569 (583)
Q Consensus       561 ~~I~~~~l~  569 (583)
                      ..+......
T Consensus       165 ~~~l~~~~~  173 (226)
T TIGR03420       165 IAALQSRAA  173 (226)
T ss_pred             HHHHHHHHH
Confidence            988877654

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.60  E-value=6.2e-07  Score=99.12  Aligned_cols=135  Identities=19%  Similarity=0.238  Sum_probs=93.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccC------------------------CceEEEEEeccCCChHHHHHHHHhhhhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASN------------------------TWAALTINFSAQTSSARTQEILEGKLDK  462 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~------------------------~~~~~~i~fS~~Tt~~~lq~~ie~~l~~  462 (583)
                      +.+||+||+|||||++++.+++.+.-..                        ...+..++-++.+..+++.++++.. + 
T Consensus        44 ~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a-~-  121 (507)
T PRK06645         44 GGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESA-E-  121 (507)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHH-H-
Confidence            4799999999999999999988762110                        1133344444556677777766442 1 


Q ss_pred             hcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChh
Q psy17974        463 RTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPR  542 (583)
Q Consensus       463 ~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~R  542 (583)
                           +.|-.+++-|++|||+++-..+      ..+.|...++..            ...+.||.+++.+.    .+++.
T Consensus       122 -----~~P~~~~~KVvIIDEa~~Ls~~------a~naLLk~LEep------------p~~~vfI~aTte~~----kI~~t  174 (507)
T PRK06645        122 -----YKPLQGKHKIFIIDEVHMLSKG------AFNALLKTLEEP------------PPHIIFIFATTEVQ----KIPAT  174 (507)
T ss_pred             -----hccccCCcEEEEEEChhhcCHH------HHHHHHHHHhhc------------CCCEEEEEEeCChH----HhhHH
Confidence                 2355567778999999986543      233444445421            23566776665443    58889


Q ss_pred             hhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        543 FVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       543 llr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      +.+++.++.+..++.+++..++..+++.
T Consensus       175 I~SRc~~~ef~~ls~~el~~~L~~i~~~  202 (507)
T PRK06645        175 IISRCQRYDLRRLSFEEIFKLLEYITKQ  202 (507)
T ss_pred             HHhcceEEEccCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999998888763

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.59  E-value=3.9e-07  Score=103.68  Aligned_cols=163  Identities=17%  Similarity=0.216  Sum_probs=103.5

Q ss_pred             hhhHHHHHHHHHhcCC--ce-EEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCChHHHHHHHHhhhhh
Q psy17974        392 TIRFGSIMEKLLLVNH--PV-MFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSSARTQEILEGKLDK  462 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~--~v-LL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~  462 (583)
                      ..+...++...+....  ++ +++|+||||||++++.+++.+...      ..+.++.||+....++..+-..|-..+..
T Consensus       764 IeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIYqvI~qqL~g  843 (1164)
T PTZ00112        764 IKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAYQVLYKQLFN  843 (1164)
T ss_pred             HHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHHHHHHHHHcC
Confidence            3455667777776433  34 599999999999999998776321      13667889997767766544444444411


Q ss_pred             hc--Cc---------ccc--C-CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEe
Q psy17974        463 RT--KT---------LLG--A-PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTA  528 (583)
Q Consensus       463 ~~--~~---------~~~--p-~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa  528 (583)
                      ..  .+         .|.  + ..+...||+|||++.-...   .|   +.|.++++   |.....      ..+.+||+
T Consensus       844 ~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK---~Q---DVLYnLFR---~~~~s~------SKLiLIGI  908 (1164)
T PTZ00112        844 KKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITK---TQ---KVLFTLFD---WPTKIN------SKLVLIAI  908 (1164)
T ss_pred             CCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCcc---HH---HHHHHHHH---HhhccC------CeEEEEEe
Confidence            10  00         111  1 1223468999999976542   12   44555555   221111      24778888


Q ss_pred             cCCCCCCCCCCChhhhccce--EEEeCCCCHHHHHHHHHHHhcc
Q psy17974        529 CAPPGGGRMPLTPRFVRHFG--LLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       529 ~~p~~~gr~~l~~Rllr~f~--vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      +|+-. -...+.+|+.+++.  .+.+++++.++|..|....++.
T Consensus       909 SNdlD-LperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~  951 (1164)
T PTZ00112        909 SNTMD-LPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLEN  951 (1164)
T ss_pred             cCchh-cchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHh
Confidence            88532 11256788888775  4888999999999999988875

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=3.4e-07  Score=102.32  Aligned_cols=142  Identities=15%  Similarity=0.227  Sum_probs=97.8

Q ss_pred             HHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhccc-----CC--------------------ceEEEEEeccCCChH
Q psy17974        399 MEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLAS-----NT--------------------WAALTINFSAQTSSA  450 (583)
Q Consensus       399 l~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~-----~~--------------------~~~~~i~fS~~Tt~~  450 (583)
                      +..++..++   .+||+||+|+|||++++.+++.+.-.     .+                    ..++.++-+..+..+
T Consensus        28 L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~hpDviEIdAas~~gVD  107 (700)
T PRK12323         28 LTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRFVDYIEMDAASNRGVD  107 (700)
T ss_pred             HHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCCCcceEecccccCCHH
Confidence            444555553   56999999999999999998876310     00                    133445544455566


Q ss_pred             HHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecC
Q psy17974        451 RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACA  530 (583)
Q Consensus       451 ~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~  530 (583)
                      ++.++++.-       .|.|..|++-|++|||+|+-..+.     ...||+ .+|.            .-.++.||.+++
T Consensus       108 dIReLie~~-------~~~P~~gr~KViIIDEah~Ls~~A-----aNALLK-TLEE------------PP~~v~FILaTt  162 (700)
T PRK12323        108 EMAQLLDKA-------VYAPTAGRFKVYMIDEVHMLTNHA-----FNAMLK-TLEE------------PPEHVKFILATT  162 (700)
T ss_pred             HHHHHHHHH-------HhchhcCCceEEEEEChHhcCHHH-----HHHHHH-hhcc------------CCCCceEEEEeC
Confidence            666655322       233556677799999999976542     344555 3442            124577888887


Q ss_pred             CCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        531 PPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       531 p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      .+.    .|.+.+++||..+.+..++.+++...+..++.
T Consensus       163 ep~----kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~  197 (700)
T PRK12323        163 DPQ----KIPVTVLSRCLQFNLKQMPPGHIVSHLDAILG  197 (700)
T ss_pred             ChH----hhhhHHHHHHHhcccCCCChHHHHHHHHHHHH
Confidence            665    78899999999999999999999988887765

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=98.59  E-value=1.8e-07  Score=103.93  Aligned_cols=145  Identities=19%  Similarity=0.223  Sum_probs=95.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCC-----------CCeE
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPL-----------GKRL  476 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~-----------gk~~  476 (583)
                      =++|+||||+|||++.+.+++.+. +   .++++......+-        +.+...++...|+-+           .+.-
T Consensus       352 ILcLVGPPGVGKTSLgkSIA~al~-R---kfvR~sLGGvrDE--------AEIRGHRRTYIGamPGrIiQ~mkka~~~NP  419 (782)
T COG0466         352 ILCLVGPPGVGKTSLGKSIAKALG-R---KFVRISLGGVRDE--------AEIRGHRRTYIGAMPGKIIQGMKKAGVKNP  419 (782)
T ss_pred             EEEEECCCCCCchhHHHHHHHHhC-C---CEEEEecCccccH--------HHhccccccccccCChHHHHHHHHhCCcCC
Confidence            457999999999999999999983 2   3556655554442        222222333334322           2345


Q ss_pred             EEEecCCCCCCcccCCCCChHHHHHHHH--HhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCC
Q psy17974        477 AVFVDDVNMPKLETYGAQPPIELLRQFL--DFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPS  554 (583)
Q Consensus       477 vlfiDDln~p~~d~yg~q~~lElLRq~l--d~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~  554 (583)
                      |+.+|||+--..+-.|. |.-.+|.-+-  .+..|-|.-=..-..+.++.||||.|...    .||..|+-|.-+|.+..
T Consensus       420 v~LLDEIDKm~ss~rGD-PaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl~----tIP~PLlDRMEiI~lsg  494 (782)
T COG0466         420 VFLLDEIDKMGSSFRGD-PASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSLD----TIPAPLLDRMEVIRLSG  494 (782)
T ss_pred             eEEeechhhccCCCCCC-hHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCccc----cCChHHhcceeeeeecC
Confidence            78899999877775554 4433442210  11122111000112367899999998764    79999999999999999


Q ss_pred             CCHHHHHHHHHHHhc
Q psy17974        555 PTEDTLKVIFKVRTS  569 (583)
Q Consensus       555 p~~~sl~~I~~~~l~  569 (583)
                      .++++-..|-..+|-
T Consensus       495 Yt~~EKl~IAk~~Li  509 (782)
T COG0466         495 YTEDEKLEIAKRHLI  509 (782)
T ss_pred             CChHHHHHHHHHhcc
Confidence            999999999888773

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.59  E-value=1.4e-07  Score=103.55  Aligned_cols=170  Identities=16%  Similarity=0.192  Sum_probs=94.6

Q ss_pred             CCCCCCccceeeCchhhhHHHHHHHHHhc----CCceEEEccCCCcHHHHHHHHHHhhccc-CCceEEEEEeccCCChHH
Q psy17974        377 DPTMPFFDMMVPTIDTIRFGSIMEKLLLV----NHPVMFTGVTGVGKTVVARSILNKLLAS-NTWAALTINFSAQTSSAR  451 (583)
Q Consensus       377 ~~~~~~~~i~VpT~dt~r~~~ll~~~l~~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~i~fS~~Tt~~~  451 (583)
                      ++...|.+ ||...........+..+...    ..|++|+||+|+|||++++++.+.+... .+..+.+++....+  ..
T Consensus       116 ~~~~tfd~-fv~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~--~~  192 (450)
T PRK00149        116 NPKYTFDN-FVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFT--ND  192 (450)
T ss_pred             CCCCcccc-cccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH--HH
Confidence            33334433 44444443333444444432    2579999999999999999998876322 13455555443221  11


Q ss_pred             HHHHHHhh-hhhhcCccccCCCCCeEEEEecCCCCCCcccCCCC-ChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEec
Q psy17974        452 TQEILEGK-LDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQ-PPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTAC  529 (583)
Q Consensus       452 lq~~ie~~-l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q-~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~  529 (583)
                      +...+... .+... ..|.    +.-+++|||++...... ++| ..+.++..+.+.|              ...++++.
T Consensus       193 ~~~~~~~~~~~~~~-~~~~----~~dlLiiDDi~~l~~~~-~~~~~l~~~~n~l~~~~--------------~~iiits~  252 (450)
T PRK00149        193 FVNALRNNTMEEFK-EKYR----SVDVLLIDDIQFLAGKE-RTQEEFFHTFNALHEAG--------------KQIVLTSD  252 (450)
T ss_pred             HHHHHHcCcHHHHH-HHHh----cCCEEEEehhhhhcCCH-HHHHHHHHHHHHHHHCC--------------CcEEEECC
Confidence            22222110 10000 0111    23389999998754321 112 2334444444422              11355555


Q ss_pred             CCCCCCCCCCChhhhccc---eEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        530 APPGGGRMPLTPRFVRHF---GLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       530 ~p~~~gr~~l~~Rllr~f---~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .+|.. -..+.+|+.+||   .++.+..|+.+.+..|.......
T Consensus       253 ~~p~~-l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~  295 (450)
T PRK00149        253 RPPKE-LPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEE  295 (450)
T ss_pred             CCHHH-HHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHH
Confidence            55541 112779999999   48999999999999999998774

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

Probab=98.58  E-value=1.3e-07  Score=109.75  Aligned_cols=152  Identities=19%  Similarity=0.306  Sum_probs=102.3

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh---hhhhcCcccc-C-CCCCeEEEEecC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK---LDKRTKTLLG-A-PLGKRLAVFVDD  482 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~---l~~~~~~~~~-p-~~gk~~vlfiDD  482 (583)
                      .+||+||||||||.+++.+++.+.    ..++.+++|.......+-.++.+.   .....++.+. . ......|+++||
T Consensus       486 ~~lf~Gp~GvGKT~lA~~la~~l~----~~~~~~d~se~~~~~~~~~lig~~~gyvg~~~~~~l~~~~~~~p~~VvllDE  561 (731)
T TIGR02639       486 SFLFTGPTGVGKTELAKQLAEALG----VHLERFDMSEYMEKHTVSRLIGAPPGYVGFEQGGLLTEAVRKHPHCVLLLDE  561 (731)
T ss_pred             eEEEECCCCccHHHHHHHHHHHhc----CCeEEEeCchhhhcccHHHHhcCCCCCcccchhhHHHHHHHhCCCeEEEEec
Confidence            369999999999999999998772    346777777654432222332111   0000011000 0 011246999999


Q ss_pred             CCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-------C--------------CCCCCh
Q psy17974        483 VNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-------G--------------RMPLTP  541 (583)
Q Consensus       483 ln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-------g--------------r~~l~~  541 (583)
                      ++...++      +...|-|++|.|.+-|. ...-+...++.+|+|+|....       |              +..+.|
T Consensus       562 ieka~~~------~~~~Ll~~ld~g~~~d~-~g~~vd~~~~iii~Tsn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~p  634 (731)
T TIGR02639       562 IEKAHPD------IYNILLQVMDYATLTDN-NGRKADFRNVILIMTSNAGASEMSKPPIGFGSENVESKSDKAIKKLFSP  634 (731)
T ss_pred             hhhcCHH------HHHHHHHhhccCeeecC-CCcccCCCCCEEEECCCcchhhhhhccCCcchhhhHHHHHHHHHhhcCh
Confidence            9977654      67889999997766553 334456678889999886421       1              123678


Q ss_pred             hhhccce-EEEeCCCCHHHHHHHHHHHhcc
Q psy17974        542 RFVRHFG-LLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       542 Rllr~f~-vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .|+.|+. ++.+.+.+.+++..|....++.
T Consensus       635 ef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~~  664 (731)
T TIGR02639       635 EFRNRLDAIIHFNPLSEEVLEKIVQKFVDE  664 (731)
T ss_pred             HHHhcCCeEEEcCCCCHHHHHHHHHHHHHH
Confidence            8888995 8999999999999999998864

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.58  E-value=2.7e-07  Score=102.46  Aligned_cols=143  Identities=18%  Similarity=0.212  Sum_probs=96.3

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..++..+   +..|++||+|+|||++++.+++.+.-..                    .-.++.++-++.+..+++.++
T Consensus        28 L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~eidaas~~~v~~iR~l  107 (509)
T PRK14958         28 LSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEVDAASRTKVEDTREL  107 (509)
T ss_pred             HHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEEcccccCCHHHHHHH
Confidence            34444443   3479999999999999999988762110                    012455665556666776665


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++. +.      |.|..|++-|++|||+||-..+.      .+.|+..+|.-            ...+.||.+++.+.  
T Consensus       108 ~~~-~~------~~p~~~~~kV~iIDE~~~ls~~a------~naLLk~LEep------------p~~~~fIlattd~~--  160 (509)
T PRK14958        108 LDN-IP------YAPTKGRFKVYLIDEVHMLSGHS------FNALLKTLEEP------------PSHVKFILATTDHH--  160 (509)
T ss_pred             HHH-Hh------hccccCCcEEEEEEChHhcCHHH------HHHHHHHHhcc------------CCCeEEEEEECChH--
Confidence            432 22      34666777799999999976652      33344455521            23567777776553  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        .+++.+.+++.++.+..++.+++......+++.
T Consensus       161 --kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~  193 (509)
T PRK14958        161 --KLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKE  193 (509)
T ss_pred             --hchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHH
Confidence              577779999999999999999988777766653

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.57  E-value=1.1e-07  Score=101.66  Aligned_cols=152  Identities=20%  Similarity=0.261  Sum_probs=87.2

Q ss_pred             HHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcc---cCCceEEEE-----------------Ee-ccCCChHHHH
Q psy17974        395 FGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLA---SNTWAALTI-----------------NF-SAQTSSARTQ  453 (583)
Q Consensus       395 ~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~---~~~~~~~~i-----------------~f-S~~Tt~~~lq  453 (583)
                      ...-+......|+|+|++||||||||++++.+-.-++.   ++-..+..|                 .| ++.-++ ..-
T Consensus       187 AKrAleiAAAGgHnLl~~GpPGtGKTmla~Rl~~lLPpls~~E~lE~s~I~s~~g~~~~~~~~~~~rPFr~PHHsa-S~~  265 (490)
T COG0606         187 AKRALEIAAAGGHNLLLVGPPGTGKTMLASRLPGLLPPLSIPEALEVSAIHSLAGDLHEGCPLKIHRPFRAPHHSA-SLA  265 (490)
T ss_pred             HHHHHHHHHhcCCcEEEecCCCCchHHhhhhhcccCCCCChHHHHHHHHHhhhcccccccCccceeCCccCCCccc-hHH
Confidence            34456777889999999999999999999865443311   110000000                 00 000000 000


Q ss_pred             HHHHhhhhhhcCccccCC---CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCee-ecCCCeeEeecCeEEEEec
Q psy17974        454 EILEGKLDKRTKTLLGAP---LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY-DRDKMFWKTLQDVVLCTAC  529 (583)
Q Consensus       454 ~~ie~~l~~~~~~~~~p~---~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~y-d~~~~~~~~i~~i~~iaa~  529 (583)
                      .+     . -.++.+.|.   -....|+|+||+---..      .++|.|||-+|.|-.- .+.........++++|+||
T Consensus       266 aL-----v-GGG~~p~PGeIsLAH~GVLFLDElpef~~------~iLe~LR~PLE~g~i~IsRa~~~v~ypa~Fqlv~Am  333 (490)
T COG0606         266 AL-----V-GGGGVPRPGEISLAHNGVLFLDELPEFKR------SILEALREPLENGKIIISRAGSKVTYPARFQLVAAM  333 (490)
T ss_pred             HH-----h-CCCCCCCCCceeeecCCEEEeeccchhhH------HHHHHHhCccccCcEEEEEcCCeeEEeeeeEEhhhc
Confidence            00     0 011233332   23467999999743222      5899999999998654 3334455566899999999


Q ss_pred             CCCC-C--C----C------------CCCChhhhccce-EEEeCCCCHHH
Q psy17974        530 APPG-G--G----R------------MPLTPRFVRHFG-LLSLPSPTEDT  559 (583)
Q Consensus       530 ~p~~-~--g----r------------~~l~~Rllr~f~-vi~i~~p~~~s  559 (583)
                      ||.- |  |    |            +.++.-|++++- .+.++.++..+
T Consensus       334 NpcpcG~~~~~~~~C~c~~~~~~~Y~~klSgp~lDRiDl~vev~~~~~~e  383 (490)
T COG0606         334 NPCPCGNLGAPLRRCPCSPRQIKRYLNKLSGPFLDRIDLMVEVPRLSAGE  383 (490)
T ss_pred             CCCCccCCCCCCCCcCCCHHHHHHHHHHhhHHHHhhhhheecccCCCHHH
Confidence            9952 2  1    1            234555666765 56666666433

>smart00350 MCM minichromosome maintenance proteins

Probab=98.57  E-value=1.5e-07  Score=104.85  Aligned_cols=154  Identities=12%  Similarity=0.137  Sum_probs=89.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEE-EEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALT-INFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNM  485 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~-i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~  485 (583)
                      .||||+|+||||||++++.+.+..+ ...|.... .+.... ++..+.+...+...- ..|.+.  .....+++|||+|.
T Consensus       237 ~~vLL~G~pGtGKs~lar~l~~~~~-r~~~~~~~~~~~~~l-~~~~~~~~~~g~~~~-~~G~l~--~A~~Gil~iDEi~~  311 (509)
T smart00350      237 INILLLGDPGTAKSQLLKYVEKTAP-RAVYTTGKGSSAVGL-TAAVTRDPETREFTL-EGGALV--LADNGVCCIDEFDK  311 (509)
T ss_pred             ceEEEeCCCChhHHHHHHHHHHHcC-cceEcCCCCCCcCCc-cccceEccCcceEEe-cCccEE--ecCCCEEEEechhh
Confidence            3899999999999999998887542 11111000 000001 111110000000000 011111  12345899999997


Q ss_pred             CCcccCCCCChHHHHHHHHHhCCee-ecCCCeeEeecCeEEEEecCCCCCCC----------CCCChhhhccceE--EEe
Q psy17974        486 PKLETYGAQPPIELLRQFLDFGGLY-DRDKMFWKTLQDVVLCTACAPPGGGR----------MPLTPRFVRHFGL--LSL  552 (583)
Q Consensus       486 p~~d~yg~q~~lElLRq~ld~~g~y-d~~~~~~~~i~~i~~iaa~~p~~~gr----------~~l~~Rllr~f~v--i~i  552 (583)
                      ...+      ....|.+.++.+..- .+.......-.++.+|||+||-.| +          ..+++.+++||-+  +..
T Consensus       312 l~~~------~q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~g-~y~~~~~~~~n~~l~~~lLsRFdLi~~~~  384 (509)
T smart00350      312 MDDS------DRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIGG-RYDPKLTPEENIDLPAPILSRFDLLFVVL  384 (509)
T ss_pred             CCHH------HHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCCc-ccCCCcChhhccCCChHHhCceeeEEEec
Confidence            5443      345566677765432 222222333368999999999753 2          2799999999953  566


Q ss_pred             CCCCHHHHHHHHHHHhcccc
Q psy17974        553 PSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       553 ~~p~~~sl~~I~~~~l~~~l  572 (583)
                      ++|+.+.-..|...++..|-
T Consensus       385 d~~~~~~d~~i~~~i~~~~~  404 (509)
T smart00350      385 DEVDEERDRELAKHVVDLHR  404 (509)
T ss_pred             CCCChHHHHHHHHHHHHhhc
Confidence            88999988888888876553

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.56  E-value=2.4e-07  Score=100.43  Aligned_cols=170  Identities=16%  Similarity=0.203  Sum_probs=91.6

Q ss_pred             CCCCCCccceeeCchhhhHHHHHHHHHhc----CCceEEEccCCCcHHHHHHHHHHhhccc-CCceEEEEEeccCCChHH
Q psy17974        377 DPTMPFFDMMVPTIDTIRFGSIMEKLLLV----NHPVMFTGVTGVGKTVVARSILNKLLAS-NTWAALTINFSAQTSSAR  451 (583)
Q Consensus       377 ~~~~~~~~i~VpT~dt~r~~~ll~~~l~~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~i~fS~~Tt~~~  451 (583)
                      ++.-.|. -||...+.......+..+.+.    ..|++|+||+|+|||++++++.+.+... .+..+++++.+.-.  ..
T Consensus       104 ~~~~tfd-~fi~g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~--~~  180 (405)
T TIGR00362       104 NPKYTFD-NFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFT--ND  180 (405)
T ss_pred             CCCCccc-ccccCCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHH--HH
Confidence            3333343 344455444333444444443    2478999999999999999998876321 13456666532211  11


Q ss_pred             HHHHHHh-hhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCC-ChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEec
Q psy17974        452 TQEILEG-KLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQ-PPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTAC  529 (583)
Q Consensus       452 lq~~ie~-~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q-~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~  529 (583)
                      +...+.. ..+... ..+.    +.-+++|||++...... ++| ..+.++..+.+.+              ...++++.
T Consensus       181 ~~~~~~~~~~~~~~-~~~~----~~dlLiiDDi~~l~~~~-~~~~~l~~~~n~~~~~~--------------~~iiits~  240 (405)
T TIGR00362       181 FVNALRNNKMEEFK-EKYR----SVDLLLIDDIQFLAGKE-RTQEEFFHTFNALHENG--------------KQIVLTSD  240 (405)
T ss_pred             HHHHHHcCCHHHHH-HHHH----hCCEEEEehhhhhcCCH-HHHHHHHHHHHHHHHCC--------------CCEEEecC
Confidence            1111110 010000 0111    12378999999754321 112 1233343333321              11244443


Q ss_pred             CCCCCCCCCCChhhhccce---EEEeCCCCHHHHHHHHHHHhcc
Q psy17974        530 APPGGGRMPLTPRFVRHFG---LLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       530 ~p~~~gr~~l~~Rllr~f~---vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .+|.. -..+.+|+.++|.   ++.++.|+.++...|.......
T Consensus       241 ~~p~~-l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~  283 (405)
T TIGR00362       241 RPPKE-LPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEE  283 (405)
T ss_pred             CCHHH-HhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHH
Confidence            44431 1236789988884   7999999999999999988765

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).

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.56  E-value=9.5e-07  Score=98.33  Aligned_cols=143  Identities=20%  Similarity=0.251  Sum_probs=94.1

Q ss_pred             HHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +...+..++   .+||+||+|+|||++++.+++.+.-..                    ...++.++-+..+..+++.++
T Consensus        28 L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieidaas~~gvd~ir~i  107 (546)
T PRK14957         28 LVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEIDAASRTGVEETKEI  107 (546)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEeecccccCHHHHHHH
Confidence            344555543   478999999999999999988763110                    012333444444555555554


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++ .+.      +.|..|++-|++|||+++-..+      ..+.|+..+|..            ...+.||.+|+.+.  
T Consensus       108 i~-~~~------~~p~~g~~kViIIDEa~~ls~~------a~naLLK~LEep------------p~~v~fIL~Ttd~~--  160 (546)
T PRK14957        108 LD-NIQ------YMPSQGRYKVYLIDEVHMLSKQ------SFNALLKTLEEP------------PEYVKFILATTDYH--  160 (546)
T ss_pred             HH-HHH------hhhhcCCcEEEEEechhhccHH------HHHHHHHHHhcC------------CCCceEEEEECChh--
Confidence            43 222      2344566679999999876543      455666666642            13466777665432  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        .+.+.+.+|+.++.+..++.+++......+++.
T Consensus       161 --kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~  193 (546)
T PRK14957        161 --KIPVTILSRCIQLHLKHISQADIKDQLKIILAK  193 (546)
T ss_pred             --hhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHH
Confidence              567779999999999999999998888777654

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.55  E-value=8.7e-07  Score=97.35  Aligned_cols=143  Identities=21%  Similarity=0.192  Sum_probs=99.9

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhc--------------------ccCCceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLL--------------------ASNTWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~--------------------~~~~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +...+..|   ++.||+||+|+|||++++.+++.+.                    +.....++.++-++.+..+++..+
T Consensus        25 L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas~~~vddIR~I  104 (491)
T PRK14964         25 LRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDIKVI  104 (491)
T ss_pred             HHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEecccCCCHHHHHHH
Confidence            44444444   4699999999999999998887541                    012345566777777777887776


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++.- .      |.|-.+++-|++|||+|+-..+      ..+.|.-.+|.-            ...+.||.+++.+.  
T Consensus       105 ie~~-~------~~P~~~~~KVvIIDEah~Ls~~------A~NaLLK~LEeP------------p~~v~fIlatte~~--  157 (491)
T PRK14964        105 LENS-C------YLPISSKFKVYIIDEVHMLSNS------AFNALLKTLEEP------------APHVKFILATTEVK--  157 (491)
T ss_pred             HHHH-H------hccccCCceEEEEeChHhCCHH------HHHHHHHHHhCC------------CCCeEEEEEeCChH--
Confidence            6432 2      3455566778999999987653      344455555521            13466776665443  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        .+.+.+.+|+.++.+..++.+++......+.+.
T Consensus       158 --Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~  190 (491)
T PRK14964        158 --KIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKK  190 (491)
T ss_pred             --HHHHHHHHhheeeecccccHHHHHHHHHHHHHH
Confidence              588999999999999999999999888877653

>KOG0742|consensus

Probab=98.55  E-value=6.8e-07  Score=93.26  Aligned_cols=172  Identities=17%  Similarity=0.226  Sum_probs=105.7

Q ss_pred             CCCCccceeeCchhhhHHHHHHHHHhcC------CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHH
Q psy17974        379 TMPFFDMMVPTIDTIRFGSIMEKLLLVN------HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSART  452 (583)
Q Consensus       379 ~~~~~~i~VpT~dt~r~~~ll~~~l~~~------~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~l  452 (583)
                      ..++.+++.++.=-.|...+...-...+      +|+|++||||||||+.++.++..-    +.....++- ...-|---
T Consensus       351 k~pl~~ViL~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~S----GlDYA~mTG-GDVAPlG~  425 (630)
T KOG0742|consen  351 KDPLEGVILHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARHS----GLDYAIMTG-GDVAPLGA  425 (630)
T ss_pred             CCCcCCeecCHHHHHHHHHHHHHhcccccccchhhheeeeCCCCCCchHHHHHHHhhc----CCceehhcC-CCccccch
Confidence            4567788887766666666554333222      589999999999999999998753    333322211 11111111


Q ss_pred             H--HHHHhhhhhhcCccccCCCCCeEEEEecCCCCC--Cccc-CCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEE
Q psy17974        453 Q--EILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP--KLET-YGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCT  527 (583)
Q Consensus       453 q--~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p--~~d~-yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~ia  527 (583)
                      |  ..|..-++.      +....+-+++||||.+.-  ...+ |=+..--..|..++-.-|     +    .-.|+.++.
T Consensus       426 qaVTkiH~lFDW------akkS~rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfRTG-----d----qSrdivLvl  490 (630)
T KOG0742|consen  426 QAVTKIHKLFDW------AKKSRRGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFRTG-----D----QSRDIVLVL  490 (630)
T ss_pred             HHHHHHHHHHHH------HhhcccceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhc-----c----cccceEEEe
Confidence            1  112222232      123455689999998742  2222 222112223444432222     1    124788999


Q ss_pred             ecCCCCCCCCCCChhhhccce-EEEeCCCCHHHHHHHHHHHhcccccC
Q psy17974        528 ACAPPGGGRMPLTPRFVRHFG-LLSLPSPTEDTLKVIFKVRTSPGKQE  574 (583)
Q Consensus       528 a~~p~~~gr~~l~~Rllr~f~-vi~i~~p~~~sl~~I~~~~l~~~l~~  574 (583)
                      |+|.|+    +++.....++. +|.+|.|.+++-..+..-+++.|+..
T Consensus       491 AtNrpg----dlDsAV~DRide~veFpLPGeEERfkll~lYlnkyi~~  534 (630)
T KOG0742|consen  491 ATNRPG----DLDSAVNDRIDEVVEFPLPGEEERFKLLNLYLNKYILK  534 (630)
T ss_pred             ccCCcc----chhHHHHhhhhheeecCCCChHHHHHHHHHHHHHHhcC
Confidence            999998    67777777775 89999999999999999999988754

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.53  E-value=2.1e-07  Score=109.24  Aligned_cols=155  Identities=19%  Similarity=0.240  Sum_probs=107.1

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh---hhhhcCcccc-C-CCCCeEEEEecCC
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK---LDKRTKTLLG-A-PLGKRLAVFVDDV  483 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~---l~~~~~~~~~-p-~~gk~~vlfiDDl  483 (583)
                      +||+||||||||.++++++..+.. ..-.++.+++|..+.+..+.+++.+.   .....+|.+. . ......|+++||+
T Consensus       599 ~lf~Gp~GvGKT~lA~~La~~l~~-~~~~~~~~dmse~~~~~~~~~l~g~~~gyvg~~~~g~L~~~v~~~p~svvllDEi  677 (852)
T TIGR03345       599 FLLVGPSGVGKTETALALAELLYG-GEQNLITINMSEFQEAHTVSRLKGSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEV  677 (852)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhC-CCcceEEEeHHHhhhhhhhccccCCCCCcccccccchHHHHHHhCCCcEEEEech
Confidence            699999999999999999888732 23356788888766554444333221   1111111110 0 1123569999999


Q ss_pred             CCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-------CC------------------CC
Q psy17974        484 NMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-------GR------------------MP  538 (583)
Q Consensus       484 n~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-------gr------------------~~  538 (583)
                      .-..+      .+.++|-|++|+|...|.. ..-+..++..+|.|+|-+..       +.                  ..
T Consensus       678 eka~~------~v~~~Llq~ld~g~l~d~~-Gr~vd~~n~iiI~TSNlg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  750 (852)
T TIGR03345       678 EKAHP------DVLELFYQVFDKGVMEDGE-GREIDFKNTVILLTSNAGSDLIMALCADPETAPDPEALLEALRPELLKV  750 (852)
T ss_pred             hhcCH------HHHHHHHHHhhcceeecCC-CcEEeccccEEEEeCCCchHHHHHhccCcccCcchHHHHHHHHHHHHHh
Confidence            64433      4788999999998777654 45677889999999885421       10                  22


Q ss_pred             CChhhhccceEEEeCCCCHHHHHHHHHHHhccc
Q psy17974        539 LTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       539 l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      +.|.|++|+.+|.+.+.+.+++..|....+...
T Consensus       751 f~PEflnRi~iI~F~pLs~e~l~~Iv~~~L~~l  783 (852)
T TIGR03345       751 FKPAFLGRMTVIPYLPLDDDVLAAIVRLKLDRI  783 (852)
T ss_pred             ccHHHhcceeEEEeCCCCHHHHHHHHHHHHHHH
Confidence            677888899999999999999999999888654

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.

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=98.52  E-value=1.4e-06  Score=86.62  Aligned_cols=142  Identities=21%  Similarity=0.392  Sum_probs=91.3

Q ss_pred             HHHHhc--CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHH--HHhhhhhhcCccccCCCCCe
Q psy17974        400 EKLLLV--NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEI--LEGKLDKRTKTLLGAPLGKR  475 (583)
Q Consensus       400 ~~~l~~--~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~--ie~~l~~~~~~~~~p~~gk~  475 (583)
                      ..+++.  ..||||.|+.|||||+++++++..+. ..+..++.+.      .+++..+  |...+..         ...+
T Consensus        44 ~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~-~~GLRlIev~------k~~L~~l~~l~~~l~~---------~~~k  107 (249)
T PF05673_consen   44 EQFLQGLPANNVLLWGARGTGKSSLVKALLNEYA-DQGLRLIEVS------KEDLGDLPELLDLLRD---------RPYK  107 (249)
T ss_pred             HHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHh-hcCceEEEEC------HHHhccHHHHHHHHhc---------CCCC
Confidence            444443  36999999999999999999999874 4456666553      2333221  1111111         1247


Q ss_pred             EEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC----C--CCCC-----CCCh---
Q psy17974        476 LAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP----G--GGRM-----PLTP---  541 (583)
Q Consensus       476 ~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~----~--~gr~-----~l~~---  541 (583)
                      .||||||+.....|.     ---.|+.++| ||.-.+       .+|+.+.||.|.=    .  .-+.     ++-+   
T Consensus       108 FIlf~DDLsFe~~d~-----~yk~LKs~Le-Ggle~~-------P~NvliyATSNRRHLv~E~~~d~~~~~~~eih~~d~  174 (249)
T PF05673_consen  108 FILFCDDLSFEEGDT-----EYKALKSVLE-GGLEAR-------PDNVLIYATSNRRHLVPESFSDREDIQDDEIHPSDT  174 (249)
T ss_pred             EEEEecCCCCCCCcH-----HHHHHHHHhc-CccccC-------CCcEEEEEecchhhccchhhhhccCCCccccCcchH
Confidence            899999998876663     3467888998 444332       4578888888731    1  0111     1211   


Q ss_pred             -----hhhccce-EEEeCCCCHHHHHHHHHHHhcc
Q psy17974        542 -----RFVRHFG-LLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       542 -----Rllr~f~-vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                           .|.-||- .|.+.+|+++.-..|...+++.
T Consensus       175 ~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~~  209 (249)
T PF05673_consen  175 IEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAER  209 (249)
T ss_pred             HHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHHH
Confidence                 3455675 6999999999988888777753

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.51  E-value=8.7e-07  Score=104.30  Aligned_cols=157  Identities=18%  Similarity=0.260  Sum_probs=103.3

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh---hhhhcCccc-cC-CCCCeEEEEecC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK---LDKRTKTLL-GA-PLGKRLAVFVDD  482 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~---l~~~~~~~~-~p-~~gk~~vlfiDD  482 (583)
                      ++||+||+|||||.+++.++..+.. .....+.+++|.........+++...   .....++.+ .. ......|+++||
T Consensus       600 ~~Lf~Gp~G~GKT~lA~aLa~~l~~-~~~~~i~id~se~~~~~~~~~LiG~~pgy~g~~~~g~l~~~v~~~p~~vLllDE  678 (857)
T PRK10865        600 SFLFLGPTGVGKTELCKALANFMFD-SDDAMVRIDMSEFMEKHSVSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDE  678 (857)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhhc-CCCcEEEEEhHHhhhhhhHHHHhCCCCcccccchhHHHHHHHHhCCCCeEEEee
Confidence            5899999999999999999887632 23356777777654332222222110   000000000 00 001125999999


Q ss_pred             CCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC------C---------------CCCCCh
Q psy17974        483 VNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG------G---------------RMPLTP  541 (583)
Q Consensus       483 ln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~------g---------------r~~l~~  541 (583)
                      +....++      +...|.|+++.|.+-|. ....+...+..+|+|+|....      |               +..+.|
T Consensus       679 ieka~~~------v~~~Ll~ile~g~l~d~-~gr~vd~rn~iiI~TSN~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~P  751 (857)
T PRK10865        679 VEKAHPD------VFNILLQVLDDGRLTDG-QGRTVDFRNTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRP  751 (857)
T ss_pred             hhhCCHH------HHHHHHHHHhhCceecC-CceEEeecccEEEEeCCcchHHHHHhccccchHHHHHHHHHHHcccccH
Confidence            9866554      67889999998866553 345566778889999887421      0               234678


Q ss_pred             hhhccc-eEEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        542 RFVRHF-GLLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       542 Rllr~f-~vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      .|+.++ .++.+.+++.+.+..|....+....
T Consensus       752 ELlnRld~iivF~PL~~edl~~Iv~~~L~~l~  783 (857)
T PRK10865        752 EFINRIDEVVVFHPLGEQHIASIAQIQLQRLY  783 (857)
T ss_pred             HHHHhCCeeEecCCCCHHHHHHHHHHHHHHHH
Confidence            899999 6888899999999999999887643

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

Probab=98.51  E-value=5.9e-07  Score=97.05  Aligned_cols=152  Identities=19%  Similarity=0.302  Sum_probs=85.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChH----HHHHHHHhhhhhhcCccccCCCCCeEEEEec
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA----RTQEILEGKLDKRTKTLLGAPLGKRLAVFVD  481 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~----~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiD  481 (583)
                      +.++||+||||||||++++.+++.+    +..++.++.+..+.+.    ++...+..-+.. ..  +......+.|+|||
T Consensus       108 ~~~iLl~Gp~GtGKT~lAr~lA~~l----~~pf~~id~~~l~~~gyvG~d~e~~l~~l~~~-~~--~~~~~a~~gIi~iD  180 (412)
T PRK05342        108 KSNILLIGPTGSGKTLLAQTLARIL----DVPFAIADATTLTEAGYVGEDVENILLKLLQA-AD--YDVEKAQRGIVYID  180 (412)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh----CCCceecchhhcccCCcccchHHHHHHHHHHh-cc--ccHHHcCCcEEEEe
Confidence            4689999999999999999998876    2345555555544321    222332222221 11  11122346799999


Q ss_pred             CCCCCCcccCC--------CCChHHHHHHHHHhCCeeec-C-C------CeeE--eecCeEEEEecCCCC----------
Q psy17974        482 DVNMPKLETYG--------AQPPIELLRQFLDFGGLYDR-D-K------MFWK--TLQDVVLCTACAPPG----------  533 (583)
Q Consensus       482 Dln~p~~d~yg--------~q~~lElLRq~ld~~g~yd~-~-~------~~~~--~i~~i~~iaa~~p~~----------  533 (583)
                      |++.......+        ...+...|-+++| |+.... + .      ..+.  .-.|+.|||+-+-++          
T Consensus       181 EIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Le-g~~~~v~~~gg~~~~~~~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~  259 (412)
T PRK05342        181 EIDKIARKSENPSITRDVSGEGVQQALLKILE-GTVASVPPQGGRKHPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLG  259 (412)
T ss_pred             chhhhccccCCCCcCCCcccHHHHHHHHHHHh-cCeEEeCCCCCcCcCCCCeEEeccCCceeeecccccCcHHHHHHHHh
Confidence            99987654211        1124455556667 443221 1 1      1111  224555553322110          


Q ss_pred             ----C-C---C--C--------------------CCChhhhccce-EEEeCCCCHHHHHHHHH
Q psy17974        534 ----G-G---R--M--------------------PLTPRFVRHFG-LLSLPSPTEDTLKVIFK  565 (583)
Q Consensus       534 ----~-g---r--~--------------------~l~~Rllr~f~-vi~i~~p~~~sl~~I~~  565 (583)
                          | +   +  .                    -+.|.|+.|+. ++.+.+.+.++|..|..
T Consensus       260 ~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PEflgRld~iv~f~~L~~~~L~~Il~  322 (412)
T PRK05342        260 KKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPEFIGRLPVVATLEELDEEALVRILT  322 (412)
T ss_pred             hcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHHHhCCCCeeeecCCCCHHHHHHHHH
Confidence                0 0   0  0                    14667777775 78888999999999997

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

Probab=98.51  E-value=2.8e-07  Score=104.84  Aligned_cols=158  Identities=16%  Similarity=0.257  Sum_probs=103.3

Q ss_pred             HHHHHHHhc-CCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc
Q psy17974        397 SIMEKLLLV-NHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG  469 (583)
Q Consensus       397 ~ll~~~l~~-~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~  469 (583)
                      .+++.|... +.|.+|+|+||+|||+++..++...-+.      .+..++.+..++..-...    +.+.++.|-+++..
T Consensus       181 r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAGak----yRGeFEeRlk~vl~  256 (786)
T COG0542         181 RTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAK----YRGEFEERLKAVLK  256 (786)
T ss_pred             HHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhcccc----ccCcHHHHHHHHHH
Confidence            345555554 4588999999999999999998765221      234454554443221111    22334444444432


Q ss_pred             CC-CCCeEEEEecCCCCCCccc--CC-CCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-CCCCCChhhh
Q psy17974        470 AP-LGKRLAVFVDDVNMPKLET--YG-AQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLTPRFV  544 (583)
Q Consensus       470 p~-~gk~~vlfiDDln~p~~d~--yg-~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-gr~~l~~Rll  544 (583)
                      .- ...+.|+||||+|+.--..  -| +-.+..+|...+..|              .+++|||++.... ...+=+++|.
T Consensus       257 ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARG--------------eL~~IGATT~~EYRk~iEKD~AL~  322 (786)
T COG0542         257 EVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARG--------------ELRCIGATTLDEYRKYIEKDAALE  322 (786)
T ss_pred             HHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcC--------------CeEEEEeccHHHHHHHhhhchHHH
Confidence            21 1228899999999854221  11 234667888887755              4678999876542 2356689999


Q ss_pred             ccceEEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        545 RHFGLLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       545 r~f~vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      |||..|.+++|+.++-..|...+-..+-
T Consensus       323 RRFQ~V~V~EPs~e~ti~ILrGlk~~yE  350 (786)
T COG0542         323 RRFQKVLVDEPSVEDTIAILRGLKERYE  350 (786)
T ss_pred             hcCceeeCCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999887755443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.51  E-value=2.2e-06  Score=82.75  Aligned_cols=132  Identities=20%  Similarity=0.277  Sum_probs=83.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhccc--------------------CCceEEEEEeccC-CChHHHHHHHHhhhhhhcC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLAS--------------------NTWAALTINFSAQ-TSSARTQEILEGKLDKRTK  465 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~--------------------~~~~~~~i~fS~~-Tt~~~lq~~ie~~l~~~~~  465 (583)
                      +.+||+||+|+|||++++.+++.+...                    .......+...+. .+.+++..++ ..+..   
T Consensus        15 ~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~~i~-~~~~~---   90 (188)
T TIGR00678        15 HAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVRELV-EFLSR---   90 (188)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHHHHH-HHHcc---
Confidence            358999999999999999998876321                    0111233433332 3334444433 22321   


Q ss_pred             ccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc
Q psy17974        466 TLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR  545 (583)
Q Consensus       466 ~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr  545 (583)
                         .|..+.+-|++|||++....+      ..+.|...++..            -.++.+|.+++.+    ..+.+.+.+
T Consensus        91 ---~~~~~~~kviiide~~~l~~~------~~~~Ll~~le~~------------~~~~~~il~~~~~----~~l~~~i~s  145 (188)
T TIGR00678        91 ---TPQESGRRVVIIEDAERMNEA------AANALLKTLEEP------------PPNTLFILITPSP----EKLLPTIRS  145 (188)
T ss_pred             ---CcccCCeEEEEEechhhhCHH------HHHHHHHHhcCC------------CCCeEEEEEECCh----HhChHHHHh
Confidence               233455668899998765443      244455555521            1245566666544    368899999


Q ss_pred             cceEEEeCCCCHHHHHHHHHHH
Q psy17974        546 HFGLLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       546 ~f~vi~i~~p~~~sl~~I~~~~  567 (583)
                      ++.++.+++|+.+++..+....
T Consensus       146 r~~~~~~~~~~~~~~~~~l~~~  167 (188)
T TIGR00678       146 RCQVLPFPPLSEEALLQWLIRQ  167 (188)
T ss_pred             hcEEeeCCCCCHHHHHHHHHHc
Confidence            9999999999999998887765

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.50  E-value=5.3e-07  Score=100.72  Aligned_cols=141  Identities=15%  Similarity=0.175  Sum_probs=81.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcc-cCCceEEEEEeccCCChHHHHHHHHh-hhhhhcCccccCCCCCeEEEEecCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLA-SNTWAALTINFSAQTSSARTQEILEG-KLDKRTKTLLGAPLGKRLAVFVDDVN  484 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~-~~~~~~~~i~fS~~Tt~~~lq~~ie~-~l~~~~~~~~~p~~gk~~vlfiDDln  484 (583)
                      .+++|+|++|+|||.|++++.+.+.. ..++.+.+++...-+  +.+...+.. .++... ..|.    +.-+++||||+
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~--~el~~al~~~~~~~f~-~~y~----~~DLLlIDDIq  387 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFT--NEFINSIRDGKGDSFR-RRYR----EMDILLVDDIQ  387 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHH--HHHHHHHHhccHHHHH-HHhh----cCCEEEEehhc
Confidence            46999999999999999999886532 124556665432211  111111111 111111 1111    12478999999


Q ss_pred             CCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecC-CCCCCCCCCChhhhccce---EEEeCCCCHHHH
Q psy17974        485 MPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACA-PPGGGRMPLTPRFVRHFG---LLSLPSPTEDTL  560 (583)
Q Consensus       485 ~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~-p~~~gr~~l~~Rllr~f~---vi~i~~p~~~sl  560 (583)
                      .-..........++++..+.+.|               -++|.|++ +|. .-..+.+||.+||.   ++.|..|+.+..
T Consensus       388 ~l~gke~tqeeLF~l~N~l~e~g---------------k~IIITSd~~P~-eL~~l~~rL~SRf~~GLvv~I~~PD~EtR  451 (617)
T PRK14086        388 FLEDKESTQEEFFHTFNTLHNAN---------------KQIVLSSDRPPK-QLVTLEDRLRNRFEWGLITDVQPPELETR  451 (617)
T ss_pred             cccCCHHHHHHHHHHHHHHHhcC---------------CCEEEecCCChH-hhhhccHHHHhhhhcCceEEcCCCCHHHH
Confidence            76543211112334444444322               12344444 343 22357899999994   899999999999


Q ss_pred             HHHHHHHhcc
Q psy17974        561 KVIFKVRTSP  570 (583)
Q Consensus       561 ~~I~~~~l~~  570 (583)
                      ..|.......
T Consensus       452 ~aIL~kka~~  461 (617)
T PRK14086        452 IAILRKKAVQ  461 (617)
T ss_pred             HHHHHHHHHh
Confidence            9999987654

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.49  E-value=1.4e-06  Score=92.29  Aligned_cols=143  Identities=18%  Similarity=0.270  Sum_probs=89.7

Q ss_pred             HHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..++..|+   .+||+||||+|||++++.+++.+....                    ...++.++-+...+..++.++
T Consensus        26 l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~l  105 (355)
T TIGR02397        26 LKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDVIEIDAASNNGVDDIREI  105 (355)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEeeccccCCHHHHHHH
Confidence            334455543   479999999999999999988763111                    123344444434455555555


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++. +.      +.|..+++-|++|||.+.-..+     ....+|+.+ +..            ..++.+|.+++.+.  
T Consensus       106 ~~~-~~------~~p~~~~~~vviidea~~l~~~-----~~~~Ll~~l-e~~------------~~~~~lIl~~~~~~--  158 (355)
T TIGR02397       106 LDN-VK------YAPSSGKYKVYIIDEVHMLSKS-----AFNALLKTL-EEP------------PEHVVFILATTEPH--  158 (355)
T ss_pred             HHH-Hh------cCcccCCceEEEEeChhhcCHH-----HHHHHHHHH-hCC------------ccceeEEEEeCCHH--
Confidence            432 22      2344455568889998754332     123344433 421            13466666665543  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        .+.+.+.+++.++.++.|+.+++..+...+++.
T Consensus       159 --~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~  191 (355)
T TIGR02397       159 --KIPATILSRCQRFDFKRIPLEDIVERLKKILDK  191 (355)
T ss_pred             --HHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHH
Confidence              577889999999999999999999888877654

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.

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

Probab=98.49  E-value=4.2e-07  Score=103.37  Aligned_cols=156  Identities=19%  Similarity=0.319  Sum_probs=117.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh---hhhhcCccccCC-CCC-eEEEEecC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK---LDKRTKTLLGAP-LGK-RLAVFVDD  482 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~---l~~~~~~~~~p~-~gk-~~vlfiDD  482 (583)
                      .+|++||+|+|||-++++++..+... +-..+++++|.......+.++|.+.   +-.-.+|.+.-. ..+ ..|+.+||
T Consensus       523 sFlF~GPTGVGKTELAkaLA~~Lfg~-e~aliR~DMSEy~EkHsVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDE  601 (786)
T COG0542         523 SFLFLGPTGVGKTELAKALAEALFGD-EQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDE  601 (786)
T ss_pred             EEEeeCCCcccHHHHHHHHHHHhcCC-CccceeechHHHHHHHHHHHHhCCCCCCceeccccchhHhhhcCCCeEEEech
Confidence            45999999999999999999988533 4568899999877666666666432   323334444322 233 47999999


Q ss_pred             CCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-------C-----------------CCC
Q psy17974        483 VNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-------G-----------------RMP  538 (583)
Q Consensus       483 ln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-------g-----------------r~~  538 (583)
                      +--+-+|      ++.++=|.+|.|..-|.+. ..+...|+.+|.|+|-...       +                 +..
T Consensus       602 IEKAHpd------V~nilLQVlDdGrLTD~~G-r~VdFrNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~~  674 (786)
T COG0542         602 IEKAHPD------VFNLLLQVLDDGRLTDGQG-RTVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKH  674 (786)
T ss_pred             hhhcCHH------HHHHHHHHhcCCeeecCCC-CEEecceeEEEEecccchHHHHhhccccccchhhhHHHHHHHHHHhh
Confidence            9888776      7899999999998888654 5677889999999885421       1                 134


Q ss_pred             CChhhhccce-EEEeCCCCHHHHHHHHHHHhccc
Q psy17974        539 LTPRFVRHFG-LLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       539 l~~Rllr~f~-vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      ..|.|++|+. +|.+.+.+.+.+..|....+...
T Consensus       675 F~PEFLNRid~II~F~~L~~~~l~~Iv~~~L~~l  708 (786)
T COG0542         675 FRPEFLNRIDEIIPFNPLSKEVLERIVDLQLNRL  708 (786)
T ss_pred             CCHHHHhhcccEEeccCCCHHHHHHHHHHHHHHH
Confidence            5677888887 99999999999999999888654

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.49  E-value=2.1e-07  Score=101.73  Aligned_cols=168  Identities=19%  Similarity=0.201  Sum_probs=92.6

Q ss_pred             cCCCCCCccceeeCchhhhHHHHHHHHHh-cC--CceEEEccCCCcHHHHHHHHHHhhccc-CCceEEEEEeccCCChHH
Q psy17974        376 YDPTMPFFDMMVPTIDTIRFGSIMEKLLL-VN--HPVMFTGVTGVGKTVVARSILNKLLAS-NTWAALTINFSAQTSSAR  451 (583)
Q Consensus       376 ~~~~~~~~~i~VpT~dt~r~~~ll~~~l~-~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~i~fS~~Tt~~~  451 (583)
                      +++...|.+ ||..+...........+.. .+  .|++|+||+|+|||++++++.+.+... .+..+.+++.      +.
T Consensus        98 l~~~~tFdn-Fv~g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~------~~  170 (440)
T PRK14088         98 LNPDYTFEN-FVVGPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS------EK  170 (440)
T ss_pred             CCCCCcccc-cccCCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH------HH
Confidence            344444444 4545444333333333333 33  489999999999999999998875321 1344555543      22


Q ss_pred             HHHHHHhhh-----hhhcCccccCCCCCeEEEEecCCCCCCcccCCCC-ChHHHHHHHHHhCCeeecCCCeeEeecCeEE
Q psy17974        452 TQEILEGKL-----DKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQ-PPIELLRQFLDFGGLYDRDKMFWKTLQDVVL  525 (583)
Q Consensus       452 lq~~ie~~l-----~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q-~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~  525 (583)
                      +..-+...+     +... ..|.   .+.-+++|||++.... +.++| ..+++++.+.+.|.              ..+
T Consensus       171 f~~~~~~~~~~~~~~~f~-~~~~---~~~dvLlIDDi~~l~~-~~~~q~elf~~~n~l~~~~k--------------~iI  231 (440)
T PRK14088        171 FLNDLVDSMKEGKLNEFR-EKYR---KKVDVLLIDDVQFLIG-KTGVQTELFHTFNELHDSGK--------------QIV  231 (440)
T ss_pred             HHHHHHHHHhcccHHHHH-HHHH---hcCCEEEEechhhhcC-cHHHHHHHHHHHHHHHHcCC--------------eEE
Confidence            221111111     1100 0111   1234899999986422 12233 23444555544321              133


Q ss_pred             EEecCCCCCCCCCCChhhhccce---EEEeCCCCHHHHHHHHHHHhcc
Q psy17974        526 CTACAPPGGGRMPLTPRFVRHFG---LLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       526 iaa~~p~~~gr~~l~~Rllr~f~---vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      +++..+|.. -..+.+|+.+||.   ++.++.|+.+++..|.......
T Consensus       232 itsd~~p~~-l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~  278 (440)
T PRK14088        232 ICSDREPQK-LSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEI  278 (440)
T ss_pred             EECCCCHHH-HHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHh
Confidence            333344431 1236789998887   8999999999999999988763

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.48  E-value=2e-06  Score=97.22  Aligned_cols=142  Identities=20%  Similarity=0.280  Sum_probs=94.2

Q ss_pred             HHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccCC--------------------ceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASNT--------------------WAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~~--------------------~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +...+..|+   ..||+||+|+|||++++.+++.+.-...                    ..++.++-+..+..+++.++
T Consensus        28 L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~ieidaas~~~VddiR~l  107 (647)
T PRK07994         28 LANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDLIEIDAASRTKVEDTREL  107 (647)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCceeecccccCCHHHHHHH
Confidence            444555543   3699999999999999999887621110                    01233333333555666555


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++ .+.      |.|..|++-|++|||+|+-..+.     ...||+ .+|.-            ...+.||.+|+.+.  
T Consensus       108 i~-~~~------~~p~~g~~KV~IIDEah~Ls~~a-----~NALLK-tLEEP------------p~~v~FIL~Tt~~~--  160 (647)
T PRK07994        108 LD-NVQ------YAPARGRFKVYLIDEVHMLSRHS-----FNALLK-TLEEP------------PEHVKFLLATTDPQ--  160 (647)
T ss_pred             HH-HHH------hhhhcCCCEEEEEechHhCCHHH-----HHHHHH-HHHcC------------CCCeEEEEecCCcc--
Confidence            43 222      33555677799999999976542     345555 55521            23567777777654  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                        .|.+-+++|+..+.+..++.+++......++.
T Consensus       161 --kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~il~  192 (647)
T PRK07994        161 --KLPVTILSRCLQFHLKALDVEQIRQQLEHILQ  192 (647)
T ss_pred             --ccchHHHhhheEeeCCCCCHHHHHHHHHHHHH
Confidence              68888999999999999999999888877764

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.48  E-value=1e-06  Score=103.85  Aligned_cols=154  Identities=20%  Similarity=0.291  Sum_probs=104.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh---hhhhcCcccc-C-CCCCeEEEEecC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK---LDKRTKTLLG-A-PLGKRLAVFVDD  482 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~---l~~~~~~~~~-p-~~gk~~vlfiDD  482 (583)
                      ++||+||+|||||.+++.++..+. .....++.+++|..+....+.+.+.+.   .....++.+. . ......|+++||
T Consensus       597 ~~Lf~Gp~GvGKt~lA~~La~~l~-~~~~~~i~~d~s~~~~~~~~~~l~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDe  675 (852)
T TIGR03346       597 SFLFLGPTGVGKTELAKALAEFLF-DDEDAMVRIDMSEYMEKHSVARLIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDE  675 (852)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhc-CCCCcEEEEechhhcccchHHHhcCCCCCccCcccccHHHHHHHcCCCcEEEEec
Confidence            489999999999999999998773 334567888888765543333332111   0000011110 0 011235999999


Q ss_pred             CCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-------C--------------CCCCCh
Q psy17974        483 VNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-------G--------------RMPLTP  541 (583)
Q Consensus       483 ln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-------g--------------r~~l~~  541 (583)
                      +.-..++      +...|-|++|.|.+-|. ....+...++.+|+|+|-...       +              +....|
T Consensus       676 ieka~~~------v~~~Ll~~l~~g~l~d~-~g~~vd~rn~iiI~TSn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F~p  748 (852)
T TIGR03346       676 VEKAHPD------VFNVLLQVLDDGRLTDG-QGRTVDFRNTVIIMTSNLGSQFIQELAGGDDYEEMREAVMEVLRAHFRP  748 (852)
T ss_pred             cccCCHH------HHHHHHHHHhcCceecC-CCeEEecCCcEEEEeCCcchHhHhhhcccccHHHHHHHHHHHHHhhcCH
Confidence            9876554      57788899998877664 345666788889999987321       1              223567


Q ss_pred             hhhccc-eEEEeCCCCHHHHHHHHHHHhc
Q psy17974        542 RFVRHF-GLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       542 Rllr~f-~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      .|+.++ .++.+.+++.+.+..|....+.
T Consensus       749 el~~Rid~IivF~PL~~e~l~~I~~l~L~  777 (852)
T TIGR03346       749 EFLNRIDEIVVFHPLGREQIARIVEIQLG  777 (852)
T ss_pred             HHhcCcCeEEecCCcCHHHHHHHHHHHHH
Confidence            788888 4788889999999999888775

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.

>PRK06620 hypothetical protein; Validated

Probab=98.47  E-value=9.3e-07  Score=87.44  Aligned_cols=114  Identities=18%  Similarity=0.233  Sum_probs=71.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .+++|+||+|||||++++.+.+..    +.  ..+   +    ...  ..+        ..+    ++.-+++|||++--
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~----~~--~~~---~----~~~--~~~--------~~~----~~~d~lliDdi~~~   97 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS----NA--YII---K----DIF--FNE--------EIL----EKYNAFIIEDIENW   97 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc----CC--EEc---c----hhh--hch--------hHH----hcCCEEEEeccccc
Confidence            459999999999999999876643    11  111   1    000  000        001    12247899999821


Q ss_pred             CcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce---EEEeCCCCHHHHHHH
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG---LLSLPSPTEDTLKVI  563 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~---vi~i~~p~~~sl~~I  563 (583)
                      +     ......++..+.+.|.              ..++++..+|..  ..+ +++.+|+.   ++.+.+|+.+.+..+
T Consensus        98 ~-----~~~lf~l~N~~~e~g~--------------~ilits~~~p~~--l~l-~~L~SRl~~gl~~~l~~pd~~~~~~~  155 (214)
T PRK06620         98 Q-----EPALLHIFNIINEKQK--------------YLLLTSSDKSRN--FTL-PDLSSRIKSVLSILLNSPDDELIKIL  155 (214)
T ss_pred             h-----HHHHHHHHHHHHhcCC--------------EEEEEcCCCccc--cch-HHHHHHHhCCceEeeCCCCHHHHHHH
Confidence            1     0123445555555442              246666666652  247 89999998   999999999999888


Q ss_pred             HHHHhc
Q psy17974        564 FKVRTS  569 (583)
Q Consensus       564 ~~~~l~  569 (583)
                      ......
T Consensus       156 l~k~~~  161 (214)
T PRK06620        156 IFKHFS  161 (214)
T ss_pred             HHHHHH
Confidence            877765

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.46  E-value=1.9e-06  Score=97.24  Aligned_cols=143  Identities=21%  Similarity=0.253  Sum_probs=92.8

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..++..+   +.+||+||+|+|||++++.+++.+.-..                    ...++.++-+..+..+.+.++
T Consensus        28 L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~DvlEidaAs~~gVd~IRel  107 (709)
T PRK08691         28 LQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLLEIDAASNTGIDNIREV  107 (709)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceEEEeccccCCHHHHHHH
Confidence            44445554   3589999999999999999988752110                    012233443444555566655


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++. +.      +.|..+++-|++|||+++-..+      ....|...++.-            ...+.||.+++.+.  
T Consensus       108 le~-a~------~~P~~gk~KVIIIDEad~Ls~~------A~NALLKtLEEP------------p~~v~fILaTtd~~--  160 (709)
T PRK08691        108 LEN-AQ------YAPTAGKYKVYIIDEVHMLSKS------AFNAMLKTLEEP------------PEHVKFILATTDPH--  160 (709)
T ss_pred             HHH-HH------hhhhhCCcEEEEEECccccCHH------HHHHHHHHHHhC------------CCCcEEEEEeCCcc--
Confidence            532 11      3344456678999999986543      233344444421            13467777776554  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        .+.+.+++|+..+.+..++.+++......+++.
T Consensus       161 --kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~k  193 (709)
T PRK08691        161 --KVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDS  193 (709)
T ss_pred             --ccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHH
Confidence              577888899999999999999999888887764

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.46  E-value=9.4e-07  Score=103.90  Aligned_cols=155  Identities=17%  Similarity=0.245  Sum_probs=105.2

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh---hhhhcCcccc-C-CCCCeEEEEecCC
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK---LDKRTKTLLG-A-PLGKRLAVFVDDV  483 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~---l~~~~~~~~~-p-~~gk~~vlfiDDl  483 (583)
                      +||+||+|+|||.+++.+++.+.. .....+.+++|..+....+.+.+.+.   .....++.+. . ......|+++||+
T Consensus       542 ~lf~Gp~GvGKt~lA~~LA~~l~~-~~~~~~~~d~s~~~~~~~~~~l~g~~~gyvg~~~~~~l~~~~~~~p~~VvllDei  620 (821)
T CHL00095        542 FLFSGPTGVGKTELTKALASYFFG-SEDAMIRLDMSEYMEKHTVSKLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEI  620 (821)
T ss_pred             EEEECCCCCcHHHHHHHHHHHhcC-CccceEEEEchhccccccHHHhcCCCCcccCcCccchHHHHHHhCCCeEEEECCh
Confidence            799999999999999999988732 23456778877766544444433211   0000111110 0 0112368999999


Q ss_pred             CCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC---------CC------------------
Q psy17974        484 NMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG---------GR------------------  536 (583)
Q Consensus       484 n~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~---------gr------------------  536 (583)
                      +.+.++      +...|.|++|.|-.-|.. ..-+...++.||.|+|....         |.                  
T Consensus       621 eka~~~------v~~~Llq~le~g~~~d~~-g~~v~~~~~i~I~Tsn~g~~~i~~~~~~~gf~~~~~~~~~~~~~~~~~~  693 (821)
T CHL00095        621 EKAHPD------IFNLLLQILDDGRLTDSK-GRTIDFKNTLIIMTSNLGSKVIETNSGGLGFELSENQLSEKQYKRLSNL  693 (821)
T ss_pred             hhCCHH------HHHHHHHHhccCceecCC-CcEEecCceEEEEeCCcchHHHHhhccccCCcccccccccccHHHHHHH
Confidence            977655      688999999988766654 34566789999999886421         10                  


Q ss_pred             ------CCCChhhhccc-eEEEeCCCCHHHHHHHHHHHhccc
Q psy17974        537 ------MPLTPRFVRHF-GLLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       537 ------~~l~~Rllr~f-~vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                            ....|.|+.|+ .||.+.+.+.+++..|....+...
T Consensus       694 ~~~~~~~~f~peflnRid~ii~F~pL~~~~l~~Iv~~~l~~l  735 (821)
T CHL00095        694 VNEELKQFFRPEFLNRLDEIIVFRQLTKNDVWEIAEIMLKNL  735 (821)
T ss_pred             HHHHHHHhcCHHHhccCCeEEEeCCCCHHHHHHHHHHHHHHH
Confidence                  01456788888 799999999999999999888754

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.46  E-value=6.8e-07  Score=97.95  Aligned_cols=138  Identities=17%  Similarity=0.207  Sum_probs=82.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcc-cCCceEEEEEeccCCChHHHHHHHHhhhhhh------cCccccCCCCCeEEEE
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLA-SNTWAALTINFSAQTSSARTQEILEGKLDKR------TKTLLGAPLGKRLAVF  479 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~-~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~------~~~~~~p~~gk~~vlf  479 (583)
                      .|++|+|++|+|||++++++.+.+.. ..++.+++++.      ..+..-+...+...      .+..|.    +.-+++
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~------~~f~~~~~~~l~~~~~~~~~~~~~~~----~~dvLi  211 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG------DEFARKAVDILQKTHKEIEQFKNEIC----QNDVLI  211 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH------HHHHHHHHHHHHHhhhHHHHHHHHhc----cCCEEE
Confidence            57999999999999999999886521 22455555432      23222222111110      001111    223789


Q ss_pred             ecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEec-CCCCCCCCCCChhhhccce---EEEeCCC
Q psy17974        480 VDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTAC-APPGGGRMPLTPRFVRHFG---LLSLPSP  555 (583)
Q Consensus       480 iDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~-~p~~~gr~~l~~Rllr~f~---vi~i~~p  555 (583)
                      |||++.-...    ....|.|..+++.-  |+..+         ++|.|+ .+|. -...+.+|+.+||.   ++.+.+|
T Consensus       212 IDDiq~l~~k----~~~~e~lf~l~N~~--~~~~k---------~iIltsd~~P~-~l~~l~~rL~SR~~~Gl~~~L~~p  275 (450)
T PRK14087        212 IDDVQFLSYK----EKTNEIFFTIFNNF--IENDK---------QLFFSSDKSPE-LLNGFDNRLITRFNMGLSIAIQKL  275 (450)
T ss_pred             EeccccccCC----HHHHHHHHHHHHHH--HHcCC---------cEEEECCCCHH-HHhhccHHHHHHHhCCceeccCCc
Confidence            9999875422    12345555554421  22211         234444 4453 22357899999996   8999999


Q ss_pred             CHHHHHHHHHHHhcc
Q psy17974        556 TEDTLKVIFKVRTSP  570 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~  570 (583)
                      +.+++..|....++.
T Consensus       276 d~e~r~~iL~~~~~~  290 (450)
T PRK14087        276 DNKTATAIIKKEIKN  290 (450)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999998874

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=98.46  E-value=2.9e-06  Score=86.35  Aligned_cols=170  Identities=19%  Similarity=0.234  Sum_probs=102.2

Q ss_pred             cceeeCchhhhHHHHHHHHHhcCC-ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh
Q psy17974        384 DMMVPTIDTIRFGSIMEKLLLVNH-PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK  462 (583)
Q Consensus       384 ~i~VpT~dt~r~~~ll~~~l~~~~-~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~  462 (583)
                      ..+.++....+....+...+..+. .++|+||+|+|||++++.+++.+. ...+....+ ++...++..+...+-..+..
T Consensus        20 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~-~~~~~~~~~-~~~~~~~~~~l~~i~~~lG~   97 (269)
T TIGR03015        20 DFFYPSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLD-QERVVAAKL-VNTRVDAEDLLRMVAADFGL   97 (269)
T ss_pred             HHhCCCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcC-CCCeEEeee-eCCCCCHHHHHHHHHHHcCC
Confidence            457888888877777777776655 588999999999999999998763 223222221 33344555555444333321


Q ss_pred             hcCcc-----c---------cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEe
Q psy17974        463 RTKTL-----L---------GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTA  528 (583)
Q Consensus       463 ~~~~~-----~---------~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa  528 (583)
                      ...+.     +         ....+++.+++|||++....+      .++.||.+.+...  +  .     -..+.++.+
T Consensus        98 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~vliiDe~~~l~~~------~~~~l~~l~~~~~--~--~-----~~~~~vvl~  162 (269)
T TIGR03015        98 ETEGRDKAALLRELEDFLIEQFAAGKRALLVVDEAQNLTPE------LLEELRMLSNFQT--D--N-----AKLLQIFLV  162 (269)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCCCeEEEEECcccCCHH------HHHHHHHHhCccc--C--C-----CCeEEEEEc
Confidence            11100     0         012567789999999876433      5788888766421  1  0     112444444


Q ss_pred             cCCCCCC--CCCCChhhhcc-ceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        529 CAPPGGG--RMPLTPRFVRH-FGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       529 ~~p~~~g--r~~l~~Rllr~-f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      ..|.-..  ..+-..++.++ ...+.++..+.+++...+...+..
T Consensus       163 g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~~l~~~l~~  207 (269)
T TIGR03015       163 GQPEFRETLQSPQLQQLRQRIIASCHLGPLDREETREYIEHRLER  207 (269)
T ss_pred             CCHHHHHHHcCchhHHHHhheeeeeeCCCCCHHHHHHHHHHHHHH
Confidence            3332110  11122345555 447889999999999988887764

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.45  E-value=2.2e-06  Score=90.35  Aligned_cols=167  Identities=15%  Similarity=0.190  Sum_probs=103.7

Q ss_pred             hhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-C
Q psy17974        392 TIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-A  470 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p  470 (583)
                      ..+....+..+...+.||||.|++||||+++++.+-... ......++.+||++.+ ...    +++.+-...++.|. .
T Consensus         8 m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s-~r~~~pfv~vnc~~~~-~~~----l~~~lfG~~~g~~~ga   81 (329)
T TIGR02974         8 FLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLS-KRWQGPLVKLNCAALS-ENL----LDSELFGHEAGAFTGA   81 (329)
T ss_pred             HHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhc-CccCCCeEEEeCCCCC-hHH----HHHHHhccccccccCc
Confidence            445556677788889999999999999999999876543 2234567889998744 222    33333221222221 1


Q ss_pred             --------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC---CCCCCC
Q psy17974        471 --------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG---GGRMPL  539 (583)
Q Consensus       471 --------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~---~gr~~l  539 (583)
                              ......++|+||++.-..+      ...-|..+++.+.+....... ..-.|+.+|+|++.+-   -....+
T Consensus        82 ~~~~~G~~~~a~gGtL~Ldei~~L~~~------~Q~~Ll~~l~~~~~~~~g~~~-~~~~~~RiI~at~~~l~~~~~~g~f  154 (329)
T TIGR02974        82 QKRHQGRFERADGGTLFLDELATASLL------VQEKLLRVIEYGEFERVGGSQ-TLQVDVRLVCATNADLPALAAEGRF  154 (329)
T ss_pred             ccccCCchhhCCCCEEEeCChHhCCHH------HHHHHHHHHHcCcEEecCCCc-eeccceEEEEechhhHHHHhhcCch
Confidence                    1123468999999865443      234455667766544322222 2235899999988652   112346


Q ss_pred             ChhhhccceE--EEeCCCC--HHHHHHHHHHHhccc
Q psy17974        540 TPRFVRHFGL--LSLPSPT--EDTLKVIFKVRTSPG  571 (583)
Q Consensus       540 ~~Rllr~f~v--i~i~~p~--~~sl~~I~~~~l~~~  571 (583)
                      .+.|..++++  |.+|+..  .+++..+...++..+
T Consensus       155 r~dL~~rl~~~~i~lPpLReR~eDI~~L~~~fl~~~  190 (329)
T TIGR02974       155 RADLLDRLAFDVITLPPLRERQEDIMLLAEHFAIRM  190 (329)
T ss_pred             HHHHHHHhcchhcCCCchhhhhhhHHHHHHHHHHHH
Confidence            6778888864  6666655  467777877777654

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

>KOG0991|consensus

Probab=98.45  E-value=5.6e-07  Score=87.77  Aligned_cols=166  Identities=17%  Similarity=0.293  Sum_probs=103.3

Q ss_pred             eccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhcccCCc--eEEEE
Q psy17974        366 PWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLLASNTW--AALTI  441 (583)
Q Consensus       366 ~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~--~~~~i  441 (583)
                      +|-+++.+..+.       -+|-..||+.   .++.+...|  -++++.||||+|||+.+..+++.+-.. .|  .+.-+
T Consensus        16 ~wVeKYrP~~l~-------dIVGNe~tv~---rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~-~~ke~vLEL   84 (333)
T KOG0991|consen   16 PWVEKYRPSVLQ-------DIVGNEDTVE---RLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGD-SYKEAVLEL   84 (333)
T ss_pred             hHHHhhCchHHH-------HhhCCHHHHH---HHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhCh-hhhhHhhhc
Confidence            477766543322       2455556553   344555555  489999999999999999998876321 12  23345


Q ss_pred             EeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeec
Q psy17974        442 NFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQ  521 (583)
Q Consensus       442 ~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~  521 (583)
                      |-|..-..+-+...|....++   .+.-|| |+.-|+.+||.+.-.   -|+|   +.||.-+|   .|..         
T Consensus        85 NASdeRGIDvVRn~IK~FAQ~---kv~lp~-grhKIiILDEADSMT---~gAQ---QAlRRtME---iyS~---------  142 (333)
T KOG0991|consen   85 NASDERGIDVVRNKIKMFAQK---KVTLPP-GRHKIIILDEADSMT---AGAQ---QALRRTME---IYSN---------  142 (333)
T ss_pred             cCccccccHHHHHHHHHHHHh---hccCCC-CceeEEEeeccchhh---hHHH---HHHHHHHH---HHcc---------
Confidence            555544444444444333232   333455 444567789976532   3555   45777776   3432         


Q ss_pred             CeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHh
Q psy17974        522 DVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRT  568 (583)
Q Consensus       522 ~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l  568 (583)
                      .++|.-|||...    .|-..+.+|+.++.+...++..+..-...+.
T Consensus       143 ttRFalaCN~s~----KIiEPIQSRCAiLRysklsd~qiL~Rl~~v~  185 (333)
T KOG0991|consen  143 TTRFALACNQSE----KIIEPIQSRCAILRYSKLSDQQILKRLLEVA  185 (333)
T ss_pred             cchhhhhhcchh----hhhhhHHhhhHhhhhcccCHHHHHHHHHHHH
Confidence            467888999865    6778889999999999988877655444433

>PRK05642 DNA replication initiation factor; Validated

Probab=98.44  E-value=1.8e-06  Score=86.51  Aligned_cols=131  Identities=15%  Similarity=0.174  Sum_probs=76.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .+++|+||+|||||.+++++.+.+.. .+..+++++..      .+......-+++     +.    +--+++|||++..
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~-~~~~v~y~~~~------~~~~~~~~~~~~-----~~----~~d~LiiDDi~~~  109 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQ-RGEPAVYLPLA------ELLDRGPELLDN-----LE----QYELVCLDDLDVI  109 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHh-CCCcEEEeeHH------HHHhhhHHHHHh-----hh----hCCEEEEechhhh
Confidence            57899999999999999998776532 23455555432      222111111111     11    0126889999865


Q ss_pred             CcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc---eEEEeCCCCHHHHHHH
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF---GLLSLPSPTEDTLKVI  563 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f---~vi~i~~p~~~sl~~I  563 (583)
                      ..+....+....++..+.+.|              ...++++..+|.. -....+++.+||   .++.+..|+.+++..|
T Consensus       110 ~~~~~~~~~Lf~l~n~~~~~g--------------~~ilits~~~p~~-l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~i  174 (234)
T PRK05642        110 AGKADWEEALFHLFNRLRDSG--------------RRLLLAASKSPRE-LPIKLPDLKSRLTLALVFQMRGLSDEDKLRA  174 (234)
T ss_pred             cCChHHHHHHHHHHHHHHhcC--------------CEEEEeCCCCHHH-cCccCccHHHHHhcCeeeecCCCCHHHHHHH
Confidence            432211112333443333322              1245555555532 223568898998   7899999999999999


Q ss_pred             HHHHh
Q psy17974        564 FKVRT  568 (583)
Q Consensus       564 ~~~~l  568 (583)
                      .....
T Consensus       175 l~~ka  179 (234)
T PRK05642        175 LQLRA  179 (234)
T ss_pred             HHHHH
Confidence            88543

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.42  E-value=2.3e-06  Score=96.60  Aligned_cols=143  Identities=17%  Similarity=0.226  Sum_probs=93.8

Q ss_pred             HHHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhccc--C-----------------------CceEEEEEeccCCCh
Q psy17974        398 IMEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLAS--N-----------------------TWAALTINFSAQTSS  449 (583)
Q Consensus       398 ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~--~-----------------------~~~~~~i~fS~~Tt~  449 (583)
                      .+..++..+   +.+||+||+|+|||++++.+++.+.-.  +                       ...++.++-+..+..
T Consensus        27 ~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g~h~D~~eldaas~~~V  106 (618)
T PRK14951         27 ALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSGRFVDYTELDAASNRGV  106 (618)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcCCCCceeecCcccccCH
Confidence            344555554   345999999999999999998876210  0                       012333443444555


Q ss_pred             HHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEec
Q psy17974        450 ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTAC  529 (583)
Q Consensus       450 ~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~  529 (583)
                      +++.++++. +      .|.|..|+.-|++|||+|+-..+.      ...|+-.+|.-            ...+.||.++
T Consensus       107 d~iReli~~-~------~~~p~~g~~KV~IIDEvh~Ls~~a------~NaLLKtLEEP------------P~~~~fIL~T  161 (618)
T PRK14951        107 DEVQQLLEQ-A------VYKPVQGRFKVFMIDEVHMLTNTA------FNAMLKTLEEP------------PEYLKFVLAT  161 (618)
T ss_pred             HHHHHHHHH-H------HhCcccCCceEEEEEChhhCCHHH------HHHHHHhcccC------------CCCeEEEEEE
Confidence            666665542 1      245666777789999999976653      33344444421            1345677666


Q ss_pred             CCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        530 APPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       530 ~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      +.+.    .+.+-+++|+.++.+..++.+++...+..++.
T Consensus       162 td~~----kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~  197 (618)
T PRK14951        162 TDPQ----KVPVTVLSRCLQFNLRPMAPETVLEHLTQVLA  197 (618)
T ss_pred             CCch----hhhHHHHHhceeeecCCCCHHHHHHHHHHHHH
Confidence            5443    46777999999999999999999888887765

>PF13173 AAA_14: AAA domain

Probab=98.41  E-value=1.4e-06  Score=78.78  Aligned_cols=126  Identities=16%  Similarity=0.181  Sum_probs=79.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVN  484 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln  484 (583)
                      +++.++|.||.|||||++++++++.+.  ..-..+.++|...........-+...+.+.    +.+   ++.++||||++
T Consensus         1 n~~~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~----~~~---~~~~i~iDEiq   71 (128)
T PF13173_consen    1 NRKIIILTGPRGVGKTTLLKQLAKDLL--PPENILYINFDDPRDRRLADPDLLEYFLEL----IKP---GKKYIFIDEIQ   71 (128)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhc--ccccceeeccCCHHHHHHhhhhhHHHHHHh----hcc---CCcEEEEehhh
Confidence            467899999999999999999998763  123456677654322111000011111111    111   45578999998


Q ss_pred             CCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHH
Q psy17974        485 MPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDT  559 (583)
Q Consensus       485 ~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~s  559 (583)
                      ..+       ...+.++.+.|.+             .+++++.|......-.......+..+...+.+.+.+-.+
T Consensus        72 ~~~-------~~~~~lk~l~d~~-------------~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E  126 (128)
T PF13173_consen   72 YLP-------DWEDALKFLVDNG-------------PNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFRE  126 (128)
T ss_pred             hhc-------cHHHHHHHHHHhc-------------cCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHH
Confidence            753       2567888888844             246677765554433346677888888899998888665

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.41  E-value=2e-06  Score=85.60  Aligned_cols=127  Identities=14%  Similarity=0.117  Sum_probs=74.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVN  484 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln  484 (583)
                      .+.+++|+||+|||||++++.+.+... ..+..+..++++...      ..    +.      +   ....-+++|||++
T Consensus        41 ~~~~~~l~G~~G~GKT~La~ai~~~~~-~~~~~~~~i~~~~~~------~~----~~------~---~~~~~~liiDdi~  100 (227)
T PRK08903         41 ADRFFYLWGEAGSGRSHLLQALVADAS-YGGRNARYLDAASPL------LA----FD------F---DPEAELYAVDDVE  100 (227)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEEehHHhH------HH----Hh------h---cccCCEEEEeChh
Confidence            457999999999999999999988652 234455666553321      10    11      0   1122378999998


Q ss_pred             CCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc---eEEEeCCCCHHHHH
Q psy17974        485 MPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF---GLLSLPSPTEDTLK  561 (583)
Q Consensus       485 ~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f---~vi~i~~p~~~sl~  561 (583)
                      ....+      ..+.|.++++..  ..  ..     ..+.++++..+|..  ..+.+.+.++|   .++.+++|+.++..
T Consensus       101 ~l~~~------~~~~L~~~~~~~--~~--~~-----~~~vl~~~~~~~~~--~~l~~~L~sr~~~~~~i~l~pl~~~~~~  163 (227)
T PRK08903        101 RLDDA------QQIALFNLFNRV--RA--HG-----QGALLVAGPAAPLA--LPLREDLRTRLGWGLVYELKPLSDADKI  163 (227)
T ss_pred             hcCch------HHHHHHHHHHHH--HH--cC-----CcEEEEeCCCCHHh--CCCCHHHHHHHhcCeEEEecCCCHHHHH
Confidence            65332      234455555421  00  00     01223333333322  23567777666   68999999998877


Q ss_pred             HHHHHHh
Q psy17974        562 VIFKVRT  568 (583)
Q Consensus       562 ~I~~~~l  568 (583)
                      .+...+.
T Consensus       164 ~~l~~~~  170 (227)
T PRK08903        164 AALKAAA  170 (227)
T ss_pred             HHHHHHH
Confidence            7766554

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.41  E-value=5.5e-06  Score=93.07  Aligned_cols=174  Identities=16%  Similarity=0.141  Sum_probs=108.7

Q ss_pred             ceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhc
Q psy17974        385 MMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRT  464 (583)
Q Consensus       385 i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~  464 (583)
                      ++=..+...+....++.+...+.||||.|++||||+++++.+..... ...-.++.+||+..+. ..    +++.+-...
T Consensus       198 liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~-r~~~pfv~i~c~~~~~-~~----~~~~lfg~~  271 (534)
T TIGR01817       198 IIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSP-RAKRPFVKVNCAALSE-TL----LESELFGHE  271 (534)
T ss_pred             eEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCC-CCCCCeEEeecCCCCH-HH----HHHHHcCCC
Confidence            33344445666677788888899999999999999999998876542 2345678899887533 22    333332222


Q ss_pred             Cccc-cC--------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC--
Q psy17974        465 KTLL-GA--------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG--  533 (583)
Q Consensus       465 ~~~~-~p--------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~--  533 (583)
                      ++.| |+        ......++||||++....+      .-..|-++++.+.+....... ..-.|+.+|+|++.+-  
T Consensus       272 ~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~~------~Q~~Ll~~l~~~~~~~~~~~~-~~~~~~riI~~s~~~l~~  344 (534)
T TIGR01817       272 KGAFTGAIAQRKGRFELADGGTLFLDEIGEISPA------FQAKLLRVLQEGEFERVGGNR-TLKVDVRLVAATNRDLEE  344 (534)
T ss_pred             CCccCCCCcCCCCcccccCCCeEEEechhhCCHH------HHHHHHHHHhcCcEEECCCCc-eEeecEEEEEeCCCCHHH
Confidence            2222 11        1223468999999875544      234455667766654322222 1224789999987652  


Q ss_pred             -CCCCCCChhhhccceE--EEeCCCC--HHHHHHHHHHHhccc
Q psy17974        534 -GGRMPLTPRFVRHFGL--LSLPSPT--EDTLKVIFKVRTSPG  571 (583)
Q Consensus       534 -~gr~~l~~Rllr~f~v--i~i~~p~--~~sl~~I~~~~l~~~  571 (583)
                       -....+.+.|..++++  |.+|+..  .+++..+...++..+
T Consensus       345 ~~~~~~f~~~L~~rl~~~~i~lPpLreR~eDi~~L~~~~l~~~  387 (534)
T TIGR01817       345 AVAKGEFRADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKF  387 (534)
T ss_pred             HHHcCCCCHHHHHHhcCCeeeCCCcccccccHHHHHHHHHHHH
Confidence             1233566777778775  5566655  467877877777654

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.

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=3.1e-06  Score=95.06  Aligned_cols=145  Identities=17%  Similarity=0.240  Sum_probs=94.5

Q ss_pred             HHHHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHH
Q psy17974        397 SIMEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQ  453 (583)
Q Consensus       397 ~ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq  453 (583)
                      ..+..++..+   +.+||+||+|+|||++++.+++.+.-..                    ...++.++-+..+..+++.
T Consensus        26 ~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv~eId~a~~~~Id~iR  105 (624)
T PRK14959         26 AILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDVVEIDGASNRGIDDAK  105 (624)
T ss_pred             HHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCceEEEecccccCHHHHH
Confidence            4455556554   4678999999999999999988763110                    1123344333334445554


Q ss_pred             HHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        454 EILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       454 ~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      .+ ...+.      +.|..+++-|++|||+++-..+      ....|...+|.-            ...+.||.+++.+.
T Consensus       106 ~L-~~~~~------~~p~~g~~kVIIIDEad~Lt~~------a~naLLk~LEEP------------~~~~ifILaTt~~~  160 (624)
T PRK14959        106 RL-KEAIG------YAPMEGRYKVFIIDEAHMLTRE------AFNALLKTLEEP------------PARVTFVLATTEPH  160 (624)
T ss_pred             HH-HHHHH------hhhhcCCceEEEEEChHhCCHH------HHHHHHHHhhcc------------CCCEEEEEecCChh
Confidence            42 22222      2344566778999999987644      244455556531            13567777776543


Q ss_pred             CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        534 GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       534 ~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                          .+.+.+.+|+.++.+..++.+++..++..++..
T Consensus       161 ----kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~  193 (624)
T PRK14959        161 ----KFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGR  193 (624)
T ss_pred             ----hhhHHHHhhhhccccCCCCHHHHHHHHHHHHHH
Confidence                567778999999999999999999888877653

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.40  E-value=5.1e-06  Score=93.37  Aligned_cols=142  Identities=14%  Similarity=0.228  Sum_probs=93.2

Q ss_pred             HHHHHhcCC--c-eEEEccCCCcHHHHHHHHHHhhccc----------------------CCceEEEEEeccCCChHHHH
Q psy17974        399 MEKLLLVNH--P-VMFTGVTGVGKTVVARSILNKLLAS----------------------NTWAALTINFSAQTSSARTQ  453 (583)
Q Consensus       399 l~~~l~~~~--~-vLL~Gp~GtGKT~li~~~l~~l~~~----------------------~~~~~~~i~fS~~Tt~~~lq  453 (583)
                      +..++..++  | .||+||+|||||++++.+++.+.-.                      ....++.++-+.....+++.
T Consensus        25 L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~dvieidaas~~gvd~iR  104 (584)
T PRK14952         25 LSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSIDVVELDAASHGGVDDTR  104 (584)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCceEEEeccccccCHHHHH
Confidence            455555553  3 6999999999999999998876310                      11234444433333445554


Q ss_pred             HHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        454 EILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       454 ~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      ++++ .+      .|.|..+++-|++|||.|+-..+      ..+.|+-.+|.            ....+.||.+++.+.
T Consensus       105 el~~-~~------~~~P~~~~~KVvIIDEah~Lt~~------A~NALLK~LEE------------pp~~~~fIL~tte~~  159 (584)
T PRK14952        105 ELRD-RA------FYAPAQSRYRIFIVDEAHMVTTA------GFNALLKIVEE------------PPEHLIFIFATTEPE  159 (584)
T ss_pred             HHHH-HH------HhhhhcCCceEEEEECCCcCCHH------HHHHHHHHHhc------------CCCCeEEEEEeCChH
Confidence            4332 22      23454556668999999997654      34445555552            123567777776553


Q ss_pred             CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        534 GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       534 ~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                          .+.+.+.+|+.++.+..++.+++......+++
T Consensus       160 ----kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~  191 (584)
T PRK14952        160 ----KVLPTIRSRTHHYPFRLLPPRTMRALIARICE  191 (584)
T ss_pred             ----hhHHHHHHhceEEEeeCCCHHHHHHHHHHHHH
Confidence                68889999999999999999998877777665

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=98.40  E-value=4.8e-06  Score=87.69  Aligned_cols=176  Identities=15%  Similarity=0.159  Sum_probs=107.3

Q ss_pred             ceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhh----
Q psy17974        385 MMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKL----  460 (583)
Q Consensus       385 i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l----  460 (583)
                      ++-..+...+....+..+...+.||||+|++||||+++++.+-... ....-..+.++|+... ...+...+-+.-    
T Consensus         8 liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s-~r~~~pfv~v~c~~~~-~~~~~~~lfg~~~~~~   85 (326)
T PRK11608          8 LLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLS-SRWQGPFISLNCAALN-ENLLDSELFGHEAGAF   85 (326)
T ss_pred             cEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhC-CccCCCeEEEeCCCCC-HHHHHHHHcccccccc
Confidence            3444455666777788888999999999999999999999876543 2233467789998744 333333221110    


Q ss_pred             ---hhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC---C
Q psy17974        461 ---DKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG---G  534 (583)
Q Consensus       461 ---~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~---~  534 (583)
                         .....+.+.  .....++|+||++.-..+      ..+-|..+++.+.+......... -.++.+|+|++.+-   .
T Consensus        86 ~g~~~~~~g~l~--~a~gGtL~l~~i~~L~~~------~Q~~L~~~l~~~~~~~~g~~~~~-~~~~RiI~~s~~~l~~l~  156 (326)
T PRK11608         86 TGAQKRHPGRFE--RADGGTLFLDELATAPML------VQEKLLRVIEYGELERVGGSQPL-QVNVRLVCATNADLPAMV  156 (326)
T ss_pred             CCcccccCCchh--ccCCCeEEeCChhhCCHH------HHHHHHHHHhcCcEEeCCCCcee-eccEEEEEeCchhHHHHH
Confidence               000111111  122457899999875543      34556667776654332222222 24789999987652   1


Q ss_pred             CCCCCChhhhccceE--EEeCCCCH--HHHHHHHHHHhccc
Q psy17974        535 GRMPLTPRFVRHFGL--LSLPSPTE--DTLKVIFKVRTSPG  571 (583)
Q Consensus       535 gr~~l~~Rllr~f~v--i~i~~p~~--~sl~~I~~~~l~~~  571 (583)
                      ....+.+.|..+|++  |.+|+..+  +++..+...++..+
T Consensus       157 ~~g~f~~dL~~~l~~~~i~lPpLReR~eDI~~L~~~fl~~~  197 (326)
T PRK11608        157 AEGKFRADLLDRLAFDVVQLPPLRERQSDIMLMAEHFAIQM  197 (326)
T ss_pred             HcCCchHHHHHhcCCCEEECCChhhhhhhHHHHHHHHHHHH
Confidence            233567888888864  66666543  56777777776554

>PRK08181 transposase; Validated

Probab=98.39  E-value=4.6e-07  Score=92.48  Aligned_cols=135  Identities=17%  Similarity=0.227  Sum_probs=74.6

Q ss_pred             HHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhh-hhhcCccccCCCCCeE
Q psy17974        398 IMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKL-DKRTKTLLGAPLGKRL  476 (583)
Q Consensus       398 ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l-~~~~~~~~~p~~gk~~  476 (583)
                      ..+.++..+.+++|+||||||||.++.++...+. ..++.+.+++.      ..+...+.... +......+. .-.+.-
T Consensus        98 ~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~-~~g~~v~f~~~------~~L~~~l~~a~~~~~~~~~l~-~l~~~d  169 (269)
T PRK08181         98 AGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALI-ENGWRVLFTRT------TDLVQKLQVARRELQLESAIA-KLDKFD  169 (269)
T ss_pred             HHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHH-HcCCceeeeeH------HHHHHHHHHHHhCCcHHHHHH-HHhcCC
Confidence            3445778899999999999999999999987653 23555655532      23332221110 000000000 012233


Q ss_pred             EEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC-CC-----CC----CCCChhhhcc
Q psy17974        477 AVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-GG-----GR----MPLTPRFVRH  546 (583)
Q Consensus       477 vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~-~~-----gr----~~l~~Rllr~  546 (583)
                      +++|||+.....+..+.+...+++..-.+.+                .+|.|+|-+ +.     |.    ..+-.|++.|
T Consensus       170 LLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~----------------s~IiTSN~~~~~w~~~~~D~~~a~aildRL~h~  233 (269)
T PRK08181        170 LLILDDLAYVTKDQAETSVLFELISARYERR----------------SILITANQPFGEWNRVFPDPAMTLAAVDRLVHH  233 (269)
T ss_pred             EEEEeccccccCCHHHHHHHHHHHHHHHhCC----------------CEEEEcCCCHHHHHHhcCCccchhhHHHhhhcC
Confidence            8899999886655444333444444332211                133444443 21     11    1244788889


Q ss_pred             ceEEEeCCCC
Q psy17974        547 FGLLSLPSPT  556 (583)
Q Consensus       547 f~vi~i~~p~  556 (583)
                      +.+|.+.-.|
T Consensus       234 ~~~i~~~g~s  243 (269)
T PRK08181        234 ATIFEMNVES  243 (269)
T ss_pred             ceEEecCCcc
Confidence            9999987654

>KOG0735|consensus

Probab=98.38  E-value=1.4e-06  Score=96.33  Aligned_cols=167  Identities=15%  Similarity=0.220  Sum_probs=107.5

Q ss_pred             ceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC--CChHHHHHHHHhhhhh
Q psy17974        385 MMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ--TSSARTQEILEGKLDK  462 (583)
Q Consensus       385 i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~--Tt~~~lq~~ie~~l~~  462 (583)
                      +.+|..+-.-..+.+.. +-...++||.||+|||||.+++++++.+.....+-+..+.||..  ++-+.+|+.+++-+..
T Consensus       411 i~~~s~kke~~n~~~sp-v~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse  489 (952)
T KOG0735|consen  411 IQVPSYKKENANQELSP-VFRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFSE  489 (952)
T ss_pred             eecchhhhhhhhhhccc-ccccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHHHHHHHHHH
Confidence            45565444333344444 44567999999999999999999999885444455556777663  4456677777655432


Q ss_pred             hcCccccCCCCCeEEEEecCCCCCCc--ccCCC------CChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC
Q psy17974        463 RTKTLLGAPLGKRLAVFVDDVNMPKL--ETYGA------QPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG  534 (583)
Q Consensus       463 ~~~~~~~p~~gk~~vlfiDDln~p~~--d~yg~------q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~  534 (583)
                        .-.|+     +.|+++||++.-..  +.-++      +....+|.|++..-+=+.         ..+.+||+.+.-  
T Consensus       490 --~~~~~-----PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~---------~~ia~Iat~qe~--  551 (952)
T KOG0735|consen  490 --ALWYA-----PSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRN---------RKIAVIATGQEL--  551 (952)
T ss_pred             --HHhhC-----CcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccC---------cEEEEEEechhh--
Confidence              11234     34999999997432  11222      234567777775322111         137888886543  


Q ss_pred             CCCCCChhhhc--cce-EEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        535 GRMPLTPRFVR--HFG-LLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       535 gr~~l~~Rllr--~f~-vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                        ..++++|..  .|. +++++.|.......|...++...+
T Consensus       552 --qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~  590 (952)
T KOG0735|consen  552 --QTLNPLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKNL  590 (952)
T ss_pred             --hhcChhhcCccceEEEEecCCcchhHHHHHHHHHHHhhh
Confidence              367777743  554 799999999988888877776554

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.38  E-value=5e-06  Score=94.71  Aligned_cols=142  Identities=18%  Similarity=0.259  Sum_probs=91.7

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccCC-----------------ceEEEEEeccCCChHHHHHHHHh
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASNT-----------------WAALTINFSAQTSSARTQEILEG  458 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~~-----------------~~~~~i~fS~~Tt~~~lq~~ie~  458 (583)
                      +...+..+   +..|++||+|+|||++++.+++.+.-.+.                 ..++.+.-++....+++..+++ 
T Consensus        30 L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvieidaasn~~vd~IReLie-  108 (725)
T PRK07133         30 LKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIEMDAASNNGVDEIRELIE-  108 (725)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEEEeccccCCHHHHHHHHH-
Confidence            44555554   34699999999999999999887621110                 1112222222234455555443 


Q ss_pred             hhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCC
Q psy17974        459 KLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMP  538 (583)
Q Consensus       459 ~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~  538 (583)
                      .+.      +.|..+++-|++|||+++-..+      ....|...+|.-            ...+.||.+++.+.    .
T Consensus       109 ~~~------~~P~~g~~KV~IIDEa~~LT~~------A~NALLKtLEEP------------P~~tifILaTte~~----K  160 (725)
T PRK07133        109 NVK------NLPTQSKYKIYIIDEVHMLSKS------AFNALLKTLEEP------------PKHVIFILATTEVH----K  160 (725)
T ss_pred             HHH------hchhcCCCEEEEEEChhhCCHH------HHHHHHHHhhcC------------CCceEEEEEcCChh----h
Confidence            222      2455677778999999986543      344445555521            23456776665443    6


Q ss_pred             CChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        539 LTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       539 l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      |.+.+.+|+.++.+..++.+++......++.
T Consensus       161 Ll~TI~SRcq~ieF~~L~~eeI~~~L~~il~  191 (725)
T PRK07133        161 IPLTILSRVQRFNFRRISEDEIVSRLEFILE  191 (725)
T ss_pred             hhHHHHhhceeEEccCCCHHHHHHHHHHHHH
Confidence            8889999999999999999999988877654

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.37  E-value=8.3e-06  Score=90.48  Aligned_cols=143  Identities=20%  Similarity=0.253  Sum_probs=88.9

Q ss_pred             HHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccC-------------------CceEEEEEeccCCChHHHHHHH
Q psy17974        399 MEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASN-------------------TWAALTINFSAQTSSARTQEIL  456 (583)
Q Consensus       399 l~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~-------------------~~~~~~i~fS~~Tt~~~lq~~i  456 (583)
                      +..++..++   .+||+||||||||++++.+++.+.-..                   ...+..++-+.....+.++.+ 
T Consensus        26 L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~el~~~~~~~vd~iR~l-  104 (504)
T PRK14963         26 LLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLEIDAASNNSVEDVRDL-  104 (504)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEEecccccCCHHHHHHH-
Confidence            444455553   359999999999999999988763110                   112334443333344444443 


Q ss_pred             HhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCC
Q psy17974        457 EGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGR  536 (583)
Q Consensus       457 e~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr  536 (583)
                      ...+.      +.|..+++-|++|||.+....+      .++.|+..++..            -..+.+|.+++.+    
T Consensus       105 ~~~~~------~~p~~~~~kVVIIDEad~ls~~------a~naLLk~LEep------------~~~t~~Il~t~~~----  156 (504)
T PRK14963        105 REKVL------LAPLRGGRKVYILDEAHMMSKS------AFNALLKTLEEP------------PEHVIFILATTEP----  156 (504)
T ss_pred             HHHHh------hccccCCCeEEEEECccccCHH------HHHHHHHHHHhC------------CCCEEEEEEcCCh----
Confidence            22222      1243455668899999765332      233344444421            1245666666544    


Q ss_pred             CCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        537 MPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       537 ~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      ..+.+.+.+++.++.+..++.+++......+++.
T Consensus       157 ~kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~  190 (504)
T PRK14963        157 EKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEA  190 (504)
T ss_pred             hhCChHHhcceEEEEecCCCHHHHHHHHHHHHHH
Confidence            3688889999999999999999999888877653

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.35  E-value=4.6e-06  Score=93.15  Aligned_cols=142  Identities=18%  Similarity=0.245  Sum_probs=92.6

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..++..+   +..||+||+|+|||++++.+++.+.-..                    ...++.++-+..+..+++.++
T Consensus        28 L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei~~~~~~~vd~ir~l  107 (527)
T PRK14969         28 LTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEVDAASNTQVDAMREL  107 (527)
T ss_pred             HHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEeeccccCCHHHHHHH
Confidence            44445554   3469999999999999999988762110                    012334444445566666655


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++. +.      +.|..|++-|++|||+++-..+.     ...+|+. ++.-            ...+.||.+++.+.  
T Consensus       108 ~~~-~~------~~p~~~~~kVvIIDEad~ls~~a-----~naLLK~-LEep------------p~~~~fIL~t~d~~--  160 (527)
T PRK14969        108 LDN-AQ------YAPTRGRFKVYIIDEVHMLSKSA-----FNAMLKT-LEEP------------PEHVKFILATTDPQ--  160 (527)
T ss_pred             HHH-Hh------hCcccCCceEEEEcCcccCCHHH-----HHHHHHH-HhCC------------CCCEEEEEEeCChh--
Confidence            533 22      34556777899999998865432     2344444 4421            13566777775543  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                        .+.+.+.+|+.++.+..++.+++......++.
T Consensus       161 --kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~  192 (527)
T PRK14969        161 --KIPVTVLSRCLQFNLKQMPPPLIVSHLQHILE  192 (527)
T ss_pred             --hCchhHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence              46666899999999999999998887777664

>PF05729 NACHT: NACHT domain

Probab=98.35  E-value=2.4e-06  Score=79.60  Aligned_cols=149  Identities=18%  Similarity=0.215  Sum_probs=88.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCC-----ceEEEEEeccCCChH---HHHHHHHhhhhhhcCcc---c--cCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNT-----WAALTINFSAQTSSA---RTQEILEGKLDKRTKTL---L--GAPLG  473 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~-----~~~~~i~fS~~Tt~~---~lq~~ie~~l~~~~~~~---~--~p~~g  473 (583)
                      +.++|+|++|+|||++++.++..+.....     ..++.+++.......   .+.+.+...........   .  .....
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   80 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKN   80 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcC
Confidence            35899999999999999998876632221     123333333322211   23344433322111100   0  01245


Q ss_pred             CeEEEEecCCCCCCccc--CCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEE
Q psy17974        474 KRLAVFVDDVNMPKLET--YGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLS  551 (583)
Q Consensus       474 k~~vlfiDDln~p~~d~--yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~  551 (583)
                      ++++++||.++-...+.  .+.++..++|++++....           ..++.++-++.|....  . -.+.......+.
T Consensus        81 ~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~-----------~~~~~liit~r~~~~~--~-~~~~~~~~~~~~  146 (166)
T PF05729_consen   81 KRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQAL-----------PPGVKLIITSRPRAFP--D-LRRRLKQAQILE  146 (166)
T ss_pred             CceEEEEechHhcccchhhhHHHHHHHHHHHHhhhcc-----------CCCCeEEEEEcCChHH--H-HHHhcCCCcEEE
Confidence            68889999998766532  134567788888887421           2357788888765311  1 233344447899


Q ss_pred             eCCCCHHHHHHHHHHHhc
Q psy17974        552 LPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       552 i~~p~~~sl~~I~~~~l~  569 (583)
                      ++..+++++.+.+.+++.
T Consensus       147 l~~~~~~~~~~~~~~~f~  164 (166)
T PF05729_consen  147 LEPFSEEDIKQYLRKYFS  164 (166)
T ss_pred             ECCCCHHHHHHHHHHHhh
Confidence            999999999988887765

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=98.35  E-value=5.2e-06  Score=92.49  Aligned_cols=177  Identities=16%  Similarity=0.163  Sum_probs=109.7

Q ss_pred             ccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh
Q psy17974        383 FDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK  462 (583)
Q Consensus       383 ~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~  462 (583)
                      .+++-..+...+....++.+...+.||||.|++||||+++++.+-... ...+..++.+||.+...     ..+++.+-.
T Consensus       212 ~~iiG~S~~m~~~~~~i~~~A~~~~pVLI~GE~GTGKe~lA~~IH~~S-~r~~~pfv~inC~~l~e-----~lleseLFG  285 (526)
T TIGR02329       212 DDLLGASAPMEQVRALVRLYARSDATVLILGESGTGKELVAQAIHQLS-GRRDFPFVAINCGAIAE-----SLLEAELFG  285 (526)
T ss_pred             hheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCcCHHHHHHHHHHhc-CcCCCCEEEeccccCCh-----hHHHHHhcC
Confidence            344444555666777788888899999999999999999999887643 23345788899987542     234444433


Q ss_pred             hcCccc-cCC---------CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC
Q psy17974        463 RTKTLL-GAP---------LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP  532 (583)
Q Consensus       463 ~~~~~~-~p~---------~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~  532 (583)
                      ..+|.| |..         ......+|+||++.-+.+      .-.-|..+++.+.+....... ..-.|+.+|+|++.+
T Consensus       286 ~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~------~Q~~Ll~~L~~~~~~r~g~~~-~~~~dvRiIaat~~~  358 (526)
T TIGR02329       286 YEEGAFTGARRGGRTGLIEAAHRGTLFLDEIGEMPLP------LQTRLLRVLEEREVVRVGGTE-PVPVDVRVVAATHCA  358 (526)
T ss_pred             CcccccccccccccccchhhcCCceEEecChHhCCHH------HHHHHHHHHhcCcEEecCCCc-eeeecceEEeccCCC
Confidence            233333 111         123457999999864433      234445566666554432221 223588999998765


Q ss_pred             CC---CCCCCChhhhccce--EEEeCCCCH--HHHHHHHHHHhcccc
Q psy17974        533 GG---GRMPLTPRFVRHFG--LLSLPSPTE--DTLKVIFKVRTSPGK  572 (583)
Q Consensus       533 ~~---gr~~l~~Rllr~f~--vi~i~~p~~--~sl~~I~~~~l~~~l  572 (583)
                      -.   ....+.+.|..+++  .|.+|+.-+  +++..+...++..+.
T Consensus       359 l~~~v~~g~fr~dL~~rL~~~~I~lPPLReR~eDI~~L~~~fl~~~~  405 (526)
T TIGR02329       359 LTTAVQQGRFRRDLFYRLSILRIALPPLRERPGDILPLAAEYLVQAA  405 (526)
T ss_pred             HHHHhhhcchhHHHHHhcCCcEEeCCCchhchhHHHHHHHHHHHHHH
Confidence            31   12245556666666  456666544  577777777776543

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.

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

Probab=98.35  E-value=4e-06  Score=91.13  Aligned_cols=176  Identities=19%  Similarity=0.247  Sum_probs=116.3

Q ss_pred             CCCccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh
Q psy17974        380 MPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK  459 (583)
Q Consensus       380 ~~~~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~  459 (583)
                      -.|.+++=..+...+....++.......+||+.|++||||..+++++-+.- +..+-.++.+||.|--  +   .++|+.
T Consensus       242 y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S-~R~~~PFIaiNCaAiP--e---~LlESE  315 (560)
T COG3829         242 YTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIHNLS-PRANGPFIAINCAAIP--E---TLLESE  315 (560)
T ss_pred             cchhhhccCCHHHHHHHHHHHhhcCCCCcEEEecCCCccHHHHHHHHHhcC-cccCCCeEEEecccCC--H---HHHHHH
Confidence            456777777888889999999999999999999999999999999887654 3445678999998843  2   367888


Q ss_pred             hhhhcCccc-cCC-CCC--------eEEEEecCCCC-CCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEe
Q psy17974        460 LDKRTKTLL-GAP-LGK--------RLAVFVDDVNM-PKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTA  528 (583)
Q Consensus       460 l~~~~~~~~-~p~-~gk--------~~vlfiDDln~-p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa  528 (583)
                      |-...+|.| |+. +||        ...+|+|||+- |..-+      --+||-+-| +.++..... -..-.|+++|||
T Consensus       316 LFGye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl~LQ------aKLLRVLQE-kei~rvG~t-~~~~vDVRIIAA  387 (560)
T COG3829         316 LFGYEKGAFTGASKGGKPGLFELANGGTLFLDEIGEMPLPLQ------AKLLRVLQE-KEIERVGGT-KPIPVDVRIIAA  387 (560)
T ss_pred             HhCcCCccccccccCCCCcceeeccCCeEEehhhccCCHHHH------HHHHHHHhh-ceEEecCCC-CceeeEEEEEec
Confidence            876666666 332 334        34679999984 32211      247887766 444433222 122469999999


Q ss_pred             cCCCC-----CCCCCCChhhhccceEEEeCCCC----HHHHHHHHHHHhccc
Q psy17974        529 CAPPG-----GGRMPLTPRFVRHFGLLSLPSPT----EDTLKVIFKVRTSPG  571 (583)
Q Consensus       529 ~~p~~-----~gr~~l~~Rllr~f~vi~i~~p~----~~sl~~I~~~~l~~~  571 (583)
                      +|.+-     .|++.  .-|-=|-+|+.+.-|.    .+++...-..+++.+
T Consensus       388 TN~nL~~~i~~G~FR--eDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~  437 (560)
T COG3829         388 TNRNLEKMIAEGTFR--EDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKF  437 (560)
T ss_pred             cCcCHHHHHhcCcch--hhheeeeceeeecCCCcccCcchHHHHHHHHHHHH
Confidence            99751     34321  2222234666555552    345555555555543

>PRK09087 hypothetical protein; Validated

Probab=98.35  E-value=4.5e-06  Score=83.29  Aligned_cols=122  Identities=17%  Similarity=0.199  Sum_probs=73.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNM  485 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~  485 (583)
                      +.++.|+||+|||||++++.+.+..    .  ...++..      .+..-+-..+.             .-++.|||++.
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~----~--~~~i~~~------~~~~~~~~~~~-------------~~~l~iDDi~~   98 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKS----D--ALLIHPN------EIGSDAANAAA-------------EGPVLIEDIDA   98 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhc----C--CEEecHH------HcchHHHHhhh-------------cCeEEEECCCC
Confidence            4459999999999999999877643    1  1223221      11110101111             01678899987


Q ss_pred             CCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc---eEEEeCCCCHHHHHH
Q psy17974        486 PKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF---GLLSLPSPTEDTLKV  562 (583)
Q Consensus       486 p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f---~vi~i~~p~~~sl~~  562 (583)
                      ...++   ....+++..+.+.|              ...+++|..+|.. -....+++.+|+   .++.+..|+.+++..
T Consensus        99 ~~~~~---~~lf~l~n~~~~~g--------------~~ilits~~~p~~-~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~  160 (226)
T PRK09087         99 GGFDE---TGLFHLINSVRQAG--------------TSLLMTSRLWPSS-WNVKLPDLKSRLKAATVVEIGEPDDALLSQ  160 (226)
T ss_pred             CCCCH---HHHHHHHHHHHhCC--------------CeEEEECCCChHH-hccccccHHHHHhCCceeecCCCCHHHHHH
Confidence            53221   12344444444432              1244555545432 123468898888   899999999999999


Q ss_pred             HHHHHhcc
Q psy17974        563 IFKVRTSP  570 (583)
Q Consensus       563 I~~~~l~~  570 (583)
                      |+....+.
T Consensus       161 iL~~~~~~  168 (226)
T PRK09087        161 VIFKLFAD  168 (226)
T ss_pred             HHHHHHHH
Confidence            99988865

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.34  E-value=9.1e-06  Score=90.20  Aligned_cols=142  Identities=18%  Similarity=0.226  Sum_probs=92.5

Q ss_pred             HHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +...+..|+   ..|++||+|+|||++++.+++.+...+                    ...+..++-+.....+++++.
T Consensus        26 L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~eldaas~~gId~IRel  105 (535)
T PRK08451         26 LSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIEMDAASNRGIDDIREL  105 (535)
T ss_pred             HHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEEeccccccCHHHHHHH
Confidence            344445553   248999999999999999988763111                    122333332222234556555


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++.       ..+.|..+++-|++|||.++-..+      ..+.|+..+|.-            ...+.||.+++.+.  
T Consensus       106 ie~-------~~~~P~~~~~KVvIIDEad~Lt~~------A~NALLK~LEEp------------p~~t~FIL~ttd~~--  158 (535)
T PRK08451        106 IEQ-------TKYKPSMARFKIFIIDEVHMLTKE------AFNALLKTLEEP------------PSYVKFILATTDPL--  158 (535)
T ss_pred             HHH-------HhhCcccCCeEEEEEECcccCCHH------HHHHHHHHHhhc------------CCceEEEEEECChh--
Confidence            532       124455566778999999887654      345556666631            12456776665543  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                        .+.+.+.+|+.++.+..++.+++......++.
T Consensus       159 --kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~  190 (535)
T PRK08451        159 --KLPATILSRTQHFRFKQIPQNSIISHLKTILE  190 (535)
T ss_pred             --hCchHHHhhceeEEcCCCCHHHHHHHHHHHHH
Confidence              68888999999999999999998887777665

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.34  E-value=3.5e-06  Score=75.03  Aligned_cols=40  Identities=23%  Similarity=0.304  Sum_probs=29.5

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ  446 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~  446 (583)
                      +.+++|+||||||||++++.++..+. .....++.++.+..
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~-~~~~~~~~~~~~~~   41 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELG-PPGGGVIYIDGEDI   41 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccC-CCCCCEEEECCEEc
Confidence            57899999999999999999999874 22223555555443

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.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.34  E-value=5.1e-06  Score=93.49  Aligned_cols=134  Identities=16%  Similarity=0.224  Sum_probs=88.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHHHHhhhhhhcCc
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEILEGKLDKRTKT  466 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~  466 (583)
                      +..|++||+|||||++++.+++.+.-..                    ...++.++-++....+.+.++++. +      
T Consensus        39 hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~dv~eidaas~~~vd~ir~i~~~-v------  111 (559)
T PRK05563         39 HAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMDVIEIDAASNNGVDEIRDIRDK-V------  111 (559)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCCeEEeeccccCCHHHHHHHHHH-H------
Confidence            4578999999999999999988762111                    123334433333344445444321 1      


Q ss_pred             cccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhcc
Q psy17974        467 LLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRH  546 (583)
Q Consensus       467 ~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~  546 (583)
                      .+.|..+++-|++|||+++-..+.     ...+|+ .++.-            ...+.||.+++.+.    .+++-+.+|
T Consensus       112 ~~~p~~~~~kViIIDE~~~Lt~~a-----~naLLK-tLEep------------p~~~ifIlatt~~~----ki~~tI~SR  169 (559)
T PRK05563        112 KYAPSEAKYKVYIIDEVHMLSTGA-----FNALLK-TLEEP------------PAHVIFILATTEPH----KIPATILSR  169 (559)
T ss_pred             hhCcccCCeEEEEEECcccCCHHH-----HHHHHH-HhcCC------------CCCeEEEEEeCChh----hCcHHHHhH
Confidence            245667788899999999875432     234444 33311            23466776665543    688889999


Q ss_pred             ceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        547 FGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       547 f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      +..+.+..|+.+++......+++
T Consensus       170 c~~~~f~~~~~~ei~~~L~~i~~  192 (559)
T PRK05563        170 CQRFDFKRISVEDIVERLKYILD  192 (559)
T ss_pred             heEEecCCCCHHHHHHHHHHHHH
Confidence            99999999999999988887765

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

Probab=98.33  E-value=2.6e-06  Score=91.79  Aligned_cols=153  Identities=17%  Similarity=0.267  Sum_probs=82.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChH----HHHHHHHhhhhhhcCccccCCCCCeEEEEec
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA----RTQEILEGKLDKRTKTLLGAPLGKRLAVFVD  481 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~----~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiD  481 (583)
                      +.++||+||||||||++++.++..+    +.....++.+..+.+.    +....+...+.. ..+.+  ....+.|+|+|
T Consensus       116 ~~~iLL~GP~GsGKT~lAraLA~~l----~~pf~~~da~~L~~~gyvG~d~e~~L~~~~~~-~~~~l--~~a~~gIV~lD  188 (413)
T TIGR00382       116 KSNILLIGPTGSGKTLLAQTLARIL----NVPFAIADATTLTEAGYVGEDVENILLKLLQA-ADYDV--EKAQKGIIYID  188 (413)
T ss_pred             CceEEEECCCCcCHHHHHHHHHHhc----CCCeEEechhhccccccccccHHHHHHHHHHh-CcccH--HhcccceEEec
Confidence            3589999999999999999999876    2234444444433221    122222222221 11111  12345599999


Q ss_pred             CCCCCCc---------ccCCCCChHHHHHHHHHhCCeeec--CCCeeEeecCeEEEEecCCC------------------
Q psy17974        482 DVNMPKL---------ETYGAQPPIELLRQFLDFGGLYDR--DKMFWKTLQDVVLCTACAPP------------------  532 (583)
Q Consensus       482 Dln~p~~---------d~yg~q~~lElLRq~ld~~g~yd~--~~~~~~~i~~i~~iaa~~p~------------------  532 (583)
                      |++-...         |..|. .+...|-|++| |..-+.  .........++.+|.|.|.-                  
T Consensus       189 EIdkl~~~~~~~s~~~dvsg~-~vq~~LL~iLe-G~~~~v~~~~gr~~~~~~~i~i~TsNilfi~~Gaf~g~~~i~~~r~  266 (413)
T TIGR00382       189 EIDKISRKSENPSITRDVSGE-GVQQALLKIIE-GTVANVPPQGGRKHPYQEFIQIDTSNILFICGGAFVGLEKIIKKRT  266 (413)
T ss_pred             ccchhchhhccccccccccch-hHHHHHHHHhh-ccceecccCCCccccCCCeEEEEcCCceeeecccccChHHHHHHHh
Confidence            9994433         11221 23444446666 544331  11111222333333333330                  


Q ss_pred             -----CCC-----------------------CCCCChhhhccce-EEEeCCCCHHHHHHHHHHH
Q psy17974        533 -----GGG-----------------------RMPLTPRFVRHFG-LLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       533 -----~~g-----------------------r~~l~~Rllr~f~-vi~i~~p~~~sl~~I~~~~  567 (583)
                           |-+                       +.-+.|.|+.|+. ++.+.+.+.++|..|...-
T Consensus       267 ~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEflgRld~Iv~f~pL~~~~L~~Il~~~  330 (413)
T TIGR00382       267 GKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFIGRLPVIATLEKLDEEALIAILTKP  330 (413)
T ss_pred             hhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHhCCCCeEeecCCCCHHHHHHHHHHH
Confidence                 000                       0115577888885 6788899999999998763

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=98.33  E-value=5.3e-06  Score=87.42  Aligned_cols=85  Identities=21%  Similarity=0.376  Sum_probs=57.7

Q ss_pred             CeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCC-eeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceE-EE
Q psy17974        474 KRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGG-LYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGL-LS  551 (583)
Q Consensus       474 k~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g-~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~v-i~  551 (583)
                      .+.++|+||+|.....      ....|-+.++.|. -+.+.......-.++.++|++||.. |  .+++.++.+|.+ +.
T Consensus       131 ~~GvL~lDEi~~L~~~------~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~e-g--~l~~~LldRf~l~i~  201 (337)
T TIGR02030       131 NRGILYIDEVNLLEDH------LVDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEE-G--ELRPQLLDRFGLHAE  201 (337)
T ss_pred             cCCEEEecChHhCCHH------HHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEecccccc-C--CCCHHHHhhcceEEE
Confidence            3468999999986544      3455566777663 2333333333345788899988763 2  599999999985 88


Q ss_pred             eCCCCH-HHHHHHHHHH
Q psy17974        552 LPSPTE-DTLKVIFKVR  567 (583)
Q Consensus       552 i~~p~~-~sl~~I~~~~  567 (583)
                      +++|+. ++...|....
T Consensus       202 l~~p~~~eer~eIL~~~  218 (337)
T TIGR02030       202 IRTVRDVELRVEIVERR  218 (337)
T ss_pred             CCCCCCHHHHHHHHHhh
Confidence            999976 5656666553

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.

>KOG0989|consensus

Probab=98.33  E-value=2.9e-06  Score=86.04  Aligned_cols=144  Identities=16%  Similarity=0.198  Sum_probs=88.4

Q ss_pred             HHHHHh-cCCceEEEccCCCcHHHHHHHHHHhhcccCCce--EEEEEeccCCChHHHHHHHHhh------hhhhcCcccc
Q psy17974        399 MEKLLL-VNHPVMFTGVTGVGKTVVARSILNKLLASNTWA--ALTINFSAQTSSARTQEILEGK------LDKRTKTLLG  469 (583)
Q Consensus       399 l~~~l~-~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~--~~~i~fS~~Tt~~~lq~~ie~~------l~~~~~~~~~  469 (583)
                      .+.+.. ..-+.|++||||||||+++..+.+++..++-+.  +...|-|-....+    ++..+      +....++.-+
T Consensus        49 ~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis----vvr~Kik~fakl~~~~~~~~~  124 (346)
T KOG0989|consen   49 KNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS----VVREKIKNFAKLTVLLKRSDG  124 (346)
T ss_pred             HHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc----chhhhhcCHHHHhhccccccC
Confidence            344444 345779999999999999999998874211111  1111222211111    11111      1111122333


Q ss_pred             CCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceE
Q psy17974        470 APLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGL  549 (583)
Q Consensus       470 p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~v  549 (583)
                      ++....-|+.+||.+.-..|      +...||..+|.   |         ...+.||--||-.+    .|++.+.+|+.-
T Consensus       125 ~~~~~fKiiIlDEcdsmtsd------aq~aLrr~mE~---~---------s~~trFiLIcnyls----rii~pi~SRC~K  182 (346)
T KOG0989|consen  125 YPCPPFKIIILDECDSMTSD------AQAALRRTMED---F---------SRTTRFILICNYLS----RIIRPLVSRCQK  182 (346)
T ss_pred             CCCCcceEEEEechhhhhHH------HHHHHHHHHhc---c---------ccceEEEEEcCChh----hCChHHHhhHHH
Confidence            33333357889999887666      34568888873   1         23577888888876    788899999999


Q ss_pred             EEeCCCCHHHHHHHHHHHh
Q psy17974        550 LSLPSPTEDTLKVIFKVRT  568 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~~l  568 (583)
                      +.++...++.+......|-
T Consensus       183 frFk~L~d~~iv~rL~~Ia  201 (346)
T KOG0989|consen  183 FRFKKLKDEDIVDRLEKIA  201 (346)
T ss_pred             hcCCCcchHHHHHHHHHHH
Confidence            9999999877766666553

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.32  E-value=1.2e-05  Score=85.92  Aligned_cols=143  Identities=15%  Similarity=0.263  Sum_probs=87.4

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhccc------C--CceEEEEEeccCCChHHHHHHHHhhhhhhcCcc
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLAS------N--TWAALTINFSAQTSSARTQEILEGKLDKRTKTL  467 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~------~--~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~  467 (583)
                      +...++.|   +++||+||+|+|||++++.+++.+...      +  .+..+.++-....+.+++.++++. +.      
T Consensus        29 l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~l~~~-~~------  101 (367)
T PRK14970         29 LLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDDIRNLIDQ-VR------  101 (367)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHHHHHHHHH-Hh------
Confidence            44555554   368999999999999999998876321      1  122222322222223455544432 11      


Q ss_pred             ccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc
Q psy17974        468 LGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF  547 (583)
Q Consensus       468 ~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f  547 (583)
                      ..|..+++-|++|||++.....      ..+.+...++..            ...+.+|.+++.    +..+.+.+.+++
T Consensus       102 ~~p~~~~~kiviIDE~~~l~~~------~~~~ll~~le~~------------~~~~~~Il~~~~----~~kl~~~l~sr~  159 (367)
T PRK14970        102 IPPQTGKYKIYIIDEVHMLSSA------AFNAFLKTLEEP------------PAHAIFILATTE----KHKIIPTILSRC  159 (367)
T ss_pred             hccccCCcEEEEEeChhhcCHH------HHHHHHHHHhCC------------CCceEEEEEeCC----cccCCHHHHhcc
Confidence            1244455668999998754321      233344444421            123456666543    346888999999


Q ss_pred             eEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        548 GLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       548 ~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .++.++.|+.+++..+...+...
T Consensus       160 ~~v~~~~~~~~~l~~~l~~~~~~  182 (367)
T PRK14970        160 QIFDFKRITIKDIKEHLAGIAVK  182 (367)
T ss_pred             eeEecCCccHHHHHHHHHHHHHH
Confidence            99999999999999888876653

>KOG0744|consensus

Probab=98.31  E-value=2e-06  Score=87.63  Aligned_cols=150  Identities=19%  Similarity=0.270  Sum_probs=90.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhccc--CCc---eEEEEEeccCC------ChHHHHHHHHhhhhhhcCccccCC
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLAS--NTW---AALTINFSAQT------SSARTQEILEGKLDKRTKTLLGAP  471 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~--~~~---~~~~i~fS~~T------t~~~lq~~ie~~l~~~~~~~~~p~  471 (583)
                      +..++=+||.||||||||++++++++++.-+  +.|   ..+-||..+--      +...++++. ++++.-..     -
T Consensus       174 It~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFsESgKlV~kmF-~kI~ELv~-----d  247 (423)
T KOG0744|consen  174 ITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFSESGKLVAKMF-QKIQELVE-----D  247 (423)
T ss_pred             eeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhHHHHHHHhhhhhHHHHHH-HHHHHHHh-----C
Confidence            4456778999999999999999999986311  111   23344432211      122222222 22211100     1


Q ss_pred             CCCeEEEEecCCCCCCccc----CCCCC------hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCCh
Q psy17974        472 LGKRLAVFVDDVNMPKLET----YGAQP------PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTP  541 (583)
Q Consensus       472 ~gk~~vlfiDDln~p~~d~----yg~q~------~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~  541 (583)
                      .|.-..+.|||+-.-..-+    .|+.|      +..+|-|+-           ..+...|+.++||.|-..    .|+.
T Consensus       248 ~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlD-----------rlK~~~NvliL~TSNl~~----siD~  312 (423)
T KOG0744|consen  248 RGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLD-----------RLKRYPNVLILATSNLTD----SIDV  312 (423)
T ss_pred             CCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHH-----------HhccCCCEEEEeccchHH----HHHH
Confidence            2223345699986432111    12222      234444442           234457899999988765    7888


Q ss_pred             hhhccce-EEEeCCCCHHHHHHHHHHHhccccc
Q psy17974        542 RFVRHFG-LLSLPSPTEDTLKVIFKVRTSPGKQ  573 (583)
Q Consensus       542 Rllr~f~-vi~i~~p~~~sl~~I~~~~l~~~l~  573 (583)
                      +|..|-- +.++.+|+...+..||.+.+.....
T Consensus       313 AfVDRADi~~yVG~Pt~~ai~~IlkscieEL~~  345 (423)
T KOG0744|consen  313 AFVDRADIVFYVGPPTAEAIYEILKSCIEELIS  345 (423)
T ss_pred             HhhhHhhheeecCCccHHHHHHHHHHHHHHHHh
Confidence            9988886 7999999999999999998875543

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.30  E-value=9e-06  Score=94.77  Aligned_cols=142  Identities=13%  Similarity=0.196  Sum_probs=93.4

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhccc----------------------CCceEEEEEeccCCChHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLAS----------------------NTWAALTINFSAQTSSARTQ  453 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~----------------------~~~~~~~i~fS~~Tt~~~lq  453 (583)
                      |..++..+   +.+||+||+|||||++++.+++.+.-.                      ....++.++-+.....+++.
T Consensus        27 L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~dv~eidaas~~~Vd~iR  106 (824)
T PRK07764         27 LSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLDVTEIDAASHGGVDDAR  106 (824)
T ss_pred             HHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCcEEEecccccCCHHHHH
Confidence            44445543   347999999999999999998877200                      12334444433333445555


Q ss_pred             HHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        454 EILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       454 ~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      ++++ ++      .|.|..+++-|++|||+++-..+      ....|+.++|.-            ...+.||.+++.+.
T Consensus       107 ~l~~-~~------~~~p~~~~~KV~IIDEad~lt~~------a~NaLLK~LEEp------------P~~~~fIl~tt~~~  161 (824)
T PRK07764        107 ELRE-RA------FFAPAESRYKIFIIDEAHMVTPQ------GFNALLKIVEEP------------PEHLKFIFATTEPD  161 (824)
T ss_pred             HHHH-HH------HhchhcCCceEEEEechhhcCHH------HHHHHHHHHhCC------------CCCeEEEEEeCChh
Confidence            4322 11      24455567778999999997654      344555566531            23566777665543


Q ss_pred             CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        534 GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       534 ~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                          .|.+-+.+++.++.+..++.+++......+++
T Consensus       162 ----kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~  193 (824)
T PRK07764        162 ----KVIGTIRSRTHHYPFRLVPPEVMRGYLERICA  193 (824)
T ss_pred             ----hhhHHHHhheeEEEeeCCCHHHHHHHHHHHHH
Confidence                47788999999999999999999888877664

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.30  E-value=9.1e-06  Score=89.68  Aligned_cols=175  Identities=15%  Similarity=0.178  Sum_probs=109.9

Q ss_pred             cceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhh
Q psy17974        384 DMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKR  463 (583)
Q Consensus       384 ~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~  463 (583)
                      +++-.+....+....+..+...+.||++.|++|||||++++.+.... .......+.++|+... .    ..+++.+...
T Consensus       139 ~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~s-~~~~~~~i~i~c~~~~-~----~~~~~~lfg~  212 (469)
T PRK10923        139 DIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHS-PRAKAPFIALNMAAIP-K----DLIESELFGH  212 (469)
T ss_pred             cceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhcC-CCCCCCeEeeeCCCCC-H----HHHHHHhcCC
Confidence            34555666666777778888899999999999999999998877654 2344567889987752 2    2334444333


Q ss_pred             cCcccc-C--------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC
Q psy17974        464 TKTLLG-A--------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG  534 (583)
Q Consensus       464 ~~~~~~-p--------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~  534 (583)
                      .+|.|. +        .......+|+||++.-..+      ..+.|.++++.+.+......... -.|+.+|+|++.+-.
T Consensus       213 ~~g~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~~~------~q~~L~~~l~~~~~~~~~~~~~~-~~~~rii~~~~~~l~  285 (469)
T PRK10923        213 EKGAFTGANTIRQGRFEQADGGTLFLDEIGDMPLD------VQTRLLRVLADGQFYRVGGYAPV-KVDVRIIAATHQNLE  285 (469)
T ss_pred             CCCCCCCCCcCCCCCeeECCCCEEEEeccccCCHH------HHHHHHHHHhcCcEEeCCCCCeE-EeeEEEEEeCCCCHH
Confidence            333331 1        0112346899999654333      33556667777766553332222 258999999876521


Q ss_pred             ---CCCCCChhhhccceEEEeCCCC----HHHHHHHHHHHhccc
Q psy17974        535 ---GRMPLTPRFVRHFGLLSLPSPT----EDTLKVIFKVRTSPG  571 (583)
Q Consensus       535 ---gr~~l~~Rllr~f~vi~i~~p~----~~sl~~I~~~~l~~~  571 (583)
                         ....+.+.|..+++++.+.-|.    .+++..+...++..+
T Consensus       286 ~~~~~~~~~~~L~~~l~~~~i~~PpLreR~~Di~~l~~~~l~~~  329 (469)
T PRK10923        286 QRVQEGKFREDLFHRLNVIRVHLPPLRERREDIPRLARHFLQVA  329 (469)
T ss_pred             HHHHcCCchHHHHHHhcceeecCCCcccchhhHHHHHHHHHHHH
Confidence               1235678888888755554443    366777777777654

>KOG0651|consensus

Probab=98.30  E-value=2.7e-06  Score=86.23  Aligned_cols=142  Identities=20%  Similarity=0.269  Sum_probs=85.1

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEE
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVF  479 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlf  479 (583)
                      -++..+.++|.||||+|||.+++.++.++    +..++.+.-|+-.+.  ..--++|......       +..-.+||+|
T Consensus       162 gIk~Pkg~ll~GppGtGKTlla~~Vaa~m----g~nfl~v~ss~lv~kyiGEsaRlIRemf~y-------A~~~~pciif  230 (388)
T KOG0651|consen  162 GIKPPKGLLLYGPPGTGKTLLARAVAATM----GVNFLKVVSSALVDKYIGESARLIRDMFRY-------AREVIPCIIF  230 (388)
T ss_pred             CCCCCceeEEeCCCCCchhHHHHHHHHhc----CCceEEeeHhhhhhhhcccHHHHHHHHHHH-------HhhhCceEEe
Confidence            35556789999999999999999999987    233433332221110  0001122222111       2233469999


Q ss_pred             ecCCCCCCccc--CCCCChHHHHHHHHHhC-CeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce---EEEeC
Q psy17974        480 VDDVNMPKLET--YGAQPPIELLRQFLDFG-GLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG---LLSLP  553 (583)
Q Consensus       480 iDDln~p~~d~--yg~q~~lElLRq~ld~~-g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~---vi~i~  553 (583)
                      +|||+.-.-..  -||..--|.-|.+++-- +|+.     +..+..+.+|+|.|.|.    .+.|.|+|-=+   -+++|
T Consensus       231 mdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdg-----fd~l~rVk~ImatNrpd----tLdpaLlRpGRldrk~~iP  301 (388)
T KOG0651|consen  231 MDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDG-----FDTLHRVKTIMATNRPD----TLDPALLRPGRLDRKVEIP  301 (388)
T ss_pred             ehhhhhhccEEeccccchhHHHHHHHHHHHHhhcc-----chhcccccEEEecCCcc----ccchhhcCCccccceeccC
Confidence            99999754222  23433344444444321 3332     33467889999999887    78888887432   48898


Q ss_pred             CCCHHHHHHH
Q psy17974        554 SPTEDTLKVI  563 (583)
Q Consensus       554 ~p~~~sl~~I  563 (583)
                      -|++.+-..|
T Consensus       302 lpne~~r~~I  311 (388)
T KOG0651|consen  302 LPNEQARLGI  311 (388)
T ss_pred             Ccchhhceee
Confidence            8887765443

>KOG2004|consensus

Probab=98.30  E-value=2.8e-06  Score=94.19  Aligned_cols=145  Identities=21%  Similarity=0.273  Sum_probs=96.0

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc-cCCCC-----------
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL-GAPLG-----------  473 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~-~p~~g-----------  473 (583)
                      |+-+.++||||+|||++++.+++.+. .   .+.++.....|+.+.+.+         .+++| |+-+|           
T Consensus       438 GkIlCf~GPPGVGKTSI~kSIA~ALn-R---kFfRfSvGG~tDvAeIkG---------HRRTYVGAMPGkiIq~LK~v~t  504 (906)
T KOG2004|consen  438 GKILCFVGPPGVGKTSIAKSIARALN-R---KFFRFSVGGMTDVAEIKG---------HRRTYVGAMPGKIIQCLKKVKT  504 (906)
T ss_pred             CcEEEEeCCCCCCcccHHHHHHHHhC-C---ceEEEeccccccHHhhcc---------cceeeeccCChHHHHHHHhhCC
Confidence            56778999999999999999999983 2   244555555565544321         22233 33222           


Q ss_pred             CeEEEEecCCCCCCcccCCCCChHHHHHHHHH---hCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEE
Q psy17974        474 KRLAVFVDDVNMPKLETYGAQPPIELLRQFLD---FGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLL  550 (583)
Q Consensus       474 k~~vlfiDDln~p~~d~yg~q~~lElLRq~ld---~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi  550 (583)
                      ..-++.|||++--...--|. |.-.+| .++|   +..|.|.-=.--..+..+.||||.|.-.    .|++.|+-|.-+|
T Consensus       505 ~NPliLiDEvDKlG~g~qGD-PasALL-ElLDPEQNanFlDHYLdVp~DLSkVLFicTAN~id----tIP~pLlDRMEvI  578 (906)
T KOG2004|consen  505 ENPLILIDEVDKLGSGHQGD-PASALL-ELLDPEQNANFLDHYLDVPVDLSKVLFICTANVID----TIPPPLLDRMEVI  578 (906)
T ss_pred             CCceEEeehhhhhCCCCCCC-hHHHHH-HhcChhhccchhhhccccccchhheEEEEeccccc----cCChhhhhhhhee
Confidence            23467899998776433332 333333 2222   1223222111223467899999999865    7999999999999


Q ss_pred             EeCCCCHHHHHHHHHHHhc
Q psy17974        551 SLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       551 ~i~~p~~~sl~~I~~~~l~  569 (583)
                      .++-...++-..|-..+|-
T Consensus       579 elsGYv~eEKv~IA~~yLi  597 (906)
T KOG2004|consen  579 ELSGYVAEEKVKIAERYLI  597 (906)
T ss_pred             eccCccHHHHHHHHHHhhh
Confidence            9999999999999888874

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.29  E-value=7.5e-06  Score=91.60  Aligned_cols=134  Identities=15%  Similarity=0.221  Sum_probs=86.1

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHHHHhhhhhhcCc
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEILEGKLDKRTKT  466 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~  466 (583)
                      +.+|++||+|+|||++++.+++.+.-..                    ...++.++-+.....+++..+++ .+.     
T Consensus        39 hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~DiieIdaas~igVd~IReIi~-~~~-----  112 (605)
T PRK05896         39 HAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVDIVELDAASNNGVDEIRNIID-NIN-----  112 (605)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCCceEEeccccccCHHHHHHHHH-HHH-----
Confidence            4589999999999999999988762100                    01122232222234444444432 222     


Q ss_pred             cccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhcc
Q psy17974        467 LLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRH  546 (583)
Q Consensus       467 ~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~  546 (583)
                       +.|..+++-|++|||+++-..+      ....|+..+|..            ...+.+|.+++.+    ..+.+.+.+|
T Consensus       113 -~~P~~~~~KVIIIDEad~Lt~~------A~NaLLKtLEEP------------p~~tvfIL~Tt~~----~KLl~TI~SR  169 (605)
T PRK05896        113 -YLPTTFKYKVYIIDEAHMLSTS------AWNALLKTLEEP------------PKHVVFIFATTEF----QKIPLTIISR  169 (605)
T ss_pred             -hchhhCCcEEEEEechHhCCHH------HHHHHHHHHHhC------------CCcEEEEEECCCh----HhhhHHHHhh
Confidence             2344445567999999986543      234455555531            1246677666554    3688899999


Q ss_pred             ceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        547 FGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       547 f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      +.++.+..++.+++...+..++.
T Consensus       170 cq~ieF~~Ls~~eL~~~L~~il~  192 (605)
T PRK05896        170 CQRYNFKKLNNSELQELLKSIAK  192 (605)
T ss_pred             hhhcccCCCCHHHHHHHHHHHHH
Confidence            99999999999999988887765

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=98.29  E-value=1.1e-05  Score=86.08  Aligned_cols=166  Identities=22%  Similarity=0.263  Sum_probs=108.7

Q ss_pred             hhHHHHHHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhccc-CCceEEEEEeccCCChHHHHHHHHhhhhh------h
Q psy17974        393 IRFGSIMEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLAS-NTWAALTINFSAQTSSARTQEILEGKLDK------R  463 (583)
Q Consensus       393 ~r~~~ll~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~------~  463 (583)
                      .+....+...+.++.  ++++.||||||||++++.+++++... ....++.|||-...++-++-..|-+++.+      .
T Consensus        27 ~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~~~p~~g~~  106 (366)
T COG1474          27 NQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVPLTGDS  106 (366)
T ss_pred             HHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcCCCCCCCCc
Confidence            445555666676654  58999999999999999999887433 22337899998887776655444443321      0


Q ss_pred             cCccc------cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCC
Q psy17974        464 TKTLL------GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRM  537 (583)
Q Consensus       464 ~~~~~------~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~  537 (583)
                      ....|      -+..++..|+.+||+|.-.... |     +.|=+++...+-.         -..+.+|+..|...- ..
T Consensus       107 ~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~-~-----~~LY~L~r~~~~~---------~~~v~vi~i~n~~~~-~~  170 (366)
T COG1474         107 SLEILKRLYDNLSKKGKTVIVILDEVDALVDKD-G-----EVLYSLLRAPGEN---------KVKVSIIAVSNDDKF-LD  170 (366)
T ss_pred             hHHHHHHHHHHHHhcCCeEEEEEcchhhhcccc-c-----hHHHHHHhhcccc---------ceeEEEEEEeccHHH-HH
Confidence            00111      1235678999999999754432 2     3333333222111         234667777665422 45


Q ss_pred             CCChhhhccce--EEEeCCCCHHHHHHHHHHHhcccccC
Q psy17974        538 PLTPRFVRHFG--LLSLPSPTEDTLKVIFKVRTSPGKQE  574 (583)
Q Consensus       538 ~l~~Rllr~f~--vi~i~~p~~~sl~~I~~~~l~~~l~~  574 (583)
                      .+++|+.+++.  -|.+++.+.++|..|...-.+..|..
T Consensus       171 ~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~  209 (366)
T COG1474         171 YLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSA  209 (366)
T ss_pred             HhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccC
Confidence            68899988775  47899999999999999988876654

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=98.28  E-value=8.1e-06  Score=91.01  Aligned_cols=178  Identities=15%  Similarity=0.154  Sum_probs=107.7

Q ss_pred             CccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh-------cccCCceEEEEEeccCCChHHHHH
Q psy17974        382 FFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL-------LASNTWAALTINFSAQTSSARTQE  454 (583)
Q Consensus       382 ~~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l-------~~~~~~~~~~i~fS~~Tt~~~lq~  454 (583)
                      +.+++=..+...+....+..+...+.||||.|++||||+++++.+-..+       ....+..++.+||++.+.     .
T Consensus       218 f~~iiG~S~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaal~e-----~  292 (538)
T PRK15424        218 LGDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGAIAE-----S  292 (538)
T ss_pred             hhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecccCCh-----h
Confidence            3344444555666777788888899999999999999999999886641       122345788899988543     3


Q ss_pred             HHHhhhhhhcCccc-cCC---------CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeE
Q psy17974        455 ILEGKLDKRTKTLL-GAP---------LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVV  524 (583)
Q Consensus       455 ~ie~~l~~~~~~~~-~p~---------~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~  524 (583)
                      .+++.+-...+|.| |..         ......+|+||+..-+.+      .-.-|..+++.+.+....... ..-.|++
T Consensus       293 lleseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~------~Q~kLl~~L~e~~~~r~G~~~-~~~~dvR  365 (538)
T PRK15424        293 LLEAELFGYEEGAFTGSRRGGRAGLFEIAHGGTLFLDEIGEMPLP------LQTRLLRVLEEKEVTRVGGHQ-PVPVDVR  365 (538)
T ss_pred             hHHHHhcCCccccccCccccccCCchhccCCCEEEEcChHhCCHH------HHHHHHhhhhcCeEEecCCCc-eeccceE
Confidence            34444433223322 211         122457999999864433      233444556655554322211 1235889


Q ss_pred             EEEecCCCCC---CCCCCChhhhccceEE--EeCCCCH--HHHHHHHHHHhccc
Q psy17974        525 LCTACAPPGG---GRMPLTPRFVRHFGLL--SLPSPTE--DTLKVIFKVRTSPG  571 (583)
Q Consensus       525 ~iaa~~p~~~---gr~~l~~Rllr~f~vi--~i~~p~~--~sl~~I~~~~l~~~  571 (583)
                      +|+|++.+-.   ....+.+.|..+++++  .+|+..+  +++..+...++..+
T Consensus       366 iIaat~~~L~~~v~~g~Fr~dL~yrL~~~~I~lPPLReR~eDI~~L~~~fl~~~  419 (538)
T PRK15424        366 VISATHCDLEEDVRQGRFRRDLFYRLSILRLQLPPLRERVADILPLAESFLKQS  419 (538)
T ss_pred             EEEecCCCHHHHHhcccchHHHHHHhcCCeecCCChhhchhHHHHHHHHHHHHH
Confidence            9999876521   1223445666666654  4554433  56777777777654

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.27  E-value=1.5e-05  Score=92.28  Aligned_cols=175  Identities=20%  Similarity=0.208  Sum_probs=105.3

Q ss_pred             cceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhh
Q psy17974        384 DMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKR  463 (583)
Q Consensus       384 ~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~  463 (583)
                      +++-..+...+...-++.+...+.||||+|++|||||++++.+.... ...+..++.++|.+.. +..    +++.+-..
T Consensus       377 ~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s-~r~~~~~v~i~c~~~~-~~~----~~~~lfg~  450 (686)
T PRK15429        377 EIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS-GRNNRRMVKMNCAAMP-AGL----LESDLFGH  450 (686)
T ss_pred             ceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc-CCCCCCeEEEecccCC-hhH----hhhhhcCc
Confidence            33333444555556677788889999999999999999999887643 2335678889988753 222    23332222


Q ss_pred             cCccc-cC--------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-
Q psy17974        464 TKTLL-GA--------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-  533 (583)
Q Consensus       464 ~~~~~-~p--------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-  533 (583)
                      .++.+ |.        ......++||||+.....+      .-+-|..+++.+.+....... ..-.++++|+|++.+- 
T Consensus       451 ~~~~~~g~~~~~~g~le~a~~GtL~Ldei~~L~~~------~Q~~L~~~l~~~~~~~~g~~~-~~~~~~RiI~~t~~~l~  523 (686)
T PRK15429        451 ERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLE------LQPKLLRVLQEQEFERLGSNK-IIQTDVRLIAATNRDLK  523 (686)
T ss_pred             ccccccccccchhhHHHhcCCCeEEEechhhCCHH------HHHHHHHHHHhCCEEeCCCCC-cccceEEEEEeCCCCHH
Confidence            22211 11        0122458999999875544      345566677766654432221 1124789999988752 


Q ss_pred             --CCCCCCChhhhccceEEEeCCCC--H--HHHHHHHHHHhccc
Q psy17974        534 --GGRMPLTPRFVRHFGLLSLPSPT--E--DTLKVIFKVRTSPG  571 (583)
Q Consensus       534 --~gr~~l~~Rllr~f~vi~i~~p~--~--~sl~~I~~~~l~~~  571 (583)
                        .....+.+.|..+++++.+.-|.  +  +++-.+...++..+
T Consensus       524 ~~~~~~~f~~~L~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~  567 (686)
T PRK15429        524 KMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLVKAFTFKI  567 (686)
T ss_pred             HHHHcCcccHHHHhccCeeEEeCCChhhhHhHHHHHHHHHHHHH
Confidence              12335666677777665444443  2  56666676666554

>PRK06526 transposase; Provisional

Probab=98.25  E-value=4.4e-07  Score=92.02  Aligned_cols=131  Identities=24%  Similarity=0.296  Sum_probs=72.9

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc---CCCCCeEE
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG---APLGKRLA  477 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~---p~~gk~~v  477 (583)
                      .++..+.+++|+||||||||+++.++..... ..++.+.++      +...+..-+....   ..+.+.   ..-.+.-+
T Consensus        93 ~fi~~~~nlll~Gp~GtGKThLa~al~~~a~-~~g~~v~f~------t~~~l~~~l~~~~---~~~~~~~~l~~l~~~dl  162 (254)
T PRK06526         93 DFVTGKENVVFLGPPGTGKTHLAIGLGIRAC-QAGHRVLFA------TAAQWVARLAAAH---HAGRLQAELVKLGRYPL  162 (254)
T ss_pred             chhhcCceEEEEeCCCCchHHHHHHHHHHHH-HCCCchhhh------hHHHHHHHHHHHH---hcCcHHHHHHHhccCCE
Confidence            3567889999999999999999999877653 234444332      2222222221110   111110   01123457


Q ss_pred             EEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC------CCC----CCChhhhccc
Q psy17974        478 VFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG------GRM----PLTPRFVRHF  547 (583)
Q Consensus       478 lfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~------gr~----~l~~Rllr~f  547 (583)
                      ++|||+.....+.    ...++|-++++..  |..          -.+|.++|-|.+      |..    .+-.|+..|.
T Consensus       163 LIIDD~g~~~~~~----~~~~~L~~li~~r--~~~----------~s~IitSn~~~~~w~~~~~d~~~a~ai~dRl~~~~  226 (254)
T PRK06526        163 LIVDEVGYIPFEP----EAANLFFQLVSSR--YER----------ASLIVTSNKPFGRWGEVFGDDVVAAAMIDRLVHHA  226 (254)
T ss_pred             EEEcccccCCCCH----HHHHHHHHHHHHH--Hhc----------CCEEEEcCCCHHHHHHHcCChHHHHHHHHHHhcCc
Confidence            8899998765443    2335666666532  211          124445554421      111    1236888899


Q ss_pred             eEEEeCCCCH
Q psy17974        548 GLLSLPSPTE  557 (583)
Q Consensus       548 ~vi~i~~p~~  557 (583)
                      .+|.++..|-
T Consensus       227 ~~i~~~g~s~  236 (254)
T PRK06526        227 EVISLKGDSY  236 (254)
T ss_pred             eEEeecCCCc
Confidence            9999987654

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.23  E-value=1.1e-05  Score=91.29  Aligned_cols=143  Identities=17%  Similarity=0.216  Sum_probs=94.1

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..+++.|   +..||+||+|+|||++++.+++.+.-.+                    ...++.++-+.....+++.++
T Consensus        28 L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~~eid~~s~~~v~~ir~l  107 (576)
T PRK14965         28 LQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDVFEIDGASNTGVDDIREL  107 (576)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCeeeeeccCccCHHHHHHH
Confidence            44455554   3469999999999999999988763111                    112333433334455566554


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++ .+.      |.|..+++-|++|||+|+-..+      ....|.-.+|.-            ...+.||.+++.+.  
T Consensus       108 ~~-~~~------~~p~~~~~KVvIIdev~~Lt~~------a~naLLk~LEep------------p~~~~fIl~t~~~~--  160 (576)
T PRK14965        108 RE-NVK------YLPSRSRYKIFIIDEVHMLSTN------AFNALLKTLEEP------------PPHVKFIFATTEPH--  160 (576)
T ss_pred             HH-HHH------hccccCCceEEEEEChhhCCHH------HHHHHHHHHHcC------------CCCeEEEEEeCChh--
Confidence            32 222      3455566678999999987654      234455555521            23567777776553  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        .|.+.+.+|+.++.+..++.+++......+++.
T Consensus       161 --kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~  193 (576)
T PRK14965        161 --KVPITILSRCQRFDFRRIPLQKIVDRLRYIADQ  193 (576)
T ss_pred             --hhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHH
Confidence              688999999999999999999988877776653

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=98.22  E-value=6.4e-06  Score=93.22  Aligned_cols=150  Identities=21%  Similarity=0.220  Sum_probs=91.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHH--HhhhhhhcCccc--cCC-CCCeEEEEec
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEIL--EGKLDKRTKTLL--GAP-LGKRLAVFVD  481 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~i--e~~l~~~~~~~~--~p~-~gk~~vlfiD  481 (583)
                      .+|||.|++|||||++++.+...+..  ...++.++++  .+.+.+-.-+  +..+.. ....+  |+- .....++|+|
T Consensus        17 g~vLl~G~~GtgKs~lar~l~~~~~~--~~pfv~i~~~--~t~d~L~G~idl~~~~~~-g~~~~~~G~L~~A~~GvL~lD   91 (589)
T TIGR02031        17 GGVAIRARAGTGKTALARALAEILPP--IMPFVELPLG--VTEDRLIGGIDVEESLAG-GQRVTQPGLLDEAPRGVLYVD   91 (589)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhCCc--CCCeEecCcc--cchhhcccchhhhhhhhc-CcccCCCCCeeeCCCCcEecc
Confidence            38999999999999999999876531  1124445542  2333322221  111110 01111  111 1334589999


Q ss_pred             CCCCCCcccCCCCChHHHHHHHHHhCCe-eecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceE-EEeCCC-CHH
Q psy17974        482 DVNMPKLETYGAQPPIELLRQFLDFGGL-YDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGL-LSLPSP-TED  558 (583)
Q Consensus       482 Dln~p~~d~yg~q~~lElLRq~ld~~g~-yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~v-i~i~~p-~~~  558 (583)
                      |+|...++      ....|.+.++.|.. +.+.......-.++.+|||+||.. +...+++.++.+|.+ +.+.++ +.+
T Consensus        92 Ei~rl~~~------~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e-~~g~L~~~LldRf~l~v~~~~~~~~~  164 (589)
T TIGR02031        92 MANLLDDG------LSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAE-GGGGLPDHLLDRLALHVSLEDVASQD  164 (589)
T ss_pred             chhhCCHH------HHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCcc-ccCCCCHHHHHhccCeeecCCCCCHH
Confidence            99987665      46777788887764 344444445557899999999874 122789999999985 455544 444


Q ss_pred             HHHHHHHHHh
Q psy17974        559 TLKVIFKVRT  568 (583)
Q Consensus       559 sl~~I~~~~l  568 (583)
                      .-..|....+
T Consensus       165 er~eil~~~~  174 (589)
T TIGR02031       165 LRVEIVRRER  174 (589)
T ss_pred             HHHHHHHHHH
Confidence            4455555554

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=2.1e-05  Score=87.03  Aligned_cols=144  Identities=16%  Similarity=0.245  Sum_probs=88.6

Q ss_pred             HHHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcc--cCC------------------ceEEEEEeccCCChHHHHH
Q psy17974        398 IMEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLA--SNT------------------WAALTINFSAQTSSARTQE  454 (583)
Q Consensus       398 ll~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~--~~~------------------~~~~~i~fS~~Tt~~~lq~  454 (583)
                      .+..++..++   ..||+||+|+|||++++.+++.+.-  ...                  ..+..++-++....+++..
T Consensus        27 ~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~eidaas~~gvd~ir~  106 (486)
T PRK14953         27 ILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIEIDAASNRGIDDIRA  106 (486)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEEEeCccCCCHHHHHH
Confidence            4455565553   3589999999999999998887631  100                  0122232222233333333


Q ss_pred             HHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC
Q psy17974        455 ILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG  534 (583)
Q Consensus       455 ~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~  534 (583)
                      + ...+      .+.|..+++-|++|||+++...+      ..+.|...++..            ...+.+|.+++.+. 
T Consensus       107 I-~~~~------~~~P~~~~~KVvIIDEad~Lt~~------a~naLLk~LEep------------p~~~v~Il~tt~~~-  160 (486)
T PRK14953        107 L-RDAV------SYTPIKGKYKVYIIDEAHMLTKE------AFNALLKTLEEP------------PPRTIFILCTTEYD-  160 (486)
T ss_pred             H-HHHH------HhCcccCCeeEEEEEChhhcCHH------HHHHHHHHHhcC------------CCCeEEEEEECCHH-
Confidence            2 2222      23466677889999999987543      233344444421            12345555554332 


Q ss_pred             CCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        535 GRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       535 gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                         .+.+.+.+++.++.+..++.+++......+++.
T Consensus       161 ---kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~  193 (486)
T PRK14953        161 ---KIPPTILSRCQRFIFSKPTKEQIKEYLKRICNE  193 (486)
T ss_pred             ---HHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHH
Confidence               577889999999999999999999888877653

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.20  E-value=2.2e-05  Score=87.71  Aligned_cols=170  Identities=20%  Similarity=0.205  Sum_probs=105.9

Q ss_pred             CchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc
Q psy17974        389 TIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL  468 (583)
Q Consensus       389 T~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~  468 (583)
                      .+...+....++.+...+.||||.|++||||+.+++.+..... ..+-.++.+||++... .    .+++.+-...++.|
T Consensus       193 s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~-r~~~p~v~v~c~~~~~-~----~~e~~lfG~~~g~~  266 (509)
T PRK05022        193 SPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASP-RADKPLVYLNCAALPE-S----LAESELFGHVKGAF  266 (509)
T ss_pred             CHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC-cCCCCeEEEEcccCCh-H----HHHHHhcCcccccc
Confidence            3445666677888888999999999999999999999877542 2345678899987643 2    23333322122222


Q ss_pred             -cC--------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC---CCC
Q psy17974        469 -GA--------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG---GGR  536 (583)
Q Consensus       469 -~p--------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~---~gr  536 (583)
                       |+        ......++|+||++.-..+      ...-|.++++.+.+....... ..-.|+.+|+|++.+-   -..
T Consensus       267 ~ga~~~~~g~~~~a~gGtL~ldeI~~L~~~------~Q~~Ll~~l~~~~~~~~g~~~-~~~~~~RiI~~t~~~l~~~~~~  339 (509)
T PRK05022        267 TGAISNRSGKFELADGGTLFLDEIGELPLA------LQAKLLRVLQYGEIQRVGSDR-SLRVDVRVIAATNRDLREEVRA  339 (509)
T ss_pred             CCCcccCCcchhhcCCCEEEecChhhCCHH------HHHHHHHHHhcCCEeeCCCCc-ceecceEEEEecCCCHHHHHHc
Confidence             11        1123457899999876544      234455567766654432221 1125899999988652   123


Q ss_pred             CCCChhhhccceE--EEeCCCCH--HHHHHHHHHHhccc
Q psy17974        537 MPLTPRFVRHFGL--LSLPSPTE--DTLKVIFKVRTSPG  571 (583)
Q Consensus       537 ~~l~~Rllr~f~v--i~i~~p~~--~sl~~I~~~~l~~~  571 (583)
                      ..+.+.|..++++  |.+|+..+  +++..+...++..+
T Consensus       340 ~~f~~dL~~rl~~~~i~lPpLreR~eDI~~L~~~fl~~~  378 (509)
T PRK05022        340 GRFRADLYHRLSVFPLSVPPLRERGDDVLLLAGYFLEQN  378 (509)
T ss_pred             CCccHHHHhcccccEeeCCCchhchhhHHHHHHHHHHHH
Confidence            3567778777775  55555433  56777777666654

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=98.20  E-value=1.5e-05  Score=84.09  Aligned_cols=84  Identities=21%  Similarity=0.354  Sum_probs=58.4

Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHHhC-CeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEe
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFG-GLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSL  552 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~-g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i  552 (583)
                      ..++|+||+|...++      ....|-+.++.| .-+.+.......-.++.++|++||..+   .+++.++.+|. .+.+
T Consensus       145 ~GiL~lDEInrL~~~------~Q~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~eg---~l~~~LldRf~l~i~l  215 (350)
T CHL00081        145 RGILYVDEVNLLDDH------LVDILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEEG---ELRPQLLDRFGMHAEI  215 (350)
T ss_pred             CCEEEecChHhCCHH------HHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCcccC---CCCHHHHHHhCceeec
Confidence            568999999987655      234455566654 234433333344458889999988742   48999999998 4889


Q ss_pred             CCCCH-HHHHHHHHHH
Q psy17974        553 PSPTE-DTLKVIFKVR  567 (583)
Q Consensus       553 ~~p~~-~sl~~I~~~~  567 (583)
                      .+|+. +.-..|...-
T Consensus       216 ~~~~~~~~e~~il~~~  231 (350)
T CHL00081        216 RTVKDPELRVKIVEQR  231 (350)
T ss_pred             CCCCChHHHHHHHHhh
Confidence            99984 7777777664

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.19  E-value=2.9e-05  Score=88.27  Aligned_cols=142  Identities=18%  Similarity=0.263  Sum_probs=90.6

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC----------------------CceEEEEEeccCCChHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN----------------------TWAALTINFSAQTSSARTQ  453 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~----------------------~~~~~~i~fS~~Tt~~~lq  453 (583)
                      +..++..+   +.+||+||+|+|||++++.+++.+.-..                      ...++.++-...+..++++
T Consensus        28 L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~D~~ei~~~~~~~vd~IR  107 (620)
T PRK14948         28 LKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNALDVIEIDAASNTGVDNIR  107 (620)
T ss_pred             HHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCccEEEEeccccCCHHHHH
Confidence            44444444   5789999999999999999988763110                      0123334433345566666


Q ss_pred             HHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        454 EILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       454 ~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      ++++. +.      +.|-.+++-|++|||.++-..+      ..+.|.-.+|.-            ..++.||.+++.+.
T Consensus       108 eii~~-a~------~~p~~~~~KViIIDEad~Lt~~------a~naLLK~LEeP------------p~~tvfIL~t~~~~  162 (620)
T PRK14948        108 ELIER-AQ------FAPVQARWKVYVIDECHMLSTA------AFNALLKTLEEP------------PPRVVFVLATTDPQ  162 (620)
T ss_pred             HHHHH-Hh------hChhcCCceEEEEECccccCHH------HHHHHHHHHhcC------------CcCeEEEEEeCChh
Confidence            66532 21      2333455668899999876543      234444455521            23566777766443


Q ss_pred             CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        534 GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       534 ~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                          .+.+.+.+|+.++.+..++.+++......+..
T Consensus       163 ----~llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~  194 (620)
T PRK14948        163 ----RVLPTIISRCQRFDFRRIPLEAMVQHLSEIAE  194 (620)
T ss_pred             ----hhhHHHHhheeEEEecCCCHHHHHHHHHHHHH
Confidence                47788999999999999999988776665544

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.18  E-value=2.7e-05  Score=89.40  Aligned_cols=182  Identities=16%  Similarity=0.149  Sum_probs=108.1

Q ss_pred             CCccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhh
Q psy17974        381 PFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKL  460 (583)
Q Consensus       381 ~~~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l  460 (583)
                      .+.+++-..+...+....+..+...+.||||.|++||||+++++.+..... ...-.++.+||++... +.+..-+-+..
T Consensus       323 ~~~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s~-r~~~pfv~vnc~~~~~-~~~~~elfg~~  400 (638)
T PRK11388        323 TFDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESE-RAAGPYIAVNCQLYPD-EALAEEFLGSD  400 (638)
T ss_pred             cccceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhCC-ccCCCeEEEECCCCCh-HHHHHHhcCCC
Confidence            355555555666777788888889999999999999999999999876542 2334678899887543 22222111111


Q ss_pred             -hhhcCccccC-CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC---C
Q psy17974        461 -DKRTKTLLGA-PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG---G  535 (583)
Q Consensus       461 -~~~~~~~~~p-~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~---g  535 (583)
                       ....++.-|. ......++|+||++....+      .-+.|.++++.+.+....... ..-.|+.+|+|++.+-.   .
T Consensus       401 ~~~~~~~~~g~~~~a~~GtL~ldei~~l~~~------~Q~~Ll~~l~~~~~~~~~~~~-~~~~~~riI~~t~~~l~~~~~  473 (638)
T PRK11388        401 RTDSENGRLSKFELAHGGTLFLEKVEYLSPE------LQSALLQVLKTGVITRLDSRR-LIPVDVRVIATTTADLAMLVE  473 (638)
T ss_pred             CcCccCCCCCceeECCCCEEEEcChhhCCHH------HHHHHHHHHhcCcEEeCCCCc-eEEeeEEEEEeccCCHHHHHh
Confidence             0011111111 0123457999999865544      234555566656544322211 11247899999886421   1


Q ss_pred             CCCCChhhhccceEEE--eCCCCH--HHHHHHHHHHhccc
Q psy17974        536 RMPLTPRFVRHFGLLS--LPSPTE--DTLKVIFKVRTSPG  571 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~--i~~p~~--~sl~~I~~~~l~~~  571 (583)
                      ...+.+.|.-+++++.  +|+.-+  +++..+...++..+
T Consensus       474 ~~~f~~dL~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~  513 (638)
T PRK11388        474 QNRFSRQLYYALHAFEITIPPLRMRREDIPALVNNKLRSL  513 (638)
T ss_pred             cCCChHHHhhhhceeEEeCCChhhhhhHHHHHHHHHHHHH
Confidence            2345566766776544  555433  57777777777654

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=98.18  E-value=7.3e-06  Score=94.83  Aligned_cols=152  Identities=14%  Similarity=0.156  Sum_probs=82.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCc----eEEEEEeccCCChHHHH-HHHHhhhhhhcCccccCCCCCeEEEEe
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTW----AALTINFSAQTSSARTQ-EILEGKLDKRTKTLLGAPLGKRLAVFV  480 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~----~~~~i~fS~~Tt~~~lq-~~ie~~l~~~~~~~~~p~~gk~~vlfi  480 (583)
                      ..||||+|+||||||.+++.+.+.. ....|    ....+.+++    .... +...+... ...|.+.  .....+++|
T Consensus       492 dihVLLvGDPGTGKSqLAr~Ih~ls-pR~~ytsG~~~s~vgLTa----~~~~~d~~tG~~~-le~GaLv--lAdgGtL~I  563 (915)
T PTZ00111        492 IINVLLCGDPGTAKSQLLHYTHLLS-PRSIYTSGKSSSSVGLTA----SIKFNESDNGRAM-IQPGAVV--LANGGVCCI  563 (915)
T ss_pred             CceEEEeCCCCccHHHHHHHHHHhC-CccccCCCCCCccccccc----hhhhcccccCccc-ccCCcEE--EcCCCeEEe
Confidence            3499999999999999999876632 12111    111121211    1000 00000000 0111111  122348999


Q ss_pred             cCCCCCCcccCCCCChHHHHHHHHHhCCee-ecCCCeeEeecCeEEEEecCCCCC---------CCCCCChhhhccceE-
Q psy17974        481 DDVNMPKLETYGAQPPIELLRQFLDFGGLY-DRDKMFWKTLQDVVLCTACAPPGG---------GRMPLTPRFVRHFGL-  549 (583)
Q Consensus       481 DDln~p~~d~yg~q~~lElLRq~ld~~g~y-d~~~~~~~~i~~i~~iaa~~p~~~---------gr~~l~~Rllr~f~v-  549 (583)
                      ||++-...+      .-..|-+.++.+..- .+......--.++.+|||+||.+|         +...+++.++.||-+ 
T Consensus       564 DEidkms~~------~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLSRFDLI  637 (915)
T PTZ00111        564 DELDKCHNE------SRLSLYEVMEQQTVTIAKAGIVATLKAETAILASCNPINSRYNKNKAVIENINISPSLFTRFDLI  637 (915)
T ss_pred             cchhhCCHH------HHHHHHHHHhCCEEEEecCCcceecCCCeEEEEEcCCcccccCcccCcccccCCChHHhhhhcEE
Confidence            999954332      123334455544321 211222222358999999999643         245789999999965 


Q ss_pred             -EEeCCCCHHHHHHHHHHHhccc
Q psy17974        550 -LSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       550 -i~i~~p~~~sl~~I~~~~l~~~  571 (583)
                       +-++.|+.+.=..|-..+++.|
T Consensus       638 f~l~D~~d~~~D~~lA~hI~~~~  660 (915)
T PTZ00111        638 YLVLDHIDQDTDQLISLSIAKDF  660 (915)
T ss_pred             EEecCCCChHHHHHHHHHHHHhh
Confidence             4678888776666655555543

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.17  E-value=2.4e-05  Score=87.92  Aligned_cols=142  Identities=18%  Similarity=0.213  Sum_probs=88.6

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +...+..|   +..||+||+|+|||++++.+++.+.-..                    ...++.++-...+..+++..+
T Consensus        28 L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv~~idgas~~~vddIr~l  107 (563)
T PRK06647         28 LKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDVIEIDGASNTSVQDVRQI  107 (563)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCeEEecCcccCCHHHHHHH
Confidence            44444444   3479999999999999999988763110                    122222322222444454443


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++. +      .+.|..+++-|++|||+++-..+      ..+.|...++.     +       ...+.||.+++.+.  
T Consensus       108 ~e~-~------~~~p~~~~~KVvIIDEa~~Ls~~------a~naLLK~LEe-----p-------p~~~vfI~~tte~~--  160 (563)
T PRK06647        108 KEE-I------MFPPASSRYRVYIIDEVHMLSNS------AFNALLKTIEE-----P-------PPYIVFIFATTEVH--  160 (563)
T ss_pred             HHH-H------HhchhcCCCEEEEEEChhhcCHH------HHHHHHHhhcc-----C-------CCCEEEEEecCChH--
Confidence            221 1      12344566678999999986543      23333333442     1       23567777665442  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                        .+.+.+.+|+.++.+..++.+++......+..
T Consensus       161 --kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~  192 (563)
T PRK06647        161 --KLPATIKSRCQHFNFRLLSLEKIYNMLKKVCL  192 (563)
T ss_pred             --HhHHHHHHhceEEEecCCCHHHHHHHHHHHHH
Confidence              58899999999999999999999888777654

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

Probab=98.17  E-value=6.7e-06  Score=87.67  Aligned_cols=160  Identities=24%  Similarity=0.235  Sum_probs=97.7

Q ss_pred             cceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhccc-CCceEEEEEeccCCChHHHHHHHHhhhhh
Q psy17974        384 DMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLAS-NTWAALTINFSAQTSSARTQEILEGKLDK  462 (583)
Q Consensus       384 ~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~  462 (583)
                      +++=......+...-++.+.-.+.|||+.|++||||+.+++.+-. .... .+-..+.+||++.+..-  |   +..+-.
T Consensus        79 ~LIG~~~~~~~~~eqik~~ap~~~~vLi~GetGtGKel~A~~iH~-~s~r~~~~PFI~~NCa~~~en~--~---~~eLFG  152 (403)
T COG1221          79 DLIGESPSLQELREQIKAYAPSGLPVLIIGETGTGKELFARLIHA-LSARRAEAPFIAFNCAAYSENL--Q---EAELFG  152 (403)
T ss_pred             hhhccCHHHHHHHHHHHhhCCCCCcEEEecCCCccHHHHHHHHHH-hhhcccCCCEEEEEHHHhCcCH--H---HHHHhc
Confidence            334344445666666677777899999999999999999987753 2122 24568889998866532  2   222322


Q ss_pred             hcCcc-ccCCCCC--------eEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        463 RTKTL-LGAPLGK--------RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       463 ~~~~~-~~p~~gk--------~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      ..+|. .|+..++        ..++|+|||+-.++.      ..|-|=+++|.|-|..... .-....|+.+|+|++-..
T Consensus       153 ~~kGaftGa~~~k~Glfe~A~GGtLfLDEI~~LP~~------~Q~kLl~~le~g~~~rvG~-~~~~~~dVRli~AT~~~l  225 (403)
T COG1221         153 HEKGAFTGAQGGKAGLFEQANGGTLFLDEIHRLPPE------GQEKLLRVLEEGEYRRVGG-SQPRPVDVRLICATTEDL  225 (403)
T ss_pred             cccceeecccCCcCchheecCCCEEehhhhhhCCHh------HHHHHHHHHHcCceEecCC-CCCcCCCceeeeccccCH
Confidence            22332 2433222        247899999976554      4577778889887765433 223457999999987542


Q ss_pred             CCCCCCC-hhhhc--cceEEEeCCCCH
Q psy17974        534 GGRMPLT-PRFVR--HFGLLSLPSPTE  557 (583)
Q Consensus       534 ~gr~~l~-~Rllr--~f~vi~i~~p~~  557 (583)
                      + +.-+. .-|.|  .+.+|.+|+..+
T Consensus       226 ~-~~~~~g~dl~~rl~~~~I~LPpLrE  251 (403)
T COG1221         226 E-EAVLAGADLTRRLNILTITLPPLRE  251 (403)
T ss_pred             H-HHHHhhcchhhhhcCceecCCChhh
Confidence            1 11111 24444  334677766544

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.17  E-value=2.9e-05  Score=83.58  Aligned_cols=130  Identities=18%  Similarity=0.282  Sum_probs=79.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccC------------------Cc-eEEEEEec-cCCChHHHHHHHHhhhhhhcCc
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASN------------------TW-AALTINFS-AQTSSARTQEILEGKLDKRTKT  466 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~------------------~~-~~~~i~fS-~~Tt~~~lq~~ie~~l~~~~~~  466 (583)
                      +.+|+.||+|+|||++++.+++.+.-..                  .+ .+..+... .....+++.++++ .+.     
T Consensus        37 ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~hpD~~~i~~~~~~i~i~~iR~l~~-~~~-----  110 (394)
T PRK07940         37 HAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTHPDVRVVAPEGLSIGVDEVRELVT-IAA-----  110 (394)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEeccccccCCHHHHHHHHH-HHH-----
Confidence            4589999999999999999987652110                  00 11122111 1123344443331 111     


Q ss_pred             cccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhcc
Q psy17974        467 LLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRH  546 (583)
Q Consensus       467 ~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~  546 (583)
                       +.|..+++-|++|||++.-..+     ....+|+. +|..     ..      ..+.+++|.+ +.    .+.+-+.+|
T Consensus       111 -~~p~~~~~kViiIDead~m~~~-----aanaLLk~-LEep-----~~------~~~fIL~a~~-~~----~llpTIrSR  167 (394)
T PRK07940        111 -RRPSTGRWRIVVIEDADRLTER-----AANALLKA-VEEP-----PP------RTVWLLCAPS-PE----DVLPTIRSR  167 (394)
T ss_pred             -hCcccCCcEEEEEechhhcCHH-----HHHHHHHH-hhcC-----CC------CCeEEEEECC-hH----HChHHHHhh
Confidence             2355567779999999976544     23445554 3421     11      1234555555 33    688999999


Q ss_pred             ceEEEeCCCCHHHHHHHHH
Q psy17974        547 FGLLSLPSPTEDTLKVIFK  565 (583)
Q Consensus       547 f~vi~i~~p~~~sl~~I~~  565 (583)
                      +.++.++.|+.+++...+.
T Consensus       168 c~~i~f~~~~~~~i~~~L~  186 (394)
T PRK07940        168 CRHVALRTPSVEAVAEVLV  186 (394)
T ss_pred             CeEEECCCCCHHHHHHHHH
Confidence            9999999999999887775

>KOG1969|consensus

Probab=98.17  E-value=2e-05  Score=87.77  Aligned_cols=144  Identities=17%  Similarity=0.309  Sum_probs=97.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      +-+|||||||-|||+++.-+++.    .+|.++-||-|-.-++..+.+-|++-+.-  ..+.+ ..+++.++.||||+-.
T Consensus       327 KilLL~GppGlGKTTLAHViAkq----aGYsVvEINASDeRt~~~v~~kI~~avq~--~s~l~-adsrP~CLViDEIDGa  399 (877)
T KOG1969|consen  327 KILLLCGPPGLGKTTLAHVIAKQ----AGYSVVEINASDERTAPMVKEKIENAVQN--HSVLD-ADSRPVCLVIDEIDGA  399 (877)
T ss_pred             ceEEeecCCCCChhHHHHHHHHh----cCceEEEecccccccHHHHHHHHHHHHhh--ccccc-cCCCcceEEEecccCC
Confidence            45799999999999999988874    48999999999999999888877776542  22222 3567788999999864


Q ss_pred             CcccCCCCChHHHHHHHHHhCC--ee------e--cCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeCCC
Q psy17974        487 KLETYGAQPPIELLRQFLDFGG--LY------D--RDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLPSP  555 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g--~y------d--~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~~p  555 (583)
                      .+      ..+..|+.++.-.+  -+      +  +++.+.+.+.+ =+||-||.-.    ...-|=+|-|. ++++..|
T Consensus       400 ~~------~~Vdvilslv~a~~k~~~Gkq~~~~~~rkkkr~~~L~R-PIICICNdLY----aPaLR~Lr~~A~ii~f~~p  468 (877)
T KOG1969|consen  400 PR------AAVDVILSLVKATNKQATGKQAKKDKKRKKKRSKLLTR-PIICICNDLY----APALRPLRPFAEIIAFVPP  468 (877)
T ss_pred             cH------HHHHHHHHHHHhhcchhhcCcccchhhhhhhccccccC-CEEEEecCcc----chhhhhcccceEEEEecCC
Confidence            42      24566666665211  11      1  12223333433 2567788643    23335577776 8999999


Q ss_pred             CHHHHHHHHHHHh
Q psy17974        556 TEDTLKVIFKVRT  568 (583)
Q Consensus       556 ~~~sl~~I~~~~l  568 (583)
                      ..+.|..=.+.|.
T Consensus       469 ~~s~Lv~RL~~IC  481 (877)
T KOG1969|consen  469 SQSRLVERLNEIC  481 (877)
T ss_pred             ChhHHHHHHHHHH
Confidence            9999886655553

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.16  E-value=3.3e-05  Score=84.79  Aligned_cols=143  Identities=21%  Similarity=0.279  Sum_probs=90.4

Q ss_pred             HHHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC---------------------CceEEEEEeccCCChHHHH
Q psy17974        398 IMEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN---------------------TWAALTINFSAQTSSARTQ  453 (583)
Q Consensus       398 ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~---------------------~~~~~~i~fS~~Tt~~~lq  453 (583)
                      .+...++.|   +.+|++||+|+|||++++.+++.+....                     ...++.++-+.....+++.
T Consensus        28 ~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d~~~i~g~~~~gid~ir  107 (451)
T PRK06305         28 VLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLDVLEIDGASHRGIEDIR  107 (451)
T ss_pred             HHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCceEEeeccccCCHHHHH
Confidence            345555554   3579999999999999999988763210                     0122223212222334444


Q ss_pred             HHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        454 EILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       454 ~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      .+.+ .+      .+.|..+++-|++|||++.-..+      ..+.|..+++..            ...+.+|.+++.+ 
T Consensus       108 ~i~~-~l------~~~~~~~~~kvvIIdead~lt~~------~~n~LLk~lEep------------~~~~~~Il~t~~~-  161 (451)
T PRK06305        108 QINE-TV------LFTPSKSRYKIYIIDEVHMLTKE------AFNSLLKTLEEP------------PQHVKFFLATTEI-  161 (451)
T ss_pred             HHHH-HH------HhhhhcCCCEEEEEecHHhhCHH------HHHHHHHHhhcC------------CCCceEEEEeCCh-
Confidence            3321 11      13445566678899998765433      345555666632            1245677666544 


Q ss_pred             CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        534 GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       534 ~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                         ..+.+.+.+|+.++.+..++.+++......+++
T Consensus       162 ---~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~  194 (451)
T PRK06305        162 ---HKIPGTILSRCQKMHLKRIPEETIIDKLALIAK  194 (451)
T ss_pred             ---HhcchHHHHhceEEeCCCCCHHHHHHHHHHHHH
Confidence               368889999999999999999999988777655

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.15  E-value=1.1e-05  Score=91.36  Aligned_cols=181  Identities=15%  Similarity=0.221  Sum_probs=92.3

Q ss_pred             eeccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHh---cCCceEEEccCCCcHHHHHHHHHHhhccc-CCceEEE
Q psy17974        365 TPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLL---VNHPVMFTGVTGVGKTVVARSILNKLLAS-NTWAALT  440 (583)
Q Consensus       365 ~~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~---~~~~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~  440 (583)
                      .+|.++..+.      .+.++.+..........++.....   .++-++|+||+|||||++++.++..+... .+|. ..
T Consensus        72 ~pW~eKyrP~------~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~-np  144 (637)
T TIGR00602        72 EPWVEKYKPE------TQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWS-NP  144 (637)
T ss_pred             CchHHHhCCC------CHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHh-hh
Confidence            4787776432      234555655444444444443332   22349999999999999999888765210 0110 00


Q ss_pred             EE-----------------eccC-CChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecCCCCCCcccCCCCChHHHHH
Q psy17974        441 IN-----------------FSAQ-TSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDDVNMPKLETYGAQPPIELLR  501 (583)
Q Consensus       441 i~-----------------fS~~-Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDDln~p~~d~yg~q~~lElLR  501 (583)
                      ++                 |+.. ...+.+.+++... .. .....| ...+++.||+|||+...-  ..+++..-++||
T Consensus       145 v~~~~~~~~~~~~~s~~~~~~~~~s~~~~F~~fl~~a-~~-~~~~~g~~~~~~~~IILIDEiPn~~--~r~~~~lq~lLr  220 (637)
T TIGR00602       145 TLPDFQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRA-TN-KLQMLGDDLMTDKKIILVEDLPNQF--YRDTRALHEILR  220 (637)
T ss_pred             hhhcccccccccchhhhhccccccchHHHHHHHHHHH-Hh-hhcccccccCCceeEEEeecchhhc--hhhHHHHHHHHH
Confidence            10                 1111 1223333333221 11 001111 124567799999994311  112332334555


Q ss_pred             -HHHHhCCeeecCCCeeEeecCeEEEEecCC-CCCCCCC----------CChhhhccc--eEEEeCCCCHHHHHHHHHHH
Q psy17974        502 -QFLDFGGLYDRDKMFWKTLQDVVLCTACAP-PGGGRMP----------LTPRFVRHF--GLLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       502 -q~ld~~g~yd~~~~~~~~i~~i~~iaa~~p-~~~gr~~----------l~~Rllr~f--~vi~i~~p~~~sl~~I~~~~  567 (583)
                       .+.+.+              .+-+|++++. |.++.+.          +.+.++.|.  .+|.+++.+...+......+
T Consensus       221 ~~~~e~~--------------~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~FnPia~t~l~K~L~rI  286 (637)
T TIGR00602       221 WKYVSIG--------------RCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRI  286 (637)
T ss_pred             HHhhcCC--------------CceEEEEecCCccccccccccccchhcccCHhHhcccceeEEEeCCCCHHHHHHHHHHH
Confidence             332211              2345555542 3322211          336777644  56999999999988888777


Q ss_pred             hcc
Q psy17974        568 TSP  570 (583)
Q Consensus       568 l~~  570 (583)
                      +..
T Consensus       287 l~~  289 (637)
T TIGR00602       287 VTI  289 (637)
T ss_pred             HHh
Confidence            764

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.15  E-value=2.6e-05  Score=88.84  Aligned_cols=157  Identities=17%  Similarity=0.173  Sum_probs=88.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCC-ChHHHHHHHHhhh--------hh--hcCcc
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQT-SSARTQEILEGKL--------DK--RTKTL  467 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~T-t~~~lq~~ie~~l--------~~--~~~~~  467 (583)
                      ...+++|+||||||||++++.+.......      .+...+.++++... ....++..+-...        .+  ...+.
T Consensus       174 ~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl  253 (615)
T TIGR02903       174 FPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVTNPLLGSVHDPIYQGARRDLAETGV  253 (615)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHhHHhcCCccHHHHHHHHHHHHHcCC
Confidence            34579999999999999999886543110      12235566654321 1122211110000        00  00111


Q ss_pred             ccCC-----CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCC------eeecCC-CeeEee---------cCeEEE
Q psy17974        468 LGAP-----LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGG------LYDRDK-MFWKTL---------QDVVLC  526 (583)
Q Consensus       468 ~~p~-----~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g------~yd~~~-~~~~~i---------~~i~~i  526 (583)
                      ..+.     .....++|+||++.-..+      ..+.|..+++.+-      .|+..+ ..|..+         .++.++
T Consensus       254 ~~~~~g~v~~asgGvL~LDEi~~Ld~~------~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI  327 (615)
T TIGR02903       254 PEPKTGLVTDAHGGVLFIDEIGELDPL------LQNKLLKVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLI  327 (615)
T ss_pred             CchhcCchhhcCCCeEEEeccccCCHH------HHHHHHHHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEE
Confidence            1111     112348999998865443      2345556665542      333321 223221         246666


Q ss_pred             EecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        527 TACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       527 aa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      +|++...   ..+++.+.+||..+.+++++.+++..|+...+..
T Consensus       328 ~aTt~~~---~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~  368 (615)
T TIGR02903       328 GATTRDP---EEINPALRSRCAEVFFEPLTPEDIALIVLNAAEK  368 (615)
T ss_pred             Eeccccc---cccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHH
Confidence            6654321   2688999999999999999999999999998764

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.

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.14  E-value=3.6e-05  Score=86.13  Aligned_cols=180  Identities=16%  Similarity=0.157  Sum_probs=105.9

Q ss_pred             CCCCccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHh
Q psy17974        379 TMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEG  458 (583)
Q Consensus       379 ~~~~~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~  458 (583)
                      ...|.+++-..+...+....++.+...+.||||.|++||||+++++++-... ....-..+.+||++.. .+.    +++
T Consensus       200 ~~~f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~s-~r~~~pfv~inca~~~-~~~----~e~  273 (520)
T PRK10820        200 DSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRS-PRGKKPFLALNCASIP-DDV----VES  273 (520)
T ss_pred             cccccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHhC-CCCCCCeEEeccccCC-HHH----HHH
Confidence            3455565555555566777778888899999999999999999999875432 2233456788987754 222    233


Q ss_pred             hhhhhcCccc-cCC--------CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEec
Q psy17974        459 KLDKRTKTLL-GAP--------LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTAC  529 (583)
Q Consensus       459 ~l~~~~~~~~-~p~--------~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~  529 (583)
                      .+-....+.| ++.        .....++|+||++.-..+      .-.-|.++++.|.|...... -..-.|+.+|+|+
T Consensus       274 elFG~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L~~~------~Q~~Ll~~l~~~~~~~~g~~-~~~~~~vRiI~st  346 (520)
T PRK10820        274 ELFGHAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSPR------MQAKLLRFLNDGTFRRVGED-HEVHVDVRVICAT  346 (520)
T ss_pred             HhcCCCCCCcCCcccCCCChhhhcCCCEEEEeChhhCCHH------HHHHHHHHHhcCCcccCCCC-cceeeeeEEEEec
Confidence            3221111111 100        122457899999865443      22445556665555432221 1112478899987


Q ss_pred             CCCC---CCCCCCChhhhccceE--EEeCCCCH--HHHHHHHHHHhccc
Q psy17974        530 APPG---GGRMPLTPRFVRHFGL--LSLPSPTE--DTLKVIFKVRTSPG  571 (583)
Q Consensus       530 ~p~~---~gr~~l~~Rllr~f~v--i~i~~p~~--~sl~~I~~~~l~~~  571 (583)
                      +.+-   .....+.+.|..++++  |.+|+..+  +++..+...++..+
T Consensus       347 ~~~l~~l~~~g~f~~dL~~rL~~~~i~lPpLreR~~Di~~L~~~fl~~~  395 (520)
T PRK10820        347 QKNLVELVQKGEFREDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARF  395 (520)
T ss_pred             CCCHHHHHHcCCccHHHHhhcCeeEEeCCCcccChhHHHHHHHHHHHHH
Confidence            7642   1222455667777664  55665544  45666666666544

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.14  E-value=2.4e-06  Score=76.81  Aligned_cols=109  Identities=16%  Similarity=0.213  Sum_probs=68.5

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhccc----CCceEEEEEeccCCChHHHHHHHHhhhhhhcCcc------c---c-
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLAS----NTWAALTINFSAQTSSARTQEILEGKLDKRTKTL------L---G-  469 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~----~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~------~---~-  469 (583)
                      +.+..++++||+|+|||++++.+++.+...    ....++.++++...++..+...+-..+.......      +   . 
T Consensus         2 ~~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~   81 (131)
T PF13401_consen    2 QSQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLID   81 (131)
T ss_dssp             -----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHH
T ss_pred             CCCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHH
Confidence            356789999999999999999999876311    1456778888888887777766666654432220      0   0 


Q ss_pred             -CCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCC
Q psy17974        470 -APLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAP  531 (583)
Q Consensus       470 -p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p  531 (583)
                       -...+..+++|||++...     ....++.||.+.+              -.++.+|.+.+|
T Consensus        82 ~l~~~~~~~lviDe~~~l~-----~~~~l~~l~~l~~--------------~~~~~vvl~G~~  125 (131)
T PF13401_consen   82 ALDRRRVVLLVIDEADHLF-----SDEFLEFLRSLLN--------------ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHCTEEEEEEETTHHHH-----THHHHHHHHHHTC--------------SCBEEEEEEESS
T ss_pred             HHHhcCCeEEEEeChHhcC-----CHHHHHHHHHHHh--------------CCCCeEEEEECh
Confidence             012233689999998752     1457888888776              125667766655

>PRK09183 transposase/IS protein; Provisional

Probab=98.13  E-value=1.4e-06  Score=88.74  Aligned_cols=131  Identities=17%  Similarity=0.203  Sum_probs=68.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHh-hhhhhcCccccCCCCCeEEEEec
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEG-KLDKRTKTLLGAPLGKRLAVFVD  481 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~-~l~~~~~~~~~p~~gk~~vlfiD  481 (583)
                      +..+.+++|+||+|||||+++.++..... ..++.+.+++.      ..+..-+.. .-.......+.....+.-+++||
T Consensus        99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~-~~G~~v~~~~~------~~l~~~l~~a~~~~~~~~~~~~~~~~~dlLiiD  171 (259)
T PRK09183         99 IERNENIVLLGPSGVGKTHLAIALGYEAV-RAGIKVRFTTA------ADLLLQLSTAQRQGRYKTTLQRGVMAPRLLIID  171 (259)
T ss_pred             hhcCCeEEEEeCCCCCHHHHHHHHHHHHH-HcCCeEEEEeH------HHHHHHHHHHHHCCcHHHHHHHHhcCCCEEEEc
Confidence            66789999999999999999999866542 23455555432      222211111 11100001111111233488999


Q ss_pred             CCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC-CC------CCC----CCChhhhccceEE
Q psy17974        482 DVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-GG------GRM----PLTPRFVRHFGLL  550 (583)
Q Consensus       482 Dln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~-~~------gr~----~l~~Rllr~f~vi  550 (583)
                      |+.....+..+.+...+++..-.+.+                .+|.|+|.+ +.      |..    .+-.|+..|+.+|
T Consensus       172 dlg~~~~~~~~~~~lf~li~~r~~~~----------------s~iiTsn~~~~~w~~~~~~d~~~~~ai~dRl~~~~~~i  235 (259)
T PRK09183        172 EIGYLPFSQEEANLFFQVIAKRYEKG----------------SMILTSNLPFGQWDQTFAGDAALTSAMLDRLLHHSHVV  235 (259)
T ss_pred             ccccCCCChHHHHHHHHHHHHHHhcC----------------cEEEecCCCHHHHHHHhcCchhHHHHHHHHHhcceEEE
Confidence            99876555433322333333322211                133444443 32      111    2445777888888


Q ss_pred             EeCCCC
Q psy17974        551 SLPSPT  556 (583)
Q Consensus       551 ~i~~p~  556 (583)
                      .+...|
T Consensus       236 ~~~g~s  241 (259)
T PRK09183        236 QIKGES  241 (259)
T ss_pred             eecCCC
Confidence            887644

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=98.12  E-value=2.8e-05  Score=88.90  Aligned_cols=148  Identities=21%  Similarity=0.339  Sum_probs=88.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhccc-------------------------------CCceEEEEEeccCCChHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLAS-------------------------------NTWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~-------------------------------~~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      .+|||.||+|||||++++.+..-++..                               ....++.++.+.  +.+.+...
T Consensus        26 g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~~~~~~~~~~~~~~~~~pfv~~p~~~--t~~~l~G~  103 (633)
T TIGR02442        26 GGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEWCEECRRKYRPSEQRPVPFVNLPLGA--TEDRVVGS  103 (633)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCccccChhhhhcccccccCCCCeeeCCCCC--cHHHcCCc
Confidence            479999999999999999987765210                               011223333332  22222211


Q ss_pred             H--HhhhhhhcCccc--cC-CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCe-eecCCCeeEeecCeEEEEec
Q psy17974        456 L--EGKLDKRTKTLL--GA-PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGL-YDRDKMFWKTLQDVVLCTAC  529 (583)
Q Consensus       456 i--e~~l~~~~~~~~--~p-~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~-yd~~~~~~~~i~~i~~iaa~  529 (583)
                      +  +..+.. .+..+  |+ ......++||||+|....+      ..+.|.+.++.|.. +.+.......-.++.+|||+
T Consensus       104 ~d~~~~l~~-g~~~~~~G~L~~A~~GiL~lDEi~~l~~~------~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIat~  176 (633)
T TIGR02442       104 LDIERALRE-GEKAFQPGLLAEAHRGILYIDEVNLLDDH------LVDVLLDAAAMGVNRVEREGLSVSHPARFVLIGTM  176 (633)
T ss_pred             ccHHHHhhc-CCeeecCcceeecCCCeEEeChhhhCCHH------HHHHHHHHHhcCCEEEEECCceeeecCCeEEEEec
Confidence            1  111110 01111  11 0223459999999987655      46778888887753 33444444445789999999


Q ss_pred             CCCCCCCCCCChhhhccceE-EEeCCCCH-HHHHHHHHH
Q psy17974        530 APPGGGRMPLTPRFVRHFGL-LSLPSPTE-DTLKVIFKV  566 (583)
Q Consensus       530 ~p~~~gr~~l~~Rllr~f~v-i~i~~p~~-~sl~~I~~~  566 (583)
                      ||.. |  .+++.|+.+|.+ +.++++.. ++...|...
T Consensus       177 np~e-g--~l~~~L~dR~~l~i~v~~~~~~~~~~~il~~  212 (633)
T TIGR02442       177 NPEE-G--DLRPQLLDRFGLCVDVAAPRDPEERVEIIRR  212 (633)
T ss_pred             CCCC-C--CCCHHHHhhcceEEEccCCCchHHHHHHHHH
Confidence            9753 2  588999999974 77777753 444444443

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.

>KOG0730|consensus

Probab=98.10  E-value=1.5e-05  Score=88.19  Aligned_cols=143  Identities=21%  Similarity=0.251  Sum_probs=89.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCC-eEEEEecC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGK-RLAVFVDD  482 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk-~~vlfiDD  482 (583)
                      ....+|++||||||||.++++++++.    +.....+|.+.     -+++.. +.-++.-+..|. ....+ +.++||||
T Consensus       217 ~prg~Ll~gppg~Gkt~l~~aVa~e~----~a~~~~i~~pe-----li~k~~-gEte~~LR~~f~~a~k~~~psii~IdE  286 (693)
T KOG0730|consen  217 PPRGLLLYGPPGTGKTFLVRAVANEY----GAFLFLINGPE-----LISKFP-GETESNLRKAFAEALKFQVPSIIFIDE  286 (693)
T ss_pred             CCCCccccCCCCCChHHHHHHHHHHh----CceeEecccHH-----HHHhcc-cchHHHHHHHHHHHhccCCCeeEeHHh
Confidence            35788999999999999999999864    23344454432     111110 001111111111 11233 78999999


Q ss_pred             CCCCCcccCCCCC----hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc-cce-EEEeCCCC
Q psy17974        483 VNMPKLETYGAQP----PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR-HFG-LLSLPSPT  556 (583)
Q Consensus       483 ln~p~~d~yg~q~----~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr-~f~-vi~i~~p~  556 (583)
                      |+.-.+.+-+++.    +..-|+.|+|.-+          ....+.+++|.|.|.    .|++.+.| +|- -+.|.-|+
T Consensus       287 ld~l~p~r~~~~~~e~Rv~sqlltL~dg~~----------~~~~vivl~atnrp~----sld~alRRgRfd~ev~IgiP~  352 (693)
T KOG0730|consen  287 LDALCPKREGADDVESRVVSQLLTLLDGLK----------PDAKVIVLAATNRPD----SLDPALRRGRFDREVEIGIPG  352 (693)
T ss_pred             HhhhCCcccccchHHHHHHHHHHHHHhhCc----------CcCcEEEEEecCCcc----ccChhhhcCCCcceeeecCCC
Confidence            9986655545554    2334555555222          234577889988875    78999987 774 68888999


Q ss_pred             HHHHHHHHHHHhccc
Q psy17974        557 EDTLKVIFKVRTSPG  571 (583)
Q Consensus       557 ~~sl~~I~~~~l~~~  571 (583)
                      ...-..|...+.+.+
T Consensus       353 ~~~RldIl~~l~k~~  367 (693)
T KOG0730|consen  353 SDGRLDILRVLTKKM  367 (693)
T ss_pred             chhHHHHHHHHHHhc
Confidence            888777777776544

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.10  E-value=5.2e-05  Score=85.71  Aligned_cols=143  Identities=19%  Similarity=0.214  Sum_probs=91.1

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC-------------------------CceEEEEEeccCCChH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN-------------------------TWAALTINFSAQTSSA  450 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~-------------------------~~~~~~i~fS~~Tt~~  450 (583)
                      +..++..|   +.+||+||+|+|||++++.+++.+.-..                         ...++.++-++.+..+
T Consensus        36 L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~g~h~Dv~e~~a~s~~gvd  115 (598)
T PRK09111         36 LTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIMEGRHVDVLEMDAASHTGVD  115 (598)
T ss_pred             HHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhcCCCCceEEecccccCCHH
Confidence            33444444   3699999999999999999988762110                         0112233333445566


Q ss_pred             HHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecC
Q psy17974        451 RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACA  530 (583)
Q Consensus       451 ~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~  530 (583)
                      ++.++++. +.      +.|-.+++-|++|||.++-..+      ..+.|...++.-            ...+.||.+++
T Consensus       116 ~IReIie~-~~------~~P~~a~~KVvIIDEad~Ls~~------a~naLLKtLEeP------------p~~~~fIl~tt  170 (598)
T PRK09111        116 DIREIIES-VR------YRPVSARYKVYIIDEVHMLSTA------AFNALLKTLEEP------------PPHVKFIFATT  170 (598)
T ss_pred             HHHHHHHH-HH------hchhcCCcEEEEEEChHhCCHH------HHHHHHHHHHhC------------CCCeEEEEEeC
Confidence            66665532 22      2344455668899999886543      233344444421            23466666665


Q ss_pred             CCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        531 PPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       531 p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .+.    .+.+.+.+++.++.+..++.+++......+++.
T Consensus       171 e~~----kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~k  206 (598)
T PRK09111        171 EIR----KVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAK  206 (598)
T ss_pred             Chh----hhhHHHHhheeEEEecCCCHHHHHHHHHHHHHH
Confidence            433    477779999999999999999999988887753

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.09  E-value=5.4e-05  Score=85.90  Aligned_cols=142  Identities=16%  Similarity=0.269  Sum_probs=88.0

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC---------------------CceEEEEEeccCCChHHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN---------------------TWAALTINFSAQTSSARTQE  454 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~---------------------~~~~~~i~fS~~Tt~~~lq~  454 (583)
                      +..++..+   +.+||+||+|+|||++++.+++.+.-..                     ...++.++-+.....++++.
T Consensus        28 L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d~~~i~~~~~~~vd~ir~  107 (585)
T PRK14950         28 LRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVDVIEMDAASHTSVDDARE  107 (585)
T ss_pred             HHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCeEEEEeccccCCHHHHHH
Confidence            34444443   3469999999999999999988762100                     01233344333455566655


Q ss_pred             HHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC
Q psy17974        455 ILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG  534 (583)
Q Consensus       455 ~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~  534 (583)
                      +++ .+.      +.|..+++-|++|||+++-..+      ..+.|...++..            ..++.||.+++..  
T Consensus       108 ii~-~~~------~~p~~~~~kVvIIDEa~~L~~~------a~naLLk~LEep------------p~~tv~Il~t~~~--  160 (585)
T PRK14950        108 IIE-RVQ------FRPALARYKVYIIDEVHMLSTA------AFNALLKTLEEP------------PPHAIFILATTEV--  160 (585)
T ss_pred             HHH-HHh------hCcccCCeEEEEEeChHhCCHH------HHHHHHHHHhcC------------CCCeEEEEEeCCh--
Confidence            543 222      2344456668999999875433      233333344421            1245566555432  


Q ss_pred             CCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        535 GRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       535 gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                        ..+.+.+.+++.++.+..++.+++..+...+..
T Consensus       161 --~kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~  193 (585)
T PRK14950        161 --HKVPATILSRCQRFDFHRHSVADMAAHLRKIAA  193 (585)
T ss_pred             --hhhhHHHHhccceeeCCCCCHHHHHHHHHHHHH
Confidence              247788899999999999999999888777654

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.07  E-value=3.4e-05  Score=83.44  Aligned_cols=143  Identities=14%  Similarity=0.208  Sum_probs=86.2

Q ss_pred             HHHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC----------------------------CceEEEEEeccC
Q psy17974        398 IMEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN----------------------------TWAALTINFSAQ  446 (583)
Q Consensus       398 ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~----------------------------~~~~~~i~fS~~  446 (583)
                      .+..++..|   +.+|++||+|+|||++++.+++.+.-..                            ...++.++-+..
T Consensus        27 ~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~~~~n~~~~~~~~~  106 (397)
T PRK14955         27 TIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDAGTSLNISEFDAASN  106 (397)
T ss_pred             HHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhcCCCCCeEeeccccc
Confidence            456666665   3489999999999999999988763110                            001111221122


Q ss_pred             CChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEE
Q psy17974        447 TSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLC  526 (583)
Q Consensus       447 Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~i  526 (583)
                      ...+++.++. ..+.      +.|-.+.+-|++|||++.-..+     ....+| -.++.     +       ...+.+|
T Consensus       107 ~~id~Ir~l~-~~~~------~~p~~~~~kvvIIdea~~l~~~-----~~~~LL-k~LEe-----p-------~~~t~~I  161 (397)
T PRK14955        107 NSVDDIRLLR-ENVR------YGPQKGRYRVYIIDEVHMLSIA-----AFNAFL-KTLEE-----P-------PPHAIFI  161 (397)
T ss_pred             CCHHHHHHHH-HHHh------hchhcCCeEEEEEeChhhCCHH-----HHHHHH-HHHhc-----C-------CCCeEEE
Confidence            2234444432 2221      3355566678999998875432     122333 33331     1       1234555


Q ss_pred             EecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        527 TACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       527 aa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      .+++.+    ..+.+.+.+++.++.+..++.+++......+++
T Consensus       162 l~t~~~----~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~  200 (397)
T PRK14955        162 FATTEL----HKIPATIASRCQRFNFKRIPLEEIQQQLQGICE  200 (397)
T ss_pred             EEeCCh----HHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHH
Confidence            555432    367788999999999999999999887777664

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=98.06  E-value=2.6e-05  Score=83.39  Aligned_cols=159  Identities=17%  Similarity=0.236  Sum_probs=95.9

Q ss_pred             ccceeeCchhhhHHHHHHHHHhc----CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHH--
Q psy17974        383 FDMMVPTIDTIRFGSIMEKLLLV----NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEIL--  456 (583)
Q Consensus       383 ~~i~VpT~dt~r~~~ll~~~l~~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~i--  456 (583)
                      .+-||+++...........+...    ..|++|+||+|+|||.|++++-+... ........+..++   ..-+++.+  
T Consensus        86 FdnFv~g~~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~~-~~~~~a~v~y~~s---e~f~~~~v~a  161 (408)
T COG0593          86 FDNFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEAL-ANGPNARVVYLTS---EDFTNDFVKA  161 (408)
T ss_pred             hhheeeCCchHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHHHHH-hhCCCceEEeccH---HHHHHHHHHH
Confidence            35688888777666677777664    57999999999999999998866542 1121122232222   22222322  


Q ss_pred             --HhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCC-hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        457 --EGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQP-PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       457 --e~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~-~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                        ++.+++-++ .|.     --++.|||+..-..+. ++|. ...++..+.+.|+               ++|.|+..+.
T Consensus       162 ~~~~~~~~Fk~-~y~-----~dlllIDDiq~l~gk~-~~qeefFh~FN~l~~~~k---------------qIvltsdr~P  219 (408)
T COG0593         162 LRDNEMEKFKE-KYS-----LDLLLIDDIQFLAGKE-RTQEEFFHTFNALLENGK---------------QIVLTSDRPP  219 (408)
T ss_pred             HHhhhHHHHHH-hhc-----cCeeeechHhHhcCCh-hHHHHHHHHHHHHHhcCC---------------EEEEEcCCCc
Confidence              223333222 221     2268899998744331 1222 2344555555442               4555554332


Q ss_pred             CCCCCCChhhhccce---EEEeCCCCHHHHHHHHHHH
Q psy17974        534 GGRMPLTPRFVRHFG---LLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       534 ~gr~~l~~Rllr~f~---vi~i~~p~~~sl~~I~~~~  567 (583)
                      ..-..+.+||.+||.   ++.+.+|+.+....|....
T Consensus       220 ~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kk  256 (408)
T COG0593         220 KELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKK  256 (408)
T ss_pred             hhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHH
Confidence            333456799999984   8999999999999998874

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=98.06  E-value=1.9e-05  Score=83.68  Aligned_cols=145  Identities=17%  Similarity=0.268  Sum_probs=86.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC---------------------------------ChHH-H
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT---------------------------------SSAR-T  452 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T---------------------------------t~~~-l  452 (583)
                      ..+|+.|+.|+|||++++++..-|+...-..-..++|.+..                                 +..+ +
T Consensus        39 ggvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~~P~~~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrv  118 (423)
T COG1239          39 GGALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPDDPEEMCDECRAKGDELEWLPREKRKVPFVALPLGATEDRL  118 (423)
T ss_pred             ceeEEecCCCccHHHHHHHHHHhCCccceecCCCCCCCCCChhhhhHHHHhhccccccccccceecceecCCCccchhhh
Confidence            48899999999999999999886642221111112222211                                 1111 2


Q ss_pred             HHHHH--hhhhhhcCccccC---CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhC-CeeecCCCeeEeecCeEEE
Q psy17974        453 QEILE--GKLDKRTKTLLGA---PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFG-GLYDRDKMFWKTLQDVVLC  526 (583)
Q Consensus       453 q~~ie--~~l~~~~~~~~~p---~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~-g~yd~~~~~~~~i~~i~~i  526 (583)
                      .+.+.  .-++. ....|.|   +...+.|+||||+|+....      +...|=..+..| .--.++.....+-.++.+|
T Consensus       119 vGslDi~ka~~~-g~~af~PGlLa~AnRGIlYvDEvnlL~d~------lvd~LLd~aaeG~n~vereGisi~hpa~fvli  191 (423)
T COG1239         119 VGSLDIEKALEE-GPKAFQPGLLARANRGILYVDEVNLLDDH------LVDALLDVAAEGVNDVEREGISIRHPARFLLI  191 (423)
T ss_pred             ccccCHHHHHhc-CccccCCcchhhccCCEEEEeccccccHH------HHHHHHHHHHhCCceeeeCceeeccCccEEEE
Confidence            11111  00110 1123433   3567889999999996432      444454555544 2234455577777899999


Q ss_pred             EecCCCCCCCCCCChhhhccce-EEEeCCCCHHHHH
Q psy17974        527 TACAPPGGGRMPLTPRFVRHFG-LLSLPSPTEDTLK  561 (583)
Q Consensus       527 aa~~p~~~gr~~l~~Rllr~f~-vi~i~~p~~~sl~  561 (583)
                      |||||-.|   .|-+-|+-||- .+.+.+|.+-+..
T Consensus       192 gTmNPEeG---eLrpqLlDRfg~~v~~~~~~~~~~r  224 (423)
T COG1239         192 GTMNPEEG---ELRPQLLDRFGLEVDTHYPLDLEER  224 (423)
T ss_pred             eecCcccc---ccchhhHhhhcceeeccCCCCHHHH
Confidence            99999743   67778888875 5777777664443

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

Probab=98.05  E-value=7.5e-05  Score=81.15  Aligned_cols=176  Identities=19%  Similarity=0.239  Sum_probs=118.4

Q ss_pred             ccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh
Q psy17974        383 FDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK  462 (583)
Q Consensus       383 ~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~  462 (583)
                      .+++-.++...+....+..+....-|||+.|++||||-.+++++-..- ...+-.++.+||.+-+.     ..+|+.|-.
T Consensus       141 ~~liG~S~am~~l~~~i~kvA~s~a~VLI~GESGtGKElvAr~IH~~S-~R~~~PFVavNcaAip~-----~l~ESELFG  214 (464)
T COG2204         141 GELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELVARAIHQAS-PRAKGPFIAVNCAAIPE-----NLLESELFG  214 (464)
T ss_pred             CCceecCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHhhC-cccCCCceeeecccCCH-----HHHHHHhhc
Confidence            455666777788888999999999999999999999999999876643 34455788999988553     457787766


Q ss_pred             hcCcccc-CC---CC-----CeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        463 RTKTLLG-AP---LG-----KRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       463 ~~~~~~~-p~---~g-----k~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      ..+|.|. +.   .|     ....+|+|||---+.+.   |  .-+||-+-+ +.+......+- --.|+++|||++.+-
T Consensus       215 hekGAFTGA~~~r~G~fE~A~GGTLfLDEI~~mpl~~---Q--~kLLRvLqe-~~~~rvG~~~~-i~vdvRiIaaT~~dL  287 (464)
T COG2204         215 HEKGAFTGAITRRIGRFEQANGGTLFLDEIGEMPLEL---Q--VKLLRVLQE-REFERVGGNKP-IKVDVRIIAATNRDL  287 (464)
T ss_pred             ccccCcCCcccccCcceeEcCCceEEeeccccCCHHH---H--HHHHHHHHc-CeeEecCCCcc-cceeeEEEeecCcCH
Confidence            5666552 21   11     24589999996433221   1  347776654 55554332211 125899999998762


Q ss_pred             -----CCCCCCChhhhccceEEEeCCCC----HHHHHHHHHHHhccccc
Q psy17974        534 -----GGRMPLTPRFVRHFGLLSLPSPT----EDTLKVIFKVRTSPGKQ  573 (583)
Q Consensus       534 -----~gr~~l~~Rllr~f~vi~i~~p~----~~sl~~I~~~~l~~~l~  573 (583)
                           .|++  =+-|.-+.+|+.+.-|.    .+++--++..++..+-.
T Consensus       288 ~~~v~~G~F--ReDLyyRLnV~~i~iPpLRER~EDIp~L~~hfl~~~~~  334 (464)
T COG2204         288 EEEVAAGRF--REDLYYRLNVVPLRLPPLRERKEDIPLLAEHFLKRFAA  334 (464)
T ss_pred             HHHHHcCCc--HHHHHhhhccceecCCcccccchhHHHHHHHHHHHHHH
Confidence                 3443  35666777887766663    36777788877776543

>KOG0736|consensus

Probab=98.05  E-value=2.4e-05  Score=87.68  Aligned_cols=144  Identities=17%  Similarity=0.279  Sum_probs=96.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC--hHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS--SARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt--~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      +-.|||.|+||||||+.++.+++.+    +..+..+.+..-+.  +......+..-..+       +....++|+|+-++
T Consensus       431 ~~~vLLhG~~g~GK~t~V~~vas~l----g~h~~evdc~el~~~s~~~~etkl~~~f~~-------a~~~~pavifl~~~  499 (953)
T KOG0736|consen  431 NPSVLLHGPPGSGKTTVVRAVASEL----GLHLLEVDCYELVAESASHTETKLQAIFSR-------ARRCSPAVLFLRNL  499 (953)
T ss_pred             ceEEEEeCCCCCChHHHHHHHHHHh----CCceEeccHHHHhhcccchhHHHHHHHHHH-------HhhcCceEEEEecc
Confidence            3468999999999999999999987    33444555543221  11111111111121       11235789999999


Q ss_pred             CCCCcccCCCC--ChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeCCCCHHHH
Q psy17974        484 NMPKLETYGAQ--PPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLPSPTEDTL  560 (583)
Q Consensus       484 n~p~~d~yg~q--~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~~p~~~sl  560 (583)
                      +.-..|+.|..  +...-+|+++...-       ....-..+.+||+++...    .+++-+.++|. .|.++.|++++.
T Consensus       500 dvl~id~dgged~rl~~~i~~~ls~e~-------~~~~~~~~ivv~t~~s~~----~lp~~i~~~f~~ei~~~~lse~qR  568 (953)
T KOG0736|consen  500 DVLGIDQDGGEDARLLKVIRHLLSNED-------FKFSCPPVIVVATTSSIE----DLPADIQSLFLHEIEVPALSEEQR  568 (953)
T ss_pred             ceeeecCCCchhHHHHHHHHHHHhccc-------ccCCCCceEEEEeccccc----cCCHHHHHhhhhhccCCCCCHHHH
Confidence            99888876632  34566777776111       111234678999988765    79999999996 899999999999


Q ss_pred             HHHHHHHhccc
Q psy17974        561 KVIFKVRTSPG  571 (583)
Q Consensus       561 ~~I~~~~l~~~  571 (583)
                      .+|++-++..+
T Consensus       569 l~iLq~y~~~~  579 (953)
T KOG0736|consen  569 LEILQWYLNHL  579 (953)
T ss_pred             HHHHHHHHhcc
Confidence            99888777654

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.03  E-value=6.6e-05  Score=83.47  Aligned_cols=181  Identities=18%  Similarity=0.253  Sum_probs=98.3

Q ss_pred             eeccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccCCceEEE-
Q psy17974        365 TPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASNTWAALT-  440 (583)
Q Consensus       365 ~~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~-  440 (583)
                      .+|.++..+.      ...++.|...-......+++..+..+   +-+||+||+|||||++++.+++++. .   .+.. 
T Consensus         7 ~~W~~ky~P~------~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg-~---~v~Ew   76 (519)
T PF03215_consen    7 EPWVEKYAPK------TLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG-F---EVQEW   76 (519)
T ss_pred             CccchhcCCC------CHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC-C---eeEEe
Confidence            4677765432      13455666554555556666655433   3478899999999999999998872 1   1111 


Q ss_pred             ---EE----------eccC--------CChHHHHHHHHhhhhhhcCcc---ccC-CCCCeEEEEecCCCCCCcccCCCCC
Q psy17974        441 ---IN----------FSAQ--------TSSARTQEILEGKLDKRTKTL---LGA-PLGKRLAVFVDDVNMPKLETYGAQP  495 (583)
Q Consensus       441 ---i~----------fS~~--------Tt~~~lq~~ie~~l~~~~~~~---~~p-~~gk~~vlfiDDln~p~~d~yg~q~  495 (583)
                         +.          +...        ...+.++..+   +...+.+.   .|. ...++-||.|||+  |..-.-++..
T Consensus        77 ~np~~~~~~~~~~~d~~s~~~~~~~f~sq~~~F~~f~---l~~s~y~~l~~~g~~~~~~~kvILVEDl--PN~~~~~~~~  151 (519)
T PF03215_consen   77 INPVSFRESDNQEDDFESDFNKFDEFLSQSDKFSEFL---LRASKYSSLSMSGSNSSSNKKVILVEDL--PNVFHRDTSR  151 (519)
T ss_pred             cCCCCccccccccccccccccccccccchhhhhcccc---ccccccccccccCCCcCCCceEEEeecc--ccccchhHHH
Confidence               00          0000        0011111110   11101111   111 2245668899997  4322222344


Q ss_pred             hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEe-c-CCCCC-C-C-------CCCChhhhccc--eEEEeCCCCHHHHHH
Q psy17974        496 PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTA-C-APPGG-G-R-------MPLTPRFVRHF--GLLSLPSPTEDTLKV  562 (583)
Q Consensus       496 ~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa-~-~p~~~-g-r-------~~l~~Rllr~f--~vi~i~~p~~~sl~~  562 (583)
                      ..+.||+++..++..           .+.||.+ + ...++ + +       .-+++.++.|.  ..|.+.+.....+..
T Consensus       152 f~~~L~~~l~~~~~~-----------PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i~~I~FNpIa~T~mkK  220 (519)
T PF03215_consen  152 FREALRQYLRSSRCL-----------PLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGITRIKFNPIAPTFMKK  220 (519)
T ss_pred             HHHHHHHHHHcCCCC-----------CEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCceEEEecCCCHHHHHH
Confidence            667888888765431           4555555 1 11221 1 1       14677777765  468899999988888


Q ss_pred             HHHHHhccc
Q psy17974        563 IFKVRTSPG  571 (583)
Q Consensus       563 I~~~~l~~~  571 (583)
                      ....++...
T Consensus       221 aL~rI~~~E  229 (519)
T PF03215_consen  221 ALKRILKKE  229 (519)
T ss_pred             HHHHHHHHH
Confidence            888877644

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.02  E-value=2.2e-05  Score=80.07  Aligned_cols=76  Identities=18%  Similarity=0.287  Sum_probs=45.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh----HHHHHHHHhhhhhhcCccccCCCCCeEEEEe
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS----ARTQEILEGKLDKRTKTLLGAPLGKRLAVFV  480 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~----~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfi  480 (583)
                      .+.|+||+||+|||||.+++.+++.+.    ..+..-.....|.+    +++..++..-+..-.   |.-....+.|+||
T Consensus        96 ~KSNILLiGPTGsGKTlLAqTLAk~Ln----VPFaiADATtLTEAGYVGEDVENillkLlqaad---ydV~rAerGIIyI  168 (408)
T COG1219          96 SKSNILLIGPTGSGKTLLAQTLAKILN----VPFAIADATTLTEAGYVGEDVENILLKLLQAAD---YDVERAERGIIYI  168 (408)
T ss_pred             eeccEEEECCCCCcHHHHHHHHHHHhC----CCeeeccccchhhccccchhHHHHHHHHHHHcc---cCHHHHhCCeEEE
Confidence            457999999999999999999999772    22222222233333    334444433332211   2222345669999


Q ss_pred             cCCCCCC
Q psy17974        481 DDVNMPK  487 (583)
Q Consensus       481 DDln~p~  487 (583)
                      |||+--.
T Consensus       169 DEIDKIa  175 (408)
T COG1219         169 DEIDKIA  175 (408)
T ss_pred             echhhhh
Confidence            9998643

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.00  E-value=0.0001  Score=83.84  Aligned_cols=142  Identities=15%  Similarity=0.265  Sum_probs=91.8

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhc---------------------ccCCceEEEEEeccCCChHHHHH
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLL---------------------ASNTWAALTINFSAQTSSARTQE  454 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~---------------------~~~~~~~~~i~fS~~Tt~~~lq~  454 (583)
                      +...++.|   +..||+||+|+|||++++.+++.+.                     ....+.+..++.+.....++++.
T Consensus        29 L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~~~ld~~~~~~vd~Ir~  108 (614)
T PRK14971         29 LKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNIHELDAASNNSVDDIRN  108 (614)
T ss_pred             HHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCceEEecccccCCHHHHHH
Confidence            44555555   3479999999999999998887652                     00123344454443344556665


Q ss_pred             HHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC
Q psy17974        455 ILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG  534 (583)
Q Consensus       455 ~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~  534 (583)
                      .++. +.      +.|..+++-|++|||.++-..+      ....|+..+|.-            ...+.||.+++.+  
T Consensus       109 li~~-~~------~~P~~~~~KVvIIdea~~Ls~~------a~naLLK~LEep------------p~~tifIL~tt~~--  161 (614)
T PRK14971        109 LIEQ-VR------IPPQIGKYKIYIIDEVHMLSQA------AFNAFLKTLEEP------------PSYAIFILATTEK--  161 (614)
T ss_pred             HHHH-Hh------hCcccCCcEEEEEECcccCCHH------HHHHHHHHHhCC------------CCCeEEEEEeCCc--
Confidence            5432 11      1344455567899998886543      344555555521            1245566666533  


Q ss_pred             CCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        535 GRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       535 gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                        ..|.+.+.+|+.++.+..++.+++......++.
T Consensus       162 --~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~  194 (614)
T PRK14971        162 --HKILPTILSRCQIFDFNRIQVADIVNHLQYVAS  194 (614)
T ss_pred             --hhchHHHHhhhheeecCCCCHHHHHHHHHHHHH
Confidence              468899999999999999999999887776654

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=98.00  E-value=4.2e-06  Score=88.27  Aligned_cols=154  Identities=14%  Similarity=0.174  Sum_probs=82.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh--hcCccc---cC-CCCCeEEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK--RTKTLL---GA-PLGKRLAV  478 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~--~~~~~~---~p-~~gk~~vl  478 (583)
                      .+.|+||+|.||+|||.+++.+.+-.  +   ..++.+....|.+. +-    ..+.+  ..++..   |+ ....+.|+
T Consensus        56 ~~ihiLlvGdpg~gKS~ll~~~~~~~--p---r~v~~~g~~~s~~g-Lt----a~~~~d~~~~~~~leaGalvlad~Gic  125 (331)
T PF00493_consen   56 GNIHILLVGDPGTGKSQLLKYVAKLA--P---RSVYTSGKGSSAAG-LT----ASVSRDPVTGEWVLEAGALVLADGGIC  125 (331)
T ss_dssp             -S--EEEECSCHHCHHHHHHCCCCT---S---SEEEEECCGSTCCC-CC----EEECCCGGTSSECEEE-HHHHCTTSEE
T ss_pred             cccceeeccchhhhHHHHHHHHHhhC--C---ceEEECCCCcccCC-cc----ceeccccccceeEEeCCchhcccCcee
Confidence            45699999999999999998654322  1   12333333322211 11    01111  112211   11 12344689


Q ss_pred             EecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCC-eeEeecCeEEEEecCCCCCC---------CCCCChhhhccce
Q psy17974        479 FVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKM-FWKTLQDVVLCTACAPPGGG---------RMPLTPRFVRHFG  548 (583)
Q Consensus       479 fiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~-~~~~i~~i~~iaa~~p~~~g---------r~~l~~Rllr~f~  548 (583)
                      +|||++....+      ....|-..+|++..--.+.. ...--.++.++|||||.+|-         .-.+++.++++|-
T Consensus       126 cIDe~dk~~~~------~~~~l~eaMEqq~isi~kagi~~~l~ar~svlaa~NP~~g~~~~~~~~~~ni~l~~~LLSRFD  199 (331)
T PF00493_consen  126 CIDEFDKMKED------DRDALHEAMEQQTISIAKAGIVTTLNARCSVLAAANPKFGRYDPNKSLSENINLPPPLLSRFD  199 (331)
T ss_dssp             EECTTTT--CH------HHHHHHHHHHCSCEEECTSSSEEEEE---EEEEEE--TT--S-TTS-CGCCT-S-CCCHCC-S
T ss_pred             eecccccccch------HHHHHHHHHHcCeeccchhhhcccccchhhhHHHHhhhhhhcchhhhhHHhcccchhhHhhcC
Confidence            99999986654      36778888998766544432 33445689999999997531         1258899999999


Q ss_pred             EEE--eCCCCHHHHHHHHHHHhcccccC
Q psy17974        549 LLS--LPSPTEDTLKVIFKVRTSPGKQE  574 (583)
Q Consensus       549 vi~--i~~p~~~sl~~I~~~~l~~~l~~  574 (583)
                      +|.  .+.|+.+.=..|-..+++.|...
T Consensus       200 Lif~l~D~~d~~~D~~la~~il~~~~~~  227 (331)
T PF00493_consen  200 LIFLLRDKPDEEEDERLAEHILDSHRNG  227 (331)
T ss_dssp             EEECC--TTT-HHHHHHHHHHHTTT---
T ss_pred             EEEEeccccccccccccceEEEeccccc
Confidence            766  47888777777888777776543

; 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.

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.97  E-value=9.8e-07  Score=84.76  Aligned_cols=96  Identities=21%  Similarity=0.284  Sum_probs=50.1

Q ss_pred             HHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh-hcCccccCCCCCeEEE
Q psy17974        400 EKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK-RTKTLLGAPLGKRLAV  478 (583)
Q Consensus       400 ~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~-~~~~~~~p~~gk~~vl  478 (583)
                      ..+++.+.+++|.||+|+|||.++.++++.+.. .++.+.+++++      .+.+.+...-.. +....+.. -.+.-++
T Consensus        41 ~~~~~~~~~l~l~G~~G~GKThLa~ai~~~~~~-~g~~v~f~~~~------~L~~~l~~~~~~~~~~~~~~~-l~~~dlL  112 (178)
T PF01695_consen   41 LEFIENGENLILYGPPGTGKTHLAVAIANEAIR-KGYSVLFITAS------DLLDELKQSRSDGSYEELLKR-LKRVDLL  112 (178)
T ss_dssp             H-S-SC--EEEEEESTTSSHHHHHHHHHHHHHH-TT--EEEEEHH------HHHHHHHCCHCCTTHCHHHHH-HHTSSCE
T ss_pred             CCCcccCeEEEEEhhHhHHHHHHHHHHHHHhcc-CCcceeEeecC------ceeccccccccccchhhhcCc-cccccEe
Confidence            456778999999999999999999999887643 56777777543      333333322110 00000000 0112267


Q ss_pred             EecCCCCCCcccCCCCChHHHHHHH
Q psy17974        479 FVDDVNMPKLETYGAQPPIELLRQF  503 (583)
Q Consensus       479 fiDDln~p~~d~yg~q~~lElLRq~  503 (583)
                      +|||+-.-..+.++.....++|..-
T Consensus       113 ilDDlG~~~~~~~~~~~l~~ii~~R  137 (178)
T PF01695_consen  113 ILDDLGYEPLSEWEAELLFEIIDER  137 (178)
T ss_dssp             EEETCTSS---HHHHHCTHHHHHHH
T ss_pred             cccccceeeecccccccchhhhhHh
Confidence            8999987655544444444444443

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.

>KOG1051|consensus

Probab=97.95  E-value=1.6e-05  Score=91.99  Aligned_cols=158  Identities=20%  Similarity=0.322  Sum_probs=103.2

Q ss_pred             HHHHHHHhcC-CceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc
Q psy17974        397 SIMEKLLLVN-HPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG  469 (583)
Q Consensus       397 ~ll~~~l~~~-~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~  469 (583)
                      .+++.+.... .|-+|+|+||+|||.++..+++.....      .....+.+.|.+......-.+=+|.++....+.+-.
T Consensus       198 Rvi~iL~Rrtk~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~aGa~~rge~E~rlk~l~k~v~~  277 (898)
T KOG1051|consen  198 RVIEILSRKTKNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVAGAKRRGEFEERLKELLKEVES  277 (898)
T ss_pred             HHHHHHhccCCCCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhcccCcccchHHHHHHHHHHHHHhc
Confidence            4455555544 489999999999999999998865211      123455666654322222112233333322222111


Q ss_pred             CCCCCeEEEEecCCCCCCccc--CCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-CCCCCChhhhcc
Q psy17974        470 APLGKRLAVFVDDVNMPKLET--YGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLTPRFVRH  546 (583)
Q Consensus       470 p~~gk~~vlfiDDln~p~~d~--yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-gr~~l~~Rllr~  546 (583)
                        .|...|+|+||+|+.....  ||.-....+|.-.+-+||              +.+|||++.... --..=.|.|-|+
T Consensus       278 --~~~gvILfigelh~lvg~g~~~~~~d~~nlLkp~L~rg~--------------l~~IGatT~e~Y~k~iekdPalErr  341 (898)
T KOG1051|consen  278 --GGGGVILFLGELHWLVGSGSNYGAIDAANLLKPLLARGG--------------LWCIGATTLETYRKCIEKDPALERR  341 (898)
T ss_pred             --CCCcEEEEecceeeeecCCCcchHHHHHHhhHHHHhcCC--------------eEEEecccHHHHHHHHhhCcchhhC
Confidence              5678899999999864332  555567788888888776              457787664332 224557899999


Q ss_pred             ceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        547 FGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       547 f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      |..+.++.|+.+++..|+...-..
T Consensus       342 w~l~~v~~pS~~~~~~iL~~l~~~  365 (898)
T KOG1051|consen  342 WQLVLVPIPSVENLSLILPGLSER  365 (898)
T ss_pred             cceeEeccCcccchhhhhhhhhhh
Confidence            999999999998888888777655

>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=97.93  E-value=0.00018  Score=72.05  Aligned_cols=144  Identities=19%  Similarity=0.320  Sum_probs=77.5

Q ss_pred             HHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC-----------------hHHHHHHHHhhhhh
Q psy17974        400 EKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS-----------------SARTQEILEGKLDK  462 (583)
Q Consensus       400 ~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt-----------------~~~lq~~ie~~l~~  462 (583)
                      +.++.....+.++|++|||||+++..++..+.  ..+..+.+ +++...                 .+.+...++...++
T Consensus         7 ~~l~~~~fr~viIG~sGSGKT~li~~lL~~~~--~~f~~I~l-~t~~~n~~~~~~i~p~~i~~~~~~e~le~~l~~~k~~   83 (241)
T PF04665_consen    7 NSLLKDPFRMVIIGKSGSGKTTLIKSLLYYLR--HKFDHIFL-ITPEYNNEYYKYIWPDHIFKVFDKEELEYILIRQKEK   83 (241)
T ss_pred             hHhcCCCceEEEECCCCCCHHHHHHHHHHhhc--ccCCEEEE-EecCCchhhhhhcchhhccccccHHHHHHHHHHHHHH
Confidence            45666667899999999999999999998763  34444433 222111                 11111111111110


Q ss_pred             hcCccccCC---CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCC
Q psy17974        463 RTKTLLGAP---LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPL  539 (583)
Q Consensus       463 ~~~~~~~p~---~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l  539 (583)
                      ..+-.-..+   ...+.++.+||+..   ..  .+  -+.+++++.+|.=|           ++.++-+|...-    .+
T Consensus        84 I~k~~~k~~~~k~~~~~LiIlDD~~~---~~--~k--~~~l~~~~~~gRH~-----------~is~i~l~Q~~~----~l  141 (241)
T PF04665_consen   84 IEKYIKKSPQKKNNPRFLIILDDLGD---KK--LK--SKILRQFFNNGRHY-----------NISIIFLSQSYF----HL  141 (241)
T ss_pred             HHHHhhhhcccCCCCCeEEEEeCCCC---ch--hh--hHHHHHHHhccccc-----------ceEEEEEeeecc----cC
Confidence            001111112   23478999999743   11  11  24677888766433           344555554432    56


Q ss_pred             ChhhhccceEEEeCCCCHHHHHHHHHHHh
Q psy17974        540 TPRFVRHFGLLSLPSPTEDTLKVIFKVRT  568 (583)
Q Consensus       540 ~~Rllr~f~vi~i~~p~~~sl~~I~~~~l  568 (583)
                      |+-+......+.+-..+..++..|+..+-
T Consensus       142 p~~iR~n~~y~i~~~~s~~dl~~i~~~~~  170 (241)
T PF04665_consen  142 PPNIRSNIDYFIIFNNSKRDLENIYRNMN  170 (241)
T ss_pred             CHHHhhcceEEEEecCcHHHHHHHHHhcc
Confidence            66554444433322357888888877653

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK08116 hypothetical protein; Validated

Probab=97.93  E-value=1.3e-05  Score=82.02  Aligned_cols=38  Identities=32%  Similarity=0.484  Sum_probs=29.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      .+.+++|+|++|||||.++.++++.+.. .+..++.+++
T Consensus       113 ~~~gl~l~G~~GtGKThLa~aia~~l~~-~~~~v~~~~~  150 (268)
T PRK08116        113 ENVGLLLWGSVGTGKTYLAACIANELIE-KGVPVIFVNF  150 (268)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEEEH
Confidence            3457999999999999999999998743 3556666654

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.92  E-value=0.00015  Score=82.21  Aligned_cols=142  Identities=15%  Similarity=0.243  Sum_probs=86.8

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC----------------------------CceEEEEEeccCC
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN----------------------------TWAALTINFSAQT  447 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~----------------------------~~~~~~i~fS~~T  447 (583)
                      +..++..|   +..|++||+|+|||++++.+++.+.-..                            ...+..+.-....
T Consensus        28 L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~~~n~~~~d~~s~~  107 (620)
T PRK14954         28 IQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNN  107 (620)
T ss_pred             HHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHhccCCCCeEEecccccC
Confidence            55566554   4589999999999999999988762110                            0111112111222


Q ss_pred             ChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEE
Q psy17974        448 SSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCT  527 (583)
Q Consensus       448 t~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~ia  527 (583)
                      ..+++..+++. +.      ++|-.+.+-|++|||.+.-..+      ..+.|.-.++.-            ...+.+|.
T Consensus       108 ~vd~Ir~l~e~-~~------~~P~~~~~KVvIIdEad~Lt~~------a~naLLK~LEeP------------p~~tv~IL  162 (620)
T PRK14954        108 SVDDIRQLREN-VR------YGPQKGRYRVYIIDEVHMLSTA------AFNAFLKTLEEP------------PPHAIFIF  162 (620)
T ss_pred             CHHHHHHHHHH-HH------hhhhcCCCEEEEEeChhhcCHH------HHHHHHHHHhCC------------CCCeEEEE
Confidence            34555544322 11      3455555668899998775432      233444445521            12345555


Q ss_pred             ecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        528 ACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       528 a~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      +++.+    ..+.+.+.+++.++.+..++.+++......++.
T Consensus       163 ~t~~~----~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~  200 (620)
T PRK14954        163 ATTEL----HKIPATIASRCQRFNFKRIPLDEIQSQLQMICR  200 (620)
T ss_pred             EeCCh----hhhhHHHHhhceEEecCCCCHHHHHHHHHHHHH
Confidence            55433    368888999999999999999998887776654

>PF14516 AAA_35: AAA-like domain

Probab=97.92  E-value=0.00016  Score=76.28  Aligned_cols=163  Identities=13%  Similarity=0.167  Sum_probs=97.5

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC-----CChHHHHHHHHhhhhhh--------
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ-----TSSARTQEILEGKLDKR--------  463 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~-----Tt~~~lq~~ie~~l~~~--------  463 (583)
                      .+.+.+.+.|..+.+.||..+|||+++..+++.+. ..++.++.++|+..     ++.+.+.+.+-..+.+.        
T Consensus        22 ~~~~~i~~~G~~~~I~apRq~GKTSll~~l~~~l~-~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~~l~  100 (331)
T PF14516_consen   22 ECYQEIVQPGSYIRIKAPRQMGKTSLLLRLLERLQ-QQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQLKLDEKLD  100 (331)
T ss_pred             HHHHHHhcCCCEEEEECcccCCHHHHHHHHHHHHH-HCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHHHHcCCChhHH
Confidence            34556677799999999999999999999988873 46899999999863     22333333322221110        


Q ss_pred             ------cCc----------cccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEE
Q psy17974        464 ------TKT----------LLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCT  527 (583)
Q Consensus       464 ------~~~----------~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~ia  527 (583)
                            .+.          ..-....+++|++|||++..-....-+...+.+||.|.+.+.    ....|.   .+.+|.
T Consensus       101 ~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~----~~~~~~---~L~li~  173 (331)
T PF14516_consen  101 EYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRK----NNPIWQ---KLRLIL  173 (331)
T ss_pred             HHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcc----cCcccc---eEEEEE
Confidence                  000          011234689999999998754322112345677887766443    122443   455555


Q ss_pred             ecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHH
Q psy17974        528 ACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       528 a~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~  567 (583)
                      +...+......+...-.+....+.++..+.+++....+.+
T Consensus       174 ~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~  213 (331)
T PF14516_consen  174 AGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRY  213 (331)
T ss_pred             ecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhh
Confidence            5433221111111111144456899999999988876655

>PRK04132 replication factor C small subunit; Provisional

Probab=97.91  E-value=8.6e-05  Score=86.39  Aligned_cols=128  Identities=11%  Similarity=0.129  Sum_probs=92.1

Q ss_pred             cCCCcHHHHHHHHHHhhccc-CCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCC-CCeEEEEecCCCCCCcccC
Q psy17974        414 VTGVGKTVVARSILNKLLAS-NTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPL-GKRLAVFVDDVNMPKLETY  491 (583)
Q Consensus       414 p~GtGKT~li~~~l~~l~~~-~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~-gk~~vlfiDDln~p~~d~y  491 (583)
                      |.+.|||+++..+++.+... -+..++.+|-|.....+.+++.+..-...      .|.+ ++.-|++|||++.-..+  
T Consensus       574 Ph~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~------~~~~~~~~KVvIIDEaD~Lt~~--  645 (846)
T PRK04132        574 PTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFART------KPIGGASFKIIFLDEADALTQD--  645 (846)
T ss_pred             CCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhc------CCcCCCCCEEEEEECcccCCHH--
Confidence            77779999999999986321 12356667766656677787776543322      1222 24468999999987654  


Q ss_pred             CCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        492 GAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       492 g~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                          ....||-.+|.-            ..++.||.+||++.    .+.+.+.+|+.++.++.|+.+++..+...+.+
T Consensus       646 ----AQnALLk~lEep------------~~~~~FILi~N~~~----kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~  703 (846)
T PRK04132        646 ----AQQALRRTMEMF------------SSNVRFILSCNYSS----KIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAE  703 (846)
T ss_pred             ----HHHHHHHHhhCC------------CCCeEEEEEeCChh----hCchHHhhhceEEeCCCCCHHHHHHHHHHHHH
Confidence                345566677621            13678999999986    78899999999999999999999988777765

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=97.90  E-value=0.00019  Score=78.57  Aligned_cols=167  Identities=17%  Similarity=0.141  Sum_probs=99.4

Q ss_pred             hhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-C
Q psy17974        392 TIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-A  470 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p  470 (583)
                      ..+....+..+...+.||++.|++||||+++++.+.... .......+.++|++.. ..    .+++.+-...++.|. +
T Consensus       148 ~~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s-~~~~~~~v~v~c~~~~-~~----~~~~~lfg~~~~~~~~~  221 (445)
T TIGR02915       148 MQKICRTIEKIAPSDITVLLLGESGTGKEVLARALHQLS-DRKDKRFVAINCAAIP-EN----LLESELFGYEKGAFTGA  221 (445)
T ss_pred             HHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhC-CcCCCCeEEEECCCCC-hH----HHHHHhcCCCCCCcCCC
Confidence            344555666677788999999999999999999886543 2234457788888753 22    333433222222221 1


Q ss_pred             --------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC---CCCCCC
Q psy17974        471 --------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG---GGRMPL  539 (583)
Q Consensus       471 --------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~---~gr~~l  539 (583)
                              ......++|+||++.-..+      ..+-|.++++.+.+....... ..-.|+.+|+|++.+-   -....+
T Consensus       222 ~~~~~g~~~~a~~gtl~l~~i~~l~~~------~q~~l~~~l~~~~~~~~~~~~-~~~~~~rii~~~~~~l~~~~~~~~~  294 (445)
T TIGR02915       222 VKQTLGKIEYAHGGTLFLDEIGDLPLN------LQAKLLRFLQERVIERLGGRE-EIPVDVRIVCATNQDLKRMIAEGTF  294 (445)
T ss_pred             ccCCCCceeECCCCEEEEechhhCCHH------HHHHHHHHHhhCeEEeCCCCc-eeeeceEEEEecCCCHHHHHHcCCc
Confidence                    0123458999999865543      345556677766543322211 1224899999988752   122356


Q ss_pred             ChhhhccceEE--EeCCCCH--HHHHHHHHHHhccc
Q psy17974        540 TPRFVRHFGLL--SLPSPTE--DTLKVIFKVRTSPG  571 (583)
Q Consensus       540 ~~Rllr~f~vi--~i~~p~~--~sl~~I~~~~l~~~  571 (583)
                      .+.|..+++++  .+|+..+  +++..+...++..+
T Consensus       295 ~~~L~~~l~~~~i~lPpLr~R~~Di~~l~~~~l~~~  330 (445)
T TIGR02915       295 REDLFYRIAEISITIPPLRSRDGDAVLLANAFLERF  330 (445)
T ss_pred             cHHHHHHhccceecCCCchhchhhHHHHHHHHHHHH
Confidence            67777777654  4554432  45666666666553

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).

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.89  E-value=1.5e-05  Score=80.82  Aligned_cols=95  Identities=23%  Similarity=0.249  Sum_probs=57.7

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEec
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVD  481 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiD  481 (583)
                      ++..+.+++|+||||+|||.++-++.+++. ..++.+.++     |.++.++++-...-+......+--.-.+--|++||
T Consensus       101 ~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~sv~f~-----~~~el~~~Lk~~~~~~~~~~~l~~~l~~~dlLIiD  174 (254)
T COG1484         101 FFERGENLVLLGPPGVGKTHLAIAIGNELL-KAGISVLFI-----TAPDLLSKLKAAFDEGRLEEKLLRELKKVDLLIID  174 (254)
T ss_pred             HhccCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEE-----EHHHHHHHHHHHHhcCchHHHHHHHhhcCCEEEEe
Confidence            344899999999999999999999999885 556677666     34445554422211100000000001223388999


Q ss_pred             CCCCCCcccCCCCChHHHHHH
Q psy17974        482 DVNMPKLETYGAQPPIELLRQ  502 (583)
Q Consensus       482 Dln~p~~d~yg~q~~lElLRq  502 (583)
                      |+-....++++..-.++++-+
T Consensus       175 DlG~~~~~~~~~~~~~q~I~~  195 (254)
T COG1484         175 DIGYEPFSQEEADLLFQLISR  195 (254)
T ss_pred             cccCccCCHHHHHHHHHHHHH
Confidence            999888776554434443333

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.85  E-value=8.1e-05  Score=73.38  Aligned_cols=134  Identities=19%  Similarity=0.353  Sum_probs=83.1

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHH--HHhhhhhhcCccccCCCCCeEEEEecCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEI--LEGKLDKRTKTLLGAPLGKRLAVFVDDVN  484 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~--ie~~l~~~~~~~~~p~~gk~~vlfiDDln  484 (583)
                      .+|||.|..|||||+++++++.++. ......+-+      +.+++..+  |...+.         ...++.|+||||+.
T Consensus        86 NnVLLwGaRGtGKSSLVKA~~~e~~-~~glrLVEV------~k~dl~~Lp~l~~~Lr---------~~~~kFIlFcDDLS  149 (287)
T COG2607          86 NNVLLWGARGTGKSSLVKALLNEYA-DEGLRLVEV------DKEDLATLPDLVELLR---------ARPEKFILFCDDLS  149 (287)
T ss_pred             cceEEecCCCCChHHHHHHHHHHHH-hcCCeEEEE------cHHHHhhHHHHHHHHh---------cCCceEEEEecCCC
Confidence            5899999999999999999999873 344455544      23333321  111111         12468999999998


Q ss_pred             CCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC---------CCCC-CCCh--------hhhcc
Q psy17974        485 MPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG---------GGRM-PLTP--------RFVRH  546 (583)
Q Consensus       485 ~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~---------~gr~-~l~~--------Rllr~  546 (583)
                      .-.-|     ..--.|+..+| ||.--+       ..||.|-||.|.-.         .+.. .|.+        .|.-|
T Consensus       150 Fe~gd-----~~yK~LKs~Le-G~ve~r-------P~NVl~YATSNRRHLl~e~~~dn~~~~~eih~~eaveEKlSlSDR  216 (287)
T COG2607         150 FEEGD-----DAYKALKSALE-GGVEGR-------PANVLFYATSNRRHLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDR  216 (287)
T ss_pred             CCCCc-----hHHHHHHHHhc-CCcccC-------CCeEEEEEecCCcccccHhhhhCCCcccccChhHHHHHhhchhhh
Confidence            75544     24567888888 444322       35778888876321         0100 1111        23445


Q ss_pred             ce-EEEeCCCCHHHHHHHHHHHhc
Q psy17974        547 FG-LLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       547 f~-vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      |- -+.+.++++++-..|...+.+
T Consensus       217 FGLwL~F~~~~Q~~YL~~V~~~a~  240 (287)
T COG2607         217 FGLWLSFYPCDQDEYLKIVDHYAK  240 (287)
T ss_pred             cceeecccCCCHHHHHHHHHHHHH
Confidence            54 378889999997766666654

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.85  E-value=3.4e-05  Score=81.10  Aligned_cols=100  Identities=20%  Similarity=0.271  Sum_probs=55.8

Q ss_pred             HHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHh-hhhhhcCcc--ccCCCCC
Q psy17974        398 IMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEG-KLDKRTKTL--LGAPLGK  474 (583)
Q Consensus       398 ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~-~l~~~~~~~--~~p~~gk  474 (583)
                      +++.+-..+.+++|+||+|+|||.++.++++.+. ..++.+++++.      ..+...+.. +.+......  +..- .+
T Consensus       175 f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~-~~g~~V~y~t~------~~l~~~l~~~~~~~~~~~~~~~~~l-~~  246 (329)
T PRK06835        175 FIENFDKNNENLLFYGNTGTGKTFLSNCIAKELL-DRGKSVIYRTA------DELIEILREIRFNNDKELEEVYDLL-IN  246 (329)
T ss_pred             HHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHH-HCCCeEEEEEH------HHHHHHHHHHHhccchhHHHHHHHh-cc
Confidence            4444445679999999999999999999998874 33566665532      223222211 111100000  0000 11


Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHH
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLD  505 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld  505 (583)
                      --+++|||+.......+..+...+++..-.+
T Consensus       247 ~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~  277 (329)
T PRK06835        247 CDLLIIDDLGTEKITEFSKSELFNLINKRLL  277 (329)
T ss_pred             CCEEEEeccCCCCCCHHHHHHHHHHHHHHHH
Confidence            1278999998865554444444444444433

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.85  E-value=1.9e-05  Score=72.44  Aligned_cols=125  Identities=20%  Similarity=0.280  Sum_probs=74.4

Q ss_pred             hhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCC
Q psy17974        392 TIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAP  471 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~  471 (583)
                      ..+...-++.+...+.||+|+|++||||+.+++.+...-. ...-..+.+++.. ..    ++.++.    .        
T Consensus         7 ~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~-~~~~~~~~~~~~~-~~----~~~l~~----a--------   68 (138)
T PF14532_consen    7 MRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSG-RANGPFIVIDCAS-LP----AELLEQ----A--------   68 (138)
T ss_dssp             HHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTT-TCCS-CCCCCHHC-TC----HHHHHH----C--------
T ss_pred             HHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcC-ccCCCeEEechhh-Cc----HHHHHH----c--------
Confidence            4556667788889999999999999999999997766432 2122223333333 22    222222    1        


Q ss_pred             CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC---CCCCCChhhhccce
Q psy17974        472 LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG---GRMPLTPRFVRHFG  548 (583)
Q Consensus       472 ~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~---gr~~l~~Rllr~f~  548 (583)
                        +...+||+|++....+      ..+.|.++++...           -.++++|+++..+-.   ....+.++|..++.
T Consensus        69 --~~gtL~l~~i~~L~~~------~Q~~L~~~l~~~~-----------~~~~RlI~ss~~~l~~l~~~~~~~~~L~~~l~  129 (138)
T PF14532_consen   69 --KGGTLYLKNIDRLSPE------AQRRLLDLLKRQE-----------RSNVRLIASSSQDLEELVEEGRFSPDLYYRLS  129 (138)
T ss_dssp             --TTSEEEEECGCCS-HH------HHHHHHHHHHHCT-----------TTTSEEEEEECC-CCCHHHHSTHHHHHHHHCS
T ss_pred             --CCCEEEECChHHCCHH------HHHHHHHHHHhcC-----------CCCeEEEEEeCCCHHHHhhccchhHHHHHHhC
Confidence              2336889999876654      2445556665421           135688888876532   13457788888886


Q ss_pred             --EEEeC
Q psy17974        549 --LLSLP  553 (583)
Q Consensus       549 --vi~i~  553 (583)
                        .|.+|
T Consensus       130 ~~~i~lP  136 (138)
T PF14532_consen  130 QLEIHLP  136 (138)
T ss_dssp             TCEEEE-
T ss_pred             CCEEeCC
Confidence              45554

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=97.83  E-value=0.00042  Score=73.69  Aligned_cols=76  Identities=17%  Similarity=0.180  Sum_probs=51.5

Q ss_pred             CCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceE
Q psy17974        470 APLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGL  549 (583)
Q Consensus       470 p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~v  549 (583)
                      |..|++-|++|||++.-..+.     ...+|+. +|..            ..++.||..++.|+    .+.+-+.+++..
T Consensus       137 ~~~g~~rVviIDeAd~l~~~a-----anaLLk~-LEEp------------p~~~~fiLit~~~~----~llptIrSRc~~  194 (351)
T PRK09112        137 SGDGNWRIVIIDPADDMNRNA-----ANAILKT-LEEP------------PARALFILISHSSG----RLLPTIRSRCQP  194 (351)
T ss_pred             cccCCceEEEEEchhhcCHHH-----HHHHHHH-HhcC------------CCCceEEEEECChh----hccHHHHhhccE
Confidence            455667799999999765442     3344444 3421            12344444455554    567888999999


Q ss_pred             EEeCCCCHHHHHHHHHHH
Q psy17974        550 LSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~~  567 (583)
                      +.+++|+.+++..+....
T Consensus       195 i~l~pl~~~~~~~~L~~~  212 (351)
T PRK09112        195 ISLKPLDDDELKKALSHL  212 (351)
T ss_pred             EEecCCCHHHHHHHHHHh
Confidence            999999999999888763

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.81  E-value=0.00034  Score=73.81  Aligned_cols=140  Identities=10%  Similarity=0.146  Sum_probs=84.7

Q ss_pred             HHHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEecc-CCChHHHH
Q psy17974        398 IMEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSA-QTSSARTQ  453 (583)
Q Consensus       398 ll~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~-~Tt~~~lq  453 (583)
                      .+...+..|+   ..||+||+|+||+++++.+++.+.-.+                    .-....+.... ..+.+++.
T Consensus        17 ~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i~~~~~~i~id~ir   96 (329)
T PRK08058         17 MLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLVAPDGQSIKKDQIR   96 (329)
T ss_pred             HHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEeccccccCCHHHHH
Confidence            3445555553   459999999999999999988752111                    01122333322 22334444


Q ss_pred             HHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        454 EILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       454 ~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      +.++ .+.      +.|..|.+=|++|||.+.-..+      ....|+-.+|.-            ..++.||.+++.+.
T Consensus        97 ~l~~-~~~------~~~~~~~~kvviI~~a~~~~~~------a~NaLLK~LEEP------------p~~~~~Il~t~~~~  151 (329)
T PRK08058         97 YLKE-EFS------KSGVESNKKVYIIEHADKMTAS------AANSLLKFLEEP------------SGGTTAILLTENKH  151 (329)
T ss_pred             HHHH-HHh------hCCcccCceEEEeehHhhhCHH------HHHHHHHHhcCC------------CCCceEEEEeCChH
Confidence            4432 122      1233344557889998765433      334455555521            23455666665443


Q ss_pred             CCCCCCChhhhccceEEEeCCCCHHHHHHHHHH
Q psy17974        534 GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       534 ~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~  566 (583)
                          .+.+-+.+|+.++.+.+|+.+++..++..
T Consensus       152 ----~ll~TIrSRc~~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        152 ----QILPTILSRCQVVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             ----hCcHHHHhhceeeeCCCCCHHHHHHHHHH
Confidence                78899999999999999999998777653

>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=97.81  E-value=3.8e-05  Score=75.50  Aligned_cols=155  Identities=15%  Similarity=0.251  Sum_probs=76.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHH-----hh----hhhhcC-----------
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILE-----GK----LDKRTK-----------  465 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie-----~~----l~~~~~-----------  465 (583)
                      +..++|+||.|+|||++++.+++.+. ...+..+.+..........+...+.     ..    +.....           
T Consensus        20 ~~~~~l~G~rg~GKTsLl~~~~~~~~-~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~   98 (234)
T PF01637_consen   20 SQHILLYGPRGSGKTSLLKEFINELK-EKGYKVVYIDFLEESNESSLRSFIEETSLADELSEALGISIPSITLEKISKDL   98 (234)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHCT---EECCCHHCCTTBSHHHHHHHHHHHHHHHCHCHHHHHHHCCTSTTEEEECTS
T ss_pred             CcEEEEEcCCcCCHHHHHHHHHHHhh-hcCCcEEEEecccchhhhHHHHHHHHHHHHHHHHHHHhhhcccccchhhhhcc
Confidence            58999999999999999999999773 2233233333322232222333211     11    110000           


Q ss_pred             --cccc---------CCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-
Q psy17974        466 --TLLG---------APLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-  533 (583)
Q Consensus       466 --~~~~---------p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-  533 (583)
                        ....         ...++++|++|||++.......+....+..|+.+++...          .-.++.+|.+.+..+ 
T Consensus        99 ~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~----------~~~~~~~v~~~S~~~~  168 (234)
T PF01637_consen   99 SEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLL----------SQQNVSIVITGSSDSL  168 (234)
T ss_dssp             -GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH--------------TTEEEEEEESSHHH
T ss_pred             hhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhcc----------ccCCceEEEECCchHH
Confidence              0000         113445999999999866111122345667777777511          112344443322221 


Q ss_pred             -CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhccc
Q psy17974        534 -GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       534 -~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                       .....-...+..++..+.+++.+.++....+....+..
T Consensus       169 ~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~  207 (234)
T PF01637_consen  169 MEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL  207 (234)
T ss_dssp             HHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC
T ss_pred             HHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh
Confidence             01111223344555569999999999999888876544

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.81  E-value=0.00017  Score=75.26  Aligned_cols=127  Identities=18%  Similarity=0.201  Sum_probs=79.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccCCChHHHHHHHHhhhhhhcCcc
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQTSSARTQEILEGKLDKRTKTL  467 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~  467 (583)
                      .+||+||||+|||+++..+++.+....                    ...+..++-|.....+...+.+..-.+.   ..
T Consensus        26 alL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~i~~~~vr~~~~~---~~  102 (325)
T COG0470          26 ALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEF---LS  102 (325)
T ss_pred             eeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCCcchHHHHHHHHHH---hc
Confidence            499999999999999999998773111                    1345556666554433222222222221   11


Q ss_pred             ccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc
Q psy17974        468 LGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF  547 (583)
Q Consensus       468 ~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f  547 (583)
                      ..+..+++-|++|||++.-..|.     ...++|-+-+.             -.++.|+.+||.+.    .+-+-+.+++
T Consensus       103 ~~~~~~~~kviiidead~mt~~A-----~nallk~lEep-------------~~~~~~il~~n~~~----~il~tI~SRc  160 (325)
T COG0470         103 ESPLEGGYKVVIIDEADKLTEDA-----ANALLKTLEEP-------------PKNTRFILITNDPS----KILPTIRSRC  160 (325)
T ss_pred             cCCCCCCceEEEeCcHHHHhHHH-----HHHHHHHhccC-------------CCCeEEEEEcCChh----hccchhhhcc
Confidence            12334556688999998766542     34455544432             24677888888665    6777899999


Q ss_pred             eEEEeCCCCHHH
Q psy17974        548 GLLSLPSPTEDT  559 (583)
Q Consensus       548 ~vi~i~~p~~~s  559 (583)
                      .++.+..|+...
T Consensus       161 ~~i~f~~~~~~~  172 (325)
T COG0470         161 QRIRFKPPSRLE  172 (325)
T ss_pred             eeeecCCchHHH
Confidence            999998755543

>KOG2035|consensus

Probab=97.79  E-value=0.00022  Score=71.73  Aligned_cols=152  Identities=13%  Similarity=0.257  Sum_probs=94.6

Q ss_pred             hhHHHHHHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhcccC-----------------CceEEEEEec--cCCChHH
Q psy17974        393 IRFGSIMEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLLASN-----------------TWAALTINFS--AQTSSAR  451 (583)
Q Consensus       393 ~r~~~ll~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~~-----------------~~~~~~i~fS--~~Tt~~~  451 (583)
                      .+....+..+...+  -+.+++||+|+||-+.+..+++++....                 +..+.++.-+  -..+|++
T Consensus        19 ~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHlEitPSD   98 (351)
T KOG2035|consen   19 EELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHLEITPSD   98 (351)
T ss_pred             HHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceEEeChhh
Confidence            34444455555545  6899999999999999999998763210                 1111111100  0122322


Q ss_pred             --------HHHHHHhhhhhhcC-ccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecC
Q psy17974        452 --------TQEILEGKLDKRTK-TLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQD  522 (583)
Q Consensus       452 --------lq~~ie~~l~~~~~-~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~  522 (583)
                              +|+++.. +.+... ..-+.. . --|+.|-+.+-...|      +-..||.-+|            ++..+
T Consensus        99 aG~~DRvViQellKe-vAQt~qie~~~qr-~-fKvvvi~ead~LT~d------AQ~aLRRTME------------kYs~~  157 (351)
T KOG2035|consen   99 AGNYDRVVIQELLKE-VAQTQQIETQGQR-P-FKVVVINEADELTRD------AQHALRRTME------------KYSSN  157 (351)
T ss_pred             cCcccHHHHHHHHHH-HHhhcchhhcccc-c-eEEEEEechHhhhHH------HHHHHHHHHH------------HHhcC
Confidence                    3443321 111110 000111 1 125667777766666      3456777777            23457


Q ss_pred             eEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        523 VVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       523 i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      +++|..||..+    .+-+.+.+|+-.+.+|.|+++++..+.+.+++
T Consensus       158 ~RlIl~cns~S----riIepIrSRCl~iRvpaps~eeI~~vl~~v~~  200 (351)
T KOG2035|consen  158 CRLILVCNSTS----RIIEPIRSRCLFIRVPAPSDEEITSVLSKVLK  200 (351)
T ss_pred             ceEEEEecCcc----cchhHHhhheeEEeCCCCCHHHHHHHHHHHHH
Confidence            88999999876    78899999999999999999999999999886

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

Probab=97.76  E-value=0.00019  Score=77.42  Aligned_cols=135  Identities=23%  Similarity=0.257  Sum_probs=89.9

Q ss_pred             ceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhc
Q psy17974        385 MMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRT  464 (583)
Q Consensus       385 i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~  464 (583)
                      ++=-.+........++....++.+|||+|++||||-.+++++-+-- ...+-..+.+||.+--.     .++|+.+-...
T Consensus       225 iIG~S~am~~ll~~i~~VA~Sd~tVLi~GETGtGKElvAraIH~~S-~R~~kPfV~~NCAAlPe-----sLlESELFGHe  298 (550)
T COG3604         225 IIGRSPAMRQLLKEIEVVAKSDSTVLIRGETGTGKELVARAIHQLS-PRRDKPFVKLNCAALPE-----SLLESELFGHE  298 (550)
T ss_pred             ceecCHHHHHHHHHHHHHhcCCCeEEEecCCCccHHHHHHHHHhhC-cccCCCceeeeccccch-----HHHHHHHhccc
Confidence            3434455566677788889999999999999999999999876533 34456788999988432     46788886666


Q ss_pred             Ccccc-C---CCCC-----eEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC
Q psy17974        465 KTLLG-A---PLGK-----RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP  532 (583)
Q Consensus       465 ~~~~~-p---~~gk-----~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~  532 (583)
                      ||.|. +   ..||     ...+|+|||.--+..   -|  --+||-+-+ |-+ .+-..+-..-.|+++|||+|..
T Consensus       299 KGAFTGA~~~r~GrFElAdGGTLFLDEIGelPL~---lQ--aKLLRvLQe-gEi-eRvG~~r~ikVDVRiIAATNRD  368 (550)
T COG3604         299 KGAFTGAINTRRGRFELADGGTLFLDEIGELPLA---LQ--AKLLRVLQE-GEI-ERVGGDRTIKVDVRVIAATNRD  368 (550)
T ss_pred             ccccccchhccCcceeecCCCeEechhhccCCHH---HH--HHHHHHHhh-cce-eecCCCceeEEEEEEEeccchh
Confidence            66653 2   2333     457899999632221   01  247887766 333 2222222223599999999975

>PRK12377 putative replication protein; Provisional

Probab=97.74  E-value=4.7e-05  Score=76.94  Aligned_cols=97  Identities=21%  Similarity=0.317  Sum_probs=56.6

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhc--CccccCCCCCeE
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRT--KTLLGAPLGKRL  476 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~--~~~~~p~~gk~~  476 (583)
                      .+.+.....+++|+||||||||+++.++++.+. ..++.+..++.+      .+...+........  ...+. .-.+.-
T Consensus        94 a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~-~~g~~v~~i~~~------~l~~~l~~~~~~~~~~~~~l~-~l~~~d  165 (248)
T PRK12377         94 ADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLL-AKGRSVIVVTVP------DVMSRLHESYDNGQSGEKFLQ-ELCKVD  165 (248)
T ss_pred             HHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCCeEEEEHH------HHHHHHHHHHhccchHHHHHH-HhcCCC
Confidence            344444557899999999999999999998874 335556555332      23322222211100  00000 112334


Q ss_pred             EEEecCCCCCCcccCCCCChHHHHHHHHHhC
Q psy17974        477 AVFVDDVNMPKLETYGAQPPIELLRQFLDFG  507 (583)
Q Consensus       477 vlfiDDln~p~~d~yg~q~~lElLRq~ld~~  507 (583)
                      +++|||+.+-....    ...+.|-+++++.
T Consensus       166 LLiIDDlg~~~~s~----~~~~~l~~ii~~R  192 (248)
T PRK12377        166 LLVLDEIGIQRETK----NEQVVLNQIIDRR  192 (248)
T ss_pred             EEEEcCCCCCCCCH----HHHHHHHHHHHHH
Confidence            88999998754333    3456777787754

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=97.70  E-value=0.00019  Score=80.93  Aligned_cols=141  Identities=11%  Similarity=0.004  Sum_probs=94.3

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHH--HhhhhhhcCccccCC---CCCeEEEEecC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEIL--EGKLDKRTKTLLGAP---LGKRLAVFVDD  482 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~i--e~~l~~~~~~~~~p~---~gk~~vlfiDD  482 (583)
                      .|+|.|+.|+|||++++.+..-++  ....++.++.+  .|.+.+...+  +..+.. .+.++.|-   ...+.|+|+||
T Consensus        27 Gv~i~g~~G~~ks~~~r~l~~llp--~~~p~r~~p~~--~t~~~L~Gg~Dl~~~l~~-g~~~~~pGlla~Ah~GvL~lDe  101 (584)
T PRK13406         27 GVVLRARAGPVRDRWLAALRALLP--AGTPLRRLPPG--IADDRLLGGLDLAATLRA-GRPVAQRGLLAEADGGVLVLAM  101 (584)
T ss_pred             eEEEEcCCCcHHHHHHHHHHHhcC--CCCCcccCCCC--CcHHHccCCchHHhHhhc-CCcCCCCCceeeccCCEEEecC
Confidence            699999999999999998877653  22233333333  3433333221  122221 11123221   23456999999


Q ss_pred             CCCCCcccCCCCChHHHHHHHHHhCCee-ecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeCCCCHHHH
Q psy17974        483 VNMPKLETYGAQPPIELLRQFLDFGGLY-DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLPSPTEDTL  560 (583)
Q Consensus       483 ln~p~~d~yg~q~~lElLRq~ld~~g~y-d~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~~p~~~sl  560 (583)
                      +|.....      +++.|||.++.|... .+.........++.+||+.++.. ....+++.++-||. .+.+++|+..+.
T Consensus       102 ~n~~~~~------~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~-~~~~L~~~lLDRf~l~v~v~~~~~~~~  174 (584)
T PRK13406        102 AERLEPG------TAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAE-EDERAPAALADRLAFHLDLDGLALRDA  174 (584)
T ss_pred             cccCCHH------HHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChh-cccCCCHHhHhheEEEEEcCCCChHHh
Confidence            9997664      799999999988665 35566777778999999855432 22579999999997 589998887654

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.70  E-value=0.00035  Score=73.54  Aligned_cols=131  Identities=18%  Similarity=0.286  Sum_probs=81.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhccc--C-----------------Cc-eEEEEEe---ccCCChHHHHHHHHhhhhhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLAS--N-----------------TW-AALTINF---SAQTSSARTQEILEGKLDKR  463 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~--~-----------------~~-~~~~i~f---S~~Tt~~~lq~~ie~~l~~~  463 (583)
                      +..|++||+|+|||+++..+++.+.-.  .                 .+ .+..+.-   +...+.+++.+++ ..+.  
T Consensus        23 ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~-~~~~--   99 (328)
T PRK05707         23 HAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELV-SFVV--   99 (328)
T ss_pred             eeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHH-HHHh--
Confidence            468999999999999999998876210  0                 00 1111211   1123344554432 2222  


Q ss_pred             cCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhh
Q psy17974        464 TKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRF  543 (583)
Q Consensus       464 ~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rl  543 (583)
                          +.|..|++-|++||+.+.-..+     ....+|+-+=|-             ..++.||.+++.+.    .+.|-+
T Consensus       100 ----~~~~~~~~kv~iI~~a~~m~~~-----aaNaLLK~LEEP-------------p~~~~fiL~t~~~~----~ll~TI  153 (328)
T PRK05707        100 ----QTAQLGGRKVVLIEPAEAMNRN-----AANALLKSLEEP-------------SGDTVLLLISHQPS----RLLPTI  153 (328)
T ss_pred             ----hccccCCCeEEEECChhhCCHH-----HHHHHHHHHhCC-------------CCCeEEEEEECChh----hCcHHH
Confidence                2344445556778998875544     356677644321             13566777666655    689999


Q ss_pred             hccceEEEeCCCCHHHHHHHHHH
Q psy17974        544 VRHFGLLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       544 lr~f~vi~i~~p~~~sl~~I~~~  566 (583)
                      .+|+.++.++.|+.+++......
T Consensus       154 ~SRc~~~~~~~~~~~~~~~~L~~  176 (328)
T PRK05707        154 KSRCQQQACPLPSNEESLQWLQQ  176 (328)
T ss_pred             HhhceeeeCCCcCHHHHHHHHHH
Confidence            99999999999999988766654

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.69  E-value=0.00013  Score=80.47  Aligned_cols=147  Identities=17%  Similarity=0.219  Sum_probs=92.9

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC-----CChHHHHHHHHh------hhhh--
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ-----TSSARTQEILEG------KLDK--  462 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~-----Tt~~~lq~~ie~------~l~~--  462 (583)
                      +...+..+   +.-|++||.|+|||++++-+++.+.-...  ...-.|...     .+.....++||-      .++.  
T Consensus        28 L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~--~~~ePC~~C~~Ck~I~~g~~~DviEiDaASn~gVddiR  105 (515)
T COG2812          28 LSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENG--PTAEPCGKCISCKEINEGSLIDVIEIDAASNTGVDDIR  105 (515)
T ss_pred             HHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCC--CCCCcchhhhhhHhhhcCCcccchhhhhhhccChHHHH
Confidence            44445554   46799999999999999999887721110  000011111     011111112221      0111  


Q ss_pred             --hcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCC
Q psy17974        463 --RTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLT  540 (583)
Q Consensus       463 --~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~  540 (583)
                        +.+-.|.|..++.=|+.|||+||-....     -..+|..+=|             ..+.+.||-|++.|.    .++
T Consensus       106 ~i~e~v~y~P~~~ryKVyiIDEvHMLS~~a-----fNALLKTLEE-------------PP~hV~FIlATTe~~----Kip  163 (515)
T COG2812         106 EIIEKVNYAPSEGRYKVYIIDEVHMLSKQA-----FNALLKTLEE-------------PPSHVKFILATTEPQ----KIP  163 (515)
T ss_pred             HHHHHhccCCccccceEEEEecHHhhhHHH-----HHHHhccccc-------------CccCeEEEEecCCcC----cCc
Confidence              1223567888888899999999987654     3446655432             134677887777665    789


Q ss_pred             hhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        541 PRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       541 ~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      +-.++|+..+.+-..+.+.+..-...++.
T Consensus       164 ~TIlSRcq~f~fkri~~~~I~~~L~~i~~  192 (515)
T COG2812         164 NTILSRCQRFDFKRLDLEEIAKHLAAILD  192 (515)
T ss_pred             hhhhhccccccccCCCHHHHHHHHHHHHH
Confidence            99999999999999999998887777765

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=97.68  E-value=0.00025  Score=76.10  Aligned_cols=94  Identities=17%  Similarity=0.207  Sum_probs=56.3

Q ss_pred             CeEEEEecCCCCCCccc---------CCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhh
Q psy17974        474 KRLAVFVDDVNMPKLET---------YGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFV  544 (583)
Q Consensus       474 k~~vlfiDDln~p~~d~---------yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rll  544 (583)
                      ...||||||++--....         -|.|.  +|| -++| |.--+.+ ..-+.-.++.|||+-.=....-..+-|-|.
T Consensus       249 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~--~LL-ki~E-G~~v~~k-~~~i~T~~ILFI~~GAF~~~kp~DlIPEl~  323 (443)
T PRK05201        249 QNGIVFIDEIDKIAARGGSSGPDVSREGVQR--DLL-PLVE-GSTVSTK-YGMVKTDHILFIASGAFHVSKPSDLIPELQ  323 (443)
T ss_pred             cCCEEEEEcchhhcccCCCCCCCCCccchhc--ccc-cccc-cceeeec-ceeEECCceeEEecCCcCCCChhhccHHHh
Confidence            46799999998633221         22332  122 2233 2222221 122344689999864311111235789999


Q ss_pred             ccce-EEEeCCCCHHHHHHHH----HHHhcccc
Q psy17974        545 RHFG-LLSLPSPTEDTLKVIF----KVRTSPGK  572 (583)
Q Consensus       545 r~f~-vi~i~~p~~~sl~~I~----~~~l~~~l  572 (583)
                      -||. ++.+.+++.++|.+|.    +++++++-
T Consensus       324 GR~Pi~v~L~~L~~~dL~~ILteP~nsLikQy~  356 (443)
T PRK05201        324 GRFPIRVELDALTEEDFVRILTEPKASLIKQYQ  356 (443)
T ss_pred             CccceEEECCCCCHHHHHHHhcCChhHHHHHHH
Confidence            9998 5889999999999999    66776553

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=97.67  E-value=3e-05  Score=87.76  Aligned_cols=165  Identities=14%  Similarity=0.181  Sum_probs=96.9

Q ss_pred             chhhhHHHHHHHH------------HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh-HHHHHHH
Q psy17974        390 IDTIRFGSIMEKL------------LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS-ARTQEIL  456 (583)
Q Consensus       390 ~dt~r~~~ll~~~------------l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~-~~lq~~i  456 (583)
                      .+.++-.-+++++            +....||||+|.||+|||.+.+.+.+..+ ..    ++.  |..+++ ..+-.  
T Consensus       291 ~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aP-r~----vyt--sgkgss~~GLTA--  361 (682)
T COG1241         291 HEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAP-RG----VYT--SGKGSSAAGLTA--  361 (682)
T ss_pred             cHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCC-ce----EEE--ccccccccCcee--
Confidence            3456666555554            22346999999999999999998887552 21    111  222211 11110  


Q ss_pred             Hhhhhh-hc-CccccCC----CCCeEEEEecCCC-CCCcccCCCCChHHHHHHH---HHhCCeeecCCCeeEeecCeEEE
Q psy17974        457 EGKLDK-RT-KTLLGAP----LGKRLAVFVDDVN-MPKLETYGAQPPIELLRQF---LDFGGLYDRDKMFWKTLQDVVLC  526 (583)
Q Consensus       457 e~~l~~-~~-~~~~~p~----~gk~~vlfiDDln-~p~~d~yg~q~~lElLRq~---ld~~g~yd~~~~~~~~i~~i~~i  526 (583)
                        .+.+ .. +..+-..    ...+.|+.|||++ |+..|.   ...+|.+.|-   +...|.-.      .--.++.++
T Consensus       362 --av~rd~~tge~~LeaGALVlAD~Gv~cIDEfdKm~~~dr---~aihEaMEQQtIsIaKAGI~a------tLnARcsvL  430 (682)
T COG1241         362 --AVVRDKVTGEWVLEAGALVLADGGVCCIDEFDKMNEEDR---VAIHEAMEQQTISIAKAGITA------TLNARCSVL  430 (682)
T ss_pred             --EEEEccCCCeEEEeCCEEEEecCCEEEEEeccCCChHHH---HHHHHHHHhcEeeecccceee------ecchhhhhh
Confidence              0111 01 1111111    1234588899999 676663   2244555441   22223211      112578899


Q ss_pred             EecCCCCC---------CCCCCChhhhccceE--EEeCCCCHHHHHHHHHHHhcccccC
Q psy17974        527 TACAPPGG---------GRMPLTPRFVRHFGL--LSLPSPTEDTLKVIFKVRTSPGKQE  574 (583)
Q Consensus       527 aa~~p~~~---------gr~~l~~Rllr~f~v--i~i~~p~~~sl~~I~~~~l~~~l~~  574 (583)
                      ||+||..|         ..-.+++.|++||-+  +..+.|+.+.-..|...++..|...
T Consensus       431 AAaNP~~Gryd~~~~~~enI~l~~~lLSRFDLifvl~D~~d~~~D~~ia~hil~~h~~~  489 (682)
T COG1241         431 AAANPKFGRYDPKKTVAENINLPAPLLSRFDLIFVLKDDPDEEKDEEIAEHILDKHRGE  489 (682)
T ss_pred             hhhCCCCCcCCCCCCHHHhcCCChhHHhhCCeeEEecCCCCccchHHHHHHHHHHHhcc
Confidence            99999865         124578899999985  4568888888888888888888643

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=97.65  E-value=0.00051  Score=75.47  Aligned_cols=170  Identities=15%  Similarity=0.133  Sum_probs=97.9

Q ss_pred             CchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc
Q psy17974        389 TIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL  468 (583)
Q Consensus       389 T~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~  468 (583)
                      .+........+..+...+.||++.|++||||+++++.+.... ......++.++|+... ...    +++.+-...++.+
T Consensus       149 S~~~~~~~~~~~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s-~~~~~~~~~i~c~~~~-~~~----~~~~lfg~~~~~~  222 (457)
T PRK11361        149 SPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNS-RRAKGPFIKVNCAALP-ESL----LESELFGHEKGAF  222 (457)
T ss_pred             cHHHhHHHHHHHHHcCCCcEEEEEcCCCccHHHHHHHHHHhC-CCCCCCeEEEECCCCC-HHH----HHHHhcCCCCCCC
Confidence            333444555667777788999999999999999999886643 2234467778887743 223    2333321111111


Q ss_pred             -cC--------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC---CC
Q psy17974        469 -GA--------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG---GR  536 (583)
Q Consensus       469 -~p--------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~---gr  536 (583)
                       |.        ......++|+||++....+      ...-|.++++.+.+....... ..-.|+.+|+|++.+-.   ..
T Consensus       223 ~~~~~~~~g~~~~a~~gtl~ld~i~~l~~~------~q~~L~~~l~~~~~~~~~~~~-~~~~~~rii~~t~~~l~~~~~~  295 (457)
T PRK11361        223 TGAQTLRQGLFERANEGTLLLDEIGEMPLV------LQAKLLRILQEREFERIGGHQ-TIKVDIRIIAATNRDLQAMVKE  295 (457)
T ss_pred             CCCCCCCCCceEECCCCEEEEechhhCCHH------HHHHHHHHHhcCcEEeCCCCc-eeeeceEEEEeCCCCHHHHHHc
Confidence             00        0122457999999876654      234555677766554322211 12347899999886521   12


Q ss_pred             CCCChhhhccceEEEeC--CCC--HHHHHHHHHHHhccc
Q psy17974        537 MPLTPRFVRHFGLLSLP--SPT--EDTLKVIFKVRTSPG  571 (583)
Q Consensus       537 ~~l~~Rllr~f~vi~i~--~p~--~~sl~~I~~~~l~~~  571 (583)
                      ..+.+.+..+++++.+.  +..  .+++..+...++..+
T Consensus       296 g~~~~~l~~~l~~~~i~~ppLreR~~di~~l~~~~l~~~  334 (457)
T PRK11361        296 GTFREDLFYRLNVIHLILPPLRDRREDISLLANHFLQKF  334 (457)
T ss_pred             CCchHHHHHHhccceecCCChhhchhhHHHHHHHHHHHH
Confidence            24556676666654444  433  245555555555543

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=97.64  E-value=0.00073  Score=74.40  Aligned_cols=166  Identities=16%  Similarity=0.188  Sum_probs=97.6

Q ss_pred             hhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc-cC-
Q psy17974        393 IRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL-GA-  470 (583)
Q Consensus       393 ~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~-~p-  470 (583)
                      ......+..+.....++++.|++||||+++++.+.... .......+.++|+.. +.+.+..    .+-...++.| +. 
T Consensus       144 ~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~~-~~~~~~~~~~~c~~~-~~~~~~~----~lfg~~~~~~~~~~  217 (463)
T TIGR01818       144 QEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHS-PRANGPFIALNMAAI-PKDLIES----ELFGHEKGAFTGAN  217 (463)
T ss_pred             HHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHhC-CCCCCCeEEEeCCCC-CHHHHHH----HhcCCCCCCCCCcc
Confidence            33334445566778899999999999999988876643 233456778888775 3333333    2211122221 11 


Q ss_pred             -------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC---CCCCCC
Q psy17974        471 -------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG---GRMPLT  540 (583)
Q Consensus       471 -------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~---gr~~l~  540 (583)
                             ......++||||++.-..+      .-.-|.++++.+.+....... ..-.|+.+|+|++.+-.   ....+.
T Consensus       218 ~~~~g~~~~a~~gtl~l~ei~~l~~~------~q~~ll~~l~~~~~~~~~~~~-~~~~~~rii~~~~~~l~~~~~~~~f~  290 (463)
T TIGR01818       218 TRRQGRFEQADGGTLFLDEIGDMPLD------AQTRLLRVLADGEFYRVGGRT-PIKVDVRIVAATHQNLEALVRQGKFR  290 (463)
T ss_pred             cCCCCcEEECCCCeEEEEchhhCCHH------HHHHHHHHHhcCcEEECCCCc-eeeeeeEEEEeCCCCHHHHHHcCCcH
Confidence                   0112457899999865544      234445566656554322211 11237889999876521   122455


Q ss_pred             hhhhccce--EEEeCCCC--HHHHHHHHHHHhccc
Q psy17974        541 PRFVRHFG--LLSLPSPT--EDTLKVIFKVRTSPG  571 (583)
Q Consensus       541 ~Rllr~f~--vi~i~~p~--~~sl~~I~~~~l~~~  571 (583)
                      +.|..+++  .|.+|+..  .+++..+...++..+
T Consensus       291 ~~L~~rl~~~~i~lPpLr~R~~Di~~l~~~~l~~~  325 (463)
T TIGR01818       291 EDLFHRLNVIRIHLPPLRERREDIPRLARHFLALA  325 (463)
T ss_pred             HHHHHHhCcceecCCCcccchhhHHHHHHHHHHHH
Confidence            56666665  56666665  577888877777654

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.62  E-value=0.00029  Score=71.89  Aligned_cols=94  Identities=21%  Similarity=0.275  Sum_probs=79.2

Q ss_pred             eeeecccccEEEEecCC-CCCCCCCchHHHhcccceeeecCCcchhHHHHhhcccccchHHHHHHHHHHHHHHHhhCCCC
Q psy17974        138 MINLVPSCAAFITMNPG-YAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQ  216 (583)
Q Consensus       138 ~I~L~~~~~ifiTmnp~-y~gr~eLP~nlk~lfr~~~m~~pd~~~I~e~~l~~~gf~~a~~l~~k~~~~~~~~~~~ls~q  216 (583)
                      .+.++|++.|++|+||. |+|..++|+.|+..|..+.|-.||...-.+|.--  .|.-+..++++++.++...+   +.+
T Consensus       145 ~i~~~~~frvIaTsN~~~~~g~~~l~~aL~~R~~~i~i~~P~~~~e~~Il~~--~~~~~~~~~~~iv~~~~~~R---~~~  219 (262)
T TIGR02640       145 YVDVHPEFRVIFTSNPVEYAGVHETQDALLDRLITIFMDYPDIDTETAILRA--KTDVAEDSAATIVRLVREFR---ASG  219 (262)
T ss_pred             eEecCCCCEEEEeeCCccccceecccHHHHhhcEEEECCCCCHHHHHHHHHH--hhCCCHHHHHHHHHHHHHHH---hhC
Confidence            46688999999999985 9999999999999999999999998777776554  35568899999999998887   456


Q ss_pred             ccccccchhHHHHHHHhhhh
Q psy17974        217 DHYDFGMRAVKSVLVMAGSL  236 (583)
Q Consensus       217 ~hydfglR~lk~vl~~a~~~  236 (583)
                      .++..|.|+...+.+.+..+
T Consensus       220 ~~~~~~~r~~i~~~~~~~~~  239 (262)
T TIGR02640       220 DEITSGLRASLMIAEVATQQ  239 (262)
T ss_pred             CccCCcHHHHHHHHHHHHHc
Confidence            78899999998888776655

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).

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=97.62  E-value=0.00031  Score=75.34  Aligned_cols=93  Identities=17%  Similarity=0.220  Sum_probs=56.0

Q ss_pred             CeEEEEecCCCCCCc-------cc--CCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhh
Q psy17974        474 KRLAVFVDDVNMPKL-------ET--YGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFV  544 (583)
Q Consensus       474 k~~vlfiDDln~p~~-------d~--yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rll  544 (583)
                      .+.||||||++--..       |.  -|.|.  +|| -++| |.--+.+. .-+.-.++.|||+-.=.+.....+-|-|.
T Consensus       247 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~--~LL-kilE-Gt~v~~k~-~~v~T~~ILFI~~GAF~~~kp~DlIPEl~  321 (441)
T TIGR00390       247 QSGIIFIDEIDKIAKKGESSGADVSREGVQR--DLL-PIVE-GSTVNTKY-GMVKTDHILFIAAGAFQLAKPSDLIPELQ  321 (441)
T ss_pred             cCCEEEEEchhhhcccCCCCCCCCCccchhc--ccc-cccc-Cceeeecc-eeEECCceeEEecCCcCCCChhhccHHHh
Confidence            567999999986332       11  23332  222 2333 22222221 22344689999874321111235788999


Q ss_pred             ccce-EEEeCCCCHHHHHHHH----HHHhccc
Q psy17974        545 RHFG-LLSLPSPTEDTLKVIF----KVRTSPG  571 (583)
Q Consensus       545 r~f~-vi~i~~p~~~sl~~I~----~~~l~~~  571 (583)
                      -||. ++.+.+++.++|.+|.    +++++++
T Consensus       322 GR~Pi~v~L~~L~~edL~rILteP~nsLikQy  353 (441)
T TIGR00390       322 GRFPIRVELQALTTDDFERILTEPKNSLIKQY  353 (441)
T ss_pred             CccceEEECCCCCHHHHHHHhcCChhHHHHHH
Confidence            9997 5889999999999998    5665544

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.

>PRK15115 response regulator GlrR; Provisional

Probab=97.62  E-value=0.00049  Score=75.38  Aligned_cols=166  Identities=16%  Similarity=0.139  Sum_probs=98.0

Q ss_pred             hhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-C-
Q psy17974        393 IRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-A-  470 (583)
Q Consensus       393 ~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p-  470 (583)
                      .+....+..+...+.+|++.|++||||+++++.+.... .......+.++|+..+. ..    +++.+-...++.|. + 
T Consensus       144 ~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~s-~r~~~~f~~i~c~~~~~-~~----~~~~lfg~~~~~~~~~~  217 (444)
T PRK15115        144 LRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNAS-PRASKPFIAINCGALPE-QL----LESELFGHARGAFTGAV  217 (444)
T ss_pred             HHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHhc-CCCCCCeEEEeCCCCCH-HH----HHHHhcCCCcCCCCCCc
Confidence            33344445556677899999999999999999876643 22345678888877532 22    33333211122221 0 


Q ss_pred             -------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC---CCCCCCC
Q psy17974        471 -------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG---GGRMPLT  540 (583)
Q Consensus       471 -------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~---~gr~~l~  540 (583)
                             ......++||||++.-..+      .-+.|-.+++.+.+.. -......-.|+.+|+|++.+-   -.+..+.
T Consensus       218 ~~~~g~~~~a~~gtl~l~~i~~l~~~------~q~~L~~~l~~~~~~~-~g~~~~~~~~~rii~~~~~~l~~~~~~~~f~  290 (444)
T PRK15115        218 SNREGLFQAAEGGTLFLDEIGDMPAP------LQVKLLRVLQERKVRP-LGSNRDIDIDVRIISATHRDLPKAMARGEFR  290 (444)
T ss_pred             cCCCCcEEECCCCEEEEEccccCCHH------HHHHHHHHHhhCCEEe-CCCCceeeeeEEEEEeCCCCHHHHHHcCCcc
Confidence                   0122348999999865543      2345556677665532 222222334899999987642   1233567


Q ss_pred             hhhhccceEEEeCCCCH----HHHHHHHHHHhccc
Q psy17974        541 PRFVRHFGLLSLPSPTE----DTLKVIFKVRTSPG  571 (583)
Q Consensus       541 ~Rllr~f~vi~i~~p~~----~sl~~I~~~~l~~~  571 (583)
                      +.+..+++++.+.-|.-    +++..+...++..+
T Consensus       291 ~~l~~~l~~~~i~lPpLr~R~eDi~~l~~~~l~~~  325 (444)
T PRK15115        291 EDLYYRLNVVSLKIPALAERTEDIPLLANHLLRQA  325 (444)
T ss_pred             HHHHHhhceeeecCCChHhccccHHHHHHHHHHHH
Confidence            78888887655555532    45666666666543

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.61  E-value=0.00043  Score=73.07  Aligned_cols=50  Identities=6%  Similarity=-0.033  Sum_probs=37.4

Q ss_pred             cCeEEEEecCCCC-CCC--CCCChhhhccceEEEeCCCCH-HHHHHHHHHHhcc
Q psy17974        521 QDVVLCTACAPPG-GGR--MPLTPRFVRHFGLLSLPSPTE-DTLKVIFKVRTSP  570 (583)
Q Consensus       521 ~~i~~iaa~~p~~-~gr--~~l~~Rllr~f~vi~i~~p~~-~sl~~I~~~~l~~  570 (583)
                      -|..+||++|+.. ..+  ......|++|+.++.+++|.. +.=..||...+..
T Consensus       276 ~d~liia~sNe~e~~~~~~~k~~eaf~dR~~~i~vpY~l~~~~E~~Iy~k~~~~  329 (361)
T smart00763      276 IDGLIIAHSNESEWQRFKSNKKNEALLDRIIKVKVPYCLRVSEEAQIYEKLLRN  329 (361)
T ss_pred             cceEEEEeCCHHHHhhhhccccchhhhhceEEEeCCCcCCHHHHHHHHHHHhcc
Confidence            4567889999874 111  234799999999999999966 4555699988874

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=97.59  E-value=0.0014  Score=69.97  Aligned_cols=77  Identities=17%  Similarity=0.151  Sum_probs=52.1

Q ss_pred             cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce
Q psy17974        469 GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG  548 (583)
Q Consensus       469 ~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~  548 (583)
                      .|..+.+-|++|||++.-..+     ....+|+. ++.-            ..++.||.+++.++    .+.+-+.+++.
T Consensus       136 ~~~~~~~kVviIDead~m~~~-----aanaLLK~-LEep------------p~~~~~IL~t~~~~----~llpti~SRc~  193 (365)
T PRK07471        136 TAAEGGWRVVIVDTADEMNAN-----AANALLKV-LEEP------------PARSLFLLVSHAPA----RLLPTIRSRCR  193 (365)
T ss_pred             CcccCCCEEEEEechHhcCHH-----HHHHHHHH-HhcC------------CCCeEEEEEECCch----hchHHhhccce
Confidence            455677779999998865433     23444443 3311            12445555555554    46778899999


Q ss_pred             EEEeCCCCHHHHHHHHHHH
Q psy17974        549 LLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       549 vi~i~~p~~~sl~~I~~~~  567 (583)
                      .+.++.|+.+++..+....
T Consensus       194 ~i~l~~l~~~~i~~~L~~~  212 (365)
T PRK07471        194 KLRLRPLAPEDVIDALAAA  212 (365)
T ss_pred             EEECCCCCHHHHHHHHHHh
Confidence            9999999999998887764

>PRK06921 hypothetical protein; Provisional

Probab=97.57  E-value=0.00023  Score=72.79  Aligned_cols=39  Identities=23%  Similarity=0.361  Sum_probs=30.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      .+.+++|+||+|+|||.++.++++.+....++.+++++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~  154 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF  154 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence            467899999999999999999999874322566666654

>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=97.55  E-value=0.00065  Score=69.61  Aligned_cols=150  Identities=20%  Similarity=0.219  Sum_probs=85.0

Q ss_pred             HHHHHHHh---cCCceEEEccCCCcHHHHHHHHHHhhcccCCc-eEEEEEeccCCChHHHHHHHHhhhhhhcCcc-c---
Q psy17974        397 SIMEKLLL---VNHPVMFTGVTGVGKTVVARSILNKLLASNTW-AALTINFSAQTSSARTQEILEGKLDKRTKTL-L---  468 (583)
Q Consensus       397 ~ll~~~l~---~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~-~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~-~---  468 (583)
                      .+.+.+..   ..+-|.|+|++|+|||+++..+++.......| .++.++++...+...+...|-..+....... .   
T Consensus         7 ~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~   86 (287)
T PF00931_consen    7 KLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPKD   86 (287)
T ss_dssp             HHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCSS
T ss_pred             HHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            34455555   45678999999999999999998762212333 3456778777776666665655554432211 0   


Q ss_pred             ---------cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCC
Q psy17974        469 ---------GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPL  539 (583)
Q Consensus       469 ---------~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l  539 (583)
                               .--.++++++++||+.-+.        .++-++..+-      .      .-.+..+|.|+...     .+
T Consensus        87 ~~~~~~~l~~~L~~~~~LlVlDdv~~~~--------~~~~l~~~~~------~------~~~~~kilvTTR~~-----~v  141 (287)
T PF00931_consen   87 IEELQDQLRELLKDKRCLLVLDDVWDEE--------DLEELREPLP------S------FSSGSKILVTTRDR-----SV  141 (287)
T ss_dssp             HHHHHHHHHHHHCCTSEEEEEEEE-SHH--------HH-------H------C------HHSS-EEEEEESCG-----GG
T ss_pred             cccccccchhhhccccceeeeeeecccc--------cccccccccc------c------cccccccccccccc-----cc
Confidence                     0114568999999986432        1222222111      0      01245677776543     23


Q ss_pred             ChhhhccceEEEeCCCCHHHHHHHHHHHhccc
Q psy17974        540 TPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       540 ~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      .........++.++..+.++-...|.......
T Consensus       142 ~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~  173 (287)
T PF00931_consen  142 AGSLGGTDKVIELEPLSEEEALELFKKRAGRK  173 (287)
T ss_dssp             GTTHHSCEEEEECSS--HHHHHHHHHHHHTSH
T ss_pred             cccccccccccccccccccccccccccccccc
Confidence            33333336789999999999889988886543

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.

>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=97.52  E-value=0.00017  Score=73.75  Aligned_cols=173  Identities=18%  Similarity=0.182  Sum_probs=97.9

Q ss_pred             CchhhhHH-HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcc
Q psy17974        389 TIDTIRFG-SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTL  467 (583)
Q Consensus       389 T~dt~r~~-~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~  467 (583)
                      -.|.+... .+.+.+-..+.+.||+|.+||||+++++-.+. +   .++.+..+..+...+-.++.+-+..-+.+ .+  
T Consensus        13 f~~ai~hi~ri~RvL~~~~Gh~LLvG~~GsGr~sl~rLaa~-i---~~~~~~~i~~~~~y~~~~f~~dLk~~~~~-ag--   85 (268)
T PF12780_consen   13 FDEAIEHIARISRVLSQPRGHALLVGVGGSGRQSLARLAAF-I---CGYEVFQIEITKGYSIKDFKEDLKKALQK-AG--   85 (268)
T ss_dssp             -HHHHHHHHHHHHHHCSTTEEEEEECTTTSCHHHHHHHHHH-H---TTEEEE-TTTSTTTHHHHHHHHHHHHHHH-HH--
T ss_pred             HHHHHHHHHHHHHHHcCCCCCeEEecCCCccHHHHHHHHHH-H---hccceEEEEeeCCcCHHHHHHHHHHHHHH-Hh--
Confidence            34444443 33333445577999999999999999884333 2   24566666655544444444333333322 11  


Q ss_pred             ccCCCCCeEEEEecCCCCCCcc---------cCCCC----------ChHHHHHHHHHhCCeeecCCCee----Ee-ecCe
Q psy17974        468 LGAPLGKRLAVFVDDVNMPKLE---------TYGAQ----------PPIELLRQFLDFGGLYDRDKMFW----KT-LQDV  523 (583)
Q Consensus       468 ~~p~~gk~~vlfiDDln~p~~d---------~yg~q----------~~lElLRq~ld~~g~yd~~~~~~----~~-i~~i  523 (583)
                         ..|++.+++++|-+.....         ..|.-          ..++-+|+.....|.-+....-|    .. -++.
T Consensus        86 ---~~~~~~vfll~d~qi~~~~fLe~in~LL~sGeip~LF~~eE~~~i~~~l~~~~~~~~~~~~~~~~~~~F~~rvr~nL  162 (268)
T PF12780_consen   86 ---IKGKPTVFLLTDSQIVDESFLEDINSLLSSGEIPNLFTKEELDNIISSLREEAKAEGISDSRESLYEFFIERVRKNL  162 (268)
T ss_dssp             ---CS-S-EEEEEECCCSSSCHHHHHHHHHHHCSS-TTTS-TCHHHHHHHHHHHHHHHCT--SSHHHHHHHHHHHHCCCE
T ss_pred             ---ccCCCeEEEecCcccchHhHHHHHHHHHhCCCCCCCccHHHHHHHHHHhHHHHHHcCCCCchHHHHHHHHHHHHhhe
Confidence               2467889999997765421         01111          12344444444444322111101    11 2578


Q ss_pred             EEEEecCCCCCC-C--CCCChhhhccceEEEeCCCCHHHHHHHHHHHhccc
Q psy17974        524 VLCTACAPPGGG-R--MPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       524 ~~iaa~~p~~~g-r--~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      .+|-++.|.|.- |  -.-.|.+.+.+.+.++..-++++|..|-..+++..
T Consensus       163 Hivl~~sp~~~~~r~~~~~fPaL~~~ctIdW~~~W~~eaL~~Va~~~l~~~  213 (268)
T PF12780_consen  163 HIVLCMSPVGPNFRDRCRSFPALVNCCTIDWFDPWPEEALLSVANKFLSDI  213 (268)
T ss_dssp             EEEEEESTTTTCCCHHHHHHCCHHHHSEEEEEES--HHHHHHHHHHHCCHH
T ss_pred             eEEEEECCCCchHHHHHHhCcchhcccEEEeCCcCCHHHHHHHHHHHHHhh
Confidence            999999987642 2  23456778889999999999999999999888754

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.52  E-value=0.00013  Score=76.20  Aligned_cols=91  Identities=15%  Similarity=0.292  Sum_probs=51.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHh-hhhhhcCccccCCCCCeEEEEecCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEG-KLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~-~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      .+++++|+||+|||||.++.++++.+. ..++.+..++++.-  ...+...+.. .+.+....     -.+--+++|||+
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~-~~g~~v~~~~~~~l--~~~lk~~~~~~~~~~~l~~-----l~~~dlLiIDDi  226 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELA-KKGVSSTLLHFPEF--IRELKNSISDGSVKEKIDA-----VKEAPVLMLDDI  226 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEEEHHHH--HHHHHHHHhcCcHHHHHHH-----hcCCCEEEEecC
Confidence            457999999999999999999999874 34666766655321  1112111110 01110000     122337899999


Q ss_pred             CCCCcccCCCCChHHHHHHHHHh
Q psy17974        484 NMPKLETYGAQPPIELLRQFLDF  506 (583)
Q Consensus       484 n~p~~d~yg~q~~lElLRq~ld~  506 (583)
                      ..-....|+.   -++|-.++++
T Consensus       227 G~e~~s~~~~---~~ll~~Il~~  246 (306)
T PRK08939        227 GAEQMSSWVR---DEVLGVILQY  246 (306)
T ss_pred             CCccccHHHH---HHHHHHHHHH
Confidence            8755443332   2455555553

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.48  E-value=0.0019  Score=67.63  Aligned_cols=140  Identities=12%  Similarity=0.261  Sum_probs=81.3

Q ss_pred             HHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhccc---CCc-eEEEEEe--ccCCChHHHHHHHHhhhhhhcCcccc
Q psy17974        399 MEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLAS---NTW-AALTINF--SAQTSSARTQEILEGKLDKRTKTLLG  469 (583)
Q Consensus       399 l~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~---~~~-~~~~i~f--S~~Tt~~~lq~~ie~~l~~~~~~~~~  469 (583)
                      +...+..|   +..|++||+|+|||++++.+++.+.-.   ..+ .+..+.-  ....+.+++.+.++ .+.      ..
T Consensus        16 l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir~~~~-~~~------~~   88 (313)
T PRK05564         16 IKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRNIIE-EVN------KK   88 (313)
T ss_pred             HHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHHHHHH-HHh------cC
Confidence            44445544   355999999999999999998865211   111 1212211  12233445444432 111      23


Q ss_pred             CCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceE
Q psy17974        470 APLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGL  549 (583)
Q Consensus       470 p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~v  549 (583)
                      |-.+++-|++|||.+.-..+     ....+| -.+|.     +       ..++.+|-+++.+.    .+.+.+.+|+.+
T Consensus        89 p~~~~~kv~iI~~ad~m~~~-----a~naLL-K~LEe-----p-------p~~t~~il~~~~~~----~ll~TI~SRc~~  146 (313)
T PRK05564         89 PYEGDKKVIIIYNSEKMTEQ-----AQNAFL-KTIEE-----P-------PKGVFIILLCENLE----QILDTIKSRCQI  146 (313)
T ss_pred             cccCCceEEEEechhhcCHH-----HHHHHH-HHhcC-----C-------CCCeEEEEEeCChH----hCcHHHHhhcee
Confidence            44456668889997554332     123344 33331     1       12445554444443    688899999999


Q ss_pred             EEeCCCCHHHHHHHHHHH
Q psy17974        550 LSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~~  567 (583)
                      +.++.|+.+++.......
T Consensus       147 ~~~~~~~~~~~~~~l~~~  164 (313)
T PRK05564        147 YKLNRLSKEEIEKFISYK  164 (313)
T ss_pred             eeCCCcCHHHHHHHHHHH
Confidence            999999999987766543

>KOG0741|consensus

Probab=97.48  E-value=0.0001  Score=79.54  Aligned_cols=148  Identities=19%  Similarity=0.302  Sum_probs=81.0

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe----ccC--CChHHHHHHHH-hhhhhhcCccccCCCCCe
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF----SAQ--TSSARTQEILE-GKLDKRTKTLLGAPLGKR  475 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f----S~~--Tt~~~lq~~ie-~~l~~~~~~~~~p~~gk~  475 (583)
                      +.+=+.+||+||||||||.+++++=+-+.-++   ...+|-    +..  -+-+.+.++.- ..-++|+.   |+..|-.
T Consensus       253 i~HVKGiLLyGPPGTGKTLiARqIGkMLNAre---PKIVNGPeIL~KYVGeSE~NvR~LFaDAEeE~r~~---g~~SgLH  326 (744)
T KOG0741|consen  253 IKHVKGILLYGPPGTGKTLIARQIGKMLNARE---PKIVNGPEILNKYVGESEENVRKLFADAEEEQRRL---GANSGLH  326 (744)
T ss_pred             ccceeeEEEECCCCCChhHHHHHHHHHhcCCC---CcccCcHHHHHHhhcccHHHHHHHHHhHHHHHHhh---CccCCce
Confidence            44457899999999999999998744331111   111111    000  01122222211 11122322   3444444


Q ss_pred             EEEEecCCCCCCccc---CCCCCh-HHHHHHHHHhC-CeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce
Q psy17974        476 LAVFVDDVNMPKLET---YGAQPP-IELLRQFLDFG-GLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG  548 (583)
Q Consensus       476 ~vlfiDDln~p~~d~---yg~q~~-lElLRq~ld~~-g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~  548 (583)
                       |+.+|||+.-=+..   -|...+ =....|++..- |.        -.+.|+.+|+-+|...    -|+.+|+|  ||-
T Consensus       327 -IIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGV--------eqLNNILVIGMTNR~D----lIDEALLRPGRlE  393 (744)
T KOG0741|consen  327 -IIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGV--------EQLNNILVIGMTNRKD----LIDEALLRPGRLE  393 (744)
T ss_pred             -EEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccH--------HhhhcEEEEeccCchh----hHHHHhcCCCceE
Confidence             55669998521111   121112 23566666532 21        2367899999877654    68899998  555


Q ss_pred             E-EEeCCCCHHHHHHHHHHHhc
Q psy17974        549 L-LSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       549 v-i~i~~p~~~sl~~I~~~~l~  569 (583)
                      | +-+..|++....+||.-+-.
T Consensus       394 VqmEIsLPDE~gRlQIl~IHT~  415 (744)
T KOG0741|consen  394 VQMEISLPDEKGRLQILKIHTK  415 (744)
T ss_pred             EEEEEeCCCccCceEEEEhhhh
Confidence            4 67778999887777765544

>KOG0745|consensus

Probab=97.45  E-value=7.9e-05  Score=78.81  Aligned_cols=79  Identities=22%  Similarity=0.265  Sum_probs=47.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCc-cccCCCCCeEEEEecCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKT-LLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~-~~~p~~gk~~vlfiDDl  483 (583)
                      .+.||||.||+|||||.+++.+++-+    +...+.-.|...|.+..+-+=+|+-+.|--.. -|--...++.|+|+||+
T Consensus       225 eKSNvLllGPtGsGKTllaqTLAr~l----dVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEv  300 (564)
T KOG0745|consen  225 EKSNVLLLGPTGSGKTLLAQTLARVL----DVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEV  300 (564)
T ss_pred             ecccEEEECCCCCchhHHHHHHHHHh----CCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehh
Confidence            46799999999999999999999876    33444445555555443332223222221000 01112345679999999


Q ss_pred             CCCC
Q psy17974        484 NMPK  487 (583)
Q Consensus       484 n~p~  487 (583)
                      +--.
T Consensus       301 DKi~  304 (564)
T KOG0745|consen  301 DKIT  304 (564)
T ss_pred             hhhc
Confidence            8643

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.43  E-value=0.00042  Score=69.88  Aligned_cols=89  Identities=21%  Similarity=0.319  Sum_probs=52.1

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcC---ccccCCCCCeEEEEecCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTK---TLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~---~~~~p~~gk~~vlfiDDl  483 (583)
                      .+++|+|++|||||+++.+++..+. ..+..+..++      ..++...+.........   ..+.. -.+.-+++|||+
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~-~~g~~v~~it------~~~l~~~l~~~~~~~~~~~~~~l~~-l~~~dlLvIDDi  171 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELL-LRGKSVLIIT------VADIMSAMKDTFSNSETSEEQLLND-LSNVDLLVIDEI  171 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEE------HHHHHHHHHHHHhhccccHHHHHHH-hccCCEEEEeCC
Confidence            5899999999999999999998874 3345555553      23333333222110000   00100 112347899999


Q ss_pred             CCCCcccCCCCChHHHHHHHHHhC
Q psy17974        484 NMPKLETYGAQPPIELLRQFLDFG  507 (583)
Q Consensus       484 n~p~~d~yg~q~~lElLRq~ld~~  507 (583)
                      .......    --.++|-+++++.
T Consensus       172 g~~~~s~----~~~~~l~~Ii~~R  191 (244)
T PRK07952        172 GVQTESR----YEKVIINQIVDRR  191 (244)
T ss_pred             CCCCCCH----HHHHHHHHHHHHH
Confidence            8754322    2346788888864

>KOG0990|consensus

Probab=97.37  E-value=0.00021  Score=73.20  Aligned_cols=140  Identities=14%  Similarity=0.136  Sum_probs=89.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCc--eEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTW--AALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVN  484 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~--~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln  484 (583)
                      .+.|++||||+|||+.+.+.++.+....++  .+.-+|-|+.-..+-++..+...-..+....|....+-+ .+.+||.+
T Consensus        63 Ph~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd~rgid~vr~qi~~fast~~~~~fst~~~fK-lvILDEAD  141 (360)
T KOG0990|consen   63 PHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASDDRGIDPVRQQIHLFASTQQPTTYSTHAAFK-LVILDEAD  141 (360)
T ss_pred             CcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhccCccCCcchHHHHHHHHhhccceeccccCcee-EEEecchh
Confidence            489999999999999999998887432222  233455555544444444443332323333443322334 45689988


Q ss_pred             CCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHH
Q psy17974        485 MPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIF  564 (583)
Q Consensus       485 ~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~  564 (583)
                      .-..|      +-..||+.++.-            -.++.|+--||+|.    .+.|.++.+|.-+...+.+......+.
T Consensus       142 aMT~~------AQnALRRviek~------------t~n~rF~ii~n~~~----ki~pa~qsRctrfrf~pl~~~~~~~r~  199 (360)
T KOG0990|consen  142 AMTRD------AQNALRRVIEKY------------TANTRFATISNPPQ----KIHPAQQSRCTRFRFAPLTMAQQTERQ  199 (360)
T ss_pred             HhhHH------HHHHHHHHHHHh------------ccceEEEEeccChh----hcCchhhcccccCCCCCCChhhhhhHH
Confidence            76555      345677766521            24677777788886    678888888888888888877777666


Q ss_pred             HHHhc
Q psy17974        565 KVRTS  569 (583)
Q Consensus       565 ~~~l~  569 (583)
                      +.+.+
T Consensus       200 shi~e  204 (360)
T KOG0990|consen  200 SHIRE  204 (360)
T ss_pred             HHHHh
Confidence            66554

>KOG0732|consensus

Probab=97.37  E-value=0.00046  Score=80.83  Aligned_cols=151  Identities=23%  Similarity=0.347  Sum_probs=84.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc-cCCCCCeEEEEec
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL-GAPLGKRLAVFVD  481 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~-~p~~gk~~vlfiD  481 (583)
                      +..-+.||++||||||||..+++++......++  -  +.|-..-.++-+-+-+ +..++.-+-.| .+...++.|+|.|
T Consensus       296 itpPrgvL~~GppGTGkTl~araLa~~~s~~~~--k--isffmrkgaD~lskwv-gEaERqlrllFeeA~k~qPSIIffd  370 (1080)
T KOG0732|consen  296 ITPPRGVLFHGPPGTGKTLMARALAAACSRGNR--K--ISFFMRKGADCLSKWV-GEAERQLRLLFEEAQKTQPSIIFFD  370 (1080)
T ss_pred             cCCCcceeecCCCCCchhHHHHhhhhhhccccc--c--cchhhhcCchhhcccc-CcHHHHHHHHHHHHhccCceEEecc
Confidence            445678999999999999999999887632211  1  1111111111100000 00010000011 1234568899999


Q ss_pred             CCCCCCccc--CCCC---ChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEeC
Q psy17974        482 DVNMPKLET--YGAQ---PPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSLP  553 (583)
Q Consensus       482 Dln~p~~d~--yg~q---~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i~  553 (583)
                      +|+-..+-.  ...|   ++...|=.++|  |.=.        -..+.+|||+|.|.    .++|.+.|  +| +.++++
T Consensus       371 eIdGlapvrSskqEqih~SIvSTLLaLmd--Glds--------RgqVvvigATnRpd----a~dpaLRRPgrfdref~f~  436 (1080)
T KOG0732|consen  371 EIDGLAPVRSSKQEQIHASIVSTLLALMD--GLDS--------RGQVVVIGATNRPD----AIDPALRRPGRFDREFYFP  436 (1080)
T ss_pred             ccccccccccchHHHhhhhHHHHHHHhcc--CCCC--------CCceEEEcccCCcc----ccchhhcCCcccceeEeee
Confidence            998322211  1111   12233334444  2111        13578999999876    67777755  44 578999


Q ss_pred             CCCHHHHHHHHHHHhcccc
Q psy17974        554 SPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~~~l  572 (583)
                      .|+.+.-..|..-.-..|.
T Consensus       437 lp~~~ar~~Il~Ihtrkw~  455 (1080)
T KOG0732|consen  437 LPDVDARAKILDIHTRKWE  455 (1080)
T ss_pred             CCchHHHHHHHHHhccCCC
Confidence            9999999988877655543

>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=97.36  E-value=0.0034  Score=59.32  Aligned_cols=131  Identities=19%  Similarity=0.289  Sum_probs=73.2

Q ss_pred             HHHHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccC-------------------CceEEEEEeccC---CChHH
Q psy17974        397 SIMEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASN-------------------TWAALTINFSAQ---TSSAR  451 (583)
Q Consensus       397 ~ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~-------------------~~~~~~i~fS~~---Tt~~~  451 (583)
                      ..+..+++.+   +.+|++||+|+||++++..+++.+-...                   .-.+..+.-...   ...++
T Consensus         7 ~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~i~i~~   86 (162)
T PF13177_consen    7 ELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKKSIKIDQ   86 (162)
T ss_dssp             HHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSSSBSHHH
T ss_pred             HHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccchhhHHH
Confidence            3455556665   3579999999999999999988752111                   111222222111   23344


Q ss_pred             HHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCC
Q psy17974        452 TQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAP  531 (583)
Q Consensus       452 lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p  531 (583)
                      +.+++ ..+      ...|..+++=|++|||.+....+      +...|+-.+|.-            ..++.||-+++.
T Consensus        87 ir~i~-~~~------~~~~~~~~~KviiI~~ad~l~~~------a~NaLLK~LEep------------p~~~~fiL~t~~  141 (162)
T PF13177_consen   87 IREII-EFL------SLSPSEGKYKVIIIDEADKLTEE------AQNALLKTLEEP------------PENTYFILITNN  141 (162)
T ss_dssp             HHHHH-HHC------TSS-TTSSSEEEEEETGGGS-HH------HHHHHHHHHHST------------TTTEEEEEEES-
T ss_pred             HHHHH-HHH------HHHHhcCCceEEEeehHhhhhHH------HHHHHHHHhcCC------------CCCEEEEEEECC
Confidence            43322 111      12344455668889998876554      233444455522            235677777766


Q ss_pred             CCCCCCCCChhhhccceEEEeCCCC
Q psy17974        532 PGGGRMPLTPRFVRHFGLLSLPSPT  556 (583)
Q Consensus       532 ~~~gr~~l~~Rllr~f~vi~i~~p~  556 (583)
                      +.    .|.+-+.+|+.++++++.|
T Consensus       142 ~~----~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  142 PS----KILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             GG----GS-HHHHTTSEEEEE----
T ss_pred             hH----HChHHHHhhceEEecCCCC
Confidence            54    7999999999999998754

...

>KOG1051|consensus

Probab=97.35  E-value=0.00021  Score=82.82  Aligned_cols=113  Identities=18%  Similarity=0.276  Sum_probs=76.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh---hhhhcCcccc-CCCCC-eEEEEecC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK---LDKRTKTLLG-APLGK-RLAVFVDD  482 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~---l~~~~~~~~~-p~~gk-~~vlfiDD  482 (583)
                      -+|++||+|+|||-++++++.-+.+ .+-.++.+.+|....   +-+.+.+.   ..+..++.+. +-..+ ..||++||
T Consensus       593 wflflGpdgvGKt~lAkaLA~~~Fg-se~~~IriDmse~~e---vskligsp~gyvG~e~gg~LteavrrrP~sVVLfde  668 (898)
T KOG1051|consen  593 WFLFLGPDGVGKTELAKALAEYVFG-SEENFIRLDMSEFQE---VSKLIGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEE  668 (898)
T ss_pred             EEEEECCCchhHHHHHHHHHHHHcC-CccceEEechhhhhh---hhhccCCCcccccchhHHHHHHHHhcCCceEEEEec
Confidence            4799999999999999999988743 345678888887433   11222111   1111111111 11222 47999999


Q ss_pred             CCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCC
Q psy17974        483 VNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAP  531 (583)
Q Consensus       483 ln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p  531 (583)
                      |..+.++      +.-.|-|++|.|-.-|.+. .-+...|+.||.|+|-
T Consensus       669 IEkAh~~------v~n~llq~lD~GrltDs~G-r~Vd~kN~I~IMTsn~  710 (898)
T KOG1051|consen  669 IEKAHPD------VLNILLQLLDRGRLTDSHG-REVDFKNAIFIMTSNV  710 (898)
T ss_pred             hhhcCHH------HHHHHHHHHhcCccccCCC-cEeeccceEEEEeccc
Confidence            9988765      6778889999998888654 4567889999998775

>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=97.31  E-value=0.0029  Score=66.11  Aligned_cols=86  Identities=20%  Similarity=0.295  Sum_probs=59.2

Q ss_pred             CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC--------CCC---CCCC
Q psy17974        472 LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG--------GGR---MPLT  540 (583)
Q Consensus       472 ~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~--------~gr---~~l~  540 (583)
                      .++++|+||||++...++.  ...+++.++.+++.              .++.||-++++..        .|.   ....
T Consensus       170 ~~~~iViiIDdLDR~~~~~--i~~~l~~ik~~~~~--------------~~i~~Il~~D~~~l~~ai~~~~~~~~~~~~~  233 (325)
T PF07693_consen  170 SKKRIVIIIDDLDRCSPEE--IVELLEAIKLLLDF--------------PNIIFILAFDPEILEKAIEKNYGEGFDEIDG  233 (325)
T ss_pred             CCceEEEEEcchhcCCcHH--HHHHHHHHHHhcCC--------------CCeEEEEEecHHHHHHHHHhhcCcccccccH
Confidence            4578999999999987763  22345556555552              5677787776541        011   2455


Q ss_pred             hhhhccce--EEEeCCCCHHHHHHHHHHHhccccc
Q psy17974        541 PRFVRHFG--LLSLPSPTEDTLKVIFKVRTSPGKQ  573 (583)
Q Consensus       541 ~Rllr~f~--vi~i~~p~~~sl~~I~~~~l~~~l~  573 (583)
                      ..++..|-  .+.+|.|+..++...+...++....
T Consensus       234 ~~yLeKiiq~~~~lP~~~~~~~~~~~~~~~~~~~~  268 (325)
T PF07693_consen  234 REYLEKIIQVPFSLPPPSPSDLERYLNELLESLES  268 (325)
T ss_pred             HHHHHhhcCeEEEeCCCCHHHHHHHHHHHHHHhhh
Confidence            67777763  5999999999999988888665543

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 [].

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.27  E-value=0.00026  Score=68.34  Aligned_cols=29  Identities=31%  Similarity=0.674  Sum_probs=23.8

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceE
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAA  438 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~  438 (583)
                      ++|.|+||||||+.++.+++.+. .+.+.+
T Consensus         4 iIlTGyPgsGKTtfakeLak~L~-~~i~~v   32 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKELR-QEIWRV   32 (261)
T ss_pred             EEEecCCCCCchHHHHHHHHHHH-Hhhhhc
Confidence            68999999999999999999884 334444

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.26  E-value=0.003  Score=66.87  Aligned_cols=76  Identities=13%  Similarity=0.180  Sum_probs=54.3

Q ss_pred             cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce
Q psy17974        469 GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG  548 (583)
Q Consensus       469 ~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~  548 (583)
                      .|..|++-|++|||.+.-..+     ....+|+-+=|      +       ..++.||.++..|+    .+.|-+.+|+.
T Consensus       127 ~~~~~~~kV~iI~~ae~m~~~-----AaNaLLKtLEE------P-------p~~t~fiL~t~~~~----~LLpTI~SRcq  184 (342)
T PRK06964        127 GTHRGGARVVVLYPAEALNVA-----AANALLKTLEE------P-------PPGTVFLLVSARID----RLLPTILSRCR  184 (342)
T ss_pred             CCccCCceEEEEechhhcCHH-----HHHHHHHHhcC------C-------CcCcEEEEEECChh----hCcHHHHhcCE
Confidence            355566668889998765443     35667765432      1       24566777666655    78899999999


Q ss_pred             EEEeCCCCHHHHHHHHHH
Q psy17974        549 LLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       549 vi~i~~p~~~sl~~I~~~  566 (583)
                      .+.++.|+.+++......
T Consensus       185 ~i~~~~~~~~~~~~~L~~  202 (342)
T PRK06964        185 QFPMTVPAPEAAAAWLAA  202 (342)
T ss_pred             EEEecCCCHHHHHHHHHH
Confidence            999999999988877654

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.26  E-value=0.0041  Score=65.48  Aligned_cols=129  Identities=19%  Similarity=0.281  Sum_probs=77.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhc--cc-CC------------------ceEEEEEeccC------------CChHHH
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLL--AS-NT------------------WAALTINFSAQ------------TSSART  452 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~--~~-~~------------------~~~~~i~fS~~------------Tt~~~l  452 (583)
                      .+..|++||+|+|||++++.+++.+.  .+ ..                  -.+..+  ++.            .+.+++
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~--~p~~~~~~~g~~~~~I~id~i   98 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEI--TPLSDEPENGRKLLQIKIDAV   98 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEE--ecccccccccccCCCcCHHHH
Confidence            45789999999999999999887652  11 00                  112222  221            233444


Q ss_pred             HHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC
Q psy17974        453 QEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP  532 (583)
Q Consensus       453 q~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~  532 (583)
                      .+++ ..+.      +.|..+++-|++||+++.-...     ....+++ .++..            .+++.+|.++..+
T Consensus        99 R~l~-~~~~------~~p~~~~~kV~iiEp~~~Ld~~-----a~naLLk-~LEep------------~~~~~~Ilvth~~  153 (325)
T PRK08699         99 REII-DNVY------LTSVRGGLRVILIHPAESMNLQ-----AANSLLK-VLEEP------------PPQVVFLLVSHAA  153 (325)
T ss_pred             HHHH-HHHh------hCcccCCceEEEEechhhCCHH-----HHHHHHH-HHHhC------------cCCCEEEEEeCCh
Confidence            4432 2222      2344455557788998865443     2333444 55532            0234556555554


Q ss_pred             CCCCCCCChhhhccceEEEeCCCCHHHHHHHHH
Q psy17974        533 GGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFK  565 (583)
Q Consensus       533 ~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~  565 (583)
                      +    .+.+-+.+|+.++.++.|+.+.+..-..
T Consensus       154 ~----~ll~ti~SRc~~~~~~~~~~~~~~~~L~  182 (325)
T PRK08699        154 D----KVLPTIKSRCRKMVLPAPSHEEALAYLR  182 (325)
T ss_pred             H----hChHHHHHHhhhhcCCCCCHHHHHHHHH
Confidence            4    6888899999999999999988765543

>KOG2227|consensus

Probab=97.26  E-value=0.0026  Score=68.37  Aligned_cols=155  Identities=20%  Similarity=0.205  Sum_probs=91.8

Q ss_pred             HHHHHHHHhc--CCceEEEccCCCcHHHHHHHHHHhhcccC-CceEEEEEeccCCChHHHHHHHHhhh-h-hhcCccc--
Q psy17974        396 GSIMEKLLLV--NHPVMFTGVTGVGKTVVARSILNKLLASN-TWAALTINFSAQTSSARTQEILEGKL-D-KRTKTLL--  468 (583)
Q Consensus       396 ~~ll~~~l~~--~~~vLL~Gp~GtGKT~li~~~l~~l~~~~-~~~~~~i~fS~~Tt~~~lq~~ie~~l-~-~~~~~~~--  468 (583)
                      ..++...+..  +..+.++|.||+|||.+...++..+.... ....+.+|+.+-+++..+-..|-+.+ . ...++..  
T Consensus       163 ~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~~~~q~~~s~~~~~~  242 (529)
T KOG2227|consen  163 REFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFSSLLQDLVSPGTGMQ  242 (529)
T ss_pred             HHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHHHHHHHHhcCCchhHH
Confidence            3444444443  45889999999999999998887653222 23568899988777766444444444 2 2122111  


Q ss_pred             -----c-C-CCC-CeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCC
Q psy17974        469 -----G-A-PLG-KRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLT  540 (583)
Q Consensus       469 -----~-p-~~g-k~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~  540 (583)
                           . + ... ..+|+++||++--..-   .|            +-.|..-...|..-..+.+||-.|.-     .++
T Consensus       243 ~~~~~~~h~~q~k~~~llVlDEmD~L~tr---~~------------~vLy~lFewp~lp~sr~iLiGiANsl-----DlT  302 (529)
T KOG2227|consen  243 HLEKFEKHTKQSKFMLLLVLDEMDHLITR---SQ------------TVLYTLFEWPKLPNSRIILIGIANSL-----DLT  302 (529)
T ss_pred             HHHHHHHHHhcccceEEEEechhhHHhhc---cc------------ceeeeehhcccCCcceeeeeeehhhh-----hHH
Confidence                 1 1 122 3678899998643211   11            12222211222333566777766543     456


Q ss_pred             hhhhccc--------eEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        541 PRFVRHF--------GLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       541 ~Rllr~f--------~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .||+-+-        .++++++.+.+++..|++.-+..
T Consensus       303 dR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~  340 (529)
T KOG2227|consen  303 DRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSE  340 (529)
T ss_pred             HHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhc
Confidence            6664433        36999999999999999987763

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=97.26  E-value=0.0044  Score=67.73  Aligned_cols=160  Identities=16%  Similarity=0.098  Sum_probs=95.4

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-C-------
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-A-------  470 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p-------  470 (583)
                      +..+...+.+|++.|++||||+++++.+-... .......+.++|++.+ .+.+    ++.+....++.+. .       
T Consensus       155 i~~~~~~~~~vli~ge~g~gk~~~a~~ih~~s-~~~~~~~i~~~c~~~~-~~~~----~~~lfg~~~~~~~~~~~~~~g~  228 (441)
T PRK10365        155 IALVAPSEATVLIHGDSGTGKELVARAIHASS-ARSEKPLVTLNCAALN-ESLL----ESELFGHEKGAFTGADKRREGR  228 (441)
T ss_pred             HhhccCCCCeEEEEecCCCCHHHHHHHHHHcC-CCCCCCeeeeeCCCCC-HHHH----HHHhcCCCCCCcCCCCcCCCCc
Confidence            34455667899999999999999999876543 2334567888888643 3333    3333221222221 0       


Q ss_pred             -CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC---CCCCCChhhhcc
Q psy17974        471 -PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG---GRMPLTPRFVRH  546 (583)
Q Consensus       471 -~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~---gr~~l~~Rllr~  546 (583)
                       ......++|+||++.-..+      ....|-.+++.+.+........ .-.|+.+|+|++.+-.   ....+.++|..+
T Consensus       229 ~~~a~~gtl~ldei~~l~~~------~q~~l~~~l~~~~~~~~~~~~~-~~~~~rii~~t~~~~~~~~~~~~~~~~l~~~  301 (441)
T PRK10365        229 FVEADGGTLFLDEIGDISPM------MQVRLLRAIQEREVQRVGSNQT-ISVDVRLIAATHRDLAAEVNAGRFRQDLYYR  301 (441)
T ss_pred             eeECCCCEEEEeccccCCHH------HHHHHHHHHccCcEEeCCCCce-eeeceEEEEeCCCCHHHHHHcCCchHHHHHH
Confidence             1123567999999976554      2344455666665443322222 2247889988876521   223467888888


Q ss_pred             ceEEEeCCCCH----HHHHHHHHHHhccc
Q psy17974        547 FGLLSLPSPTE----DTLKVIFKVRTSPG  571 (583)
Q Consensus       547 f~vi~i~~p~~----~sl~~I~~~~l~~~  571 (583)
                      ++.+.+.-|.-    +++..+...++..+
T Consensus       302 l~~~~i~~ppLreR~~Di~~l~~~~l~~~  330 (441)
T PRK10365        302 LNVVAIEVPSLRQRREDIPLLAGHFLQRF  330 (441)
T ss_pred             hccceecCCChhhcchhHHHHHHHHHHHH
Confidence            87766665533    35666666666644

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.25  E-value=0.0031  Score=66.23  Aligned_cols=131  Identities=14%  Similarity=0.195  Sum_probs=80.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhccc--CC-----------------c-eEEEEEe--ccCCChHHHHHHHHhhhhhhc
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLAS--NT-----------------W-AALTINF--SAQTSSARTQEILEGKLDKRT  464 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~--~~-----------------~-~~~~i~f--S~~Tt~~~lq~~ie~~l~~~~  464 (583)
                      +..|+.||+|+||+++++.+++.+.=.  ..                 + .+..+.-  +.....+++.++. ..+    
T Consensus        25 HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~id~iR~l~-~~~----   99 (325)
T PRK06871         25 HALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGVDQVREIN-EKV----   99 (325)
T ss_pred             eeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCHHHHHHHH-HHH----
Confidence            577899999999999999988765210  00                 0 0111211  1112233333321 111    


Q ss_pred             CccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhh
Q psy17974        465 KTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFV  544 (583)
Q Consensus       465 ~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rll  544 (583)
                        .+.|..|++=|++||+.+.-...     ....+|+-+=|      +       ..++.||-++..+.    .+.|-+.
T Consensus       100 --~~~~~~g~~KV~iI~~a~~m~~~-----AaNaLLKtLEE------P-------p~~~~fiL~t~~~~----~llpTI~  155 (325)
T PRK06871        100 --SQHAQQGGNKVVYIQGAERLTEA-----AANALLKTLEE------P-------RPNTYFLLQADLSA----ALLPTIY  155 (325)
T ss_pred             --hhccccCCceEEEEechhhhCHH-----HHHHHHHHhcC------C-------CCCeEEEEEECChH----hCchHHH
Confidence              23455566668889998765433     35566665433      1       23566666666554    6888999


Q ss_pred             ccceEEEeCCCCHHHHHHHHHH
Q psy17974        545 RHFGLLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       545 r~f~vi~i~~p~~~sl~~I~~~  566 (583)
                      +|+..+.+++|+.+.+......
T Consensus       156 SRC~~~~~~~~~~~~~~~~L~~  177 (325)
T PRK06871        156 SRCQTWLIHPPEEQQALDWLQA  177 (325)
T ss_pred             hhceEEeCCCCCHHHHHHHHHH
Confidence            9999999999999988765544

>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=97.24  E-value=0.00064  Score=72.47  Aligned_cols=125  Identities=14%  Similarity=0.142  Sum_probs=73.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc--C----CCCCeEEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG--A----PLGKRLAV  478 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~--p----~~gk~~vl  478 (583)
                      ..+.+.|.||.|+|||+++..+...++.+   .-..++|+.      +..-+-+.+.+.+++...  .    -.++--|+
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~---~k~R~HFh~------Fm~~vh~~l~~~~~~~~~l~~va~~l~~~~~lL  131 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIK---RKRRVHFHE------FMLDVHSRLHQLRGQDDPLPQVADELAKESRLL  131 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCcc---ccccccccH------HHHHHHHHHHHHhCCCccHHHHHHHHHhcCCEE
Confidence            46899999999999999999998887422   223455544      222233344332321111  0    02233378


Q ss_pred             EecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC-CC-CCCCC--------Chhhhccce
Q psy17974        479 FVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-GG-GRMPL--------TPRFVRHFG  548 (583)
Q Consensus       479 fiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~-~~-gr~~l--------~~Rllr~f~  548 (583)
                      ++||++....-  .+--.-.+++.+.+.               ++.+|||.|.+ .. ..+.+        -..+.+||.
T Consensus       132 cfDEF~V~Dia--DAmil~rLf~~l~~~---------------gvvlVaTSN~~P~~Ly~~gl~r~~Flp~I~~l~~~~~  194 (362)
T PF03969_consen  132 CFDEFQVTDIA--DAMILKRLFEALFKR---------------GVVLVATSNRPPEDLYKNGLQRERFLPFIDLLKRRCD  194 (362)
T ss_pred             EEeeeeccchh--HHHHHHHHHHHHHHC---------------CCEEEecCCCChHHHcCCcccHHHHHHHHHHHHhceE
Confidence            89999885432  121122355555553               46789999864 21 22222        235678999


Q ss_pred             EEEeCCC
Q psy17974        549 LLSLPSP  555 (583)
Q Consensus       549 vi~i~~p  555 (583)
                      |+.++.+
T Consensus       195 vv~ld~~  201 (362)
T PF03969_consen  195 VVELDGG  201 (362)
T ss_pred             EEEecCC
Confidence            9999887

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

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.21  E-value=0.0044  Score=64.99  Aligned_cols=130  Identities=22%  Similarity=0.237  Sum_probs=79.1

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccC----------------Cc-eEEEEEeccC---------CChHHHHHHHHhhhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASN----------------TW-AALTINFSAQ---------TSSARTQEILEGKLD  461 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~----------------~~-~~~~i~fS~~---------Tt~~~lq~~ie~~l~  461 (583)
                      ..|++||+|+||++++..+++.+--..                .+ .+..+.+.+.         ...+++.++. ..+ 
T Consensus        28 A~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~~I~idqIR~l~-~~~-  105 (319)
T PRK08769         28 GLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREIS-QKL-  105 (319)
T ss_pred             eEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccccccHHHHHHHH-HHH-
Confidence            589999999999999998887641100                00 1112211111         1122222221 111 


Q ss_pred             hhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCCh
Q psy17974        462 KRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTP  541 (583)
Q Consensus       462 ~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~  541 (583)
                           .+.|..|++-|++||+.+.-...     ....+|+-+=|-             ..++.||-+++.+.    .|.|
T Consensus       106 -----~~~p~~g~~kV~iI~~ae~m~~~-----AaNaLLKtLEEP-------------p~~~~fiL~~~~~~----~lLp  158 (319)
T PRK08769        106 -----ALTPQYGIAQVVIVDPADAINRA-----ACNALLKTLEEP-------------SPGRYLWLISAQPA----RLPA  158 (319)
T ss_pred             -----hhCcccCCcEEEEeccHhhhCHH-----HHHHHHHHhhCC-------------CCCCeEEEEECChh----hCch
Confidence                 23455556668889998765433     466778744331             23556666666655    6889


Q ss_pred             hhhccceEEEeCCCCHHHHHHHHHH
Q psy17974        542 RFVRHFGLLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       542 Rllr~f~vi~i~~p~~~sl~~I~~~  566 (583)
                      -+.+|+.++.++.|+.++.......
T Consensus       159 TIrSRCq~i~~~~~~~~~~~~~L~~  183 (319)
T PRK08769        159 TIRSRCQRLEFKLPPAHEALAWLLA  183 (319)
T ss_pred             HHHhhheEeeCCCcCHHHHHHHHHH
Confidence            9999999999999999887765543

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=97.19  E-value=0.00031  Score=71.07  Aligned_cols=105  Identities=13%  Similarity=0.165  Sum_probs=61.7

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEE-EEEeccC--CChHHHHHHH-----Hhhhhh----hcC-----
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAAL-TINFSAQ--TSSARTQEIL-----EGKLDK----RTK-----  465 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~-~i~fS~~--Tt~~~lq~~i-----e~~l~~----~~~-----  465 (583)
                      +..|+.++++||+|+|||++++.+.+.+... ..... .+..+..  .+...+++.+     -+.++.    +..     
T Consensus        13 i~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~   91 (249)
T cd01128          13 IGKGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMV   91 (249)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHH
Confidence            3468899999999999999999999876322 21222 2222333  4566666655     111110    000     


Q ss_pred             ----ccccCCCCCeEEEEecCCCCCC-----------cccCCCCC--hHHHHHHHHHhCCe
Q psy17974        466 ----TLLGAPLGKRLAVFVDDVNMPK-----------LETYGAQP--PIELLRQFLDFGGL  509 (583)
Q Consensus       466 ----~~~~p~~gk~~vlfiDDln~p~-----------~d~yg~q~--~lElLRq~ld~~g~  509 (583)
                          ..+. ..|++.++|+||+..-.           ....|.++  +.+.++|+++.-|-
T Consensus        92 ~~~a~~~~-~~G~~vll~iDei~r~a~a~~ev~~~~G~~~sgG~~~~~~~~~~q~~~~Ar~  151 (249)
T cd01128          92 LEKAKRLV-EHGKDVVILLDSITRLARAYNTVVPPSGKILSGGVDANALHKPKRFFGAARN  151 (249)
T ss_pred             HHHHHHHH-HCCCCEEEEEECHHHhhhhhhhccccCCCCCCCCcChhhhhhhHHHHHHhcC
Confidence                0011 34789999999998421           11123333  56778999986554

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>KOG0478|consensus

Probab=97.12  E-value=0.0014  Score=72.95  Aligned_cols=150  Identities=13%  Similarity=0.142  Sum_probs=80.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC-hHHHHHHHHhhhhhhcC------ccccCCCCCeEEEE
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS-SARTQEILEGKLDKRTK------TLLGAPLGKRLAVF  479 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt-~~~lq~~ie~~l~~~~~------~~~~p~~gk~~vlf  479 (583)
                      .|+||||.||||||.+++.+.+-.+ ..-|      -|..-+ +.-++..+-.-  ...|      |.+.-..  ..+..
T Consensus       463 INILL~GDPGtsKSqlLqyv~~l~p-Rg~y------TSGkGsSavGLTayVtrd--~dtkqlVLesGALVLSD--~GiCC  531 (804)
T KOG0478|consen  463 INILLVGDPGTSKSQLLQYCHRLLP-RGVY------TSGKGSSAVGLTAYVTKD--PDTRQLVLESGALVLSD--NGICC  531 (804)
T ss_pred             ceEEEecCCCcCHHHHHHHHHHhCC-ccee------ecCCccchhcceeeEEec--CccceeeeecCcEEEcC--CceEE
Confidence            7999999999999999998877552 2222      122211 11111111000  0111      1111122  23567


Q ss_pred             ecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeE-eecCeEEEEecCCCCC----CC-----CCCChhhhccceE
Q psy17974        480 VDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWK-TLQDVVLCTACAPPGG----GR-----MPLTPRFVRHFGL  549 (583)
Q Consensus       480 iDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~-~i~~i~~iaa~~p~~~----gr-----~~l~~Rllr~f~v  549 (583)
                      |||++--...   ++   ..|-+.+|....=-.+-.-.- --.+..++||+||.++    ++     -.|+|-|+++|.+
T Consensus       532 IDEFDKM~dS---tr---SvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaANP~~skynp~k~i~eNI~LpptLLSRFDL  605 (804)
T KOG0478|consen  532 IDEFDKMSDS---TR---SVLHEVMEQQTLSIAKAGIIASLNARCSVLAAANPIRSKYNPNKSIIENINLPPTLLSRFDL  605 (804)
T ss_pred             chhhhhhhHH---HH---HHHHHHHHHhhhhHhhcceeeeccccceeeeeeccccccCCCCCchhhccCCChhhhhhhcE
Confidence            9999853211   22   234444443322111111111 1247899999998763    22     4689999999987


Q ss_pred             EE--eCCCCHHHHHHHHHHHhccccc
Q psy17974        550 LS--LPSPTEDTLKVIFKVRTSPGKQ  573 (583)
Q Consensus       550 i~--i~~p~~~sl~~I~~~~l~~~l~  573 (583)
                      |+  ++.|++..=.++-..+..-|+.
T Consensus       606 IylllD~~DE~~Dr~La~HivsLy~e  631 (804)
T KOG0478|consen  606 IFLLLDKPDERSDRRLADHIVALYPE  631 (804)
T ss_pred             EEEEecCcchhHHHHHHHHHHHhccc
Confidence            55  5777776555565555555554

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.06  E-value=0.0087  Score=62.73  Aligned_cols=76  Identities=16%  Similarity=0.233  Sum_probs=50.7

Q ss_pred             CCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceE
Q psy17974        470 APLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGL  549 (583)
Q Consensus       470 p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~v  549 (583)
                      |-.|.+-|++||+.+.-..+     ....+|+-+ |.-     .        ++.||-.++.+.    .+.+-+.+|+.+
T Consensus       120 p~~~~~kVvII~~ae~m~~~-----aaNaLLK~L-EEP-----p--------~~~fILi~~~~~----~Ll~TI~SRcq~  176 (314)
T PRK07399        120 PLEAPRKVVVIEDAETMNEA-----AANALLKTL-EEP-----G--------NGTLILIAPSPE----SLLPTIVSRCQI  176 (314)
T ss_pred             cccCCceEEEEEchhhcCHH-----HHHHHHHHH-hCC-----C--------CCeEEEEECChH----hCcHHHHhhceE
Confidence            44556668889997654332     234455444 421     1        233454555443    788999999999


Q ss_pred             EEeCCCCHHHHHHHHHHHh
Q psy17974        550 LSLPSPTEDTLKVIFKVRT  568 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~~l  568 (583)
                      +.++.++.+++..+.....
T Consensus       177 i~f~~l~~~~~~~~L~~~~  195 (314)
T PRK07399        177 IPFYRLSDEQLEQVLKRLG  195 (314)
T ss_pred             EecCCCCHHHHHHHHHHhh
Confidence            9999999999988887653

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=97.05  E-value=0.0053  Score=66.05  Aligned_cols=98  Identities=19%  Similarity=0.265  Sum_probs=61.2

Q ss_pred             hhhHHHHHHH--HHhcCCceEEEccCCCcHHHHHHHHHHh--hcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcc
Q psy17974        392 TIRFGSIMEK--LLLVNHPVMFTGVTGVGKTVVARSILNK--LLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTL  467 (583)
Q Consensus       392 t~r~~~ll~~--~l~~~~~vLL~Gp~GtGKT~li~~~l~~--l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~  467 (583)
                      -.+...+...  +++.+.|+++.||+|||||.++.++...  +. . +         ..+|+..+-.-+..    +.-+.
T Consensus       193 r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~~l~~~~a~~-s-G---------~f~T~a~Lf~~L~~----~~lg~  257 (449)
T TIGR02688       193 RQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYNNLSPYVILI-S-G---------GTITVAKLFYNIST----RQIGL  257 (449)
T ss_pred             HHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHHHHhHHHHHH-c-C---------CcCcHHHHHHHHHH----HHHhh
Confidence            3445556665  8999999999999999999999986543  21 1 1         33455444332222    11111


Q ss_pred             ccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCee
Q psy17974        468 LGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY  510 (583)
Q Consensus       468 ~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~y  510 (583)
                          -++.-++.+||+..-..++  ....+..|.-.++.|.|=
T Consensus       258 ----v~~~DlLI~DEvgylp~~~--~~~~v~imK~yMesg~fs  294 (449)
T TIGR02688       258 ----VGRWDVVAFDEVATLKFAK--PKELIGILKNYMESGSFT  294 (449)
T ss_pred             ----hccCCEEEEEcCCCCcCCc--hHHHHHHHHHHHHhCcee
Confidence                2345578899998833332  223577888888866653

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.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.01  E-value=0.00076  Score=59.08  Aligned_cols=22  Identities=27%  Similarity=0.623  Sum_probs=19.7

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |.|.||||+|||++++.+++.+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            5799999999999999988765

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

>KOG1514|consensus

Probab=97.00  E-value=0.0083  Score=67.42  Aligned_cols=156  Identities=17%  Similarity=0.247  Sum_probs=97.3

Q ss_pred             hHHHHHHHHHhc---CCceEEEccCCCcHHHHHHHHHHhhc------ccCCceEEEEEeccCCChHHHHHHHHhhhhhhc
Q psy17974        394 RFGSIMEKLLLV---NHPVMFTGVTGVGKTVVARSILNKLL------ASNTWAALTINFSAQTSSARTQEILEGKLDKRT  464 (583)
Q Consensus       394 r~~~ll~~~l~~---~~~vLL~Gp~GtGKT~li~~~l~~l~------~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~  464 (583)
                      ....+++..+..   |.-+.+.|-||||||.++..++++|.      .-..+..+.||--..+++.++=..|-..+...+
T Consensus       407 ~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~~~lsg~~  486 (767)
T KOG1514|consen  407 EIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIWEALSGER  486 (767)
T ss_pred             HHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHHHhcccCc
Confidence            344555666654   34689999999999999999988663      123567777776666777665555544432211


Q ss_pred             C----------ccc-cC-CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeec--CeEEEEecC
Q psy17974        465 K----------TLL-GA-PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQ--DVVLCTACA  530 (583)
Q Consensus       465 ~----------~~~-~p-~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~--~i~~iaa~~  530 (583)
                      .          ..| .| +..+.+|+.|||++..-..   .|   +.|--+.           .|-..+  .+.+||..|
T Consensus       487 ~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr---~Q---dVlYn~f-----------dWpt~~~sKLvvi~IaN  549 (767)
T KOG1514|consen  487 VTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTR---SQ---DVLYNIF-----------DWPTLKNSKLVVIAIAN  549 (767)
T ss_pred             ccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcc---cH---HHHHHHh-----------cCCcCCCCceEEEEecc
Confidence            0          112 23 4556789999999763321   12   2232222           244443  355666555


Q ss_pred             CCCCCCCCCChhhhc-------cceEEEeCCCCHHHHHHHHHHHhccc
Q psy17974        531 PPGGGRMPLTPRFVR-------HFGLLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       531 p~~~gr~~l~~Rllr-------~f~vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      .-     .++.|++-       +|+-+.+.+.+.++|..|..+-|.+.
T Consensus       550 Tm-----dlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~  592 (767)
T KOG1514|consen  550 TM-----DLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGL  592 (767)
T ss_pred             cc-----cCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcch
Confidence            42     34444332       67789999999999999999999876

>KOG0480|consensus

Probab=96.96  E-value=0.00053  Score=75.69  Aligned_cols=151  Identities=17%  Similarity=0.147  Sum_probs=90.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh-hcCcccc----CC-CCCeE
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK-RTKTLLG----AP-LGKRL  476 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~-~~~~~~~----p~-~gk~~  476 (583)
                      +....||+++|.||+|||.++++...=.+ +    .++..-++.|++...-     .+.| ...+-|.    +- -+-..
T Consensus       375 lRGDinv~iVGDPgt~KSQfLk~v~~fsP-R----~vYtsGkaSSaAGLTa-----aVvkD~esgdf~iEAGALmLADnG  444 (764)
T KOG0480|consen  375 LRGDINVCIVGDPGTGKSQFLKAVCAFSP-R----SVYTSGKASSAAGLTA-----AVVKDEESGDFTIEAGALMLADNG  444 (764)
T ss_pred             ccCCceEEEeCCCCccHHHHHHHHhccCC-c----ceEecCcccccccceE-----EEEecCCCCceeeecCcEEEccCc
Confidence            44567999999999999999998765432 2    2223223322221111     1111 1122221    11 12345


Q ss_pred             EEEecCCCCCCcccCCCCChHHHHHHH---HHhCCeeecCCCeeEeecCeEEEEecCCCCCC--C-------CCCChhhh
Q psy17974        477 AVFVDDVNMPKLETYGAQPPIELLRQF---LDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG--R-------MPLTPRFV  544 (583)
Q Consensus       477 vlfiDDln~p~~d~yg~q~~lElLRq~---ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g--r-------~~l~~Rll  544 (583)
                      |..|||++--..  -..+.++|.+.|-   +...|.-.      .--.+..++||.||-+|-  |       -.+++.++
T Consensus       445 ICCIDEFDKMd~--~dqvAihEAMEQQtISIaKAGv~a------TLnARtSIlAAANPv~GhYdR~ktl~eNi~msApim  516 (764)
T KOG0480|consen  445 ICCIDEFDKMDV--KDQVAIHEAMEQQTISIAKAGVVA------TLNARTSILAAANPVGGHYDRKKTLRENINMSAPIM  516 (764)
T ss_pred             eEEechhcccCh--HhHHHHHHHHHhheehheecceEE------eecchhhhhhhcCCcCCccccccchhhhcCCCchhh
Confidence            778999974322  2235567777652   23333321      112468899999997651  1       35789999


Q ss_pred             ccceE--EEeCCCCHHHHHHHHHHHhccc
Q psy17974        545 RHFGL--LSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       545 r~f~v--i~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      +||-+  |-++.|++..=..|-..+++-|
T Consensus       517 SRFDL~FiLlD~~nE~~D~~ia~hIld~h  545 (764)
T KOG0480|consen  517 SRFDLFFILLDDCNEVVDYAIARHILDLH  545 (764)
T ss_pred             hhhcEEEEEecCCchHHHHHHHHHHHHHh
Confidence            99975  6679999888888888888765

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=96.96  E-value=0.013  Score=61.36  Aligned_cols=131  Identities=11%  Similarity=0.114  Sum_probs=79.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccC------------------Cc-eEEEEEe---ccCCChHHHHHHHHhhhhhhc
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASN------------------TW-AALTINF---SAQTSSARTQEILEGKLDKRT  464 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~------------------~~-~~~~i~f---S~~Tt~~~lq~~ie~~l~~~~  464 (583)
                      +..|++||.|+||+.++..+++.+--.+                  .+ .+..+.-   +...+.+++..+. ..+.   
T Consensus        26 hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~vdqiR~l~-~~~~---  101 (319)
T PRK06090         26 GALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITVEQIRQCN-RLAQ---  101 (319)
T ss_pred             eeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCHHHHHHHH-HHHh---
Confidence            4689999999999999998887651000                  00 1111211   1122334443322 1111   


Q ss_pred             CccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhh
Q psy17974        465 KTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFV  544 (583)
Q Consensus       465 ~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rll  544 (583)
                         ..|..|.+=|++||+.+.-..+     ....+|+-+=|      +       ..++.||-.++.+.    .+.|-+.
T Consensus       102 ---~~~~~~~~kV~iI~~ae~m~~~-----AaNaLLKtLEE------P-------p~~t~fiL~t~~~~----~lLpTI~  156 (319)
T PRK06090        102 ---ESSQLNGYRLFVIEPADAMNES-----ASNALLKTLEE------P-------APNCLFLLVTHNQK----RLLPTIV  156 (319)
T ss_pred             ---hCcccCCceEEEecchhhhCHH-----HHHHHHHHhcC------C-------CCCeEEEEEECChh----hChHHHH
Confidence               1344455557889998765433     35566655433      1       23566776666554    6888899


Q ss_pred             ccceEEEeCCCCHHHHHHHHHH
Q psy17974        545 RHFGLLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       545 r~f~vi~i~~p~~~sl~~I~~~  566 (583)
                      +|+.++.++.|+.+.+......
T Consensus       157 SRCq~~~~~~~~~~~~~~~L~~  178 (319)
T PRK06090        157 SRCQQWVVTPPSTAQAMQWLKG  178 (319)
T ss_pred             hcceeEeCCCCCHHHHHHHHHH
Confidence            9999999999999988776543

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.90  E-value=0.0021  Score=61.43  Aligned_cols=25  Identities=24%  Similarity=0.590  Sum_probs=22.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|.-++|+||+|+|||++++.++..
T Consensus         3 ~G~l~vlsgPSG~GKsTl~k~L~~~   27 (191)
T COG0194           3 KGLLIVLSGPSGVGKSTLVKALLED   27 (191)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhh
Confidence            4778999999999999999999885

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=96.90  E-value=0.0084  Score=62.53  Aligned_cols=161  Identities=19%  Similarity=0.240  Sum_probs=90.0

Q ss_pred             CCCCCccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHH
Q psy17974        378 PTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILE  457 (583)
Q Consensus       378 ~~~~~~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie  457 (583)
                      +..+|..++.-..-......-.+.+.....|.|+.|++||||-.++++.-..- ......+..+||.+--  ++   ..|
T Consensus       199 ~~~~F~~~v~~S~~mk~~v~qA~k~AmlDAPLLI~GeTGTGKdLlAkaCH~~S-~R~~~pFlalNCA~lP--e~---~aE  272 (511)
T COG3283         199 DVSGFEQIVAVSPKMKHVVEQAQKLAMLDAPLLITGETGTGKDLLAKACHLAS-PRHSKPFLALNCASLP--ED---AAE  272 (511)
T ss_pred             cccchHHHhhccHHHHHHHHHHHHhhccCCCeEEecCCCchHHHHHHHHhhcC-cccCCCeeEeecCCCc--hh---HhH
Confidence            34455554443332222223334456668899999999999999999875433 2344567778886633  33   234


Q ss_pred             hhhhhhc------CccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCC
Q psy17974        458 GKLDKRT------KTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAP  531 (583)
Q Consensus       458 ~~l~~~~------~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p  531 (583)
                      +.+-.+.      +|.|.-.  ....+|+|+|.--.+.     --.-+||-+-| | -|.+-..+--.-.|+++|||+..
T Consensus       273 sElFG~apg~~gk~GffE~A--ngGTVlLDeIgEmSp~-----lQaKLLRFL~D-G-tFRRVGee~Ev~vdVRVIcatq~  343 (511)
T COG3283         273 SELFGHAPGDEGKKGFFEQA--NGGTVLLDEIGEMSPR-----LQAKLLRFLND-G-TFRRVGEDHEVHVDVRVICATQV  343 (511)
T ss_pred             HHHhcCCCCCCCccchhhhc--cCCeEEeehhhhcCHH-----HHHHHHHHhcC-C-ceeecCCcceEEEEEEEEecccc
Confidence            4443221      2222222  1236799998643222     02457876655 4 44444333334469999999876


Q ss_pred             CC-----CCCCCCChhhhccceEEEeCCC
Q psy17974        532 PG-----GGRMPLTPRFVRHFGLLSLPSP  555 (583)
Q Consensus       532 ~~-----~gr~~l~~Rllr~f~vi~i~~p  555 (583)
                      +-     .|+  .-.-+..+.+|+.+.-|
T Consensus       344 nL~~lv~~g~--fReDLfyRLNVLtl~~P  370 (511)
T COG3283         344 NLVELVQKGK--FREDLFYRLNVLTLNLP  370 (511)
T ss_pred             cHHHHHhcCc--hHHHHHHHhheeeecCC
Confidence            62     232  22344455577666555

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.87  E-value=0.0015  Score=69.24  Aligned_cols=38  Identities=16%  Similarity=0.419  Sum_probs=34.1

Q ss_pred             hHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        394 RFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       394 r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ....++..++..+.+++++||+|||||+++++++..++
T Consensus       150 ~~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i~  187 (344)
T PRK13851        150 DLEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAIP  187 (344)
T ss_pred             HHHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHcccC
Confidence            35678899999999999999999999999999998764

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.86  E-value=0.014  Score=61.80  Aligned_cols=130  Identities=18%  Similarity=0.240  Sum_probs=79.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhc--ccCC------------------ceEEEEEec---cCCChHHHHHHHHhhhhhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLL--ASNT------------------WAALTINFS---AQTSSARTQEILEGKLDKR  463 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~--~~~~------------------~~~~~i~fS---~~Tt~~~lq~~ie~~l~~~  463 (583)
                      +..|+.||+|+||++++..+++.+.  ++..                  -.+..+.-.   ...+.+++.+++ ..+.  
T Consensus        25 HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~-~~~~--  101 (334)
T PRK07993         25 HALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVT-EKLY--  101 (334)
T ss_pred             eEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHH-HHHh--
Confidence            5788999999999999998877651  0000                  011112111   112334444332 2222  


Q ss_pred             cCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhh
Q psy17974        464 TKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRF  543 (583)
Q Consensus       464 ~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rl  543 (583)
                          +.|..|++=|++||+.+.-..     +....+|+-+=|      +       ..++.||-.+..|+    .+.|-+
T Consensus       102 ----~~~~~g~~kV~iI~~ae~m~~-----~AaNaLLKtLEE------P-------p~~t~fiL~t~~~~----~lLpTI  155 (334)
T PRK07993        102 ----EHARLGGAKVVWLPDAALLTD-----AAANALLKTLEE------P-------PENTWFFLACREPA----RLLATL  155 (334)
T ss_pred             ----hccccCCceEEEEcchHhhCH-----HHHHHHHHHhcC------C-------CCCeEEEEEECChh----hChHHH
Confidence                235556666889998765433     345667765533      1       23566666666554    789999


Q ss_pred             hccceEEEeCCCCHHHHHHHHH
Q psy17974        544 VRHFGLLSLPSPTEDTLKVIFK  565 (583)
Q Consensus       544 lr~f~vi~i~~p~~~sl~~I~~  565 (583)
                      .+|+..+.++.|+.+.+..-..
T Consensus       156 rSRCq~~~~~~~~~~~~~~~L~  177 (334)
T PRK07993        156 RSRCRLHYLAPPPEQYALTWLS  177 (334)
T ss_pred             HhccccccCCCCCHHHHHHHHH
Confidence            9999999999999888766543

>TIGR00767 rho transcription termination factor Rho

Probab=96.82  E-value=0.0026  Score=68.08  Aligned_cols=82  Identities=13%  Similarity=0.188  Sum_probs=48.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCce-EEEEEeccC--CChHHHHHHHHhhh-----hh----hcCc----
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWA-ALTINFSAQ--TSSARTQEILEGKL-----DK----RTKT----  466 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~-~~~i~fS~~--Tt~~~lq~~ie~~l-----~~----~~~~----  466 (583)
                      +..|+.++++||+|+|||++++.+++.+... ... ...+..+..  .+..++++.+...+     +.    +.+-    
T Consensus       165 ig~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v  243 (415)
T TIGR00767       165 IGKGQRGLIVAPPKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMV  243 (415)
T ss_pred             eCCCCEEEEECCCCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHH
Confidence            4468899999999999999999988876322 111 112233322  34555555552211     10    0000    


Q ss_pred             ----cccCCCCCeEEEEecCCCC
Q psy17974        467 ----LLGAPLGKRLAVFVDDVNM  485 (583)
Q Consensus       467 ----~~~p~~gk~~vlfiDDln~  485 (583)
                          .+--..|++.|+|+|+++.
T Consensus       244 ~e~Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       244 IEKAKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHHHHcCCCeEEEEEChhH
Confidence                0001358899999999995

Members of this family differ in the specificity of RNA binding.

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=96.81  E-value=0.002  Score=67.98  Aligned_cols=38  Identities=18%  Similarity=0.419  Sum_probs=33.6

Q ss_pred             hHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        394 RFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       394 r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ....++..++..+.+++++|++|||||+++++++..++
T Consensus       148 ~~~~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~ip  185 (332)
T PRK13900        148 KIKEFLEHAVISKKNIIISGGTSTGKTTFTNAALREIP  185 (332)
T ss_pred             HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhCC
Confidence            34567888899999999999999999999999998774

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.80  E-value=0.0031  Score=61.48  Aligned_cols=45  Identities=16%  Similarity=0.291  Sum_probs=29.8

Q ss_pred             HHHHHHHhcCC-ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEE
Q psy17974        397 SIMEKLLLVNH-PVMFTGVTGVGKTVVARSILNKLLASNTWAALTIN  442 (583)
Q Consensus       397 ~ll~~~l~~~~-~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~  442 (583)
                      ..+..++.++. -+++.||+|||||++++.+...+. ..++.++.+.
T Consensus         8 ~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~-~~g~~v~~~a   53 (196)
T PF13604_consen    8 EAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALE-AAGKRVIGLA   53 (196)
T ss_dssp             HHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHH-HTT--EEEEE
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHH-hCCCeEEEEC
Confidence            44555666664 467779999999999998877663 3345555543

>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=96.78  E-value=0.0016  Score=57.58  Aligned_cols=22  Identities=27%  Similarity=0.700  Sum_probs=20.5

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++++||||||||++++.+++.+
T Consensus         2 I~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999876

...

>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=96.77  E-value=0.0027  Score=66.88  Aligned_cols=63  Identities=22%  Similarity=0.256  Sum_probs=46.8

Q ss_pred             cceeeCchhhhHHHHHHHHHhc----CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC
Q psy17974        384 DMMVPTIDTIRFGSIMEKLLLV----NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS  448 (583)
Q Consensus       384 ~i~VpT~dt~r~~~ll~~~l~~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt  448 (583)
                      +=+|--.+..+...++-.+++.    |+.+||.||||||||+++-+++++|.  ++..++.++-|.-.+
T Consensus        24 ~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG--~~~PF~~isgSEiyS   90 (398)
T PF06068_consen   24 DGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELG--EDVPFVSISGSEIYS   90 (398)
T ss_dssp             TTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCT--TTS-EEEEEGGGG-B
T ss_pred             ccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhC--CCCCeeEcccceeee
Confidence            4577777888888888888886    57999999999999999999999984  456677776665443

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.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.74  E-value=0.0026  Score=61.31  Aligned_cols=36  Identities=19%  Similarity=0.304  Sum_probs=32.0

Q ss_pred             HHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        395 FGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       395 ~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ...++...+..+..++++||+|+|||++++.++..+
T Consensus        14 ~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          14 QAAYLWLAVEARKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             HHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            456778889999999999999999999999988765

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>KOG1970|consensus

Probab=96.72  E-value=0.0095  Score=65.28  Aligned_cols=24  Identities=25%  Similarity=0.553  Sum_probs=21.1

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +-+||+||+|||||+.++-+.+.+
T Consensus       111 ~iLLltGPsGcGKSTtvkvLskel  134 (634)
T KOG1970|consen  111 RILLLTGPSGCGKSTTVKVLSKEL  134 (634)
T ss_pred             eEEEEeCCCCCCchhHHHHHHHhh
Confidence            357899999999999999888876

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=96.69  E-value=0.0017  Score=69.25  Aligned_cols=28  Identities=21%  Similarity=0.286  Sum_probs=24.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|+..+++||+|+|||++++.+.+..
T Consensus       166 IGkGQR~lIvgppGvGKTTLaK~Ian~I  193 (416)
T PRK09376        166 IGKGQRGLIVAPPKAGKTVLLQNIANSI  193 (416)
T ss_pred             cccCceEEEeCCCCCChhHHHHHHHHHH
Confidence            3468899999999999999999988765

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=96.68  E-value=0.0036  Score=65.19  Aligned_cols=62  Identities=21%  Similarity=0.230  Sum_probs=48.5

Q ss_pred             ccceeeCchhhhHHHHHHHHHhcC----CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC
Q psy17974        383 FDMMVPTIDTIRFGSIMEKLLLVN----HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ  446 (583)
Q Consensus       383 ~~i~VpT~dt~r~~~ll~~~l~~~----~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~  446 (583)
                      .+=+|--.+..+...++-.+++.|    +.||++||||||||+++-.+.++|.  ++..++.++-|.-
T Consensus        38 ~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG--~dvPF~~isgsEi  103 (450)
T COG1224          38 GDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELG--EDVPFVAISGSEI  103 (450)
T ss_pred             CCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhC--CCCCceeecccee
Confidence            445777777788888888888865    7999999999999999999999983  3455555655543

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=96.68  E-value=0.01  Score=61.18  Aligned_cols=157  Identities=14%  Similarity=0.147  Sum_probs=86.2

Q ss_pred             ceeeCchhhhHHHHHHHHHhcC-----CceEEEccCCCcHHHHHHHHHHhhccc-----CCceEEEEEeccCCChHHHHH
Q psy17974        385 MMVPTIDTIRFGSIMEKLLLVN-----HPVMFTGVTGVGKTVVARSILNKLLAS-----NTWAALTINFSAQTSSARTQE  454 (583)
Q Consensus       385 i~VpT~dt~r~~~ll~~~l~~~-----~~vLL~Gp~GtGKT~li~~~l~~l~~~-----~~~~~~~i~fS~~Tt~~~lq~  454 (583)
                      -.|.-+.......-++.++..-     .++||+|++|.|||++++.+.+..+..     +...++.+..-+.-+...+-.
T Consensus        35 rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~  114 (302)
T PF05621_consen   35 RWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYS  114 (302)
T ss_pred             CeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHH
Confidence            3455555555555556665543     478999999999999999998754211     123455565544444444444


Q ss_pred             HHHhhhhhh----------c---CccccCCCCCeEEEEecCCCCCCcccCCCC-ChHHHHHHHHHhCCeeecCCCeeEee
Q psy17974        455 ILEGKLDKR----------T---KTLLGAPLGKRLAVFVDDVNMPKLETYGAQ-PPIELLRQFLDFGGLYDRDKMFWKTL  520 (583)
Q Consensus       455 ~ie~~l~~~----------~---~~~~~p~~gk~~vlfiDDln~p~~d~yg~q-~~lElLRq~ld~~g~yd~~~~~~~~i  520 (583)
                      .|...+.--          .   ..++. ..|-+ ++.|||+|-.-...+-.| ..+.+||.+-..              
T Consensus       115 ~IL~~lgaP~~~~~~~~~~~~~~~~llr-~~~vr-mLIIDE~H~lLaGs~~~qr~~Ln~LK~L~Ne--------------  178 (302)
T PF05621_consen  115 AILEALGAPYRPRDRVAKLEQQVLRLLR-RLGVR-MLIIDEFHNLLAGSYRKQREFLNALKFLGNE--------------  178 (302)
T ss_pred             HHHHHhCcccCCCCCHHHHHHHHHHHHH-HcCCc-EEEeechHHHhcccHHHHHHHHHHHHHHhhc--------------
Confidence            433332110          0   01111 12223 578999997543332223 256667666321              


Q ss_pred             cCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCH
Q psy17974        521 QDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTE  557 (583)
Q Consensus       521 ~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~  557 (583)
                      -++.+||+-.+..-.--.-++-+-+||..+.+|.-..
T Consensus       179 L~ipiV~vGt~~A~~al~~D~QLa~RF~~~~Lp~W~~  215 (302)
T PF05621_consen  179 LQIPIVGVGTREAYRALRTDPQLASRFEPFELPRWEL  215 (302)
T ss_pred             cCCCeEEeccHHHHHHhccCHHHHhccCCccCCCCCC
Confidence            1466676533322111234688889999999987543

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>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=96.63  E-value=0.0015  Score=59.60  Aligned_cols=22  Identities=27%  Similarity=0.677  Sum_probs=20.3

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |+++||||||||++++.+++.+
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
Confidence            6899999999999999999765

...

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.55  E-value=0.0045  Score=64.42  Aligned_cols=36  Identities=25%  Similarity=0.509  Sum_probs=31.3

Q ss_pred             HHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        395 FGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       395 ~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ...++..+++.+.+++++||+|||||+++++++..+
T Consensus       121 ~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i  156 (299)
T TIGR02782       121 QRDVLREAVLARKNILVVGGTGSGKTTLANALLAEI  156 (299)
T ss_pred             HHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            345677788899999999999999999999998765

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.55  E-value=0.0035  Score=57.18  Aligned_cols=41  Identities=29%  Similarity=0.418  Sum_probs=34.6

Q ss_pred             hhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        391 DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       391 dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      +|.+....+...+..+.-++|.|+.|+|||++++.+++.+.
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            45666666777778889999999999999999999999873

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=96.54  E-value=0.0023  Score=60.67  Aligned_cols=41  Identities=27%  Similarity=0.536  Sum_probs=27.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ  446 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~  446 (583)
                      .+..++++|++|+|||++++.++..+.....+ ++.++++..
T Consensus        23 ~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~-~~~~~~~~~   63 (185)
T PF13191_consen   23 SPRNLLLTGESGSGKTSLLRALLDRLAERGGY-VISINCDDS   63 (185)
T ss_dssp             ----EEE-B-TTSSHHHHHHHHHHHHHHHT---EEEEEEETT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCE-EEEEEEecc
Confidence            35689999999999999999998877544344 777777665

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=96.47  E-value=0.0038  Score=63.74  Aligned_cols=39  Identities=18%  Similarity=0.359  Sum_probs=32.5

Q ss_pred             hhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        393 IRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       393 ~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .....++...++.+.+++++||+|||||+++++++..++
T Consensus       114 ~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~  152 (270)
T PF00437_consen  114 EEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIP  152 (270)
T ss_dssp             HHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCH
T ss_pred             HHHHHHHhhccccceEEEEECCCccccchHHHHHhhhcc
Confidence            344456666677799999999999999999999998874

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.47  E-value=0.0046  Score=64.91  Aligned_cols=36  Identities=22%  Similarity=0.431  Sum_probs=31.7

Q ss_pred             HHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        395 FGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       395 ~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ...++..++..+.+++++|++|||||+++++++..+
T Consensus       133 ~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        133 QASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             HHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            346678889999999999999999999999998765

>PRK04296 thymidine kinase; Provisional

Probab=96.45  E-value=0.011  Score=57.22  Aligned_cols=24  Identities=13%  Similarity=0.066  Sum_probs=20.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .=++++||+|+|||+.+..++...
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~   26 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNY   26 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHH
Confidence            447899999999999998887765

>KOG0477|consensus

Probab=96.43  E-value=0.0011  Score=72.88  Aligned_cols=149  Identities=16%  Similarity=0.241  Sum_probs=76.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCc------eEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTW------AALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVF  479 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~------~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlf  479 (583)
                      ..||||+|.||||||..++...+.- +..-+      ..+.++.+.+-.|-.    =|..|+   +|.+.  -..+.|..
T Consensus       482 DinvLL~GDPGTaKSQFLKY~eK~s-~RAV~tTGqGASavGLTa~v~KdPvt----rEWTLE---aGALV--LADkGvCl  551 (854)
T KOG0477|consen  482 DINVLLLGDPGTAKSQFLKYAEKTS-PRAVFTTGQGASAVGLTAYVRKDPVT----REWTLE---AGALV--LADKGVCL  551 (854)
T ss_pred             ceeEEEecCCCccHHHHHHHHHhcC-cceeEeccCCccccceeEEEeeCCcc----ceeeec---cCeEE--EccCceEE
Confidence            4699999999999999999877642 11100      000111111000000    000011   11111  12355778


Q ss_pred             ecCCCCCCcccCCCCChHHHHHHH---HHhCCeeecCCCeeEeecCeEEEEecCCCCCCCC----------CCChhhhcc
Q psy17974        480 VDDVNMPKLETYGAQPPIELLRQF---LDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRM----------PLTPRFVRH  546 (583)
Q Consensus       480 iDDln~p~~d~yg~q~~lElLRq~---ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~----------~l~~Rllr~  546 (583)
                      |||++--. | -.-.++.|.+.|-   +..-|.-.      .--..+++|||.||-| ||.          .++...+++
T Consensus       552 IDEFDKMn-d-qDRtSIHEAMEQQSISISKAGIVt------sLqArctvIAAanPig-GRY~~s~tFaqNV~ltePIlSR  622 (854)
T KOG0477|consen  552 IDEFDKMN-D-QDRTSIHEAMEQQSISISKAGIVT------SLQARCTVIAAANPIG-GRYNPSLTFAQNVDLTEPILSR  622 (854)
T ss_pred             eehhhhhc-c-cccchHHHHHHhcchhhhhhhHHH------HHHhhhhhheecCCCC-CccCCccchhhccccccchhhh
Confidence            99987421 1 1223466766552   11111110      0114688999999875 443          677888999


Q ss_pred             ceEEEeC-----CCCHHHH-HHHHHHHhccccc
Q psy17974        547 FGLLSLP-----SPTEDTL-KVIFKVRTSPGKQ  573 (583)
Q Consensus       547 f~vi~i~-----~p~~~sl-~~I~~~~l~~~l~  573 (583)
                      |-++++-     +-.++.+ +-+.+++.+.|-.
T Consensus       623 FDiLcVvkD~vd~~~De~lA~fVV~Sh~r~hp~  655 (854)
T KOG0477|consen  623 FDILCVVKDTVDPVQDEKLAKFVVGSHVRHHPS  655 (854)
T ss_pred             cceeeeeecccCchhHHHHHHHHHHhHhhcCCc
Confidence            9888763     2223333 3377777776643

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.43  E-value=0.0089  Score=68.18  Aligned_cols=55  Identities=20%  Similarity=0.284  Sum_probs=39.1

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCC-ceEEEEEeccCCChHHHH
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNT-WAALTINFSAQTSSARTQ  453 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~-~~~~~i~fS~~Tt~~~lq  453 (583)
                      ..+...+..+++++|+||||||||++++.+++.+. .+. +.+..+ .++.-++..+.
T Consensus        28 ~~l~~a~~~~~~~ll~G~pG~GKT~la~~la~~l~-~~~~~~~~~~-~n~~~~~~~~~   83 (608)
T TIGR00764        28 EIIKKAAKQKRNVLLIGEPGVGKSMLAKAMAELLP-DEELEDILVY-PNPEDPNMPRI   83 (608)
T ss_pred             HHHHHHHHcCCCEEEECCCCCCHHHHHHHHHHHcC-chhheeEEEE-eCCCCCchHHH
Confidence            45677777889999999999999999999999884 333 344433 34444444443

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.38  E-value=0.034  Score=60.24  Aligned_cols=122  Identities=16%  Similarity=0.188  Sum_probs=72.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC-CChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ-TSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~-Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .+++.||.+||||++++.+...+.  +.  .+.++|-.. .+...+.+.+....+.     +.+   ++..+|+||++..
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~--~~--~iy~~~~d~~~~~~~l~d~~~~~~~~-----~~~---~~~yifLDEIq~v  106 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLL--EE--IIYINFDDLRLDRIELLDLLRAYIEL-----KER---EKSYIFLDEIQNV  106 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCC--cc--eEEEEecchhcchhhHHHHHHHHHHh-----hcc---CCceEEEecccCc
Confidence            689999999999999988887663  22  555655332 1222222222222221     111   6778999999875


Q ss_pred             CcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHH
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKV  562 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~  562 (583)
                      ..       -...|+-+.|.|-.            +  ++.+.+...--...++..|..|...+.+.+.|-.+...
T Consensus       107 ~~-------W~~~lk~l~d~~~~------------~--v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373         107 PD-------WERALKYLYDRGNL------------D--VLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             hh-------HHHHHHHHHccccc------------e--EEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence            42       23456666664421            2  33333333223345677787888888888888877654

>PF13245 AAA_19: Part of AAA domain

Probab=96.37  E-value=0.0045  Score=50.86  Aligned_cols=28  Identities=29%  Similarity=0.493  Sum_probs=19.3

Q ss_pred             HHhcCCceE-EEccCCCcHHHHHHHHHHhh
Q psy17974        402 LLLVNHPVM-FTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       402 ~l~~~~~vL-L~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+. +.+++ +.||||||||+++.+.+..+
T Consensus         6 al~-~~~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen    6 ALA-GSPLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             HHh-hCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            344 45555 59999999997766665543

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=96.35  E-value=0.026  Score=62.99  Aligned_cols=163  Identities=21%  Similarity=0.216  Sum_probs=98.6

Q ss_pred             chhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc
Q psy17974        390 IDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG  469 (583)
Q Consensus       390 ~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~  469 (583)
                      +.+.+....++.+.....||+++|+|||||-.+++++..+..  ..=..+.+||.+.+.     ..+|+.+-....|.|.
T Consensus       320 ~s~a~l~rk~~rv~~~~~pvll~GEtGtGKe~laraiH~~s~--~~gpfvAvNCaAip~-----~liesELFGy~~GafT  392 (606)
T COG3284         320 PSRATLLRKAERVAATDLPVLLQGETGTGKEVLARAIHQNSE--AAGPFVAVNCAAIPE-----ALIESELFGYVAGAFT  392 (606)
T ss_pred             HHHHHHHHHHHHHhhcCCCeEecCCcchhHHHHHHHHHhccc--ccCCeEEEEeccchH-----HhhhHHHhccCccccc
Confidence            345666677888888999999999999999999999988753  334678899988654     3456665443333321


Q ss_pred             ------CC----CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-----C
Q psy17974        470 ------AP----LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-----G  534 (583)
Q Consensus       470 ------p~----~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-----~  534 (583)
                            +.    ......+|+|||---+.+   .|  ..+||-+-| |-.-... .+- .-.||++|+|+.-+-     .
T Consensus       393 ga~~kG~~g~~~~A~gGtlFldeIgd~p~~---~Q--s~LLrVl~e-~~v~p~g-~~~-~~vdirvi~ath~dl~~lv~~  464 (606)
T COG3284         393 GARRKGYKGKLEQADGGTLFLDEIGDMPLA---LQ--SRLLRVLQE-GVVTPLG-GTR-IKVDIRVIAATHRDLAQLVEQ  464 (606)
T ss_pred             cchhccccccceecCCCccHHHHhhhchHH---HH--HHHHHHHhh-CceeccC-Ccc-eeEEEEEEeccCcCHHHHHHc
Confidence                  11    112346799998532211   11  246665544 4333322 222 346999999987651     2


Q ss_pred             CC--CCCChhhhccceEEEeCCC-----CHHHHHHHHHHHhc
Q psy17974        535 GR--MPLTPRFVRHFGLLSLPSP-----TEDTLKVIFKVRTS  569 (583)
Q Consensus       535 gr--~~l~~Rllr~f~vi~i~~p-----~~~sl~~I~~~~l~  569 (583)
                      |+  .++--||  +-.+|.+|+.     ...-|.+|+.....
T Consensus       465 g~fredLyyrL--~~~~i~lP~lr~R~d~~~~l~~~~~~~~~  504 (606)
T COG3284         465 GRFREDLYYRL--NAFVITLPPLRERSDRIPLLDRILKREND  504 (606)
T ss_pred             CCchHHHHHHh--cCeeeccCchhcccccHHHHHHHHHHccC
Confidence            43  3343343  3446677665     23455666655544

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=96.32  E-value=0.05  Score=54.63  Aligned_cols=147  Identities=23%  Similarity=0.347  Sum_probs=82.2

Q ss_pred             HHHHHHhcCC-ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHH-HHHHHHhhh------------hhh
Q psy17974        398 IMEKLLLVNH-PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSAR-TQEILEGKL------------DKR  463 (583)
Q Consensus       398 ll~~~l~~~~-~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~-lq~~ie~~l------------~~~  463 (583)
                      .+...+..++ -+.++|+-|||||++.++++..+. .+....  +...+.|-+.. +...+...+            ++.
T Consensus        42 ~l~~~i~d~qg~~~vtGevGsGKTv~~Ral~~s~~-~d~~~~--v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~  118 (269)
T COG3267          42 MLHAAIADGQGILAVTGEVGSGKTVLRRALLASLN-EDQVAV--VVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQI  118 (269)
T ss_pred             HHHHHHhcCCceEEEEecCCCchhHHHHHHHHhcC-CCceEE--EEecCcchhHHHHHHHHHHHhccCccchhHHHHHHH
Confidence            3455566676 779999999999999997777763 444434  33344332221 222221111            111


Q ss_pred             cCcccc-CCCCCe-EEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCCh
Q psy17974        464 TKTLLG-APLGKR-LAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTP  541 (583)
Q Consensus       464 ~~~~~~-p~~gk~-~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~  541 (583)
                      ..+... -..|++ .++++||.+--..+      .+|.||-+.+.--=|       ...  ..++-...|      .+.+
T Consensus       119 ~~~L~al~~~g~r~v~l~vdEah~L~~~------~le~Lrll~nl~~~~-------~~~--l~ivL~Gqp------~L~~  177 (269)
T COG3267         119 DRELAALVKKGKRPVVLMVDEAHDLNDS------ALEALRLLTNLEEDS-------SKL--LSIVLIGQP------KLRP  177 (269)
T ss_pred             HHHHHHHHHhCCCCeEEeehhHhhhChh------HHHHHHHHHhhcccc-------cCc--eeeeecCCc------ccch
Confidence            112211 124555 89999999876544      699999887633111       111  333333222      4555


Q ss_pred             hh--------hccceE-EEeCCCCHHHHHHHHHHHh
Q psy17974        542 RF--------VRHFGL-LSLPSPTEDTLKVIFKVRT  568 (583)
Q Consensus       542 Rl--------lr~f~v-i~i~~p~~~sl~~I~~~~l  568 (583)
                      |+        -+|+.+ |.+++.+.+....-....+
T Consensus       178 ~lr~~~l~e~~~R~~ir~~l~P~~~~~t~~yl~~~L  213 (269)
T COG3267         178 RLRLPVLRELEQRIDIRIELPPLTEAETGLYLRHRL  213 (269)
T ss_pred             hhchHHHHhhhheEEEEEecCCcChHHHHHHHHHHH
Confidence            44        346677 8999988886444333333

>PHA02774 E1; Provisional

Probab=96.31  E-value=0.032  Score=62.27  Aligned_cols=147  Identities=17%  Similarity=0.130  Sum_probs=80.1

Q ss_pred             hHHHHHHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccC
Q psy17974        394 RFGSIMEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGA  470 (583)
Q Consensus       394 r~~~ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p  470 (583)
                      .....++.++...   ..++++||||||||+++.++++-+.   +....++|-   .+                ...+.|
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~---G~vi~fvN~---~s----------------~FwLqp  476 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLK---GKVISFVNS---KS----------------HFWLQP  476 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC---CCEEEEEEC---cc----------------ccccch
Confidence            3444566666542   3699999999999999999998772   223334442   11                111344


Q ss_pred             CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCe-eecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceE
Q psy17974        471 PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGL-YDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGL  549 (583)
Q Consensus       471 ~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~-yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~v  549 (583)
                      -.+.+ ++++||+-.+.-     +-.-+.||.++|.... .|.+-..-+.+..--+|-|+|...... .--.-|.+|..+
T Consensus       477 l~d~k-i~vlDD~t~~~w-----~y~d~~Lrn~LdG~~v~lD~Khk~~~q~k~pPlIITSN~d~~~~-~~~~yL~sRi~~  549 (613)
T PHA02774        477 LADAK-IALLDDATHPCW-----DYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKAE-DRYKYLHSRITV  549 (613)
T ss_pred             hccCC-EEEEecCcchHH-----HHHHHHHHHHcCCCcceeeecccCcccccCCCEEEecCCCcccc-hhhHHhhhhEEE
Confidence            44555 578999844311     1123478999985522 233333334455555666777543110 001122335555


Q ss_pred             EEeCCC-------------CHHHHHHHHHHHhc
Q psy17974        550 LSLPSP-------------TEDTLKVIFKVRTS  569 (583)
Q Consensus       550 i~i~~p-------------~~~sl~~I~~~~l~  569 (583)
                      ++.+.|             ++.+-+.-|..+-.
T Consensus       550 f~F~n~~P~d~~G~P~f~ltd~~WKsFF~rlw~  582 (613)
T PHA02774        550 FEFPNPFPLDENGNPVFELTDANWKSFFERLWS  582 (613)
T ss_pred             EECCCCCCcCCCCCEeeeeCchhHHHHHHHHHH
Confidence            665543             44555556655543

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.31  E-value=0.0057  Score=65.04  Aligned_cols=111  Identities=10%  Similarity=0.126  Sum_probs=61.3

Q ss_pred             HHHHHH--hcCCceEEEccCCCcHHHHHHHHHHhhcccC-Cce-EEEEEeccCCChHHHHHHHHhhhhhh--------cC
Q psy17974        398 IMEKLL--LVNHPVMFTGVTGVGKTVVARSILNKLLASN-TWA-ALTINFSAQTSSARTQEILEGKLDKR--------TK  465 (583)
Q Consensus       398 ll~~~l--~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~-~~~-~~~i~fS~~Tt~~~lq~~ie~~l~~~--------~~  465 (583)
                      +++.++  ..|+.++++||+|||||++++.+++.+.... +.. ++..--...-+..++.+.+...+.-.        +-
T Consensus       123 vID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~~~~  202 (380)
T PRK12608        123 VVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPDEHI  202 (380)
T ss_pred             hhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHHHHH
Confidence            455554  4678999999999999999999988763211 221 22121222234445554442211100        00


Q ss_pred             cc---------ccCCCCCeEEEEecCCCCCC---------cc---cCCC-CChHHHHHHHHHhCC
Q psy17974        466 TL---------LGAPLGKRLAVFVDDVNMPK---------LE---TYGA-QPPIELLRQFLDFGG  508 (583)
Q Consensus       466 ~~---------~~p~~gk~~vlfiDDln~p~---------~d---~yg~-q~~lElLRq~ld~~g  508 (583)
                      ..         +--..|+..|+++||+..-.         ..   ..|. -.+++.++.+++.-|
T Consensus       203 ~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~A~A~rei~~~~G~~~s~G~~~s~~~~~~rl~~~A~  267 (380)
T PRK12608        203 RVAELVLERAKRLVEQGKDVVILLDSLTRLARAYNNEVESSGRTLSGGVDARALQRPKRLFGAAR  267 (380)
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEEEeCcHHHHHHHHhhhcccCCCCCCCcChHHHhhhHHHHHhcC
Confidence            00         01125889999999998411         00   1222 236778888888433

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.26  E-value=0.0061  Score=63.73  Aligned_cols=37  Identities=19%  Similarity=0.413  Sum_probs=32.6

Q ss_pred             HHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        395 FGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       395 ~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ...+++..+..+.+++++||+|||||++++.++..++
T Consensus       133 ~~~~l~~~v~~~~~ili~G~tGsGKTTll~al~~~~~  169 (308)
T TIGR02788       133 IKEFLRLAIASRKNIIISGGTGSGKTTFLKSLVDEIP  169 (308)
T ss_pred             HHHHHHHHhhCCCEEEEECCCCCCHHHHHHHHHccCC
Confidence            4567788899999999999999999999999987663

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=96.17  E-value=0.073  Score=63.56  Aligned_cols=149  Identities=17%  Similarity=0.145  Sum_probs=78.8

Q ss_pred             HHHHHHHHhc--CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC-CChHHHHHHHHhhhhhhcCc------
Q psy17974        396 GSIMEKLLLV--NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ-TSSARTQEILEGKLDKRTKT------  466 (583)
Q Consensus       396 ~~ll~~~l~~--~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~-Tt~~~lq~~ie~~l~~~~~~------  466 (583)
                      ..++..+-..  .+=++++||+|.|||+++...+...  .   .+.-+++... .++..+...+...+.+...+      
T Consensus        20 ~rl~~~l~~~~~~~~~~v~apaG~GKTtl~~~~~~~~--~---~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~~~~~~   94 (903)
T PRK04841         20 ERLLAKLSGANNYRLVLVTSPAGYGKTTLISQWAAGK--N---NLGWYSLDESDNQPERFASYLIAALQQATNGHCSKSE   94 (903)
T ss_pred             hHHHHHHhcccCCCeEEEECCCCCCHHHHHHHHHHhC--C---CeEEEecCcccCCHHHHHHHHHHHHHHhcCcccchhh
Confidence            3444444332  3457999999999999999988754  1   2334455432 34443433332223211000      


Q ss_pred             ----ccc-C--------------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEE
Q psy17974        467 ----LLG-A--------------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCT  527 (583)
Q Consensus       467 ----~~~-p--------------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~ia  527 (583)
                          ..+ +              ..+.+++++|||+|.....     .+.++|+.++.+.            ..++.+|.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~-----~~~~~l~~l~~~~------------~~~~~lv~  157 (903)
T PRK04841         95 ALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNP-----EIHEAMRFFLRHQ------------PENLTLVV  157 (903)
T ss_pred             hhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCCh-----HHHHHHHHHHHhC------------CCCeEEEE
Confidence                000 0              1256899999999986422     4677999998753            13455555


Q ss_pred             ecCC-CCCCCCCC-ChhhhccceEEEeC--CCCHHHHHHHHHHHhc
Q psy17974        528 ACAP-PGGGRMPL-TPRFVRHFGLLSLP--SPTEDTLKVIFKVRTS  569 (583)
Q Consensus       528 a~~p-~~~gr~~l-~~Rllr~f~vi~i~--~p~~~sl~~I~~~~l~  569 (583)
                      ++.. |+-   .+ .-+....+..+...  ..+.++....+...+.
T Consensus       158 ~sR~~~~~---~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~  200 (903)
T PRK04841        158 LSRNLPPL---GIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLS  200 (903)
T ss_pred             EeCCCCCC---chHhHHhcCcceecCHHhCCCCHHHHHHHHHhccC
Confidence            5433 211   11 11222232333333  5577777776665543

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.10  E-value=0.021  Score=61.03  Aligned_cols=97  Identities=15%  Similarity=0.242  Sum_probs=51.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhc-ccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCC--------CCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLL-ASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAP--------LGK  474 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~-~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~--------~gk  474 (583)
                      ++-+.|+||+|+|||+++..++.... ......+..|+.-..--.  ++++. .-..+.---.-++.|.        -..
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~-Ya~im~vp~~vv~~~~el~~ai~~l~~  281 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKT-YADIMGVPLEVVYSPKELAEAIEALRD  281 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHH-HHHHhCCceEEecCHHHHHHHHHHhhc
Confidence            88999999999999998877765442 123344444433221111  12221 1111111111111111        112


Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHHhC
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFG  507 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~  507 (583)
                      .-+|+||-..++..|.    .-++-|+.+++.+
T Consensus       282 ~d~ILVDTaGrs~~D~----~~i~el~~~~~~~  310 (407)
T COG1419         282 CDVILVDTAGRSQYDK----EKIEELKELIDVS  310 (407)
T ss_pred             CCEEEEeCCCCCccCH----HHHHHHHHHHhcc
Confidence            3478999999888773    4566677777644

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.10  E-value=0.02  Score=61.29  Aligned_cols=30  Identities=27%  Similarity=0.355  Sum_probs=25.6

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++..+..++|+||+|+|||+++..++...
T Consensus       132 ~~~~~g~ii~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        132 ALMERGGVFALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             ccccCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            345678899999999999999999988754

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=96.06  E-value=0.036  Score=66.72  Aligned_cols=80  Identities=31%  Similarity=0.509  Sum_probs=58.3

Q ss_pred             ecccccEEEEecCCCCCCCCCchHHHhccc--ceeeecCCcchhHHHHhhcccccchHHHHHHHHHHHHHHHhhCCCCcc
Q psy17974        141 LVPSCAAFITMNPGYAGRTELPDNLKALFR--PMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQDH  218 (583)
Q Consensus       141 L~~~~~ifiTmnp~y~gr~eLP~nlk~lfr--~~~m~~pd~~~I~e~~l~~~gf~~a~~l~~k~~~~~~~~~~~ls~q~h  218 (583)
                      +..++..|.+||=+|.+| |||-.|++.|-  .-..-.||.++|.   ++..|  -.+.++.+++.--.   ..-+.|.|
T Consensus      1686 ~k~~~k~~lq~~y~y~pR-eLtR~lr~i~~yaeT~~~t~~~slI~---~wy~e--a~r~~~dRLV~qkE---~st~~q~l 1756 (3164)
T COG5245        1686 SKDKTKFFLQMNYGYKPR-ELTRSLRAIFGYAETRIDTPDVSLII---DWYCE--AIREKIDRLVQQKE---SSTSRQDL 1756 (3164)
T ss_pred             HHHhhhhhcccccccChH-HHHHHHHHHHhHHhcCCCCCcHHHHH---HHHHH--HHHHHHHHHHHHHh---cchHHHHH
Confidence            346788999999999999 99999999998  5555667777774   44332  24566666665433   22457999


Q ss_pred             ccccchhHHHH
Q psy17974        219 YDFGMRAVKSV  229 (583)
Q Consensus       219 ydfglR~lk~v  229 (583)
                      ||||+|++...
T Consensus      1757 y~~~~~~~~e~ 1767 (3164)
T COG5245        1757 YDFGLRAIREM 1767 (3164)
T ss_pred             HHHHHHhhhhh
Confidence            99999988744

>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=96.05  E-value=0.0051  Score=54.58  Aligned_cols=22  Identities=32%  Similarity=0.718  Sum_probs=19.8

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |+|.|+||||||++++.+.+.+
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            6899999999999999988763

...

>KOG2228|consensus

Probab=96.02  E-value=0.013  Score=60.82  Aligned_cols=149  Identities=15%  Similarity=0.176  Sum_probs=78.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh-cccCCceEEEEEeccCCChHHHHHH---HHhhhhhh--cCccccC--------
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL-LASNTWAALTINFSAQTSSARTQEI---LEGKLDKR--TKTLLGA--------  470 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l-~~~~~~~~~~i~fS~~Tt~~~lq~~---ie~~l~~~--~~~~~~p--------  470 (583)
                      .+..|+++||.|+|||+++...+... ...+++..+.+|-.-+|+.-.+.++   +...+++.  .-|.|.+        
T Consensus        48 EsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql~~e~~~~~k~~gsfte~l~~lL~~  127 (408)
T KOG2228|consen   48 ESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQLALELNRIVKSFGSFTENLSKLLEA  127 (408)
T ss_pred             CCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHHHHHHhhhheeecccchhHHHHHHH
Confidence            45799999999999999999877652 1245566666666556632222222   22223321  1222322        


Q ss_pred             -----CCCCeEEEE-ecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhh
Q psy17974        471 -----PLGKRLAVF-VDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFV  544 (583)
Q Consensus       471 -----~~gk~~vlf-iDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rll  544 (583)
                           ...+--|+| +||+++-..-          -||.+=|+-| |....   .-..+-++|.+..-. --.-+-.|..
T Consensus       128 L~~~~~~t~~~ViFIldEfDlf~~h----------~rQtllYnlf-Disqs---~r~Piciig~Ttrld-~lE~LEKRVK  192 (408)
T KOG2228|consen  128 LKKGDETTSGKVIFILDEFDLFAPH----------SRQTLLYNLF-DISQS---ARAPICIIGVTTRLD-ILELLEKRVK  192 (408)
T ss_pred             HhcCCCCCCceEEEEeehhhccccc----------hhhHHHHHHH-HHHhh---cCCCeEEEEeecccc-HHHHHHHHHH
Confidence                 111222555 5677763322          2454444322 22110   113566666543221 0012345667


Q ss_pred             ccce--EEEeCCC-CHHHHHHHHHHHh
Q psy17974        545 RHFG--LLSLPSP-TEDTLKVIFKVRT  568 (583)
Q Consensus       545 r~f~--vi~i~~p-~~~sl~~I~~~~l  568 (583)
                      +||+  +|++.++ +-++...||...+
T Consensus       193 SRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  193 SRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             hhcccceeeccCCCChHHHHHHHHHHh
Confidence            7885  5555544 6688888998887

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=95.99  E-value=0.0081  Score=63.07  Aligned_cols=34  Identities=24%  Similarity=0.407  Sum_probs=30.4

Q ss_pred             HHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        396 GSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       396 ~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..++..++..+.+++++|++|||||+++++++..
T Consensus       138 ~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~  171 (319)
T PRK13894        138 REAIIAAVRAHRNILVIGGTGSGKTTLVNAIINE  171 (319)
T ss_pred             HHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHh
Confidence            4567888889999999999999999999999875

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=95.96  E-value=0.0074  Score=59.14  Aligned_cols=32  Identities=31%  Similarity=0.457  Sum_probs=22.6

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..++..+.-.++.||||||||+++..++..+
T Consensus        10 i~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen   10 IQSALSSNGITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCEEEECCCCCChHHHHHHHHHHh
Confidence            44455444448999999999999888777665

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.93  E-value=0.012  Score=62.59  Aligned_cols=34  Identities=24%  Similarity=0.291  Sum_probs=27.5

Q ss_pred             HHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        398 IMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       398 ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      +.+.+...+..++++||+|||||+++++++..+.
T Consensus       114 l~~~~~~~~g~ili~G~tGSGKTT~l~al~~~i~  147 (343)
T TIGR01420       114 LRELAERPRGLILVTGPTGSGKSTTLASMIDYIN  147 (343)
T ss_pred             HHHHHhhcCcEEEEECCCCCCHHHHHHHHHHhhC
Confidence            3444445677899999999999999999988763

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.

>KOG3347|consensus

Probab=95.93  E-value=0.012  Score=54.17  Aligned_cols=133  Identities=20%  Similarity=0.250  Sum_probs=70.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc-cCCCCCeEEEEecCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL-GAPLGKRLAVFVDDV  483 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~-~p~~gk~~vlfiDDl  483 (583)
                      .+-++|++|-||||||+++..++...    ++.  .|+.|....-               +..| |-...-++ .++|| 
T Consensus         6 ~~PNILvtGTPG~GKstl~~~lae~~----~~~--~i~isd~vkE---------------n~l~~gyDE~y~c-~i~DE-   62 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKSTLAERLAEKT----GLE--YIEISDLVKE---------------NNLYEGYDEEYKC-HILDE-   62 (176)
T ss_pred             cCCCEEEeCCCCCCchhHHHHHHHHh----CCc--eEehhhHHhh---------------hcchhcccccccC-ccccH-
Confidence            45689999999999999999998754    222  3444432211               1111 11122222 34454 


Q ss_pred             CCCCcccCCCCChHHHHHHHHHhCCee-ecCCCeeE--eecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHH
Q psy17974        484 NMPKLETYGAQPPIELLRQFLDFGGLY-DRDKMFWK--TLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTL  560 (583)
Q Consensus       484 n~p~~d~yg~q~~lElLRq~ld~~g~y-d~~~~~~~--~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl  560 (583)
                           |     .++.-|.-.+..||.. |.+...+.  ..-|..||..|-..     .|-.||..|-       .++.-+
T Consensus        63 -----d-----kv~D~Le~~m~~Gg~IVDyHgCd~FperwfdlVvVLr~~~s-----~LY~RL~sRg-------Y~e~Ki  120 (176)
T KOG3347|consen   63 -----D-----KVLDELEPLMIEGGNIVDYHGCDFFPERWFDLVVVLRTPNS-----VLYDRLKSRG-------YSEKKI  120 (176)
T ss_pred             -----H-----HHHHHHHHHHhcCCcEEeecccCccchhheeEEEEEecCch-----HHHHHHHHcC-------CCHHHH
Confidence                 1     2445555555446543 33322111  11255566655332     4667776553       233322


Q ss_pred             H-----HHHHHHhcccccCCCcccccc
Q psy17974        561 K-----VIFKVRTSPGKQEGTSSILAE  582 (583)
Q Consensus       561 ~-----~I~~~~l~~~l~~~~~~~~~~  582 (583)
                      .     .||+++++..-.++.+.|+.|
T Consensus       121 ~eNiecEIfgv~~eea~eSy~~~iV~e  147 (176)
T KOG3347|consen  121 KENIECEIFGVVLEEARESYSPKIVVE  147 (176)
T ss_pred             hhhcchHHHHHHHHHHHHHcCCcceee
Confidence            2     388888876666666666654

>PRK08118 topology modulation protein; Reviewed

Probab=95.89  E-value=0.0062  Score=57.82  Aligned_cols=24  Identities=33%  Similarity=0.612  Sum_probs=21.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.++++||||||||++++.+.+.+
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l   25 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKL   25 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999998876

>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=95.87  E-value=0.024  Score=52.32  Aligned_cols=71  Identities=18%  Similarity=0.258  Sum_probs=42.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceE----EEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEE
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAA----LTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAV  478 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~----~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vl  478 (583)
                      +..|..+.+.||+|+|||++++.+........+-..    ..+.+..+.+..+.|++...+.-          ..++-++
T Consensus        23 ~~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~~~~i~~~~~lS~G~~~rv~laral----------~~~p~il   92 (144)
T cd03221          23 INPGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIGYFEQLSGGEKMRLALAKLL----------LENPNLL   92 (144)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECCeEEEEEEccCCHHHHHHHHHHHHH----------hcCCCEE
Confidence            557889999999999999999988765422222111    12344444555665554322211          1123378


Q ss_pred             EecCC
Q psy17974        479 FVDDV  483 (583)
Q Consensus       479 fiDDl  483 (583)
                      ++||-
T Consensus        93 llDEP   97 (144)
T cd03221          93 LLDEP   97 (144)
T ss_pred             EEeCC
Confidence            88994

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.

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=95.85  E-value=0.0018  Score=66.36  Aligned_cols=33  Identities=21%  Similarity=0.319  Sum_probs=21.8

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEE
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTIN  442 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~  442 (583)
                      |+|+|-||||||++++.+...+. ..++.+..++
T Consensus         4 iil~G~P~SGKTt~a~~L~~~~~-~~~~~v~~i~   36 (270)
T PF08433_consen    4 IILCGLPCSGKTTRAKELKKYLE-EKGKEVVIIS   36 (270)
T ss_dssp             EEEE--TTSSHHHHHHHHHHHHH-HTT--EEEE-
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHH-hcCCEEEEEc
Confidence            68999999999999999888763 2345555443

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK13764 ATPase; Provisional

Probab=95.85  E-value=0.012  Score=66.49  Aligned_cols=35  Identities=20%  Similarity=0.364  Sum_probs=30.4

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .+++.+...+.++|++||||||||+++++++..+.
T Consensus       248 ~l~~~l~~~~~~ILIsG~TGSGKTTll~AL~~~i~  282 (602)
T PRK13764        248 KLKERLEERAEGILIAGAPGAGKSTFAQALAEFYA  282 (602)
T ss_pred             HHHHHHHhcCCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45677778889999999999999999999988764

>PHA02624 large T antigen; Provisional

Probab=95.85  E-value=0.017  Score=64.77  Aligned_cols=36  Identities=22%  Similarity=0.323  Sum_probs=28.4

Q ss_pred             HHHHHHHHHhc---CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        395 FGSIMEKLLLV---NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       395 ~~~ll~~~l~~---~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ....++.++++   ++-++|.||+|||||+++.++++-+
T Consensus       417 ~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L  455 (647)
T PHA02624        417 IYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLC  455 (647)
T ss_pred             HHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            33445555554   4578999999999999999999987

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.83  E-value=0.01  Score=57.82  Aligned_cols=24  Identities=29%  Similarity=0.490  Sum_probs=21.1

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      -++++||+|||||++++.++..+.
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~   26 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYIN   26 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhh
Confidence            379999999999999999888763

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=95.78  E-value=0.0079  Score=56.54  Aligned_cols=26  Identities=23%  Similarity=0.542  Sum_probs=23.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+..++|+|+||||||++++.+++.+
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999999876

>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=95.73  E-value=0.075  Score=54.59  Aligned_cols=89  Identities=22%  Similarity=0.393  Sum_probs=62.1

Q ss_pred             ccccEEEEecCCCCCCCCCchHHHhcccceeeecCCcch-------hHHHHhhcccccc-----hHHHHHHHHHHHHHHH
Q psy17974        143 PSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGL-------IAEVVLYSEGFES-----SKNLAQKMVNMYKLCS  210 (583)
Q Consensus       143 ~~~~ifiTmnp~y~gr~eLP~nlk~lfr~~~m~~pd~~~-------I~e~~l~~~gf~~-----a~~l~~k~~~~~~~~~  210 (583)
                      .++.+-.+|||+ +||..+|.-+.+.|+-+++..|+-+-       |.+..|...+|..     +..+.+-.+.+|+..+
T Consensus       147 ~~i~~vaa~~p~-~Gr~~is~R~~r~f~i~~~~~p~~~sl~~If~~il~~~l~~~~f~~~v~~~~~~lv~ati~ly~~i~  225 (272)
T PF12775_consen  147 EDIQFVAAMNPT-GGRNPISPRFLRHFNILNIPYPSDESLNTIFSSILQSHLKNGGFPEDVQKLADKLVQATIELYQKIR  225 (272)
T ss_dssp             CSEEEEEEESST-TT--SHHHHHHTTEEEEE----TCCHHHHHHHHHHHHHTCHTTSSGGGCCCHHHHHHHHHHHHHHHH
T ss_pred             eeeEEEEecCCC-CCCCCCChHHhhheEEEEecCCChHHHHHHHHHHHhhhcccCCCChHHHHHHHHHHHHHHHHHHhhh
Confidence            456677899995 59999999999999999999998753       3333343456743     5567777888998888


Q ss_pred             hhCCC---CccccccchhHHHHHHH
Q psy17974        211 EQLSQ---QDHYDFGMRAVKSVLVM  232 (583)
Q Consensus       211 ~~ls~---q~hydfglR~lk~vl~~  232 (583)
                      +++-+   ..||-|.||.+-.|+.-
T Consensus       226 ~~~~ptp~k~HY~FnlRDlsrv~qG  250 (272)
T PF12775_consen  226 QQFLPTPSKPHYTFNLRDLSRVFQG  250 (272)
T ss_dssp             HHS-TTTTCTTTTSHHHHHHHHHHH
T ss_pred             cccCCCCccceeeccHHHHHHHHHH
Confidence            88743   36999999999999853

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=95.73  E-value=0.034  Score=59.23  Aligned_cols=99  Identities=20%  Similarity=0.235  Sum_probs=54.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh--cccCCceEEEEEeccCCChHHHHHHHHhhh-hhhcCccc----------c---C
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL--LASNTWAALTINFSAQTSSARTQEILEGKL-DKRTKTLL----------G---A  470 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l--~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l-~~~~~~~~----------~---p  470 (583)
                      +-+++.|.||||||.++-+++..+  .. .....+.+..+... ...++..+.... ....+..+          .   .
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~-~~~~~~~l~~n~~l-~~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~   79 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNSE-EGKKVLYLCGNHPL-RNKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDK   79 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhccc-cCCceEEEEecchH-HHHHHHHHhhhcccchhhhhhhhhHHHHhhcccccc
Confidence            357899999999999999999877  22 23334445444422 233444443332 11111111          1   1


Q ss_pred             CCCCeEEEEecCCCCCCc--ccCCCCChHHHHHHHHHhC
Q psy17974        471 PLGKRLAVFVDDVNMPKL--ETYGAQPPIELLRQFLDFG  507 (583)
Q Consensus       471 ~~gk~~vlfiDDln~p~~--d~yg~q~~lElLRq~ld~~  507 (583)
                      +..+--+++|||.|....  +.+....-.+.|..++...
T Consensus        80 ~~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~~  118 (352)
T PF09848_consen   80 EKNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKRA  118 (352)
T ss_pred             cCCcCCEEEEehhHhhhhccccccccccHHHHHHHHhcC
Confidence            223456889999997655  2222222345566666543

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=95.72  E-value=0.015  Score=55.81  Aligned_cols=25  Identities=24%  Similarity=0.728  Sum_probs=23.5

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++++|+||+|+|||++++.+++..
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~   26 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEF   26 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            6899999999999999999999976

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>KOG0482|consensus

Probab=95.71  E-value=0.0049  Score=66.68  Aligned_cols=157  Identities=16%  Similarity=0.169  Sum_probs=84.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC--CChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ--TSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~--Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDD  482 (583)
                      .+.||+|.|.||+.||.+++.+.+-- ....|.+-  .-|+.  .|+.-..+-+-+.+. -.||.+.-.  ...|..|||
T Consensus       374 GdINicLmGDPGVAKSQLLkyi~rla-pRgvYTTG--rGSSGVGLTAAVmkDpvTgEM~-LEGGALVLA--D~GICCIDE  447 (721)
T KOG0482|consen  374 GDINICLMGDPGVAKSQLLKYISRLA-PRGVYTTG--RGSSGVGLTAAVMKDPVTGEMV-LEGGALVLA--DGGICCIDE  447 (721)
T ss_pred             cceeEEecCCCchhHHHHHHHHHhcC-cccceecC--CCCCccccchhhhcCCCCCeeE-eccceEEEc--cCceEeehh
Confidence            35689999999999999999876632 23323221  11111  122111111111111 012222111  133668999


Q ss_pred             CC-CCCcccCCCCChHHHHHHH---HHhCCeeecCCCeeEeecCeEEEEecCCCCCC---------CCCCChhhhccceE
Q psy17974        483 VN-MPKLETYGAQPPIELLRQF---LDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG---------RMPLTPRFVRHFGL  549 (583)
Q Consensus       483 ln-~p~~d~yg~q~~lElLRq~---ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g---------r~~l~~Rllr~f~v  549 (583)
                      ++ |...|.   ..+.|.+.|-   +..-|.-.      .--.++.++||.||..|-         ...+|+.|+++|-+
T Consensus       448 fDKM~e~DR---tAIHEVMEQQTISIaKAGI~T------tLNAR~sILaAANPayGRYnprrs~e~NI~LPaALLSRFDl  518 (721)
T KOG0482|consen  448 FDKMDESDR---TAIHEVMEQQTISIAKAGINT------TLNARTSILAAANPAYGRYNPRRSPEQNINLPAALLSRFDL  518 (721)
T ss_pred             hhhhhhhhh---HHHHHHHHhhhhhhhhhcccc------chhhhHHhhhhcCccccccCcccChhHhcCCcHHHHHhhhh
Confidence            97 344443   3355666552   22223211      112468899999997542         14689999999987


Q ss_pred             EE--eCCCCHHHHHHHHHHHhcccccCCC
Q psy17974        550 LS--LPSPTEDTLKVIFKVRTSPGKQEGT  576 (583)
Q Consensus       550 i~--i~~p~~~sl~~I~~~~l~~~l~~~~  576 (583)
                      ++  .+.|+.++=...-+.+.--|..+..
T Consensus       519 l~Li~D~pdrd~D~~LA~HiTyVH~H~~q  547 (721)
T KOG0482|consen  519 LWLIQDRPDRDNDLRLAQHITYVHQHEEQ  547 (721)
T ss_pred             hhhhccCCcccchHHHHHHhHhhhccCCC
Confidence            55  4678776655555555555554433

>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=95.65  E-value=0.022  Score=54.29  Aligned_cols=44  Identities=25%  Similarity=0.277  Sum_probs=29.2

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHH
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +++.||||||||+++..++.... +.+-.+..+  |...+++++.+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~-~~g~~v~~~--s~e~~~~~~~~~   45 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL-ARGEPGLYV--TLEESPEELIEN   45 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH-HCCCcEEEE--ECCCCHHHHHHH
Confidence            78999999999999998876542 223344444  444556665443

A related protein is found in archaea.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=95.61  E-value=0.0098  Score=54.84  Aligned_cols=23  Identities=35%  Similarity=0.642  Sum_probs=21.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++|+|++|||||++++.+...+
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998876

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>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=95.60  E-value=0.0091  Score=56.79  Aligned_cols=65  Identities=14%  Similarity=0.244  Sum_probs=33.8

Q ss_pred             EEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhcc--ceEEEeC
Q psy17974        476 LAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRH--FGLLSLP  553 (583)
Q Consensus       476 ~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~--f~vi~i~  553 (583)
                      -+++||||--.+..   ++.-.+.++.+++               .+..+||+.....  ..++-+++.+|  +.++.+.
T Consensus        97 ~liviDEIG~mEl~---~~~F~~~v~~~l~---------------s~~~vi~vv~~~~--~~~~l~~i~~~~~~~i~~vt  156 (168)
T PF03266_consen   97 DLIVIDEIGKMELK---SPGFREAVEKLLD---------------SNKPVIGVVHKRS--DNPFLEEIKRRPDVKIFEVT  156 (168)
T ss_dssp             HEEEE---STTCCC----CHHHHHHHHHHC---------------TTSEEEEE--SS----SCCHHHHHTTTTSEEEE--
T ss_pred             CEEEEeccchhhhc---CHHHHHHHHHHHc---------------CCCcEEEEEecCC--CcHHHHHHHhCCCcEEEEeC
Confidence            37788998654433   2334566666665               1344677755431  24577788887  7888887


Q ss_pred             CCCHHHH
Q psy17974        554 SPTEDTL  560 (583)
Q Consensus       554 ~p~~~sl  560 (583)
                      .-+.+.+
T Consensus       157 ~~NRd~l  163 (168)
T PF03266_consen  157 EENRDAL  163 (168)
T ss_dssp             TTTCCCH
T ss_pred             hhHHhhH
Confidence            7665544

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.

>PRK10536 hypothetical protein; Provisional

Probab=95.59  E-value=0.033  Score=56.40  Aligned_cols=52  Identities=13%  Similarity=0.209  Sum_probs=34.3

Q ss_pred             hhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHh-hcccCCceEEEEEecc
Q psy17974        392 TIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNK-LLASNTWAALTINFSA  445 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~-l~~~~~~~~~~i~fS~  445 (583)
                      +.....++..+ ..+..|+++||+|||||+++.+++.. +. ...+..+.+.-+.
T Consensus        61 n~~Q~~~l~al-~~~~lV~i~G~aGTGKT~La~a~a~~~l~-~~~~~kIiI~RP~  113 (262)
T PRK10536         61 NEAQAHYLKAI-ESKQLIFATGEAGCGKTWISAAKAAEALI-HKDVDRIIVTRPV  113 (262)
T ss_pred             CHHHHHHHHHH-hcCCeEEEECCCCCCHHHHHHHHHHHHHh-cCCeeEEEEeCCC
Confidence            34444455544 45679999999999999999988663 32 2346666554333

>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=95.56  E-value=0.012  Score=47.18  Aligned_cols=22  Identities=36%  Similarity=0.670  Sum_probs=20.0

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.++|++|+|||++++.+.+.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999998875

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.

>PRK14530 adenylate kinase; Provisional

Probab=95.53  E-value=0.014  Score=57.65  Aligned_cols=25  Identities=16%  Similarity=0.448  Sum_probs=22.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..++++||||||||++++.+++.+
T Consensus         3 ~~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          3 QPRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            5679999999999999999998876

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=95.52  E-value=0.34  Score=50.46  Aligned_cols=140  Identities=11%  Similarity=0.144  Sum_probs=80.4

Q ss_pred             HHHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhc-------ccCCceEEEEEec--c-CCChHHHHHHHHhhhhhhc
Q psy17974        398 IMEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLL-------ASNTWAALTINFS--A-QTSSARTQEILEGKLDKRT  464 (583)
Q Consensus       398 ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~-------~~~~~~~~~i~fS--~-~Tt~~~lq~~ie~~l~~~~  464 (583)
                      .++..++.|   +-.|++|+.|.||+.+++.+++.+.       ..+.+....+.+.  . ..+.+++...++. +    
T Consensus         7 ~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir~l~~~-~----   81 (299)
T PRK07132          7 FLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFLSAINK-L----   81 (299)
T ss_pred             HHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHHHHHHH-h----
Confidence            345555554   4557999999999999999988761       1111111112222  2 2333444433211 1    


Q ss_pred             CccccC-CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhh
Q psy17974        465 KTLLGA-PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRF  543 (583)
Q Consensus       465 ~~~~~p-~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rl  543 (583)
                        .+.| ..|.+=|++|||.+.-.     .+ +...|.-.+|.     +       ..++.+|-.++.+    ..+-+-+
T Consensus        82 --~~~~~~~~~~KvvII~~~e~m~-----~~-a~NaLLK~LEE-----P-------p~~t~~il~~~~~----~kll~TI  137 (299)
T PRK07132         82 --YFSSFVQSQKKILIIKNIEKTS-----NS-LLNALLKTIEE-----P-------PKDTYFLLTTKNI----NKVLPTI  137 (299)
T ss_pred             --ccCCcccCCceEEEEecccccC-----HH-HHHHHHHHhhC-----C-------CCCeEEEEEeCCh----HhChHHH
Confidence              1233 22455578899964322     22 23334444442     1       2345566555444    3688889


Q ss_pred             hccceEEEeCCCCHHHHHHHHHH
Q psy17974        544 VRHFGLLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       544 lr~f~vi~i~~p~~~sl~~I~~~  566 (583)
                      .+|+.++.+.+++.+.+......
T Consensus       138 ~SRc~~~~f~~l~~~~l~~~l~~  160 (299)
T PRK07132        138 VSRCQVFNVKEPDQQKILAKLLS  160 (299)
T ss_pred             HhCeEEEECCCCCHHHHHHHHHH
Confidence            99999999999999998866554

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.51  E-value=0.026  Score=57.75  Aligned_cols=33  Identities=39%  Similarity=0.456  Sum_probs=25.9

Q ss_pred             HHHHHh-cCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        399 MEKLLL-VNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       399 l~~~l~-~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      +..++. .+..++++||+|||||+++++++..+.
T Consensus        72 l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~  105 (264)
T cd01129          72 FRKLLEKPHGIILVTGPTGSGKTTTLYSALSELN  105 (264)
T ss_pred             HHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhC
Confidence            344444 455799999999999999999988763

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.

>PHA00729 NTP-binding motif containing protein

Probab=95.51  E-value=0.01  Score=59.03  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=21.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+++++|+||||||+++..++..+
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            489999999999999999998865

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.50  E-value=0.012  Score=56.17  Aligned_cols=25  Identities=24%  Similarity=0.505  Sum_probs=22.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |+-++|+|+||||||++++.+...+
T Consensus         2 ~~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           2 GRIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            5678999999999999999998865

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=95.49  E-value=0.025  Score=55.22  Aligned_cols=51  Identities=20%  Similarity=0.184  Sum_probs=35.5

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEG  458 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~  458 (583)
                      |.-++++||||||||+++..++.... ..+..++++.+-. .++..+.+..++
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~~-~~g~~v~yi~~e~-~~~~rl~~~~~~   62 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNAA-RQGKKVVYIDTEG-LSPERFKQIAED   62 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEECCC-CCHHHHHHHHHh
Confidence            45689999999999999998876542 2244566666643 466666665443

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>KOG1808|consensus

Probab=95.49  E-value=0.0074  Score=74.75  Aligned_cols=158  Identities=20%  Similarity=0.193  Sum_probs=106.4

Q ss_pred             chhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc
Q psy17974        390 IDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG  469 (583)
Q Consensus       390 ~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~  469 (583)
                      +++.-+.+.+-......+|+++.|+||+|||.++.++....    ++..+.+|.|-+|.-..+-            |...
T Consensus      1030 ~t~~~nl~~~l~~~~l~~p~~leg~sg~gktsl~~~l~~~~----G~~~~r~nl~~qtdl~dl~------------g~~~ 1093 (1856)
T KOG1808|consen 1030 PTTSENLRRVLRALGLPKPILLEGESGSGKTSLVLALGRLT----GKWTIRLNLSDQTDLADLF------------GSDV 1093 (1856)
T ss_pred             hHHHHHHHHHHHhccCCccccccCCCCCCccchhhhhhhhc----ccceeccccccccccchhc------------CccC
Confidence            33444555555666678999999999999999999988864    4456668888888643322            1122


Q ss_pred             CCCCCeEEEEecCCCCCCccc--CCCCChHHHHHHHHHhCCe-ee-cCCCeeEeecCeEEEEecCCC--CCCCCCCChhh
Q psy17974        470 APLGKRLAVFVDDVNMPKLET--YGAQPPIELLRQFLDFGGL-YD-RDKMFWKTLQDVVLCTACAPP--GGGRMPLTPRF  543 (583)
Q Consensus       470 p~~gk~~vlfiDDln~p~~d~--yg~q~~lElLRq~ld~~g~-yd-~~~~~~~~i~~i~~iaa~~p~--~~gr~~l~~Rl  543 (583)
                      |-.+.-    -.|...-..++  -.+|.++|-|....||.+= |- .-+..|..-.+..+.|+-||.  +|||+.++..+
T Consensus      1094 pve~~~----~~d~ell~a~~~~l~sqsv~Eglna~~D~R~e~~i~El~~~~~~~~~~~~fa~~npd~q~g~r~~lp~sf 1169 (1856)
T KOG1808|consen 1094 PVEGEE----WEDSELLAADKNGLASQSVLEGLNACLDHRNEVFIAELDRSFKLPTDERIFACDNPDVQGGGRNGLPESF 1169 (1856)
T ss_pred             CCCCcc----ccccHHHhhhhccccchhhhhchhHhhhhhhhhhhhhhhhccccCCcccchhccCcchhccCccCCcchh
Confidence            221111    11222211221  2367889988888887653 43 235577766777888888885  48999999999


Q ss_pred             hccceEEEeCCCCHHHHHHHHHHH
Q psy17974        544 VRHFGLLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       544 lr~f~vi~i~~p~~~sl~~I~~~~  567 (583)
                      ..+|..+++.....+.+..|....
T Consensus      1170 ~nrf~~~~~~~~~~~d~~~~~~~~ 1193 (1856)
T KOG1808|consen 1170 INRFPDVFMNDLYEEDILIILFDV 1193 (1856)
T ss_pred             hhhhhhhhcccccccccceecccc
Confidence            999999999888887776655443

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=95.49  E-value=0.02  Score=51.58  Aligned_cols=40  Identities=28%  Similarity=0.460  Sum_probs=33.0

Q ss_pred             hhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        392 TIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      |.+....+...+..+.-|+|.|+=|+|||++++.+++.+.
T Consensus         1 T~~la~~l~~~l~~g~vi~L~GdLGaGKTtf~r~l~~~lg   40 (123)
T PF02367_consen    1 TIRLAKKLAQILKPGDVILLSGDLGAGKTTFVRGLARALG   40 (123)
T ss_dssp             HHHHHHHHHHHHSS-EEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3455566677788899999999999999999999999873

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PRK14532 adenylate kinase; Provisional

Probab=95.48  E-value=0.013  Score=56.33  Aligned_cols=23  Identities=17%  Similarity=0.368  Sum_probs=21.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++++||||||||++++.+++.+
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998865

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=95.47  E-value=0.026  Score=57.40  Aligned_cols=52  Identities=25%  Similarity=0.222  Sum_probs=37.7

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILE  457 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie  457 (583)
                      +..|..+|++|+||||||+++.+++.+.. .++..++.+.++.  ++..+.+...
T Consensus        20 ~p~g~~~lI~G~pGsGKT~f~~qfl~~~~-~~ge~vlyvs~~e--~~~~l~~~~~   71 (260)
T COG0467          20 LPRGSVVLITGPPGTGKTIFALQFLYEGA-REGEPVLYVSTEE--SPEELLENAR   71 (260)
T ss_pred             CcCCcEEEEEcCCCCcHHHHHHHHHHHHH-hcCCcEEEEEecC--CHHHHHHHHH
Confidence            44678999999999999999999987753 3345566665544  5666665543

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=95.46  E-value=0.014  Score=55.72  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=20.2

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++++||||||||++++.+++.+
T Consensus         2 i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6899999999999999998865

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>PRK07261 topology modulation protein; Provisional

Probab=95.46  E-value=0.011  Score=56.21  Aligned_cols=23  Identities=26%  Similarity=0.538  Sum_probs=20.5

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++++|+||||||++++.+...+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            58999999999999999987764

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=95.41  E-value=0.014  Score=45.99  Aligned_cols=24  Identities=29%  Similarity=0.469  Sum_probs=20.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ...+|+||+|+|||+++.++.--+
T Consensus        24 ~~tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   24 DVTLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999999887655

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=95.39  E-value=0.017  Score=61.63  Aligned_cols=33  Identities=30%  Similarity=0.521  Sum_probs=27.6

Q ss_pred             HHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        398 IMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       398 ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.+.+...+..|+++||+|||||+++++++..+
T Consensus       126 ~~~~~~~~~glilI~GpTGSGKTTtL~aLl~~i  158 (358)
T TIGR02524       126 IIDAIAPQEGIVFITGATGSGKSTLLAAIIREL  158 (358)
T ss_pred             HHHHHhccCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            455555577899999999999999999998765

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.35  E-value=0.02  Score=52.56  Aligned_cols=35  Identities=20%  Similarity=0.331  Sum_probs=25.6

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      ++++||||+|||+++..++..... .+-.+..+.+.
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~-~~~~v~~~~~e   36 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIAT-KGGKVVYVDIE   36 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHh-cCCEEEEEECC
Confidence            689999999999999999876632 23345555443

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.

>PRK03839 putative kinase; Provisional

Probab=95.35  E-value=0.016  Score=55.38  Aligned_cols=23  Identities=43%  Similarity=0.683  Sum_probs=21.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++|+|+||||||++++.+++.+
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999876

>KOG0741|consensus

Probab=95.34  E-value=0.013  Score=63.95  Aligned_cols=67  Identities=22%  Similarity=0.269  Sum_probs=39.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHh-hhhh---hcCccccCCCCCeEEEEecC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEG-KLDK---RTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~-~l~~---~~~~~~~p~~gk~~vlfiDD  482 (583)
                      ..|||.||||||||+++..++..    +.+..+.+     .+|+++.++-|+ ++..   .-...|.   ..-.|+.+||
T Consensus       539 vSvLl~Gp~~sGKTaLAA~iA~~----S~FPFvKi-----iSpe~miG~sEsaKc~~i~k~F~DAYk---S~lsiivvDd  606 (744)
T KOG0741|consen  539 VSVLLEGPPGSGKTALAAKIALS----SDFPFVKI-----ISPEDMIGLSESAKCAHIKKIFEDAYK---SPLSIIVVDD  606 (744)
T ss_pred             eEEEEecCCCCChHHHHHHHHhh----cCCCeEEE-----eChHHccCccHHHHHHHHHHHHHHhhc---CcceEEEEcc
Confidence            37899999999999999988874    24555544     233443333332 1211   1112222   2234888999


Q ss_pred             CCC
Q psy17974        483 VNM  485 (583)
Q Consensus       483 ln~  485 (583)
                      |-.
T Consensus       607 iEr  609 (744)
T KOG0741|consen  607 IER  609 (744)
T ss_pred             hhh
Confidence            854

>PRK14531 adenylate kinase; Provisional

Probab=95.34  E-value=0.013  Score=56.26  Aligned_cols=24  Identities=25%  Similarity=0.414  Sum_probs=21.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.++++||||||||++++.+++.+
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            569999999999999999998875

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.33  E-value=0.012  Score=56.01  Aligned_cols=25  Identities=24%  Similarity=0.555  Sum_probs=22.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |+.+.|+||+|||||++++.++...
T Consensus         1 g~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         1 GLLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHccC
Confidence            5678999999999999999988754

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.29  E-value=0.013  Score=56.53  Aligned_cols=25  Identities=16%  Similarity=0.337  Sum_probs=22.0

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |..+.|+||+|||||++++.++..+
T Consensus         2 g~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          2 GKLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccC
Confidence            5689999999999999999987754

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=95.28  E-value=0.023  Score=53.56  Aligned_cols=30  Identities=27%  Similarity=0.514  Sum_probs=25.3

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..+++. +-++|+|++|+|||++++.++..
T Consensus        29 l~~~l~~-k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   29 LKELLKG-KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             HHHHHTT-SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             HHHHhcC-CEEEEECCCCCCHHHHHHHHHhh
Confidence            4455555 89999999999999999999875

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.28  E-value=0.018  Score=54.79  Aligned_cols=29  Identities=28%  Similarity=0.460  Sum_probs=24.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ...+.-++++|++|||||++++.+...+.
T Consensus         4 ~~~~~~I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541          4 KPNGYVIWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            34567899999999999999999988773

>PRK13947 shikimate kinase; Provisional

Probab=95.28  E-value=0.017  Score=54.39  Aligned_cols=23  Identities=30%  Similarity=0.625  Sum_probs=21.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++|+|+||||||++++.+++.+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999877

>COG1485 Predicted ATPase [General function prediction only]

Probab=95.27  E-value=0.077  Score=55.64  Aligned_cols=124  Identities=16%  Similarity=0.217  Sum_probs=70.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcc-ccCC-----CCCeEEEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTL-LGAP-----LGKRLAVF  479 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~-~~p~-----~gk~~vlf  479 (583)
                      .+.+.|.|+-|+|||+|+..+...++...   -..++|..      +..-+-..+.+.+|.. ..|+     .+.--|+.
T Consensus        65 ~~GlYl~GgVGrGKT~LMD~Fy~~lp~~~---k~R~HFh~------FM~~vH~~l~~l~g~~dpl~~iA~~~~~~~~vLC  135 (367)
T COG1485          65 VRGLYLWGGVGRGKTMLMDLFYESLPGER---KRRLHFHR------FMARVHQRLHTLQGQTDPLPPIADELAAETRVLC  135 (367)
T ss_pred             CceEEEECCCCccHHHHHHHHHhhCCccc---cccccHHH------HHHHHHHHHHHHcCCCCccHHHHHHHHhcCCEEE
Confidence            47899999999999999999998874221   12333332      2222333443333322 1122     12233677


Q ss_pred             ecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC-CC-CCCCCCh--------hhhccceE
Q psy17974        480 VDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-GG-GRMPLTP--------RFVRHFGL  549 (583)
Q Consensus       480 iDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~-~~-gr~~l~~--------Rllr~f~v  549 (583)
                      +||+..-...  .+--.--|++.++.               .+|.+|||.|.+ .. +++-+..        -+.+||.|
T Consensus       136 fDEF~VtDI~--DAMiL~rL~~~Lf~---------------~GV~lvaTSN~~P~~LY~dGlqR~~FLP~I~li~~~~~v  198 (367)
T COG1485         136 FDEFEVTDIA--DAMILGRLLEALFA---------------RGVVLVATSNTAPDNLYKDGLQRERFLPAIDLIKSHFEV  198 (367)
T ss_pred             eeeeeecChH--HHHHHHHHHHHHHH---------------CCcEEEEeCCCChHHhcccchhHHhhHHHHHHHHHheEE
Confidence            8998763321  11112245556654               358899999964 21 2222222        23579999


Q ss_pred             EEeCCC
Q psy17974        550 LSLPSP  555 (583)
Q Consensus       550 i~i~~p  555 (583)
                      ++++.|
T Consensus       199 ~~vD~~  204 (367)
T COG1485         199 VNVDGP  204 (367)
T ss_pred             EEecCC
Confidence            999998

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.27  E-value=0.014  Score=55.56  Aligned_cols=24  Identities=21%  Similarity=0.361  Sum_probs=21.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-++++||+|||||++++.++..+
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            457999999999999999887765

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=95.24  E-value=0.016  Score=50.85  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=20.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|+++|++|+|||++++.++..-
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEECcCCCCHHHHHHHHhcCC
Confidence            37899999999999999998753

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.23  E-value=0.025  Score=57.97  Aligned_cols=45  Identities=22%  Similarity=0.472  Sum_probs=32.9

Q ss_pred             eeeCchhhhHHHHHHHHHhcCC-ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        386 MVPTIDTIRFGSIMEKLLLVNH-PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       386 ~VpT~dt~r~~~ll~~~l~~~~-~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -|||.+-...-.++..++...+ =||+.||+|||||+++.+++..+
T Consensus       104 ~i~~~e~LglP~i~~~~~~~~~GLILVTGpTGSGKSTTlAamId~i  149 (353)
T COG2805         104 KIPTLEELGLPPIVRELAESPRGLILVTGPTGSGKSTTLAAMIDYI  149 (353)
T ss_pred             cCCCHHHcCCCHHHHHHHhCCCceEEEeCCCCCcHHHHHHHHHHHH
Confidence            3556555555555666666655 56888999999999999988766

>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.23  E-value=0.034  Score=58.28  Aligned_cols=32  Identities=19%  Similarity=0.322  Sum_probs=29.7

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+++.+++++++|++|+|||+++++++.-.
T Consensus       136 L~~~ie~~~siii~G~t~sGKTt~lnall~~I  167 (312)
T COG0630         136 LWLAIEARKSIIICGGTASGKTTLLNALLDFI  167 (312)
T ss_pred             HHHHHHcCCcEEEECCCCCCHHHHHHHHHHhC
Confidence            78889999999999999999999999998765

>PRK00625 shikimate kinase; Provisional

Probab=95.23  E-value=0.019  Score=54.88  Aligned_cols=23  Identities=26%  Similarity=0.517  Sum_probs=21.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++|+|.||||||++++.+.+.+
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999998876

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=95.22  E-value=0.22  Score=51.50  Aligned_cols=133  Identities=11%  Similarity=0.121  Sum_probs=75.6

Q ss_pred             hHHHHHHHHHhc--CCceEEEccCCCcHHHHHHHHHHhhcccC-----------Cc-eEEEEEeccC----CChHHHHHH
Q psy17974        394 RFGSIMEKLLLV--NHPVMFTGVTGVGKTVVARSILNKLLASN-----------TW-AALTINFSAQ----TSSARTQEI  455 (583)
Q Consensus       394 r~~~ll~~~l~~--~~~vLL~Gp~GtGKT~li~~~l~~l~~~~-----------~~-~~~~i~fS~~----Tt~~~lq~~  455 (583)
                      .+..+...+-..  .+..|++||.|+||+.++..+++.+.-..           .+ .+..+ +...    .+.+++..+
T Consensus         5 ~~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i-~p~~~~~~I~idqiR~l   83 (290)
T PRK05917          5 AWEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEF-SPQGKGRLHSIETPRAI   83 (290)
T ss_pred             HHHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEE-ecCCCCCcCcHHHHHHH
Confidence            344444443332  35789999999999999998887652100           00 11111 1111    123333222


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                       ...+.      +.|..|++=|++||+.+.-..+     ....+|+-+=|      +       ..++.|+-.++.+.  
T Consensus        84 -~~~~~------~~p~e~~~kv~ii~~ad~mt~~-----AaNaLLK~LEE------P-------p~~~~fiL~~~~~~--  136 (290)
T PRK05917         84 -KKQIW------IHPYESPYKIYIIHEADRMTLD-----AISAFLKVLED------P-------PQHGVIILTSAKPQ--  136 (290)
T ss_pred             -HHHHh------hCccCCCceEEEEechhhcCHH-----HHHHHHHHhhc------C-------CCCeEEEEEeCChh--
Confidence             12222      3455566667889998765543     34556654433      1       23556666655554  


Q ss_pred             CCCCChhhhccceEEEeCCCC
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPT  556 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~  556 (583)
                        .+.|-+.+|+.++.++.+.
T Consensus       137 --~ll~TI~SRcq~~~~~~~~  155 (290)
T PRK05917        137 --RLPPTIRSRSLSIHIPMEE  155 (290)
T ss_pred             --hCcHHHHhcceEEEccchh
Confidence              6888999999999998653

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=95.22  E-value=0.02  Score=61.36  Aligned_cols=34  Identities=29%  Similarity=0.407  Sum_probs=28.0

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+++.++..+..++++||+|||||++++++++.+
T Consensus       140 ~~~~~l~~~~GlilI~G~TGSGKTT~l~al~~~i  173 (372)
T TIGR02525       140 DLFNSLLPAAGLGLICGETGSGKSTLAASIYQHC  173 (372)
T ss_pred             HHHHHHHhcCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3455666677789999999999999999998765

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase

Probab=95.21  E-value=0.029  Score=59.42  Aligned_cols=37  Identities=19%  Similarity=0.396  Sum_probs=32.1

Q ss_pred             HHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        395 FGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       395 ~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ...++..++..+.+++++|++|+|||++++.++..+.
T Consensus       167 ~~~~L~~~v~~~~~ili~G~tGsGKTTll~al~~~i~  203 (340)
T TIGR03819       167 VARLLRAIVAARLAFLISGGTGSGKTTLLSALLALVA  203 (340)
T ss_pred             HHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHccCC
Confidence            3466788899999999999999999999999887663

Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.21  E-value=0.014  Score=54.77  Aligned_cols=22  Identities=32%  Similarity=0.705  Sum_probs=19.8

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++++||+|||||++++.+...+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4799999999999999988875

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>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=95.20  E-value=0.034  Score=54.29  Aligned_cols=36  Identities=25%  Similarity=0.292  Sum_probs=25.3

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      -++|+||+|+|||+++-.++..+... +..+..++..
T Consensus         3 vi~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D   38 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLAARLKLK-GKKVALISAD   38 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEES
T ss_pred             EEEEECCCCCchHhHHHHHHHHHhhc-cccceeecCC
Confidence            47999999999999998887765323 5555555543

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 ....

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.17  E-value=0.014  Score=56.37  Aligned_cols=26  Identities=19%  Similarity=0.417  Sum_probs=23.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++.++|+||+|+|||++++.+++..
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45789999999999999999998864

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.14  E-value=0.017  Score=55.55  Aligned_cols=23  Identities=30%  Similarity=0.641  Sum_probs=21.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+++.||||+||||+++.+.+.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999875

>PRK06762 hypothetical protein; Provisional

Probab=95.14  E-value=0.017  Score=54.35  Aligned_cols=23  Identities=30%  Similarity=0.654  Sum_probs=20.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -++++|+||||||++++.+.+.+
T Consensus         4 li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            46899999999999999998876

>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=95.14  E-value=0.076  Score=50.96  Aligned_cols=94  Identities=16%  Similarity=0.185  Sum_probs=51.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEE---EEEeccC---CChHHHHHHHHhhhhhhcCccccCCCCCeE
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAAL---TINFSAQ---TSSARTQEILEGKLDKRTKTLLGAPLGKRL  476 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~---~i~fS~~---Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~  476 (583)
                      +..|.-+.|+||+|+|||++++.++.-+...++...+   .+.+-.+   .+..+-|++--.+.-          ..++-
T Consensus        22 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq~qrv~laral----------~~~p~   91 (177)
T cd03222          22 VKEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGELQRVAIAAAL----------LRNAT   91 (177)
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHHHHHHHHHHHH----------hcCCC
Confidence            4678899999999999999999887644222221111   1222222   222333322111111          12234


Q ss_pred             EEEecCCCCCCcccCCCCChHHHHHHHHHhC
Q psy17974        477 AVFVDDVNMPKLETYGAQPPIELLRQFLDFG  507 (583)
Q Consensus       477 vlfiDDln~p~~d~yg~q~~lElLRq~ld~~  507 (583)
                      ++++||-- ...|....+.+.++|+++...+
T Consensus        92 lllLDEPt-s~LD~~~~~~l~~~l~~~~~~~  121 (177)
T cd03222          92 FYLFDEPS-AYLDIEQRLNAARAIRRLSEEG  121 (177)
T ss_pred             EEEEECCc-ccCCHHHHHHHHHHHHHHHHcC
Confidence            78899953 3445444445677888776543

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.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=95.14  E-value=0.023  Score=57.24  Aligned_cols=37  Identities=24%  Similarity=0.344  Sum_probs=25.0

Q ss_pred             EEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC
Q psy17974        411 FTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS  448 (583)
Q Consensus       411 L~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt  448 (583)
                      ++||+|||||++++.+.+-+. ..+..+..+|+-+...
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~-~~~~~~~~vNLDPa~~   37 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLE-SNGRDVYIVNLDPAVE   37 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHT-TT-S-EEEEE--TT-S
T ss_pred             CCCCCCCCHHHHHHHHHHHHH-hccCCceEEEcchHhc
Confidence            589999999999998877653 3456788888877653

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.13  E-value=0.036  Score=53.61  Aligned_cols=66  Identities=20%  Similarity=0.304  Sum_probs=42.6

Q ss_pred             HHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEE
Q psy17974        400 EKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVF  479 (583)
Q Consensus       400 ~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlf  479 (583)
                      ++-+.+|.-|.+.||+|||||++.+-++--.. +.. -.+.+                      .+.....|++.+.|+|
T Consensus        25 sL~ia~ge~vv~lGpSGcGKTTLLnl~AGf~~-P~~-G~i~l----------------------~~r~i~gPgaergvVF   80 (259)
T COG4525          25 SLTIASGELVVVLGPSGCGKTTLLNLIAGFVT-PSR-GSIQL----------------------NGRRIEGPGAERGVVF   80 (259)
T ss_pred             ceeecCCCEEEEEcCCCccHHHHHHHHhcCcC-ccc-ceEEE----------------------CCEeccCCCccceeEe
Confidence            34477899999999999999999876554321 110 11111                      1112224667788999


Q ss_pred             ecCCCCCCcc
Q psy17974        480 VDDVNMPKLE  489 (583)
Q Consensus       480 iDDln~p~~d  489 (583)
                      =+|-=+|..+
T Consensus        81 Q~~~LlPWl~   90 (259)
T COG4525          81 QNEALLPWLN   90 (259)
T ss_pred             ccCccchhhH
Confidence            9998887644

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=95.12  E-value=0.016  Score=53.34  Aligned_cols=22  Identities=32%  Similarity=0.750  Sum_probs=19.7

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++++|+||||||++++.+...+
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhc
Confidence            6899999999999999988764

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.07  E-value=0.04  Score=54.60  Aligned_cols=51  Identities=20%  Similarity=0.173  Sum_probs=35.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILE  457 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie  457 (583)
                      .|.-++++||||+|||+++.+++.+.. ..+..++++.+- ..++..++++.+
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~-~~~~~v~yi~~e-~~~~~r~~~~~~   72 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAA-KNGKKVIYIDTE-GLSPERFKQIAG   72 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEECC-CCCHHHHHHHHh
Confidence            356789999999999999999887552 234556666655 455566655544

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.06  E-value=0.017  Score=55.05  Aligned_cols=24  Identities=25%  Similarity=0.429  Sum_probs=21.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-++++||||||||++++.++..+
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999998765

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=95.05  E-value=0.023  Score=54.62  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=20.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|+++||||||||++++.+.+.+
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999988864

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=95.05  E-value=0.081  Score=61.95  Aligned_cols=43  Identities=9%  Similarity=0.183  Sum_probs=30.9

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEE
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALT  440 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~  440 (583)
                      ..+..++.++.-++|.|+||||||++++.+...+. ..++.+..
T Consensus       359 ~Av~~i~~s~~~~il~G~aGTGKTtll~~i~~~~~-~~g~~V~~  401 (744)
T TIGR02768       359 EAVRHVTGSGDIAVVVGRAGTGKSTMLKAAREAWE-AAGYRVIG  401 (744)
T ss_pred             HHHHHHhcCCCEEEEEecCCCCHHHHHHHHHHHHH-hCCCeEEE
Confidence            34555666667789999999999999999876552 23454443

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>cd01394 radB RadB

Probab=95.01  E-value=0.059  Score=53.04  Aligned_cols=43  Identities=21%  Similarity=0.194  Sum_probs=29.8

Q ss_pred             HHHHHhc----CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEE
Q psy17974        399 MEKLLLV----NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTIN  442 (583)
Q Consensus       399 l~~~l~~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~  442 (583)
                      ++.++..    |.-++++|+||||||+++.+++.... ..+..++++.
T Consensus         8 LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~-~~g~~v~yi~   54 (218)
T cd01394           8 LDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETA-GQGKKVAYID   54 (218)
T ss_pred             HHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEE
Confidence            4445544    45589999999999999999887652 2234455554

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK00300 gmk guanylate kinase; Provisional

Probab=94.99  E-value=0.015  Score=56.61  Aligned_cols=27  Identities=19%  Similarity=0.453  Sum_probs=23.9

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..|.-+.|+||+|||||++++.++..+
T Consensus         3 ~~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          3 RRGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            457889999999999999999998865

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=94.97  E-value=0.018  Score=53.17  Aligned_cols=23  Identities=30%  Similarity=0.593  Sum_probs=20.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +.++|+||+|||||+|++.+...
T Consensus         2 krimliG~~g~GKTTL~q~L~~~   24 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGE   24 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCC
Confidence            46899999999999999987653

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=94.94  E-value=0.038  Score=63.15  Aligned_cols=34  Identities=26%  Similarity=0.467  Sum_probs=29.4

Q ss_pred             HHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        398 IMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       398 ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .+...+..+.+++++||||||||++++.+++.+.
T Consensus        42 ~L~~~~~~~~~~l~~G~~G~GKttla~~l~~~l~   75 (637)
T PRK13765         42 VIKKAAKQRRHVMMIGSPGTGKSMLAKAMAELLP   75 (637)
T ss_pred             HHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHcC
Confidence            4556677888999999999999999999988773

>PRK10646 ADP-binding protein; Provisional

Probab=94.92  E-value=0.04  Score=51.52  Aligned_cols=41  Identities=27%  Similarity=0.327  Sum_probs=35.8

Q ss_pred             hhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        391 DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       391 dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      +|.+....+...+..|.-|+|.|+=|+|||++++.+++.+.
T Consensus        13 ~t~~l~~~la~~l~~g~vi~L~GdLGaGKTtf~rgl~~~Lg   53 (153)
T PRK10646         13 ATLDLGARVAKACDGATVIYLYGDLGAGKTTFSRGFLQALG   53 (153)
T ss_pred             HHHHHHHHHHHhCCCCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46777777778888888899999999999999999999884

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=94.91  E-value=0.028  Score=51.77  Aligned_cols=32  Identities=28%  Similarity=0.447  Sum_probs=24.7

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEE
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTI  441 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i  441 (583)
                      |.++|+.|||||++++.+++.+. ..++.+..+
T Consensus         3 v~VvG~~~sGKTTl~~~Li~~l~-~~g~~v~~i   34 (140)
T PF03205_consen    3 VQVVGPKNSGKTTLIRKLINELK-RRGYRVAVI   34 (140)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH-HTT--EEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh-HcCCceEEE
Confidence            68999999999999999999884 446665533

>smart00072 GuKc Guanylate kinase homologues

Probab=94.89  E-value=0.02  Score=55.03  Aligned_cols=25  Identities=24%  Similarity=0.696  Sum_probs=22.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++++|+||+|+||+++++.++...
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcC
Confidence            5799999999999999999998864

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>PRK13949 shikimate kinase; Provisional

Probab=94.89  E-value=0.021  Score=54.26  Aligned_cols=24  Identities=25%  Similarity=0.585  Sum_probs=21.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++++|+|++|+|||++++.+.+.+
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            369999999999999999988876

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=94.89  E-value=0.044  Score=60.89  Aligned_cols=34  Identities=35%  Similarity=0.503  Sum_probs=27.1

Q ss_pred             HHHHHHhcCCc-eEEEccCCCcHHHHHHHHHHhhc
Q psy17974        398 IMEKLLLVNHP-VMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       398 ll~~~l~~~~~-vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .+..++..++. ++++||+|||||++++++++.+.
T Consensus       233 ~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~  267 (486)
T TIGR02533       233 RFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLN  267 (486)
T ss_pred             HHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccC
Confidence            44556666555 78999999999999999988773

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.89  E-value=0.021  Score=52.26  Aligned_cols=23  Identities=26%  Similarity=0.689  Sum_probs=20.5

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++.|+||+|||||++++.+++.+
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            47899999999999999998865

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.88  E-value=0.077  Score=57.98  Aligned_cols=41  Identities=22%  Similarity=0.244  Sum_probs=29.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhc-ccCCceEEEEEecc
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLL-ASNTWAALTINFSA  445 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~-~~~~~~~~~i~fS~  445 (583)
                      .+..++++||+|+|||+++..++..+. ...+..+..+++..
T Consensus       220 ~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~  261 (424)
T PRK05703        220 QGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT  261 (424)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc
Confidence            467899999999999999988876552 12345666666544

>PLN02772 guanylate kinase

Probab=94.87  E-value=0.046  Score=58.57  Aligned_cols=25  Identities=24%  Similarity=0.671  Sum_probs=22.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++++|+||+|+||+++++.++...
T Consensus       135 ~k~iVlsGPSGvGKsTL~~~L~~~~  159 (398)
T PLN02772        135 EKPIVISGPSGVGKGTLISMLMKEF  159 (398)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhhhc
Confidence            5689999999999999999998764

>KOG2543|consensus

Probab=94.87  E-value=0.19  Score=53.29  Aligned_cols=136  Identities=18%  Similarity=0.240  Sum_probs=72.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhh---h---hcCc--------c--cc--
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLD---K---RTKT--------L--LG--  469 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~---~---~~~~--------~--~~--  469 (583)
                      +|+|.|.+|||||.+++++++..    +...+.+|+=..-+...+...|..++.   +   ..++        +  |.  
T Consensus        32 ~~~iyG~sgTGKT~~~r~~l~~~----n~~~vw~n~~ecft~~~lle~IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~  107 (438)
T KOG2543|consen   32 IVHIYGHSGTGKTYLVRQLLRKL----NLENVWLNCVECFTYAILLEKILNKSQLADKDGDKVEGDAENFSDFIYLLVQW  107 (438)
T ss_pred             eEEEeccCCCchhHHHHHHHhhc----CCcceeeehHHhccHHHHHHHHHHHhccCCCchhhhhhHHHHHHHHHHHHHhh
Confidence            45999999999999999999976    223445555444454444333333331   0   0111        0  10  


Q ss_pred             CC---CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhh--h
Q psy17974        470 AP---LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRF--V  544 (583)
Q Consensus       470 p~---~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rl--l  544 (583)
                      |.   .++..++++|.++.-.  .+++..    |.++++-.-.-+        ...+.++-...++.      ....  +
T Consensus       108 ~~~t~~d~~~~liLDnad~lr--D~~a~l----l~~l~~L~el~~--------~~~i~iils~~~~e------~~y~~n~  167 (438)
T KOG2543|consen  108 PAATNRDQKVFLILDNADALR--DMDAIL----LQCLFRLYELLN--------EPTIVIILSAPSCE------KQYLINT  167 (438)
T ss_pred             HHhhccCceEEEEEcCHHhhh--ccchHH----HHHHHHHHHHhC--------CCceEEEEeccccH------HHhhccc
Confidence            11   2457888999987654  234432    222222111111        11233333222211      1112  1


Q ss_pred             ccc--eEEEeCCCCHHHHHHHHHHH
Q psy17974        545 RHF--GLLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       545 r~f--~vi~i~~p~~~sl~~I~~~~  567 (583)
                      .++  .++++|.++.+++.+|++.-
T Consensus       168 g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  168 GTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             CCCCceEEecCCCCHHHHHHHHhcC
Confidence            233  36899999999999998753

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=94.87  E-value=0.056  Score=53.72  Aligned_cols=52  Identities=17%  Similarity=0.126  Sum_probs=33.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccC-----CceEEEEEeccCCChHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASN-----TWAALTINFSAQTSSARTQEIL  456 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~-----~~~~~~i~fS~~Tt~~~lq~~i  456 (583)
                      .|.-+.|+||||||||+++.+++.....+.     ...++.+......++..+.++.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~~   74 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQIA   74 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHHH
Confidence            456789999999999999998875431121     2345566554433455554443

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=94.81  E-value=0.027  Score=56.84  Aligned_cols=22  Identities=36%  Similarity=0.812  Sum_probs=20.4

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |+|+|+||||||++++.+.+.+
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l   23 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKL   23 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Confidence            6899999999999999998876

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=94.81  E-value=0.031  Score=51.93  Aligned_cols=22  Identities=41%  Similarity=0.800  Sum_probs=20.3

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++++|+||||||++++.+...+
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Confidence            6899999999999999998876

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=94.80  E-value=0.041  Score=54.51  Aligned_cols=51  Identities=22%  Similarity=0.226  Sum_probs=31.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILE  457 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie  457 (583)
                      .|.-+|+.||||||||+++.+++.+-....+-.++.+.  ...++..+.+.++
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs--~ee~~~~l~~~~~   68 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVS--FEEPPEELIENMK   68 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEE--SSS-HHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEE--ecCCHHHHHHHHH
Confidence            35688999999999999999876432111022344444  4456666655543

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>PRK08233 hypothetical protein; Provisional

Probab=94.80  E-value=0.022  Score=54.00  Aligned_cols=24  Identities=29%  Similarity=0.495  Sum_probs=21.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-|.+.|+||||||++++.++..+
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            456788999999999999999876

>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=94.76  E-value=0.047  Score=53.57  Aligned_cols=52  Identities=23%  Similarity=0.303  Sum_probs=31.5

Q ss_pred             hhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        392 TIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      +......++.+. ...-|.+.||+|||||.++-+.+..+-....|.-+.+.-+
T Consensus         6 ~~~Q~~~~~al~-~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp   57 (205)
T PF02562_consen    6 NEEQKFALDALL-NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRP   57 (205)
T ss_dssp             SHHHHHHHHHHH-H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-
T ss_pred             CHHHHHHHHHHH-hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEec
Confidence            455666777777 6778999999999999998876543322344544444433

; GO: 0005524 ATP binding; PDB: 3B85_A.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=94.75  E-value=0.051  Score=52.44  Aligned_cols=38  Identities=24%  Similarity=0.273  Sum_probs=29.3

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT  447 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T  447 (583)
                      .|-+.||||||||+++..+++.+.  ++|....|..--.|
T Consensus        15 ~i~v~Gp~GSGKTaLie~~~~~L~--~~~~~aVI~~Di~t   52 (202)
T COG0378          15 RIGVGGPPGSGKTALIEKTLRALK--DEYKIAVITGDIYT   52 (202)
T ss_pred             EEEecCCCCcCHHHHHHHHHHHHH--hhCCeEEEeceeec
Confidence            356789999999999999999884  34666666665555

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=94.73  E-value=0.019  Score=50.34  Aligned_cols=24  Identities=33%  Similarity=0.511  Sum_probs=21.0

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHH
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l  427 (583)
                      ..+.-+.|.||+|||||++++.+.
T Consensus        13 ~~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          13 YGKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHhh
Confidence            456789999999999999999876

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=94.70  E-value=0.088  Score=61.40  Aligned_cols=31  Identities=29%  Similarity=0.563  Sum_probs=24.9

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+. .++-++|.|+||||||++++.++..+
T Consensus       332 i~~~~-~~~~~iitGgpGTGKTt~l~~i~~~~  362 (720)
T TIGR01448       332 LDTAI-QHKVVILTGGPGTGKTTITRAIIELA  362 (720)
T ss_pred             HHHHH-hCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            44444 45689999999999999999988766

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.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=94.69  E-value=0.14  Score=52.15  Aligned_cols=51  Identities=29%  Similarity=0.289  Sum_probs=33.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..|.-+++.||||+|||+++.+++.......+..+..+  |...++..+..-
T Consensus        27 ~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~i--S~E~~~~~~~~r   77 (271)
T cd01122          27 LRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTI--SLEEPVVRTARR   77 (271)
T ss_pred             EcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEE--EcccCHHHHHHH
Confidence            445778899999999999999988765422224455554  444455554433

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK10436 hypothetical protein; Provisional

Probab=94.67  E-value=0.06  Score=59.39  Aligned_cols=31  Identities=39%  Similarity=0.398  Sum_probs=25.2

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .+-..+.-+|++||+|||||+++.+++..+.
T Consensus       213 ~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~  243 (462)
T PRK10436        213 ALQQPQGLILVTGPTGSGKTVTLYSALQTLN  243 (462)
T ss_pred             HHHhcCCeEEEECCCCCChHHHHHHHHHhhC
Confidence            3334566799999999999999999888763

>PRK14738 gmk guanylate kinase; Provisional

Probab=94.65  E-value=0.024  Score=55.67  Aligned_cols=24  Identities=29%  Similarity=0.411  Sum_probs=20.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .++.++|+||+|||||++++.+..
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHh
Confidence            356789999999999999998865

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=94.64  E-value=0.052  Score=47.75  Aligned_cols=24  Identities=33%  Similarity=0.421  Sum_probs=20.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++++++||+|+|||..+-.++..+
T Consensus         1 ~~~~i~~~~G~GKT~~~~~~~~~~   24 (144)
T cd00046           1 RDVLLAAPTGSGKTLAALLPILEL   24 (144)
T ss_pred             CCEEEECCCCCchhHHHHHHHHHH
Confidence            478999999999999888776654

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.64  E-value=0.016  Score=56.79  Aligned_cols=26  Identities=23%  Similarity=0.372  Sum_probs=22.3

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHH
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSI  426 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~  426 (583)
                      .-+..|.-|.++||+|||||++++.+
T Consensus        23 l~v~~Gevv~iiGpSGSGKSTlLRcl   48 (240)
T COG1126          23 LSVEKGEVVVIIGPSGSGKSTLLRCL   48 (240)
T ss_pred             eeEcCCCEEEEECCCCCCHHHHHHHH
Confidence            33567889999999999999999865

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=94.63  E-value=0.055  Score=59.28  Aligned_cols=33  Identities=33%  Similarity=0.423  Sum_probs=25.7

Q ss_pred             HHHHHhcCC-ceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        399 MEKLLLVNH-PVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       399 l~~~l~~~~-~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      +..++...+ =+|+.||+|||||+++.++++.+.
T Consensus       250 ~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln  283 (500)
T COG2804         250 LLRLLNRPQGLILVTGPTGSGKTTTLYAALSELN  283 (500)
T ss_pred             HHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhc
Confidence            444455444 568899999999999999999873

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=94.61  E-value=0.028  Score=53.52  Aligned_cols=25  Identities=24%  Similarity=0.610  Sum_probs=22.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+++|+||+|+|||++++.++..+
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            5689999999999999999998865

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=94.58  E-value=0.019  Score=51.84  Aligned_cols=28  Identities=21%  Similarity=0.374  Sum_probs=23.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|..+.++||+|||||++++.++...
T Consensus         8 i~~g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen    8 IKPGEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEEccCCCccccceeeecccc
Confidence            3467889999999999999999887654

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>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=94.52  E-value=0.058  Score=51.04  Aligned_cols=37  Identities=24%  Similarity=0.339  Sum_probs=27.4

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ  446 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~  446 (583)
                      ++++||||+|||+++.+++..+. ..+..+..+.+...
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~-~~g~~v~~i~~D~~   39 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLK-KKGKKVLLVAADTY   39 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEEcCCC
Confidence            68999999999999999887763 23455666665543

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.

>PRK06217 hypothetical protein; Validated

Probab=94.51  E-value=0.028  Score=53.96  Aligned_cols=23  Identities=26%  Similarity=0.572  Sum_probs=21.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|+|.|++|||||++++.+.+.+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998876

>KOG0060|consensus

Probab=94.48  E-value=0.024  Score=62.62  Aligned_cols=30  Identities=23%  Similarity=0.365  Sum_probs=25.2

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +..-+..|+++|++||+|||||++.+.+..
T Consensus       454 Ls~~V~~g~~LLItG~sG~GKtSLlRvlgg  483 (659)
T KOG0060|consen  454 LSLEVPSGQNLLITGPSGCGKTSLLRVLGG  483 (659)
T ss_pred             eeeEecCCCeEEEECCCCCchhHHHHHHhc
Confidence            344567899999999999999999997753

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=94.48  E-value=0.046  Score=56.44  Aligned_cols=41  Identities=20%  Similarity=0.268  Sum_probs=29.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhccc-CCceEEEEEecc
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLAS-NTWAALTINFSA  445 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~i~fS~  445 (583)
                      .+..++|+||+|+|||+++..++..+... ..+.+..+.+-.
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~  234 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT  234 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence            45678999999999999999888765322 235666666544

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=94.45  E-value=0.1  Score=55.95  Aligned_cols=28  Identities=25%  Similarity=0.407  Sum_probs=24.5

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ..+.++.+.||.|||||.+++.+...+.
T Consensus        20 ~~~~~~fv~G~~GtGKs~l~~~i~~~~~   47 (364)
T PF05970_consen   20 EEGLNFFVTGPAGTGKSFLIKAIIDYLR   47 (364)
T ss_pred             cCCcEEEEEcCCCCChhHHHHHHHHHhc
Confidence            4677999999999999999999887763

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PRK14527 adenylate kinase; Provisional

Probab=94.45  E-value=0.023  Score=54.87  Aligned_cols=26  Identities=35%  Similarity=0.532  Sum_probs=22.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-++++||||||||++++.+++.+
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45568999999999999999988765

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=94.45  E-value=0.067  Score=60.64  Aligned_cols=34  Identities=38%  Similarity=0.410  Sum_probs=26.3

Q ss_pred             HHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        398 IMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       398 ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      +.+.+-..+-.||++||+|||||+++.++++.+.
T Consensus       308 l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~~  341 (564)
T TIGR02538       308 FLEAIHKPQGMVLVTGPTGSGKTVSLYTALNILN  341 (564)
T ss_pred             HHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhhC
Confidence            3334444566789999999999999999888763

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=94.44  E-value=0.033  Score=50.72  Aligned_cols=22  Identities=36%  Similarity=0.632  Sum_probs=20.2

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.++|++|||||++++.++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5899999999999999999876

>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria

Probab=94.42  E-value=0.03  Score=52.14  Aligned_cols=25  Identities=28%  Similarity=0.530  Sum_probs=22.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+.||++||+|+|||+++..++..
T Consensus        13 ~g~gvLi~G~sG~GKStlal~L~~~   37 (149)
T cd01918          13 GGIGVLITGPSGIGKSELALELIKR   37 (149)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            4789999999999999999888874

It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=94.42  E-value=0.032  Score=49.00  Aligned_cols=20  Identities=25%  Similarity=0.454  Sum_probs=19.0

Q ss_pred             eEEEccCCCcHHHHHHHHHH
Q psy17974        409 VMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~  428 (583)
                      |+++|+||+|||+++++++.
T Consensus         2 V~iiG~~~~GKSTlin~l~~   21 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTG   21 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            78999999999999999986

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>TIGR01351 adk adenylate kinases

Probab=94.41  E-value=0.037  Score=54.32  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=20.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++++||||||||++++.+.+.+
T Consensus         1 rI~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         1 RLVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            37999999999999999988765

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=94.41  E-value=0.076  Score=50.79  Aligned_cols=34  Identities=21%  Similarity=0.460  Sum_probs=26.9

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      |.+.|++|||||++++.+.+.+. ..++.++.+.+
T Consensus         3 I~ieG~~GsGKtT~~~~L~~~l~-~~g~~v~~~~~   36 (200)
T cd01672           3 IVFEGIDGAGKTTLIELLAERLE-ARGYEVVLTRE   36 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEeC
Confidence            67999999999999999988873 44566655544

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>KOG1942|consensus

Probab=94.40  E-value=0.042  Score=55.97  Aligned_cols=33  Identities=15%  Similarity=0.345  Sum_probs=27.5

Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHh
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRT  568 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l  568 (583)
                      -+-+++.++.|..+|..-..+++++.+|...-.
T Consensus       348 PhGip~dllDRl~Iirt~~y~~~e~r~Ii~~Ra  380 (456)
T KOG1942|consen  348 PHGIPPDLLDRLLIIRTLPYDEEEIRQIIKIRA  380 (456)
T ss_pred             CCCCCHHHhhheeEEeeccCCHHHHHHHHHHHH
Confidence            466899999999999888889999998876543

>PTZ00088 adenylate kinase 1; Provisional

Probab=94.39  E-value=0.037  Score=55.34  Aligned_cols=24  Identities=29%  Similarity=0.425  Sum_probs=21.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++|.||||||||++++.+++.+
T Consensus         7 mrIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          7 LKIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999999998865

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=94.39  E-value=0.16  Score=49.66  Aligned_cols=114  Identities=15%  Similarity=0.119  Sum_probs=65.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .-++|+|+.|+|||+.++.+....      -.-.+  .. .+..+....+    .            ...++.+||+..-
T Consensus        53 ~~lvl~G~QG~GKStf~~~L~~~~------~~d~~--~~-~~~kd~~~~l----~------------~~~iveldEl~~~  107 (198)
T PF05272_consen   53 TVLVLVGKQGIGKSTFFRKLGPEY------FSDSI--ND-FDDKDFLEQL----Q------------GKWIVELDELDGL  107 (198)
T ss_pred             eeeeEecCCcccHHHHHHHHhHHh------ccCcc--cc-CCCcHHHHHH----H------------HhHheeHHHHhhc
Confidence            456899999999999999874332      11011  11 1112221111    1            1357889998764


Q ss_pred             CcccCCCCChHHHHHHHHHhCCee-ecC-CCeeE-eecCeEEEEecCCCCCCCCCCChhhhccceEEEeCC
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLY-DRD-KMFWK-TLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPS  554 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~y-d~~-~~~~~-~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~  554 (583)
                      ..      .-.+.|+.++....-. .+. ..... ......|+||+|...   .--++-=-|||-+|.+..
T Consensus       108 ~k------~~~~~lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~~~---~L~D~TGnRRf~~v~v~~  169 (198)
T PF05272_consen  108 SK------KDVEALKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTNDDD---FLKDPTGNRRFWPVEVSK  169 (198)
T ss_pred             ch------hhHHHHHHHhcccceeeecCCcCcceeeceeEEEEeccCCcc---eeeCCCCCeEEEEEEEcC
Confidence            42      2368899988765433 222 12222 335678899998754   111222347888888876

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=94.37  E-value=0.13  Score=61.44  Aligned_cols=43  Identities=9%  Similarity=0.071  Sum_probs=30.0

Q ss_pred             HHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEE
Q psy17974        398 IMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTI  441 (583)
Q Consensus       398 ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i  441 (583)
                      .+..++..+.-+++.|++|||||++++.+..... ..++.++.+
T Consensus       354 Av~~il~s~~v~vv~G~AGTGKTT~l~~~~~~~e-~~G~~V~~~  396 (988)
T PRK13889        354 ALAHVTDGRDLGVVVGYAGTGKSAMLGVAREAWE-AAGYEVRGA  396 (988)
T ss_pred             HHHHHhcCCCeEEEEeCCCCCHHHHHHHHHHHHH-HcCCeEEEe
Confidence            4556666566788999999999999987765442 335555443

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=94.37  E-value=0.046  Score=54.06  Aligned_cols=33  Identities=27%  Similarity=0.400  Sum_probs=28.5

Q ss_pred             HHHHHHhcCC-ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        398 IMEKLLLVNH-PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       398 ll~~~l~~~~-~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++..+.+++. +.|+.||||||||++++.+++.+
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~  161 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLL  161 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHh
Confidence            6777777776 69999999999999999998865

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=94.36  E-value=0.083  Score=52.82  Aligned_cols=49  Identities=12%  Similarity=0.303  Sum_probs=31.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQE  454 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~  454 (583)
                      +..|.-+++.||+|||||+++.+++.... +.+.....+.  ..-++.++.+
T Consensus        21 i~~g~~~~i~G~~G~GKTtl~~~~~~~~~-~~g~~~~yi~--~e~~~~~~~~   69 (230)
T PRK08533         21 IPAGSLILIEGDESTGKSILSQRLAYGFL-QNGYSVSYVS--TQLTTTEFIK   69 (230)
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEEe--CCCCHHHHHH
Confidence            45577899999999999999877766542 2234455554  3334444433

>PRK02496 adk adenylate kinase; Provisional

Probab=94.36  E-value=0.031  Score=53.49  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=20.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+++.||||||||++++.+...+
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999988765

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=94.36  E-value=0.046  Score=52.42  Aligned_cols=22  Identities=41%  Similarity=0.622  Sum_probs=20.0

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |.++|+||||||++++.+...+
T Consensus         2 i~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999988876

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>KOG0922|consensus

Probab=94.35  E-value=0.41  Score=53.89  Aligned_cols=162  Identities=23%  Similarity=0.273  Sum_probs=85.9

Q ss_pred             hHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc-ccCCc-----------------------------eEEEEEe
Q psy17974        394 RFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL-ASNTW-----------------------------AALTINF  443 (583)
Q Consensus       394 r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~-~~~~~-----------------------------~~~~i~f  443 (583)
                      .+..=+-..++.++-++++|++|||||+-+=+++.+-. ..++.                             .-..|.|
T Consensus        54 ~~r~~il~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAeE~~~~lG~~VGY~IRF  133 (674)
T KOG0922|consen   54 KYRDQILYAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAEEMGCQLGEEVGYTIRF  133 (674)
T ss_pred             HHHHHHHHHHHHCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHHHhCCCcCceeeeEEEe
Confidence            34444556677899999999999999998877765421 00010                             1112222


Q ss_pred             ccCCChHH-----HHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeE
Q psy17974        444 SAQTSSAR-----TQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWK  518 (583)
Q Consensus       444 S~~Tt~~~-----lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~  518 (583)
                      -..|+.+.     +.+++.+.+      ...|--.+..||.|||.|-=...   +.-.+-+||.++...           
T Consensus       134 ed~ts~~TrikymTDG~LLRE~------l~Dp~LskYsvIIlDEAHERsl~---TDiLlGlLKki~~~R-----------  193 (674)
T KOG0922|consen  134 EDSTSKDTRIKYMTDGMLLREI------LKDPLLSKYSVIILDEAHERSLH---TDILLGLLKKILKKR-----------  193 (674)
T ss_pred             cccCCCceeEEEecchHHHHHH------hcCCccccccEEEEechhhhhhH---HHHHHHHHHHHHhcC-----------
Confidence            22222110     000000000      01244567778999998853221   234678899887633           


Q ss_pred             eecCeEEE--Ee-cCCCC-----CC--CCCCChhhhccce--EEEeCCCCHHHHHHHHHHHhcccccCCCcccc
Q psy17974        519 TLQDVVLC--TA-CAPPG-----GG--RMPLTPRFVRHFG--LLSLPSPTEDTLKVIFKVRTSPGKQEGTSSIL  580 (583)
Q Consensus       519 ~i~~i~~i--aa-~~p~~-----~g--r~~l~~Rllr~f~--vi~i~~p~~~sl~~I~~~~l~~~l~~~~~~~~  580 (583)
                        .+..+|  .| .+-.-     ++  -..++-   |.|.  +++.+.|..+-+...+.++++-|+.+..-+|+
T Consensus       194 --~~LklIimSATlda~kfS~yF~~a~i~~i~G---R~fPVei~y~~~p~~dYv~a~~~tv~~Ih~~E~~GDIL  262 (674)
T KOG0922|consen  194 --PDLKLIIMSATLDAEKFSEYFNNAPILTIPG---RTFPVEILYLKEPTADYVDAALITVIQIHLTEPPGDIL  262 (674)
T ss_pred             --CCceEEEEeeeecHHHHHHHhcCCceEeecC---CCCceeEEeccCCchhhHHHHHHHHHHHHccCCCCCEE
Confidence              122222  22 11100     00  001111   2343  58888899999999888888888776554544

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=94.33  E-value=0.13  Score=52.42  Aligned_cols=28  Identities=32%  Similarity=0.604  Sum_probs=23.8

Q ss_pred             HHHHhcCCceEEEccCCCcHHHHHHHHH
Q psy17974        400 EKLLLVNHPVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       400 ~~~l~~~~~vLL~Gp~GtGKT~li~~~l  427 (583)
                      ...+.+..|+||.||+|.|||.+++.+-
T Consensus       202 rva~rsr~p~ll~gptgagksflarriy  229 (531)
T COG4650         202 RVAIRSRAPILLNGPTGAGKSFLARRIY  229 (531)
T ss_pred             HHHhhccCCeEeecCCCcchhHHHHHHH
Confidence            3456778999999999999999998764

>PRK14528 adenylate kinase; Provisional

Probab=94.33  E-value=0.034  Score=53.67  Aligned_cols=24  Identities=29%  Similarity=0.594  Sum_probs=21.1

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.+++.||||||||++++.+.+.+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999887765

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=94.30  E-value=0.095  Score=59.83  Aligned_cols=26  Identities=27%  Similarity=0.429  Sum_probs=22.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-+++.|+||||||+++..++..+
T Consensus       166 ~~~~~vItGgpGTGKTt~v~~ll~~l  191 (615)
T PRK10875        166 TRRISVISGGPGTGKTTTVAKLLAAL  191 (615)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            45678999999999999999887765

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=94.25  E-value=0.085  Score=52.89  Aligned_cols=48  Identities=15%  Similarity=0.267  Sum_probs=31.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      .|..+|+.||||||||+++.+++.+.. ..+-.++++.+  ..++.++.+-
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~-~~ge~~lyvs~--ee~~~~i~~~   67 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPGIYVAL--EEHPVQVRRN   67 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCcEEEEEe--eCCHHHHHHH
Confidence            467899999999999999998876421 12334444443  4566665543

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>PLN02674 adenylate kinase

Probab=94.22  E-value=0.052  Score=54.77  Aligned_cols=25  Identities=20%  Similarity=0.388  Sum_probs=22.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ...++|.||||||||+.++.+++.+
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~~~   55 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKDEY   55 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHc
Confidence            4679999999999999999888865

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=94.20  E-value=0.041  Score=52.27  Aligned_cols=25  Identities=28%  Similarity=0.630  Sum_probs=23.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++.|+|++|+|||++-+.+++.+
T Consensus         2 ~~~IvLiG~mGaGKSTIGr~LAk~L   26 (172)
T COG0703           2 NMNIVLIGFMGAGKSTIGRALAKAL   26 (172)
T ss_pred             CccEEEEcCCCCCHhHHHHHHHHHc
Confidence            4689999999999999999999987

>PRK04040 adenylate kinase; Provisional

Probab=94.20  E-value=0.037  Score=53.59  Aligned_cols=24  Identities=54%  Similarity=0.732  Sum_probs=21.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +-++++|+||||||++++.+.+.+
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHh
Confidence            357999999999999999999877

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=94.19  E-value=0.069  Score=51.04  Aligned_cols=36  Identities=17%  Similarity=0.271  Sum_probs=27.8

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA  445 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~  445 (583)
                      +-++|++|||||++++.++..+. ..++.+..|-.+.
T Consensus         9 i~ivG~sgsGKTTLi~~li~~l~-~~g~~vg~Ik~~~   44 (173)
T PRK10751          9 LAIAAWSGTGKTTLLKKLIPALC-ARGIRPGLIKHTH   44 (173)
T ss_pred             EEEECCCCChHHHHHHHHHHHHh-hcCCeEEEEEEcC
Confidence            57899999999999999998873 3456666665543

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=94.16  E-value=0.05  Score=50.35  Aligned_cols=20  Identities=25%  Similarity=0.458  Sum_probs=18.4

Q ss_pred             EEccCCCcHHHHHHHHHHhh
Q psy17974        411 FTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       411 L~Gp~GtGKT~li~~~l~~l  430 (583)
                      |.||||||||++++.++.++
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            68999999999999999875

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=94.15  E-value=0.036  Score=57.37  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=20.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -++++|+||||||++++.+++.+
T Consensus         4 liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          4 IILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHC
Confidence            47899999999999999998865

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=94.14  E-value=0.09  Score=50.61  Aligned_cols=37  Identities=24%  Similarity=0.316  Sum_probs=28.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      |.-|.+.|++|||||++++.+.+.+. ..++.+..+..
T Consensus         3 g~~IvieG~~GsGKsT~~~~L~~~l~-~~g~~v~~~~~   39 (195)
T TIGR00041         3 GMFIVIEGIDGAGKTTQANLLKKLLQ-ENGYDVLFTRE   39 (195)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEeC
Confidence            56689999999999999999998873 33455544443

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>PLN02200 adenylate kinase family protein

Probab=94.14  E-value=0.05  Score=54.59  Aligned_cols=24  Identities=21%  Similarity=0.331  Sum_probs=21.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-++++||||||||++++.+++.+
T Consensus        44 ~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         44 FITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHh
Confidence            457999999999999999998865

>PRK06547 hypothetical protein; Provisional

Probab=94.12  E-value=0.041  Score=52.56  Aligned_cols=23  Identities=30%  Similarity=0.556  Sum_probs=19.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -|++.|++|||||++++.+++.+
T Consensus        17 ~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         17 TVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            45667999999999999988865

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=94.11  E-value=0.033  Score=58.68  Aligned_cols=27  Identities=26%  Similarity=0.336  Sum_probs=23.1

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      -++.|.-+.|+||+||||||+++.++-
T Consensus        25 ~i~~Gef~vllGPSGcGKSTlLr~IAG   51 (338)
T COG3839          25 DIEDGEFVVLLGPSGCGKSTLLRMIAG   51 (338)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            356677899999999999999998764

>PRK04328 hypothetical protein; Provisional

Probab=94.10  E-value=0.11  Score=52.72  Aligned_cols=48  Identities=15%  Similarity=0.260  Sum_probs=31.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      .|..+++.||||||||+++.+++.+-. ..+...+.+++  ..++.++.+-
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~-~~ge~~lyis~--ee~~~~i~~~   69 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPGVYVAL--EEHPVQVRRN   69 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH-hcCCcEEEEEe--eCCHHHHHHH
Confidence            467899999999999999998876421 22334555544  3466665543

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=94.09  E-value=0.066  Score=50.18  Aligned_cols=33  Identities=30%  Similarity=0.413  Sum_probs=25.5

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAAL  439 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~  439 (583)
                      -..+.+.|+||+|||+++..++..+. ..+|.+-
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~-~~g~kvg   37 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLR-EKGYKVG   37 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHH-hcCceee
Confidence            35789999999999999999988773 3334443

>PRK05480 uridine/cytidine kinase; Provisional

Probab=94.08  E-value=0.041  Score=53.90  Aligned_cols=26  Identities=35%  Similarity=0.433  Sum_probs=22.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-|.++|++|||||++++.+...+
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34567899999999999999988876

>PRK06696 uridine kinase; Validated

Probab=94.06  E-value=0.054  Score=53.74  Aligned_cols=24  Identities=29%  Similarity=0.468  Sum_probs=21.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      -|.+.|++|||||++++.+...+.
T Consensus        24 iI~I~G~sgsGKSTlA~~L~~~l~   47 (223)
T PRK06696         24 RVAIDGITASGKTTFADELAEEIK   47 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            567899999999999999998873

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=94.02  E-value=0.039  Score=52.09  Aligned_cols=31  Identities=16%  Similarity=0.300  Sum_probs=25.4

Q ss_pred             HHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        400 EKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       400 ~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..-+..|..+++.||+|||||++.+.++.-.
T Consensus        23 sl~v~~Ge~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          23 SLSVRAGEFIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             eeeecCCceEEEeCCCCccHHHHHHHHHhcc
Confidence            3445678899999999999999999887643

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=94.02  E-value=0.057  Score=55.36  Aligned_cols=37  Identities=19%  Similarity=0.218  Sum_probs=29.5

Q ss_pred             HHHHHHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        395 FGSIMEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       395 ~~~ll~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ...++..+.+.+  ++++++||+|+|||++++.++..+.
T Consensus        98 ~~~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858        98 ADKLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             HHHHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC
Confidence            344455666666  7999999999999999999988763

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.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=94.02  E-value=0.066  Score=54.54  Aligned_cols=39  Identities=15%  Similarity=0.222  Sum_probs=27.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      .|.-++++||||||||+++.+++.+... .+..+.++.+-
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~-~Ge~vlyis~E   73 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQAS-RGNPVLFVTVE   73 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh-CCCcEEEEEec
Confidence            4677899999999999999988664311 23345555553

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=94.02  E-value=0.043  Score=53.21  Aligned_cols=22  Identities=41%  Similarity=0.659  Sum_probs=19.6

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |.|+||+|||||++++.+...+
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5799999999999999987765

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=94.00  E-value=0.044  Score=53.12  Aligned_cols=23  Identities=30%  Similarity=0.483  Sum_probs=20.6

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhc
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      |-++||+|||||++++.+...+.
T Consensus         2 IgI~G~sgSGKTTla~~L~~~L~   24 (194)
T PF00485_consen    2 IGIAGPSGSGKTTLAKRLAQILN   24 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            56899999999999999988773

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK00889 adenylylsulfate kinase; Provisional

Probab=94.00  E-value=0.058  Score=51.17  Aligned_cols=26  Identities=46%  Similarity=0.747  Sum_probs=22.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-+.++|++|||||++++.+...+
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45678999999999999999998876

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=94.00  E-value=0.039  Score=51.71  Aligned_cols=21  Identities=24%  Similarity=0.490  Sum_probs=17.1

Q ss_pred             eEEEccCCCcHHHHHHHHHHh
Q psy17974        409 VMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      |.|+|++|||||++++.+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999998764

>PRK06851 hypothetical protein; Provisional

Probab=93.98  E-value=0.068  Score=57.02  Aligned_cols=42  Identities=19%  Similarity=0.368  Sum_probs=32.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT  447 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T  447 (583)
                      ..+-++|.|+||||||++++.+...+. ..++.+-.+.++..-
T Consensus        29 ~~~~~il~G~pGtGKStl~~~i~~~~~-~~g~~Ve~~~~~~d~   70 (367)
T PRK06851         29 ANRIFILKGGPGTGKSTLMKKIGEEFL-EKGYDVEFLHCSSDN   70 (367)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEEcCCCC
Confidence            345689999999999999999988873 346777666666543

>cd00876 Ras Ras family

Probab=93.97  E-value=0.043  Score=50.23  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=19.5

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .++++|++|+|||++++.++..
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhC
Confidence            4799999999999999998753

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>PRK07667 uridine kinase; Provisional

Probab=93.96  E-value=0.084  Score=51.19  Aligned_cols=36  Identities=11%  Similarity=0.162  Sum_probs=25.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      .-|-+.|++|||||++++.+...+. ..+..+..+++
T Consensus        18 ~iIgI~G~~gsGKStla~~L~~~l~-~~~~~~~~i~~   53 (193)
T PRK07667         18 FILGIDGLSRSGKTTFVANLKENMK-QEGIPFHIFHI   53 (193)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEEEc
Confidence            3568999999999999999988773 22334444443

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=93.95  E-value=0.12  Score=51.00  Aligned_cols=52  Identities=13%  Similarity=0.098  Sum_probs=34.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccC-----CceEEEEEeccCCChHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASN-----TWAALTINFSAQTSSARTQEIL  456 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~-----~~~~~~i~fS~~Tt~~~lq~~i  456 (583)
                      .|.-+.++||||+|||+++..++.......     ...++++.......+..+.++.
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~~~~   74 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLVQLA   74 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHHHHH
Confidence            467789999999999999998876532121     1455666654444455555443

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PRK00279 adk adenylate kinase; Reviewed

Probab=93.93  E-value=0.053  Score=53.42  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=20.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|+++||||||||++++.+++.+
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999988865

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=93.93  E-value=0.042  Score=51.95  Aligned_cols=23  Identities=17%  Similarity=0.348  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +.|+|+|++|+|||++++.+...
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~   24 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEG   24 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            57899999999999999998864

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=93.91  E-value=0.07  Score=50.02  Aligned_cols=33  Identities=21%  Similarity=0.370  Sum_probs=26.6

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEE
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTIN  442 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~  442 (583)
                      +.++|++|+|||+++..++..+. ..++.+..+-
T Consensus         2 i~i~G~~gsGKTtl~~~l~~~l~-~~G~~V~viK   34 (155)
T TIGR00176         2 LQIVGPKNSGKTTLIERLVKALK-ARGYRVATIK   34 (155)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEe
Confidence            56899999999999999999874 3456666664

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]

Probab=93.91  E-value=0.088  Score=55.11  Aligned_cols=39  Identities=18%  Similarity=0.306  Sum_probs=33.0

Q ss_pred             hhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        393 IRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       393 ~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .....++...+..+.++|++|-+|||||++++++....+
T Consensus       160 ~~~a~~L~~av~~r~NILisGGTGSGKTTlLNal~~~i~  198 (355)
T COG4962         160 RRAAKFLRRAVGIRCNILISGGTGSGKTTLLNALSGFID  198 (355)
T ss_pred             HHHHHHHHHHHhhceeEEEeCCCCCCHHHHHHHHHhcCC
Confidence            345567778888899999999999999999999887663

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=93.91  E-value=0.12  Score=51.36  Aligned_cols=47  Identities=21%  Similarity=0.210  Sum_probs=30.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSART  452 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~l  452 (583)
                      +..|..+++.||||+|||+++.+++...... +..++.+  |...+++.+
T Consensus        17 i~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~-g~~~~~i--s~e~~~~~i   63 (229)
T TIGR03881        17 IPRGFFVAVTGEPGTGKTIFCLHFAYKGLRD-GDPVIYV--TTEESRESI   63 (229)
T ss_pred             CcCCeEEEEECCCCCChHHHHHHHHHHHHhc-CCeEEEE--EccCCHHHH
Confidence            3457889999999999999999876543222 3334444  444555544

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>PRK05973 replicative DNA helicase; Provisional

Probab=93.89  E-value=0.07  Score=53.61  Aligned_cols=48  Identities=13%  Similarity=0.198  Sum_probs=32.0

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQ  453 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq  453 (583)
                      +..|.-+++.|+||+|||+++.+++.+.. ..+..++++  |-.-+++++.
T Consensus        61 l~~Gsl~LIaG~PG~GKT~lalqfa~~~a-~~Ge~vlyf--SlEes~~~i~  108 (237)
T PRK05973         61 LKPGDLVLLGARPGHGKTLLGLELAVEAM-KSGRTGVFF--TLEYTEQDVR  108 (237)
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHHHHH-hcCCeEEEE--EEeCCHHHHH
Confidence            45678899999999999999998876432 223344444  4344454544

>PTZ00301 uridine kinase; Provisional

Probab=93.85  E-value=0.047  Score=53.86  Aligned_cols=23  Identities=26%  Similarity=0.579  Sum_probs=19.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      =|-+.||||||||++++.+.+.+
T Consensus         5 iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          5 VIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             EEEEECCCcCCHHHHHHHHHHHH
Confidence            36789999999999999887665

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=93.82  E-value=0.11  Score=59.04  Aligned_cols=31  Identities=29%  Similarity=0.354  Sum_probs=24.1

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +...+. +.-++|.|+||||||+++..++..+
T Consensus       154 ~~~al~-~~~~vitGgpGTGKTt~v~~ll~~l  184 (586)
T TIGR01447       154 VALALK-SNFSLITGGPGTGKTTTVARLLLAL  184 (586)
T ss_pred             HHHHhh-CCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            333343 5788999999999999999887654

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.

>PRK01184 hypothetical protein; Provisional

Probab=93.81  E-value=0.062  Score=51.39  Aligned_cols=22  Identities=23%  Similarity=0.437  Sum_probs=17.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -+.|+||||||||++++ +++.+
T Consensus         3 ~i~l~G~~GsGKsT~a~-~~~~~   24 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSK-IAREM   24 (184)
T ss_pred             EEEEECCCCCCHHHHHH-HHHHc
Confidence            47899999999999876 56554

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=93.80  E-value=0.13  Score=53.77  Aligned_cols=54  Identities=17%  Similarity=0.118  Sum_probs=35.4

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhccc-----CCceEEEEEeccCCChHHHHHHHH
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLAS-----NTWAALTINFSAQTSSARTQEILE  457 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~-----~~~~~~~i~fS~~Tt~~~lq~~ie  457 (583)
                      ..|.-++++||||||||+++.+++.+...+     .+-.+++|..-..-+++.+.+.++
T Consensus        93 ~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~~  151 (310)
T TIGR02236        93 ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAE  151 (310)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHHH
Confidence            345677999999999999999887553211     012566666554446666665554

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>KOG1968|consensus

Probab=93.79  E-value=0.22  Score=58.81  Aligned_cols=137  Identities=18%  Similarity=0.244  Sum_probs=76.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhh----hhcCccccCC---CCCeEEEEe
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLD----KRTKTLLGAP---LGKRLAVFV  480 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~----~~~~~~~~p~---~gk~~vlfi  480 (583)
                      -++++||||.|||+.+......+    ++.++-.|-|..-+...+.+.+.....    ...+..++.+   .+...||.+
T Consensus       359 ~~l~~G~pGigKT~~~h~~~k~~----g~~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~  434 (871)
T KOG1968|consen  359 ALLLSGPPGIGKTTAAHKAAKEL----GFKVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILM  434 (871)
T ss_pred             HHHhcCCCCCCchhhHhhhhhhc----ccceeecCccccccccHHHhhhhccccccchhhhhcccccccccccceeEEEE
Confidence            37999999999999988888765    455655554433222222222211110    0111233322   344568899


Q ss_pred             cCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHH
Q psy17974        481 DDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTL  560 (583)
Q Consensus       481 DDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl  560 (583)
                      ||++.+..+.   ..-+.-|-+++..              ...-+|++||--.   ..-+..+.+.+..++++.|+.+.+
T Consensus       435 devD~~~~~d---Rg~v~~l~~l~~k--------------s~~Piv~~cndr~---~p~sr~~~~~~~~l~f~kP~~~~i  494 (871)
T KOG1968|consen  435 DEVDGMFGED---RGGVSKLSSLCKK--------------SSRPLVCTCNDRN---LPKSRALSRACSDLRFSKPSSELI  494 (871)
T ss_pred             eccccccchh---hhhHHHHHHHHHh--------------ccCCeEEEecCCC---CccccchhhhcceeeecCCcHHHH
Confidence            9998765421   2223444444431              1234677787422   233445666667899999998887


Q ss_pred             HHHHHHHh
Q psy17974        561 KVIFKVRT  568 (583)
Q Consensus       561 ~~I~~~~l  568 (583)
                      ..=..++.
T Consensus       495 ~~ri~si~  502 (871)
T KOG1968|consen  495 RSRIMSIC  502 (871)
T ss_pred             Hhhhhhhh
Confidence            65444443

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=93.79  E-value=0.049  Score=50.55  Aligned_cols=22  Identities=23%  Similarity=0.397  Sum_probs=19.5

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +|+++|++|+|||++++.+...
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~   22 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTL   22 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhh
Confidence            5899999999999999998654

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=93.76  E-value=0.054  Score=51.10  Aligned_cols=24  Identities=33%  Similarity=0.678  Sum_probs=22.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++++|+|++|||||++++.++..+
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~l   26 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQAL   26 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999999876

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=93.75  E-value=0.46  Score=55.89  Aligned_cols=34  Identities=29%  Similarity=0.315  Sum_probs=27.1

Q ss_pred             HHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        396 GSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       396 ~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..=+-..+..++-|+|+|||||||||-+-.++-+
T Consensus        55 ~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle   88 (845)
T COG1643          55 RDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLE   88 (845)
T ss_pred             HHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHh
Confidence            3445667888999999999999999988766543

>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases

Probab=93.74  E-value=0.19  Score=46.72  Aligned_cols=33  Identities=30%  Similarity=0.471  Sum_probs=24.8

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHH-HHHhh
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARS-ILNKL  430 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~-~l~~l  430 (583)
                      ..+..++ .++++++.||+|+|||..+.- ++..+
T Consensus         6 ~~~~~i~-~~~~~li~aptGsGKT~~~~~~~l~~~   39 (169)
T PF00270_consen    6 EAIEAII-SGKNVLISAPTGSGKTLAYILPALNRL   39 (169)
T ss_dssp             HHHHHHH-TTSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHH-cCCCEEEECCCCCccHHHHHHHHHhhh
Confidence            4555566 688999999999999998763 34434

Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....

>PRK06851 hypothetical protein; Provisional

Probab=93.70  E-value=0.1  Score=55.78  Aligned_cols=41  Identities=12%  Similarity=0.225  Sum_probs=33.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT  447 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T  447 (583)
                      .+-++|.|+||||||++++.++.... ..++.+...+|+..-
T Consensus       214 ~~~~~i~G~pG~GKstl~~~i~~~a~-~~G~~v~~~hC~~dP  254 (367)
T PRK06851        214 KNRYFLKGRPGTGKSTMLKKIAKAAE-ERGFDVEVYHCGFDP  254 (367)
T ss_pred             ceEEEEeCCCCCcHHHHHHHHHHHHH-hCCCeEEEEeCCCCC
Confidence            46789999999999999999988773 457888888887643

>cd00154 Rab Rab family

Probab=93.69  E-value=0.078  Score=47.99  Aligned_cols=22  Identities=27%  Similarity=0.517  Sum_probs=19.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         2 ~i~~~G~~~~GKStl~~~l~~~   23 (159)
T cd00154           2 KIVLIGDSGVGKTSLLLRFVDG   23 (159)
T ss_pred             eEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998764

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>TIGR02012 tigrfam_recA protein RecA

Probab=93.69  E-value=0.21  Score=52.47  Aligned_cols=26  Identities=19%  Similarity=0.213  Sum_probs=21.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|.-++++||||||||+++.+++...
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~   79 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEA   79 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35678999999999999988876654

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=93.68  E-value=0.047  Score=52.33  Aligned_cols=26  Identities=35%  Similarity=0.492  Sum_probs=22.7

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +..|.-+.|+||+|+|||++++.++.
T Consensus        18 i~~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          18 IPLNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhh
Confidence            55688899999999999999998763

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>smart00175 RAB Rab subfamily of small GTPases

Probab=93.66  E-value=0.073  Score=49.01  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         2 kv~v~G~~~~GKTtli~~l~~~   23 (164)
T smart00175        2 KIILIGDSGVGKSSLLSRFTDG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999998764

Rab GTPases are implicated in vesicle trafficking.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=93.65  E-value=0.13  Score=53.85  Aligned_cols=54  Identities=17%  Similarity=0.212  Sum_probs=35.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccC-----CceEEEEEeccCCChHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASN-----TWAALTINFSAQTSSARTQEIL  456 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~-----~~~~~~i~fS~~Tt~~~lq~~i  456 (583)
                      +..|.-++++||||||||+++.+++.....+.     +..+++|.+-..-+++.+.+..
T Consensus        99 i~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~  157 (317)
T PRK04301         99 IETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMA  157 (317)
T ss_pred             ccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHH
Confidence            33467889999999999999998875431111     1256666654444566655544

>TIGR00235 udk uridine kinase

Probab=93.64  E-value=0.055  Score=53.02  Aligned_cols=25  Identities=40%  Similarity=0.518  Sum_probs=21.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |.-+.++||+|||||++++.+...+
T Consensus         6 g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         6 GIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4557899999999999999998765

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 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=93.63  E-value=0.054  Score=52.10  Aligned_cols=24  Identities=29%  Similarity=0.537  Sum_probs=19.0

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|||+||+|+|||++...+...
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~   26 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNG   26 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHS
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcC
Confidence            567999999999999999888764

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 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>PRK13946 shikimate kinase; Provisional

Probab=93.63  E-value=0.062  Score=51.68  Aligned_cols=26  Identities=31%  Similarity=0.566  Sum_probs=23.5

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+++|+|+|.+|||||++++.+.+.+
T Consensus         9 ~~~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946          9 GKRTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999999876

>PLN03210 Resistant to P

Probab=93.60  E-value=0.89  Score=56.16  Aligned_cols=26  Identities=35%  Similarity=0.569  Sum_probs=22.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+-|-++|++|+|||++++.+.+.+
T Consensus       206 ~~~vvgI~G~gGiGKTTLA~~l~~~l  231 (1153)
T PLN03210        206 EVRMVGIWGSSGIGKTTIARALFSRL  231 (1153)
T ss_pred             ceEEEEEEcCCCCchHHHHHHHHHHH
Confidence            34568899999999999999998765

syringae 6; Provisional

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=93.60  E-value=0.054  Score=49.63  Aligned_cols=22  Identities=23%  Similarity=0.564  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~   24 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQN   24 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998864

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=93.57  E-value=0.062  Score=51.44  Aligned_cols=26  Identities=23%  Similarity=0.516  Sum_probs=22.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|..+.++||+|||||++++.+...+
T Consensus         2 ~ge~i~l~G~sGsGKSTl~~~la~~l   27 (176)
T PRK09825          2 AGESYILMGVSGSGKSLIGSKIAALF   27 (176)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            36678999999999999999988765

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=93.56  E-value=0.057  Score=49.97  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998763

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>TIGR00376 DNA helicase, putative

Probab=93.55  E-value=0.1  Score=60.09  Aligned_cols=33  Identities=21%  Similarity=0.306  Sum_probs=26.0

Q ss_pred             HHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        398 IMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       398 ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+...+.++..+++.||||||||+++..++..+
T Consensus       165 Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~  197 (637)
T TIGR00376       165 AVSFALSSKDLFLIHGPPGTGKTRTLVELIRQL  197 (637)
T ss_pred             HHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            345566666789999999999999888776654

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=93.53  E-value=0.07  Score=53.27  Aligned_cols=49  Identities=20%  Similarity=0.237  Sum_probs=31.7

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQ  453 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq  453 (583)
                      +..|.-++|.|+||+|||+++.+++.......+..+..  ||..-++..+.
T Consensus        10 l~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly--~s~E~~~~~~~   58 (242)
T cd00984          10 LQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLF--FSLEMSKEQLL   58 (242)
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEE--EeCCCCHHHHH
Confidence            44567889999999999999998876542222344443  44444444433

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PF12846 AAA_10: AAA-like domain

Probab=93.51  E-value=0.076  Score=54.24  Aligned_cols=25  Identities=36%  Similarity=0.624  Sum_probs=22.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.|++++|++|+|||++++.++..+
T Consensus         1 n~h~~i~G~tGsGKT~~~~~l~~~~   25 (304)
T PF12846_consen    1 NPHTLILGKTGSGKTTLLKNLLEQL   25 (304)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Confidence            4689999999999999999888765

>KOG0925|consensus

Probab=93.49  E-value=0.44  Score=51.80  Aligned_cols=160  Identities=20%  Similarity=0.261  Sum_probs=82.4

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCC-----------------------c-------eEEEEEeccCCChH
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNT-----------------------W-------AALTINFSAQTSSA  450 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~-----------------------~-------~~~~i~fS~~Tt~~  450 (583)
                      .++.+++-++++|++|||||+-+-+..-.......                       +       .-..|.|-..++++
T Consensus        57 ~~l~~nQ~~v~vGetgsGKttQiPq~~~~~~~~~~~~v~CTQprrvaamsva~RVadEMDv~lG~EVGysIrfEdC~~~~  136 (699)
T KOG0925|consen   57 KLLLNNQIIVLVGETGSGKTTQIPQFVLEYELSHLTGVACTQPRRVAAMSVAQRVADEMDVTLGEEVGYSIRFEDCTSPN  136 (699)
T ss_pred             HHHhcCceEEEEecCCCCccccCcHHHHHHHHhhccceeecCchHHHHHHHHHHHHHHhccccchhccccccccccCChh
Confidence            45667899999999999999965443221100000                       0       01134444444444


Q ss_pred             HHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecC
Q psy17974        451 RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACA  530 (583)
Q Consensus       451 ~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~  530 (583)
                      .+.+..-..+--| .-.-.|--++..|+.+||.|--..   .+....-+|++..-.+             .|+.+|.-..
T Consensus       137 T~Lky~tDgmLlr-Eams~p~l~~y~viiLDeahERtl---ATDiLmGllk~v~~~r-------------pdLk~vvmSa  199 (699)
T KOG0925|consen  137 TLLKYCTDGMLLR-EAMSDPLLGRYGVIILDEAHERTL---ATDILMGLLKEVVRNR-------------PDLKLVVMSA  199 (699)
T ss_pred             HHHHHhcchHHHH-HHhhCcccccccEEEechhhhhhH---HHHHHHHHHHHHHhhC-------------CCceEEEeec
Confidence            4433321111000 000123456778999999885221   1222445666655422             1333332222


Q ss_pred             CCCCCC----------CCCChhhhccceEEEeCCCCHHHHHHHHHHHhcccccCCCccc
Q psy17974        531 PPGGGR----------MPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPGKQEGTSSI  579 (583)
Q Consensus       531 p~~~gr----------~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~~l~~~~~~~  579 (583)
                      |-..++          -.++.  ..-.-+++.+.|..+.+..+..+.++-|..+..-+|
T Consensus       200 tl~a~Kfq~yf~n~Pll~vpg--~~PvEi~Yt~e~erDylEaairtV~qih~~ee~GDi  256 (699)
T KOG0925|consen  200 TLDAEKFQRYFGNAPLLAVPG--THPVEIFYTPEPERDYLEAAIRTVLQIHMCEEPGDI  256 (699)
T ss_pred             ccchHHHHHHhCCCCeeecCC--CCceEEEecCCCChhHHHHHHHHHHHHHhccCCCCE
Confidence            211110          01111  112236888899999999999999998877654443

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=93.47  E-value=0.051  Score=53.45  Aligned_cols=28  Identities=18%  Similarity=0.169  Sum_probs=24.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+|||++++.++.-+
T Consensus        27 i~~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          27 IEKGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EcCCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            4578899999999999999999987754

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=93.44  E-value=0.053  Score=54.33  Aligned_cols=28  Identities=25%  Similarity=0.277  Sum_probs=23.5

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .-+..|.=|-++||+||||||+.+-++.
T Consensus        24 L~v~~GEfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          24 LSVEKGEFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             eEECCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3456788899999999999999987764

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=93.44  E-value=0.63  Score=53.96  Aligned_cols=121  Identities=17%  Similarity=0.192  Sum_probs=71.8

Q ss_pred             hhhhHHHHHHHHHhc--CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc-CCChHHHHHHHHhhhhh-----
Q psy17974        391 DTIRFGSIMEKLLLV--NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA-QTSSARTQEILEGKLDK-----  462 (583)
Q Consensus       391 dt~r~~~ll~~~l~~--~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~-~Tt~~~lq~~ie~~l~~-----  462 (583)
                      ..+.-..+++.+-..  .+=++++-|.|.|||+++-.+....  .++..+.=+++.. ...+..+...+-..+.+     
T Consensus        20 ~~v~R~rL~~~L~~~~~~RL~li~APAGfGKttl~aq~~~~~--~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~   97 (894)
T COG2909          20 NYVVRPRLLDRLRRANDYRLILISAPAGFGKTTLLAQWRELA--ADGAAVAWLSLDESDNDPARFLSYLIAALQQATPTL   97 (894)
T ss_pred             cccccHHHHHHHhcCCCceEEEEeCCCCCcHHHHHHHHHHhc--CcccceeEeecCCccCCHHHHHHHHHHHHHHhCccc
Confidence            334444566666654  4678999999999999999887633  2344455455543 23343333322222211     


Q ss_pred             -------hcCccc-----------c--CCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecC
Q psy17974        463 -------RTKTLL-----------G--APLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQD  522 (583)
Q Consensus       463 -------~~~~~~-----------~--p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~  522 (583)
                             ..+..+           .  .+-.+++++++||.|.....     ...+-||-+++|.            .++
T Consensus        98 ~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~-----~l~~~l~fLl~~~------------P~~  160 (894)
T COG2909          98 GDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDP-----ALHEALRFLLKHA------------PEN  160 (894)
T ss_pred             cHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcc-----cHHHHHHHHHHhC------------CCC
Confidence                   011111           1  22345789999999996543     3678999999865            356


Q ss_pred             eEEEEecC
Q psy17974        523 VVLCTACA  530 (583)
Q Consensus       523 i~~iaa~~  530 (583)
                      +++|.++.
T Consensus       161 l~lvv~SR  168 (894)
T COG2909         161 LTLVVTSR  168 (894)
T ss_pred             eEEEEEec
Confidence            67776654

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=93.43  E-value=0.13  Score=47.76  Aligned_cols=41  Identities=29%  Similarity=0.447  Sum_probs=36.4

Q ss_pred             hhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        391 DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       391 dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      +|.+....+...+..|.-|+|.|+=|+|||++++.+++.+.
T Consensus        10 ~t~~lg~~l~~~l~~g~Vv~L~GdLGAGKTtf~rgi~~~Lg   50 (149)
T COG0802          10 ATLALGERLAEALKAGDVVLLSGDLGAGKTTLVRGIAKGLG   50 (149)
T ss_pred             HHHHHHHHHHhhCCCCCEEEEEcCCcCChHHHHHHHHHHcC
Confidence            46777777888888999999999999999999999999884

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=93.41  E-value=0.058  Score=48.48  Aligned_cols=23  Identities=22%  Similarity=0.443  Sum_probs=20.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~   24 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGN   24 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            36899999999999999988764

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=93.41  E-value=0.12  Score=48.53  Aligned_cols=35  Identities=29%  Similarity=0.442  Sum_probs=27.0

Q ss_pred             HHHHHHHhc--CCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        397 SIMEKLLLV--NHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       397 ~ll~~~l~~--~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .+++.+-..  ..++++.||+|||||.++-.++..+.
T Consensus        14 ~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~   50 (184)
T PF04851_consen   14 RIINSLENKKEERRVLLNAPTGSGKTIIALALILELA   50 (184)
T ss_dssp             HHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc
Confidence            334444444  68999999999999999998777763

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>cd04113 Rab4 Rab4 subfamily

Probab=93.40  E-value=0.059  Score=49.75  Aligned_cols=22  Identities=18%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .++++|++|+|||++++.++..
T Consensus         2 ki~v~G~~~vGKTsli~~l~~~   23 (161)
T cd04113           2 KFIIIGSSGTGKSCLLHRFVEN   23 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998764

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=93.39  E-value=0.054  Score=52.96  Aligned_cols=28  Identities=29%  Similarity=0.343  Sum_probs=24.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|..+.|+||+|+|||++++.++..+
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          23 VEKGEIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4578889999999999999999888754

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. 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. 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.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=93.39  E-value=0.054  Score=53.91  Aligned_cols=28  Identities=21%  Similarity=0.233  Sum_probs=24.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|..+.|+||+|+|||++++.++.-+
T Consensus        28 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          28 VPKGEIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            5678999999999999999999887755

Other members of this system include the MetP permease and the MetQ substrate binding protein. 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.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=93.38  E-value=0.16  Score=48.41  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=20.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+++.|+||||||+++..++...
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc
Confidence            58999999999999999998765

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=93.38  E-value=0.061  Score=49.62  Aligned_cols=22  Identities=27%  Similarity=0.478  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         2 ki~~vG~~~vGKTsli~~l~~~   23 (168)
T cd04119           2 KVISMGNSGVGKSCIIKRYCEG   23 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998864

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=93.37  E-value=0.05  Score=54.02  Aligned_cols=22  Identities=23%  Similarity=0.336  Sum_probs=19.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHH
Q psy17974        406 NHPVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l  427 (583)
                      ...+|++|+||+|||++++.+.
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~   33 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLP   33 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcC
Confidence            3568999999999999998875

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.

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=93.35  E-value=0.028  Score=63.21  Aligned_cols=47  Identities=21%  Similarity=0.265  Sum_probs=31.8

Q ss_pred             CccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        382 FFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       382 ~~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +.++-|-|++-.....=++.-+..|..+++.||+|||||++.++++.
T Consensus       395 ~~nl~l~~p~~~~ll~~l~~~v~~G~~llI~G~SG~GKTsLlRaiaG  441 (604)
T COG4178         395 LENLSLRTPDGQTLLSELNFEVRPGERLLITGESGAGKTSLLRALAG  441 (604)
T ss_pred             EeeeeEECCCCCeeeccceeeeCCCCEEEEECCCCCCHHHHHHHHhc
Confidence            34444444443321122334467899999999999999999998864

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.35  E-value=0.11  Score=55.59  Aligned_cols=41  Identities=24%  Similarity=0.212  Sum_probs=29.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ  446 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~  446 (583)
                      .+..++++||+|+|||+++..++..+. ..+..+..++...+
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~-~~g~~V~lItaDty  245 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLL-KQNRTVGFITTDTF  245 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEeCCcc
Confidence            577889999999999999998876552 23455555655444

>PRK14526 adenylate kinase; Provisional

Probab=93.32  E-value=0.065  Score=52.93  Aligned_cols=23  Identities=35%  Similarity=0.635  Sum_probs=20.3

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++|+||||||||++++.++..+
T Consensus         2 ~i~l~G~pGsGKsT~a~~La~~~   24 (211)
T PRK14526          2 KLVFLGPPGSGKGTIAKILSNEL   24 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999888754

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=93.31  E-value=0.057  Score=52.90  Aligned_cols=28  Identities=21%  Similarity=0.400  Sum_probs=24.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|..+.|+||+|+|||++++.++..+
T Consensus        24 i~~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          24 ISAGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4578899999999999999999888754

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=93.30  E-value=0.51  Score=49.13  Aligned_cols=124  Identities=17%  Similarity=0.175  Sum_probs=64.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      +-++|.|+.|+|||++++-+ ..+-..  +.   ++  + +++..+++     ++. .+.....-.||++ +++||+..-
T Consensus        77 ~~~~l~G~g~nGKStl~~~l-~~l~G~--~~---~~--~-~~~~~~~~-----~~~-~~f~~a~l~gk~l-~~~~E~~~~  140 (304)
T TIGR01613        77 KLFFLYGNGGNGKSTFQNLL-SNLLGD--YA---TT--A-VASLKMNE-----FQE-HRFGLARLEGKRA-VIGDEVQKG  140 (304)
T ss_pred             EEEEEECCCCCcHHHHHHHH-HHHhCh--hh---cc--C-Ccchhhhh-----ccC-CCchhhhhcCCEE-EEecCCCCC
Confidence            46799999999999998744 443222  11   00  0 11111221     111 0111122345554 567997532


Q ss_pred             CcccCCCCChHHHHHHHHHhCCeeecCC--CeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeC
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLYDRDK--MFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLP  553 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~yd~~~--~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~  553 (583)
                      ..      ...+.|+++....-..-+.+  ..+.......+|.++|..- .-..-+..+.||+.+|.++
T Consensus       141 ~~------~~~~~lK~lt~gd~i~~~~k~k~~~~~~~~~~~i~~tN~~P-~~~~~~~a~~RR~~vi~f~  202 (304)
T TIGR01613       141 YR------DDESTFKSLTGGDTITARFKNKDPFEFTPKFTLVQSTNHLP-RIRGFDGGIKRRLRIIPFT  202 (304)
T ss_pred             cc------ccHHhhhhhhcCCeEEeecccCCcEEEEEeeEEEEEcCCCC-ccCCCChhheeeEEEEecc
Confidence            11      12478888886444432221  2232233567777888632 1123467889999888765

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.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=93.28  E-value=0.056  Score=60.44  Aligned_cols=49  Identities=8%  Similarity=0.040  Sum_probs=36.1

Q ss_pred             CeEEEEecCCCCC---CCCCCChhhhccceEEEeCCCCH-HHHHHHHHHHhcc
Q psy17974        522 DVVLCTACAPPGG---GRMPLTPRFVRHFGLLSLPSPTE-DTLKVIFKVRTSP  570 (583)
Q Consensus       522 ~i~~iaa~~p~~~---gr~~l~~Rllr~f~vi~i~~p~~-~sl~~I~~~~l~~  570 (583)
                      |-.+||.+|.+.-   -.+.=...|+.|..+|.+|+--. .+=.+||..+++.
T Consensus       296 D~vIiaHsNE~E~~~F~~nk~nEA~~DRi~~V~VPY~lr~~eE~kIYeKll~~  348 (644)
T PRK15455        296 DGIILAHSNESEWQTFRNNKNNEAFLDRIYIVKVPYCLRVSEEIKIYEKLLRN  348 (644)
T ss_pred             ceeEEecCCHHHHHHHhcCccchhhhceEEEEeCCccCChhHHHHHHHHHhcC
Confidence            5567888877641   12445689999999999999755 5556799999865

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=93.28  E-value=0.058  Score=51.92  Aligned_cols=28  Identities=18%  Similarity=0.243  Sum_probs=24.3

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|..+.|+||+|+|||++++.++.-.
T Consensus        15 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        15 AERGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            5578899999999999999999887654

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>TIGR00101 ureG urease accessory protein UreG

Probab=93.27  E-value=0.11  Score=50.84  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.3

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .+-++||+|+|||++++.++..+.
T Consensus         3 ~i~i~G~~GsGKTTll~~l~~~l~   26 (199)
T TIGR00101         3 KIGVAGPVGSGKTALIEALTRALR   26 (199)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhC
Confidence            478999999999999999998763

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>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=93.27  E-value=0.11  Score=48.81  Aligned_cols=34  Identities=26%  Similarity=0.503  Sum_probs=25.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEE
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTI  441 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i  441 (583)
                      .-+.|+|.+|+|||++++.+.+.+. ..++.+..+
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~-~~g~~~~~L   36 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLF-ARGIKVYLL   36 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHH-HTTS-EEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEe
Confidence            4578999999999999999988773 334445444

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 ....

>PRK08356 hypothetical protein; Provisional

Probab=93.27  E-value=0.06  Score=52.23  Aligned_cols=21  Identities=33%  Similarity=0.275  Sum_probs=18.3

Q ss_pred             CceEEEccCCCcHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l  427 (583)
                      ..++|+||||||||++++.+.
T Consensus         6 ~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          6 MIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            357899999999999999883

>cd04159 Arl10_like Arl10-like subfamily

Probab=93.25  E-value=0.062  Score=48.73  Aligned_cols=21  Identities=24%  Similarity=0.444  Sum_probs=18.8

Q ss_pred             eEEEccCCCcHHHHHHHHHHh
Q psy17974        409 VMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      |.++|++|+|||++++.+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999988764

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=93.24  E-value=0.13  Score=51.03  Aligned_cols=133  Identities=18%  Similarity=0.225  Sum_probs=74.7

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhh----hhcC--------------
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLD----KRTK--------------  465 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~----~~~~--------------  465 (583)
                      ..|+.+++.|++|+|||+++..+++... .+ .. +.+-+..  ....+.++++.-.+    ++.-              
T Consensus        13 g~Gqr~~I~g~~g~GKt~Ll~~i~~~~~-~d-~~-V~~~iGe--r~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~   87 (215)
T PF00006_consen   13 GRGQRIGIFGGAGVGKTVLLQEIANNQD-AD-VV-VYALIGE--RGREVTEFIEELKGEGALERTVVVAATSDEPPAARY   87 (215)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHCT-TT-EE-EEEEESE--CHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHH
T ss_pred             ccCCEEEEEcCcccccchhhHHHHhccc-cc-ce-eeeeccc--cchhHHHHHHHHhhcccccccccccccchhhHHHHh
Confidence            3578999999999999999999998762 22 22 3332222  33444444432211    1100              


Q ss_pred             ----------ccccCCCCCeEEEEecCCCC---------------CCcccCCCCChHHHHHHHHHhCCeeecCCCeeEee
Q psy17974        466 ----------TLLGAPLGKRLAVFVDDVNM---------------PKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTL  520 (583)
Q Consensus       466 ----------~~~~p~~gk~~vlfiDDln~---------------p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i  520 (583)
                                ..| .-.|+..++++||+..               |..+.|-. .+...+..++|.-|-+....    .-
T Consensus        88 ~~~~~a~t~AEyf-rd~G~dVlli~Dsltr~a~A~reis~~~g~~p~~~Gyp~-~~~~~l~~l~ERag~~~~~~----~~  161 (215)
T PF00006_consen   88 RAPYTALTIAEYF-RDQGKDVLLIIDSLTRWAQAYREISLLLGEPPGREGYPP-SLFSDLASLYERAGKVNSEE----GG  161 (215)
T ss_dssp             HHHHHHHHHHHHH-HHTTSEEEEEEETHHHHHHHHHHHHHHTTSSBBGGGSBT-THHHHHHHHHTTSEEBSTTT----TS
T ss_pred             hhhccchhhhHHH-hhcCCceeehhhhhHHHHHHHHhhhcccccccccccccc-hhccchhhHHHHhhcccccc----CC
Confidence                      001 1268999999999853               22222211 25677888888777661111    11


Q ss_pred             cCeEEEEecCCCCCCC-CCCChhhhccc
Q psy17974        521 QDVVLCTACAPPGGGR-MPLTPRFVRHF  547 (583)
Q Consensus       521 ~~i~~iaa~~p~~~gr-~~l~~Rllr~f  547 (583)
                      ..++.+.+.-+|++.. .+++..+..+.
T Consensus       162 GSIT~~~~v~~~~~d~~~pi~~~~~~~~  189 (215)
T PF00006_consen  162 GSITAIPTVLVPGDDITDPIPDNTKSIL  189 (215)
T ss_dssp             EEEEEEEEEEESTTBTTSHHHHHHHTTS
T ss_pred             ceeeeecccccccccccchHHHHHHhhc
Confidence            2477777777776432 33333444443

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=93.24  E-value=0.058  Score=53.99  Aligned_cols=29  Identities=24%  Similarity=0.298  Sum_probs=24.8

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -+..|.-+.|+||+|+|||++++.++.-+
T Consensus        24 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        24 NINPGEFVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            35678899999999999999999887644

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd01870 RhoA_like RhoA-like subfamily

Probab=93.22  E-value=0.065  Score=50.22  Aligned_cols=23  Identities=17%  Similarity=0.251  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +.|+++|++|+|||++++.++..
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~   24 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKD   24 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            57899999999999999988864

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=93.22  E-value=0.056  Score=55.79  Aligned_cols=23  Identities=30%  Similarity=0.626  Sum_probs=20.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .++|++|++|+|||+++++++..
T Consensus         5 fnImVvG~sG~GKTTFIntL~~~   27 (281)
T PF00735_consen    5 FNIMVVGESGLGKTTFINTLFNS   27 (281)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhc
Confidence            47999999999999999999864

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>KOG0479|consensus

Probab=93.21  E-value=0.65  Score=51.67  Aligned_cols=148  Identities=20%  Similarity=0.235  Sum_probs=81.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEE------EEeccCCChHHHHHHHHhhhhhhcCccccCC-CCCeEEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALT------INFSAQTSSARTQEILEGKLDKRTKTLLGAP-LGKRLAV  478 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~------i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~-~gk~~vl  478 (583)
                      ..|+||+|.|.+.||.|++.+++.-+ .  ....+      +-+.+..|.+  |++=|.+|+.      |+- -..+.|+
T Consensus       334 DINiLlvGDPSvAKSQLLRyVLntAp-l--AI~TTGRGSSGVGLTAAVTtD--~eTGERRLEA------GAMVLADRGVV  402 (818)
T KOG0479|consen  334 DINILLVGDPSVAKSQLLRYVLNTAP-L--AIATTGRGSSGVGLTAAVTTD--QETGERRLEA------GAMVLADRGVV  402 (818)
T ss_pred             ceeEEEecCchHHHHHHHHHHHhccc-c--cccccCCCCCCccceeEEeec--cccchhhhhc------CceEEccCceE
Confidence            46999999999999999999998542 0  00000      1111111111  1222344442      111 2346689


Q ss_pred             EecCCCC-CCcccCCCCChHHHHHHHHHhCCeeecCCC-eeEeecCeEEEEecCCCCCC----C-----CCCChhhhccc
Q psy17974        479 FVDDVNM-PKLETYGAQPPIELLRQFLDFGGLYDRDKM-FWKTLQDVVLCTACAPPGGG----R-----MPLTPRFVRHF  547 (583)
Q Consensus       479 fiDDln~-p~~d~yg~q~~lElLRq~ld~~g~yd~~~~-~~~~i~~i~~iaa~~p~~~g----r-----~~l~~Rllr~f  547 (583)
                      .|||++- ...|.       -.+-..+|.+..--.+-. .-.--.++.++||.||-.|-    +     ..++..|+++|
T Consensus       403 CIDEFDKMsDiDR-------vAIHEVMEQqtVTIaKAGIHasLNARCSVlAAANPvyG~Yd~~k~P~eNIgLpDSLLSRF  475 (818)
T KOG0479|consen  403 CIDEFDKMSDIDR-------VAIHEVMEQQTVTIAKAGIHASLNARCSVLAAANPVYGQYDQSKTPMENIGLPDSLLSRF  475 (818)
T ss_pred             EehhcccccchhH-------HHHHHHHhcceEEeEeccchhhhccceeeeeecCccccccCCCCChhhccCCcHHHHhhh
Confidence            9999983 33332       123344554543321111 11112579999999997541    1     34788999999


Q ss_pred             eEE--EeCCCCHHHHHHHHHHHhccc
Q psy17974        548 GLL--SLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       548 ~vi--~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      -++  .++..+.+-=..|-...|+-|
T Consensus       476 DLlFv~lD~~d~~~D~~iSeHVLRmH  501 (818)
T KOG0479|consen  476 DLLFVVLDDIDADIDRMISEHVLRMH  501 (818)
T ss_pred             cEEEEEeccccchHHHHHHHHHHHHh
Confidence            864  455555555555666666654

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=93.19  E-value=0.13  Score=54.17  Aligned_cols=37  Identities=24%  Similarity=0.285  Sum_probs=27.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      +.-++++||+|+|||+++.+++..+. ..+..+..+..
T Consensus       114 ~~vi~lvGpnGsGKTTt~~kLA~~l~-~~g~~V~Li~~  150 (318)
T PRK10416        114 PFVILVVGVNGVGKTTTIGKLAHKYK-AQGKKVLLAAG  150 (318)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHH-hcCCeEEEEec
Confidence            45789999999999999999987663 33444544443

>cd01861 Rab6 Rab6 subfamily

Probab=93.18  E-value=0.066  Score=49.29  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .++++|++|+|||++++.++..
T Consensus         2 ki~liG~~~~GKSsli~~l~~~   23 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMYD   23 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999998764

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate

>cd04163 Era Era subfamily

Probab=93.18  E-value=0.067  Score=48.81  Aligned_cols=22  Identities=23%  Similarity=0.385  Sum_probs=19.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..+.++|++|+|||++++.++.
T Consensus         4 ~~i~~~G~~g~GKttl~~~l~~   25 (168)
T cd04163           4 GFVAIVGRPNVGKSTLLNALVG   25 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999875

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	583
3vkh_A	3367	X-Ray Structure Of A Functional Full-Length Dynein		3e-33
3vkh_A	3367	X-Ray Structure Of A Functional Full-Length Dynein		2e-21
3vkg_A	3245	X-Ray Structure Of An Mtbd Truncation Mutant Of Dyn		3e-33
3vkg_A	3245	X-Ray Structure Of An Mtbd Truncation Mutant Of Dyn		2e-21
4ai6_A	2695	Dynein Motor Domain - Adp Complex Length = 2695		3e-21
4ai6_A	2695	Dynein Motor Domain - Adp Complex Length = 2695		4e-19
3qmz_A	2486	Crystal Structure Of The Cytoplasmic Dynein Heavy C		3e-21
3qmz_A	2486	Crystal Structure Of The Cytoplasmic Dynein Heavy C		4e-19

>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor Domain Length = 3367

Iteration: 1
 Score =  140 bits (352), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 75/158 (47%), Positives = 103/158 (65%), Gaps = 23/158 (14%)
Query: 139 INLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNL 198
           I+L      F+TMNPGYAGR+ LPDNLK LFR MAM+ PD  +IA+V+LYS+GF++++ L
Sbjct: 702 ISLHQDMGIFVTMNPGYAGRSNLPDNLKKLFRSMAMIKPDREMIAQVMLYSQGFKTAEVL 761
Query: 199 AQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRA-------------NPDKNE 245
           A K+V ++KLC EQLS Q HYDFG+RA+KSVLV AG +KR              +  K +
Sbjct: 762 AGKIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAGGIKRKCQPPQLPPITDAESKTKAD 821
Query: 246 DV-------VLIRALRDSNLPKFLADDAGL---FLVDV 273
            +       VL+ ++ D+ +PK +ADD  L    L+DV
Sbjct: 822 QIYCQYEIGVLLNSINDTMIPKLVADDIPLIQSLLLDV 859

>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor Domain Length = 3367

Iteration: 1
 Score =  100 bits (250), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 89/325 (27%), Positives = 146/325 (44%), Gaps = 37/325 (11%)
Query: 264  DDAGL--FLVDVSKARMICS---LMESTLIEPGMLDRSHNS-----ENTGPLLVQTFLWS 313
            +DAG    ++D ++ R++ S   LM  +++     ++ H+      EN    +    L+S
Sbjct: 1154 EDAGQRPHIMDFTRLRVLNSFFSLMNRSIVNVIEYNQLHSDFPMSPENQSNYITNRLLYS 1213
Query: 314  YLWAVGGNLTDESRDRFEAFARE-QFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITP 372
             +W +GG++    R+ F  F +    T  P  ++     L  Y VS D    + W    P
Sbjct: 1214 LMWGLGGSMGLVERENFSKFIQTIAITPVPANTIP----LLDYSVSIDDANWSLWKNKVP 1269
Query: 373  ---IFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFXXXXXXXXXXXARSILNK 429
               + T+    P  D+++PT+DT R   ++   L  + P++              S L  
Sbjct: 1270 SVEVETHKVASP--DVVIPTVDTTRHVDVLHAWLSEHRPLILCGPPGSGKTMTLTSTLR- 1326
Query: 430  LLASNTWAALTINFSAQTSSARTQEILEGKLD-----KRTKT----LLGAPLGKRLAVFV 480
              A   +  +++NFS    SA T E+L    D     KRT +    L    LGK L VF 
Sbjct: 1327 --AFPDFEVVSLNFS----SATTPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLVVFC 1380
Query: 481  DDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-GGGRMPL 539
            D++N+P  + YG Q  I  +RQ ++ GG +      W  L  +    AC PP   GR+ L
Sbjct: 1381 DEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQL 1440
Query: 540  TPRFVRHFGLLSLPSPTEDTLKVIF 564
            T RF+RH  +L +  P+  +L  I+
Sbjct: 1441 THRFLRHAPILLVDFPSTSSLTQIY 1465

>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor Domain Length = 3245

Iteration: 1
 Score =  140 bits (352), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 75/158 (47%), Positives = 103/158 (65%), Gaps = 23/158 (14%)
Query: 139 INLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNL 198
           I+L      F+TMNPGYAGR+ LPDNLK LFR MAM+ PD  +IA+V+LYS+GF++++ L
Sbjct: 702 ISLHQDMGIFVTMNPGYAGRSNLPDNLKKLFRSMAMIKPDREMIAQVMLYSQGFKTAEVL 761
Query: 199 AQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRA-------------NPDKNE 245
           A K+V ++KLC EQLS Q HYDFG+RA+KSVLV AG +KR              +  K +
Sbjct: 762 AGKIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAGGIKRKCQPPQLPPITDAESKTKAD 821
Query: 246 DV-------VLIRALRDSNLPKFLADDAGL---FLVDV 273
            +       VL+ ++ D+ +PK +ADD  L    L+DV
Sbjct: 822 QIYCQYEIGVLLNSINDTMIPKLVADDIPLIQSLLLDV 859

>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor Domain Length = 3245

Iteration: 1
 Score =  100 bits (249), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 89/325 (27%), Positives = 146/325 (44%), Gaps = 37/325 (11%)
Query: 264  DDAGL--FLVDVSKARMICS---LMESTLIEPGMLDRSHNS-----ENTGPLLVQTFLWS 313
            +DAG    ++D ++ R++ S   LM  +++     ++ H+      EN    +    L+S
Sbjct: 1154 EDAGQRPHIMDFTRLRVLNSFFSLMNRSIVNVIEYNQLHSDFPMSPENQSNYITNRLLYS 1213
Query: 314  YLWAVGGNLTDESRDRFEAFARE-QFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITP 372
             +W +GG++    R+ F  F +    T  P  ++     L  Y VS D    + W    P
Sbjct: 1214 LMWGLGGSMGLVERENFSKFIQTIAITPVPANTIP----LLDYSVSIDDANWSLWKNKVP 1269
Query: 373  ---IFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFXXXXXXXXXXXARSILNK 429
               + T+    P  D+++PT+DT R   ++   L  + P++              S L  
Sbjct: 1270 SVEVETHKVASP--DVVIPTVDTTRHVDVLHAWLSEHRPLILCGPPGSGKTMTLTSTLR- 1326
Query: 430  LLASNTWAALTINFSAQTSSARTQEILEGKLD-----KRTKT----LLGAPLGKRLAVFV 480
              A   +  +++NFS    SA T E+L    D     KRT +    L    LGK L VF 
Sbjct: 1327 --AFPDFEVVSLNFS----SATTPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLVVFC 1380
Query: 481  DDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-GGGRMPL 539
            D++N+P  + YG Q  I  +RQ ++ GG +      W  L  +    AC PP   GR+ L
Sbjct: 1381 DEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQL 1440
Query: 540  TPRFVRHFGLLSLPSPTEDTLKVIF 564
            T RF+RH  +L +  P+  +L  I+
Sbjct: 1441 THRFLRHAPILLVDFPSTSSLTQIY 1465

>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex Length = 2695

Iteration: 1
 Score =  100 bits (248), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 60/149 (40%), Positives = 83/149 (55%), Gaps = 2/149 (1%)
Query: 127 VRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVV 186
           V K   T + +   L P  A FIT+NPGY GR+ELP+NLK  FR  +M  P  G IAE++
Sbjct: 730 VGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFSMKSPQSGTIAEMI 789
Query: 187 LYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNED 246
           L   GFE SK+LA K+V+  +L S + S  +HY FG+R +K VL     L     +  + 
Sbjct: 790 LQIMGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSPLISEFGEGEKT 849
Query: 247 VVLIRALRDSNLPKFLADDAGLFLVDVSK 275
           VV   +L+   LP     D  +F  ++SK
Sbjct: 850 VV--ESLKRVILPSLGDTDELVFKDELSK 876

>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex Length = 2695

Iteration: 1
 Score = 93.2 bits (230), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 71/266 (26%), Positives = 120/266 (45%), Gaps = 25/266 (9%)
Query: 313  SYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDP----DLRSYFVSKDTKQLTPWT 368
            S L+A+ G+ T ES+          F    N   G D     D  +  ++ D    + + 
Sbjct: 1177 SLLYALAGDSTGESQ--------RAFIQTINTYFGHDSQELSDYSTIVIANDKLSFSSFC 1228
Query: 369  TITPIFT---YDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFXXXXXXXXXXXARS 425
            +  P  +   ++   P  D+++PTIDTI+   I   LL     ++               
Sbjct: 1229 SEIPSVSLEAHEVMRP--DIVIPTIDTIKHEKIFYDLLNSKRGIILCGPPGSGKTMIMN- 1285
Query: 426  ILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTK----TLLGAPLGKRLAVFVD 481
              N L  S+ +  + INFS  T++      L    +  T     TLL     K L +F D
Sbjct: 1286 --NALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCD 1343
Query: 482  DVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLT 540
            ++N+PKL+ YG+Q  +  LRQ ++  G +   +  W T++ + +  AC PP   GR+P++
Sbjct: 1344 EINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMS 1403
Query: 541  PRFVRHFGLLSLPSPTEDTLKVIFKV 566
             RF RH  +L L  P+  +L  I+++
Sbjct: 1404 ERFTRHAAILYLGYPSGKSLSQIYEI 1429

>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain Motor Domain Length = 2486

Iteration: 1
 Score = 99.8 bits (247), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 60/149 (40%), Positives = 83/149 (55%), Gaps = 2/149 (1%)
Query: 127 VRKFCATAIHQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVV 186
           V K   T + +   L P  A FIT+NPGY GR+ELP+NLK  FR  +M  P  G IAE++
Sbjct: 511 VGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFSMKSPQSGTIAEMI 570
Query: 187 LYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNED 246
           L   GFE SK+LA K+V+  +L S + S  +HY FG+R +K VL     L     +  + 
Sbjct: 571 LQIMGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSPLISEFGEGEKT 630
Query: 247 VVLIRALRDSNLPKFLADDAGLFLVDVSK 275
           VV   +L+   LP     D  +F  ++SK
Sbjct: 631 VV--ESLKRVILPSLGDTDELVFKDELSK 657

>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain Motor Domain Length = 2486

Iteration: 1
 Score = 92.8 bits (229), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 71/266 (26%), Positives = 120/266 (45%), Gaps = 25/266 (9%)
Query: 313  SYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDP----DLRSYFVSKDTKQLTPWT 368
            S L+A+ G+ T ES+          F    N   G D     D  +  ++ D    + + 
Sbjct: 958  SLLYALAGDSTGESQ--------RAFIQTINTYFGHDSQELSDYSTIVIANDKLSFSSFC 1009
Query: 369  TITPIFT---YDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFXXXXXXXXXXXARS 425
            +  P  +   ++   P  D+++PTIDTI+   I   LL     ++               
Sbjct: 1010 SEIPSVSLEAHEVMRP--DIVIPTIDTIKHEKIFYDLLNSKRGIILCGPPGSGKTMIMN- 1066
Query: 426  ILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTK----TLLGAPLGKRLAVFVD 481
              N L  S+ +  + INFS  T++      L    +  T     TLL     K L +F D
Sbjct: 1067 --NALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCD 1124
Query: 482  DVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLT 540
            ++N+PKL+ YG+Q  +  LRQ ++  G +   +  W T++ + +  AC PP   GR+P++
Sbjct: 1125 EINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMS 1184
Query: 541  PRFVRHFGLLSLPSPTEDTLKVIFKV 566
             RF RH  +L L  P+  +L  I+++
Sbjct: 1185 ERFTRHAAILYLGYPSGKSLSQIYEI 1210

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	583
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	1e-90
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	9e-75
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	1e-32
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	1e-08
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	2e-06
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	2e-87
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	8e-67
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	7e-31
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	8e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-08

>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 Length = 2695

 Score =  305 bits (782), Expect = 1e-90
 Identities = 73/301 (24%), Positives = 135/301 (44%), Gaps = 13/301 (4%)

Query: 270  LVDVSKARMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDR 329
            +   +K      L    +       ++ + ++   ++      S L+A+ G+ T ES+  
Sbjct: 1134 VRTFNKLETAVQLAVHLISSYRQWFQNLDDKSLKDVITLLIKRSLLYALAGDSTGESQRA 1193

Query: 330  FEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLTPWTTITPIFTYDP-TMPFFDMMVP 388
            F       F  +      +  D  +  ++ D    + + +  P  + +   +   D+++P
Sbjct: 1194 FIQTINTYFGHDS----QELSDYSTIVIANDKLSFSSFCSEIPSVSLEAHEVMRPDIVIP 1249

Query: 389  TIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS 448
            TIDTI+   I   LL     ++  G  G GKT++  + L      + +  + INFS  T+
Sbjct: 1250 TIDTIKHEKIFYDLLNSKRGIILCGPPGSGKTMIMNNALRNS---SLYDVVGINFSKDTT 1306

Query: 449  SARTQEILEGKLDKRTK----TLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFL 504
            +      L    +  T     TLL     K L +F D++N+PKL+ YG+Q  +  LRQ +
Sbjct: 1307 TEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLM 1366

Query: 505  DFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLTPRFVRHFGLLSLPSPTEDTLKVI 563
            +  G +   +  W T++ + +  AC PP   GR+P++ RF RH  +L L  P+  +L  I
Sbjct: 1367 EKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAILYLGYPSGKSLSQI 1426

Query: 564  F 564
            +
Sbjct: 1427 Y 1427

>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 Length = 2695

 Score =  259 bits (662), Expect = 9e-75
 Identities = 53/134 (39%), Positives = 75/134 (55%), Gaps = 2/134 (1%)

Query: 137 QMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSK 196
           +   L P  A FIT+NPGY GR+ELP+NLK  FR  +M  P  G IAE++L   GFE SK
Sbjct: 740 EETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFSMKSPQSGTIAEMILQIMGFEDSK 799

Query: 197 NLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDS 256
           +LA K+V+  +L S + S  +HY FG+R +K VL     L     +   +  ++ +L+  
Sbjct: 800 SLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNCSPLISEFGE--GEKTVVESLKRV 857

Query: 257 NLPKFLADDAGLFL 270
            LP     D  +F 
Sbjct: 858 ILPSLGDTDELVFK 871

>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 Length = 2695

 Score =  133 bits (337), Expect = 1e-32
 Identities = 24/84 (28%), Positives = 40/84 (47%)

Query: 1   MAKTAEKPQAFSTATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELL 60
             +  +          P+F    +     L+ I  SL ++L+ +R  FPRFYFL N++LL
Sbjct: 343 TTRAFQLDTTIEVIHIPNFDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDLL 402

Query: 61  EILGQARNPQAVQPHLGKCFDGIA 84
           +I+G  ++   V   + K F  I 
Sbjct: 403 KIIGSGKHHDQVSKFMKKMFGSIE 426

>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 Length = 2695

 Score = 57.2 bits (138), Expect = 1e-08
 Identities = 17/124 (13%), Positives = 40/124 (32%), Gaps = 11/124 (8%)

Query: 137  QMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPD-------YGLIAEVVL-- 187
            + + +           P   GR  + +        + +  P        Y +  + +   
Sbjct: 1378 KWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAILYLGYPSGKSLSQIYEIYYKAIFKL 1437

Query: 188  YSEGFESSKNLAQKMVNMYKLCSEQLS--QQDHYDFGMRAVKSVLVMAGSLKRANPDKNE 245
              E    ++  A+  V++Y  C  + S   Q HY F  R +  ++    +     P +  
Sbjct: 1438 VPEFRSYTEPFARASVHLYNECKARYSTGLQSHYLFSPRELTRLVRGVYTAINTGPRQTL 1497

Query: 246  DVVL 249
              ++
Sbjct: 1498 RSLI 1501

>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 Length = 2695

 Score = 49.8 bits (119), Expect = 2e-06
 Identities = 5/67 (7%), Positives = 20/67 (29%), Gaps = 6/67 (8%)

Query: 85   GWTPYVKSWLNLLFDKV-----PLIREEFEEVILALFEKYVDPGLNFVRKFCATAIHQ-M 138
              +  +   LN  ++ +         ++ +++I   F+      +          +    
Sbjct: 1077 SISSKIDHLLNKSYEALDNKLSMFELDKLKDLISDSFDMASLTNIFTCSNDLVHILGVRT 1136

Query: 139  INLVPSC 145
             N + + 
Sbjct: 1137 FNKLETA 1143

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score =  296 bits (758), Expect = 2e-87
 Identities = 80/327 (24%), Positives = 141/327 (43%), Gaps = 13/327 (3%)

Query: 245  EDVVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLMESTLIEPGMLDRSHNSENTGP 304
               ++ + L D+     + D   L +++   + M  S++          D   + EN   
Sbjct: 1145 PGGLVHKVLEDAGQRPHIMDFTRLRVLNSFFSLMNRSIVNVIEYNQLHSDFPMSPENQSN 1204

Query: 305  LLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQL 364
             +    L+S +W +GG++    R+ F  F +                L  Y VS D    
Sbjct: 1205 YITNRLLYSLMWGLGGSMGLVERENFSKFIQTIAITPV---PANTIPLLDYSVSIDDANW 1261

Query: 365  TPWTTITPIFTYDP-TMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVA 423
            + W    P    +   +   D+++PT+DT R   ++   L  + P++  G  G GKT+  
Sbjct: 1262 SLWKNKVPSVEVETHKVASPDVVIPTVDTTRHVDVLHAWLSEHRPLILCGPPGSGKTMTL 1321

Query: 424  RSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRT----KTLLGAP-LGKRLAV 478
             S L        +  +++NFS+ T+     +  +   + +     +T+L    LGK L V
Sbjct: 1322 TSTLRAF---PDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLVV 1378

Query: 479  FVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-GGGRM 537
            F D++N+P  + YG Q  I  +RQ ++ GG +      W  L  +    AC PP   GR+
Sbjct: 1379 FCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRV 1438

Query: 538  PLTPRFVRHFGLLSLPSPTEDTLKVIF 564
             LT RF+RH  +L +  P+  +L  I+
Sbjct: 1439 QLTHRFLRHAPILLVDFPSTSSLTQIY 1465

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score =  235 bits (602), Expect = 8e-67
 Identities = 72/154 (46%), Positives = 97/154 (62%), Gaps = 20/154 (12%)

Query: 137 QMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSK 196
           + I+L      F+TMNPGYAGR+ LPDNLK LFR MAM+ PD  +IA+V+LYS+GF++++
Sbjct: 700 KNISLHQDMGIFVTMNPGYAGRSNLPDNLKKLFRSMAMIKPDREMIAQVMLYSQGFKTAE 759

Query: 197 NLAQKMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRANPDK------------- 243
            LA K+V ++KLC EQLS Q HYDFG+RA+KSVLV AG +KR                  
Sbjct: 760 VLAGKIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAGGIKRKCQPPQLPPITDAESKTK 819

Query: 244 -------NEDVVLIRALRDSNLPKFLADDAGLFL 270
                   E  VL+ ++ D+ +PK +ADD  L  
Sbjct: 820 ADQIYCQYEIGVLLNSINDTMIPKLVADDIPLIQ 853

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score =  128 bits (322), Expect = 7e-31
 Identities = 27/85 (31%), Positives = 44/85 (51%)

Query: 1   MAKTAEKPQAFSTATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELL 60
           + K +  P               +  +  L  + K+L  YL+ +RSAF RFYF+ +E+LL
Sbjct: 284 LKKVSGAPLILEVLAIERIQQTMERLSDLLGKVQKALGEYLERQRSAFARFYFVGDEDLL 343

Query: 61  EILGQARNPQAVQPHLGKCFDGIAG 85
           EI+G +++   +Q H  K F G+A 
Sbjct: 344 EIIGNSKDIIKIQKHFRKMFAGLAN 368

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score = 41.8 bits (98), Expect = 8e-04
 Identities = 19/110 (17%), Positives = 36/110 (32%), Gaps = 12/110 (10%)

Query: 151  MNPGYAGRTELPDNLKALFRPMAMMVPD-------YGLIAEVVL--YSEGFESSKNLAQK 201
              P  AGR +L          + +  P        YG     ++         + NL   
Sbjct: 1430 NPPTDAGRVQLTHRFLRHAPILLVDFPSTSSLTQIYGTFNRALMKLLPNLRSFADNLTDA 1489

Query: 202  MVNMYKLCSEQL--SQQDHYDFGMRAV-KSVLVMAGSLKRANPDKNEDVV 248
            MV  Y    ++     Q HY +  R + +    +  +++  +    E +V
Sbjct: 1490 MVEFYSESQKRFTPDIQAHYIYSPRELSRWDRALLEAIQTMDGCTLEGLV 1539

>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 = 73.3 bits (179), Expect = 1e-13
 Identities = 74/591 (12%), Positives = 150/591 (25%), Gaps = 190/591 (32%)

Query: 18  DFLPAFQTNNAHLESILKSLESY--LDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPH 75
           D L  F+      ++ + + +     D+ +S       LS EE+  I+            
Sbjct: 20  DILSVFE------DAFVDNFDCKDVQDMPKSI------LSKEEIDHIIMS---------- 57

Query: 76  LGKCFDGIAGWTPYVKSWLNLLFDKVPLIREEFEEVILALFEKYVDPGLNFVRKFCATAI 135
                           S    LF     +  + EE++    +K+V+  L    KF  + I
Sbjct: 58  ------------KDAVSGTLRLFW---TLLSKQEEMV----QKFVEEVLRINYKFLMSPI 98

Query: 136 HQMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESS 195
                  PS      M   Y  + +   N   +F      V                   
Sbjct: 99  KTEQR-QPS-----MMTRMYIEQRDRLYNDNQVFAKYN--VS------------------ 132

Query: 196 KNLAQKMVNMYKLCSEQLSQQD----HYDFGMRAV-KSVLVMAGSLKRANPDKNEDVVLI 250
                +     +    +L            G+    K+ +                   +
Sbjct: 133 ---RLQPYLKLRQALLELRPAKNVLID---GVLGSGKTWVA------------------L 168

Query: 251 RALRDSNLPKFLADDAGLFLVDVSKARMICSLME-----STLIEPGMLDRSHNSENTGPL 305
                  +   +     +F +++       +++E        I+P    RS +S N   L
Sbjct: 169 DVCLSYKVQCKMDF--KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI-KL 225

Query: 306 LVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYFVSKDTKQLT 365
                                +       R     +P              V  + +   
Sbjct: 226 R----------------IHSIQAEL----RRLLKSKPYE--------NCLLVLLNVQNAK 257

Query: 366 PWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKL--------LLVNHPVMFTGVTGV 417
            W               F++    + T RF  + + L         L +H +  T     
Sbjct: 258 AWNA-------------FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT--PDE 302

Query: 418 GKTVVARSI-------------LNKLLASNTWAAL-----TINFSAQTSSARTQEILEGK 459
            K+++ + +              N    S    ++     T +     +  +   I+E  
Sbjct: 303 VKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362

Query: 460 LDKRTKTLLGAPLGKRLAVFVDDVNMPK--LETYGAQPPIELLRQFLDF---GGLYDRD- 513
           L+          +  RL+VF    ++P   L           +   ++      L ++  
Sbjct: 363 LNVLEPAEY-RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421

Query: 514 KMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLL------SLPSPTED 558
           K    ++  + L             L    V H+ +        L  P  D
Sbjct: 422 KESTISIPSIYLELKVKLE--NEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470

>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 = 57.6 bits (138), Expect = 1e-08
 Identities = 41/304 (13%), Positives = 84/304 (27%), Gaps = 94/304 (30%)

Query: 243 KNEDVVLIRALRDSNLPKFLADDAGLFLVDVSKARMICSLMESTLIEPGMLDRSH----- 297
           + +D++ +          F+ +     + D+ K+ +    ++  ++    +  +      
Sbjct: 17  QYKDILSV------FEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT 70

Query: 298 ---NSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRS 354
                E      VQ F       V   L    R  ++ F       E           R 
Sbjct: 71  LLSKQEEM----VQKF-------VEEVL----RINYK-FLMSPIKTEQR---QPSMMTRM 111

Query: 355 YFVSKDTKQLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLL-LVNHP-VMFT 412
           Y   +D               Y+    F    V  +       + + LL L     V+  
Sbjct: 112 YIEQRDR-------------LYNDNQVFAKYNVSRLQPYL--KLRQALLELRPAKNVLID 156

Query: 413 GVTGVGKTVVA----------------------------RSILNKLLASNTWAALTINFS 444
           GV G GKT VA                             ++L  L        +  N++
Sbjct: 157 GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ--KLLYQIDPNWT 214

Query: 445 AQTSSARTQEILEGKLDKRTKTLLGAPLGKR-LAVFVDDVNMPKLETYGAQPPIELLRQF 503
           +++  +   ++    +    + LL +   +  L V + +V   K               F
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV-LLNVQNAK-----------AWNAF 262

Query: 504 LDFG 507
            +  
Sbjct: 263 -NLS 265

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	583
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	100.0
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	100.0
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.38
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.37
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.32
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.32
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.29
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.28
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.26
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.26
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.24
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.23
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.22
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.18
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.18
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.17
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.17
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.16
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.15
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.15
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.14
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.14
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.14
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.13
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.12
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.11
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.11
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.09
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.08
3pvs_A	447	Replication-associated recombination protein A; ma	99.07
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.06
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.05
3bos_A	242	Putative DNA replication factor; P-loop containing	99.05
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.04
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.04
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.03
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.02
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.02
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.02
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.02
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.01
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.01
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.0
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.0
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.99
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.99
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	98.99
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.98
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.97
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.97
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.97
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.95
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.95
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.95
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	98.95
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.94
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.89
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.89
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.89
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.89
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.86
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	98.86
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.83
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.82
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.79
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	98.78
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.77
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	98.77
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	98.76
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.76
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.75
3co5_A	143	Putative two-component system transcriptional RES	98.75
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.75
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.72
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	98.65
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	98.65
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.65
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.64
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	98.63
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.61
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.59
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	98.51
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.47
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.4
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	98.27
2qgz_A	308	Helicase loader, putative primosome component; str	98.27
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.26
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.24
3f8t_A	506	Predicted ATPase involved in replication control,	98.22
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.22
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	98.21
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.16
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.99
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	97.96
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	97.93
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.86
2fna_A	357	Conserved hypothetical protein; structural genomic	97.84
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.74
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.42
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.86
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.85
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	96.68
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.48
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.45
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.42
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.4
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.13
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.98
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.89
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.84
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.84
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.81
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.77
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.71
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.65
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	95.64
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.62
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.59
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.56
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.55
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.54
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	95.54
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.5
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.46
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	95.44
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.38
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.35
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.34
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.33
1via_A	175	Shikimate kinase; structural genomics, transferase	95.33
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.33
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.29
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.23
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.22
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.2
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.16
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.14
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.12
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.12
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.09
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.05
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	95.03
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.01
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	94.98
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.96
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	94.96
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	94.95
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	94.92
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.91
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	94.86
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.85
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.83
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.82
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.79
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.78
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.78
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.76
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	94.76
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	94.74
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	94.72
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	94.72
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	94.71
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	94.69
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.67
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	94.66
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	94.65
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.61
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	94.59
2eyu_A	261	Twitching motility protein PILT; pilus retraction	94.58
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	94.58
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.57
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.55
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.52
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	94.52
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	94.52
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	94.5
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.49
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	94.48
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	94.46
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	94.45
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.44
2vli_A	183	Antibiotic resistance protein; transferase, tunica	94.43
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.42
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.4
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.35
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.35
2z43_A	324	DNA repair and recombination protein RADA; archaea	94.35
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	94.34
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.29
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	94.23
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	94.21
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.2
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.19
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	94.15
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	94.14
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.08
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.06
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.06
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	94.06
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.05
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.02
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	93.96
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	93.94
3ice_A	422	Transcription termination factor RHO; transcriptio	93.9
1p9r_A	418	General secretion pathway protein E; bacterial typ	93.9
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	93.9
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	93.9
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	93.87
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	93.83
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	93.83
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	93.81
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	93.79
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	93.75
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	93.73
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	93.72
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.69
1xp8_A	366	RECA protein, recombinase A; recombination, radior	93.67
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.57
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.55
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	93.49
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.48
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.45
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	93.38
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.36
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	93.34
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	93.33
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.3
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	93.3
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.28
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.25
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.25
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	93.23
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	93.2
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.17
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.17
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	93.14
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	93.12
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.1
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	93.08
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.06
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.05
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	93.05
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	92.99
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.98
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.98
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	92.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	92.96
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	92.96
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.94
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.93
1sgw_A	214	Putative ABC transporter; structural genomics, P p	92.91
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	92.88
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	92.84
1nrj_B	218	SR-beta, signal recognition particle receptor beta	92.81
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	92.8
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	92.8
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	92.8
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	92.79
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	92.78
2ged_A	193	SR-beta, signal recognition particle receptor beta	92.76
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.73
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	92.72
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.72
2wji_A	165	Ferrous iron transport protein B homolog; membrane	92.71
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	92.69
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	92.66
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	92.61
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.6
2ghi_A	260	Transport protein; multidrug resistance protein, M	92.6
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	92.58
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	92.57
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	92.57
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	92.57
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	92.56
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.56
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	92.55
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.55
1g6h_A	257	High-affinity branched-chain amino acid transport	92.53
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.53
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.52
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	92.5
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.47
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	92.46
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.45
1b0u_A	262	Histidine permease; ABC transporter, transport pro	92.45
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	92.44
2hf9_A	226	Probable hydrogenase nickel incorporation protein	92.44
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	92.43
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	92.43
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	92.39
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	92.38
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.37
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	92.35
1ji0_A	240	ABC transporter; ATP binding protein, structural g	92.34
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	92.34
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	92.32
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	92.31
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.31
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	92.29
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.28
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	92.27
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	92.25
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	92.25
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	92.24
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.22
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	92.21
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	92.2
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.19
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.18
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	92.18
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.17
3kta_A	182	Chromosome segregation protein SMC; structural mai	92.15
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	92.14
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	92.14
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	92.13
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	92.12
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	92.06
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	92.03
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	92.01
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	92.0
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	91.98
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	91.97
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	91.96
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	91.94
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	91.92
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	91.92
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	91.9
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	91.89
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	91.88
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	91.87
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	91.87
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.86
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	91.85
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	91.83
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	91.82
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	91.8
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	91.79
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	91.75
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	91.7
1u94_A	356	RECA protein, recombinase A; homologous recombinat	91.7
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	91.68
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	91.67
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	91.65
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	91.61
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	91.6
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	91.59
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	91.59
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	91.58
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	91.58
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.55
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	91.55
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	91.48
3l0o_A	427	Transcription termination factor RHO; helicase, RH	91.48
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	91.47
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	91.46
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	91.46
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	91.44
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	91.4
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	91.39
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	91.39
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	91.38
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	91.38
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	91.36
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	91.31
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	91.31
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	91.3
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	91.29
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	91.28
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	91.28
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	91.26
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.23
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	91.22
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	91.2
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	91.2
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	91.19
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	91.19
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	91.18
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	91.17
2fh5_B	214	SR-beta, signal recognition particle receptor beta	91.16
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	91.15
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	91.15
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	91.14
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	91.14
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	91.1
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	91.07
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	91.05
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	91.01
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	91.0
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	90.96
2og2_A	359	Putative signal recognition particle receptor; nuc	90.93
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	90.92
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	90.92
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	90.91
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	90.9
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	90.9
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	90.87
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	90.86
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	90.86
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	90.85
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	90.85
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	90.8
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	90.77
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	90.74
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	90.69
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	90.66
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	90.65
2r6a_A	454	DNAB helicase, replicative helicase; replication,	90.61
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	90.6
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	90.57
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	90.56
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	90.54
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	90.51
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	90.51
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	90.5
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	90.48
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	90.48
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	90.46
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	90.45
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	90.4
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	90.37
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	90.36
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	90.35
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	90.32
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	90.29
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	90.27
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	90.25
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	90.23
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	90.22
3llu_A	196	RAS-related GTP-binding protein C; structural geno	90.2
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	90.16
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	90.16
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	90.11
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	90.09
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	90.08
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	90.03
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	90.03
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	90.01
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	89.99
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	89.98
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	89.9
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	89.89
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.88
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	89.84
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	89.79
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	89.78
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	89.72
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	89.72
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	89.69
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	89.65
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	89.6
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	89.53
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	89.51
3io5_A	333	Recombination and repair protein; storage dimer, i	89.5
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	89.49
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	89.49
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	89.49
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	89.32
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	89.3
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	89.29
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	89.21
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	89.21
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	89.18
3b6e_A	216	Interferon-induced helicase C domain-containing P;	89.11
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	89.08
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	89.03
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	89.02
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	89.01
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	89.01
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	88.95
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	88.92
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	88.89
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	88.86
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	88.82
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	88.69
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	88.69
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	88.65
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	88.61
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	88.47
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	88.41
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	88.37
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	88.35
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	88.35
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	88.33
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	88.26
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	88.24
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	88.19
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	88.14
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	88.09
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	88.03
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	88.02
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	87.95
3lfu_A	647	DNA helicase II; SF1 helicase, ATP-binding, DNA da	87.89
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	87.86
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	87.79
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	87.7
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	87.6
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	87.49
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	87.48
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	87.45

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=100.00  E-value=1.1e-118  Score=1121.79  Aligned_cols=566  Identities=32%  Similarity=0.579  Sum_probs=486.2

Q ss_pred             CcccccCcceeeeccCCChHHHHHHHHHHHHHHHHHHHHHHhhhhccCCceEecCchHHHHHHhcCCCCcchhcchhhhc
Q psy17974          1 MAKTAEKPQAFSTATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCF   80 (583)
Q Consensus         1 m~~~~~~~~v~~~~~~~~~~~~l~~~~~~l~~i~k~l~~yLe~kR~~FpRf~Fls~~ell~il~~~~~~~~i~~~l~k~f   80 (583)
                      |+++.++|+|+++|+.+++++.|+++++.||.|||+|++|||+||.+|||||||||+|||+|||+++||..||+||+|||
T Consensus       284 m~~~~~~~~v~~~~~~~~~~~~L~~~~~~Le~iqk~L~~yLE~KR~~FPRFyFlSd~eLLeILs~~~dp~~vq~hl~K~F  363 (3245)
T 3vkg_A          284 LKKVSGAPLILEVLAIERIQQTMERLSDLLGKVQKALGEYLERQRSAFARFYFVGDEDLLEIIGNSKDIIKIQKHFRKMF  363 (3245)
T ss_dssp             HHHHHHSCBHHHHTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSGGGGGSCHHHHHHHHHGGGCGGGTGGGGGGTC
T ss_pred             HHHHhcCCceEeecCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchhhccCcHHHHHHHHcCCChHHHHHHHHHHH
Confidence            67889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcccCc------------------------------CccHHHHHH----HHHHhH-----------H-------------
Q psy17974         81 DGIAGW------------------------------TPYVKSWLN----LLFDKV-----------P-------------  102 (583)
Q Consensus        81 ~~i~~~------------------------------~~~ve~WL~----~m~~tl-----------~-------------  102 (583)
                      +||+++                              .|.||.||+    +|+.||           .             
T Consensus       364 ~~I~~l~f~~~~~~i~~m~S~eGE~v~~~~~v~~~~~~~ve~WL~~le~~m~~tl~~~~~~~~~~~~~~~~~~~~~~~~w  443 (3245)
T 3vkg_A          364 AGLANLTLDDEKTTIIGMSSAEGETVTFKKPISIANGPKIHEWLTMVESEMKSTLATLLSESLQHFNQVDVNDHSKYSEW  443 (3245)
T ss_dssp             SSCCEEEECTTSCEEEEEECTTSCEEEEEEEEESSSSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCCTTCHHHHHHH
T ss_pred             hhhheEEecCCCCEEEEEEcCCCCEEEeCCccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCcccHHHH
Confidence            999932                              478999998    777777           0             


Q ss_pred             -------------------------------------HHHH-------HHH---------------HHHHhccc-----c
Q psy17974        103 -------------------------------------LIRE-------EFE---------------EVILALFE-----K  118 (583)
Q Consensus       103 -------------------------------------~~~~-------~l~---------------~~i~~Li~-----r  118 (583)
                                                           .+..       .++               .++++||+     |
T Consensus       444 ~~~~p~Qv~l~~~qi~wT~~ve~al~~~~~~~~~~~~~l~~~~~~~~~~l~~l~~~v~~~l~~~~R~kl~~Lit~~VH~R  523 (3245)
T 3vkg_A          444 VDNYPTQLVLLTSQIVWSTQVDQALGGGTLQQSKIQEQLQSIEQTTQMILNNLADSVLQDLSAQKRKKFEHLITELVHQR  523 (3245)
T ss_dssp             HHTSCHHHHHHHHHHHHHHHHHHHHTTSCSCHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCcHHHHHHHHHheeHHHHHHHHHhccccccchHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHH
Confidence                                                 0000       000               23444444     3


Q ss_pred             cc------------------------------------------------------------------------------
Q psy17974        119 YV------------------------------------------------------------------------------  120 (583)
Q Consensus       119 dv------------------------------------------------------------------------------  120 (583)
                      ||                                                                              
T Consensus       524 Dvv~~L~~~~~v~~~~dF~W~~qlRyy~~~~~~~~~~~~~v~~~~~~f~YgyEYlG~~~rLViTPLTdrcy~tl~~Al~~  603 (3245)
T 3vkg_A          524 DVVRQLQKCKNLTGNKDFDWLYHMRYYYDATQENVLHKLVIHMANATFYYGFEYLGIGERLVQTPLTDRCYLTLTQALES  603 (3245)
T ss_dssp             HHHHHHHTCCSCCSTTCHHHHTSEEEEECSSSSSSGGGEEEEETTEEEECCCCCCCSCCCCCCCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCCCcchhHHHhhhheeeccccCCcCceEEEEEcCceecCccccCCCCCCCcCChHHHHHHHHHHHHHHh
Confidence            33                                                                              


Q ss_pred             ----------------------------------cchhhH--HhHhh--------------------------hhcce--
Q psy17974        121 ----------------------------------DPGLNF--VRKFC--------------------------ATAIH--  136 (583)
Q Consensus       121 ----------------------------------~e~ld~--~~r~~--------------------------a~qi~--  136 (583)
                                                        ++++||  |+|+|                          +||+.  
T Consensus       604 ~~gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~~d~~~~g~i~~G~~~~GaW~cfDEfNrl~~~vLSvv~~qi~~I  683 (3245)
T 3vkg_A          604 RMGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDLQAMSRIFVGLCQCGAWGCFDEFNRLEERILSAVSQQIQTI  683 (3245)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSCCCHHHHHHHHHHHHHHTCEEEEETTTSSCHHHHHHHHHHHHHH
T ss_pred             cCCCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHhhHhhcCcEEEehhhhcCCHHHHHHHHHHHHHH
Confidence                                              999999  99986                          44443  


Q ss_pred             ----------------eeeeecccccEEEEecCCCCCCCCCchHHHhcccceeeecCCcchhHHHHhhcccccchHHHHH
Q psy17974        137 ----------------QMINLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQ  200 (583)
Q Consensus       137 ----------------~~I~L~~~~~ifiTmnp~y~gr~eLP~nlk~lfr~~~m~~pd~~~I~e~~l~~~gf~~a~~l~~  200 (583)
                                      ++|+++|+|+|||||||||+||+|||||||++||||+|++||+.+|+||+|+++||.+|+.||+
T Consensus       684 ~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~lFr~v~m~~Pd~~~i~ei~L~s~Gf~~a~~La~  763 (3245)
T 3vkg_A          684 QVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKKLFRSMAMIKPDREMIAQVMLYSQGFKTAEVLAG  763 (3245)
T ss_dssp             HHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHTTEEEEECCSCCHHHHHHHHHHTTTCSCHHHHHH
T ss_pred             HHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHhhcEEEEEeCCCHHHHHHHHHHHcccchHHHHHH
Confidence                            3699999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhCCCCccccccchhHHHHHHHhhhhhhhC--------CC------------CchHHHHHHHHHhcCCCc
Q psy17974        201 KMVNMYKLCSEQLSQQDHYDFGMRAVKSVLVMAGSLKRAN--------PD------------KNEDVVLIRALRDSNLPK  260 (583)
Q Consensus       201 k~~~~~~~~~~~ls~q~hydfglR~lk~vl~~a~~~~~~~--------~~------------~~E~~i~l~al~d~~lPK  260 (583)
                      |++.+|++|+||||+|+|||||||||||||++||++||+.        |+            .+|+.+++|||+|+|+||
T Consensus       764 k~~~~~~l~~e~LS~Q~HYDfGLRalKsVL~~AG~lkr~~~~~~~~~~~~~~~~~~~~~~~~~~E~~illralrd~nlpK  843 (3245)
T 3vkg_A          764 KIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSAGGIKRKCQPPQLPPITDAESKTKADQIYCQYEIGVLLNSINDTMIPK  843 (3245)
T ss_dssp             HHHHHHHHHHHSSCCCTTCCCSHHHHHHHHHHHHHHHHSCCCC------CHHHHHHHHHHHHHHHHHHHHHHHHHTTTTT
T ss_pred             HHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHHHHhhhhhcccccccccccccccccccccHHHHHHHHHHHhccCC
Confidence            9999999999999999999999999999999999999988        55            579999999999999999


Q ss_pred             ccccccccc-----------------------------------------------------------------------
Q psy17974        261 FLADDAGLF-----------------------------------------------------------------------  269 (583)
Q Consensus       261 l~~~D~~lF-----------------------------------------------------------------------  269 (583)
                      |+.+|+|+|                                                                       
T Consensus       844 l~~~D~plF~~li~DlFPgv~~~~~~~~~l~~ai~~~~~~~~L~~~~~~v~KviQLye~~~vRhGvmlVGp~gsGKTt~~  923 (3245)
T 3vkg_A          844 LVADDIPLIQSLLLDVFPGSQLQPIQMDQLRKKIQEIAKQRHLVTKQEWVEKILQLHQILNINHGVMMVGPSGGGKTTSW  923 (3245)
T ss_dssp             SCGGGHHHHHHHHHHHSTTCCCCCCCCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTTCSEEEEECSSSSSHHHHH
T ss_pred             CchhhHHHHHHHHHHhCCCCCCCCCchHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHheeeEEEECCCCCCHHHHH
Confidence            999999999                                                                       


Q ss_pred             --------------------------------------------------------------------------------
Q psy17974        270 --------------------------------------------------------------------------------  269 (583)
Q Consensus       270 --------------------------------------------------------------------------------  269 (583)
                                                                                                      
T Consensus       924 ~~L~~al~~l~~~~~~~~~iNPKait~~eLyG~~d~~T~EW~DGvls~i~R~~~~~~~~~~~~~~WIvfDGpVDa~WIEn 1003 (3245)
T 3vkg_A          924 EVYLEAIEQVDNIKSEAHVMDPKAITKDQLFGSLDLTTREWTDGLFTATLRRIIDNVRGESTKRHWIIFDGDVDPEWVEN 1003 (3245)
T ss_dssp             HHHHHHHTTTTTCEEEEEEECTTTSCHHHHHEEECTTTCCEEECHHHHHHHHHHTTSSSGGGEEEEEEEESCCCHHHHTT
T ss_pred             HHHHHHHHHhhCCCceEEEECCCCCchhhhceeecCCCCeeeccHHHHHHHHHHhcccCCCCCceEEEECCCCCHHHHHH
Confidence                                                                                            


Q ss_pred             ---------------------------------------------------cch----------hh--------------
Q psy17974        270 ---------------------------------------------------LVD----------VS--------------  274 (583)
Q Consensus       270 ---------------------------------------------------~~~----------~~--------------  274 (583)
                                                                         ..+          ++              
T Consensus      1004 lNsVLDDNK~LtL~nGErI~l~~~~~liFEv~dL~~ASPATVSRcGmVy~~~~~l~~~~~~~swl~~~~~~~~~~~~~~~ 1083 (3245)
T 3vkg_A         1004 LNSLLDDNKLLTLPNGERLALPNNVRVMFEVQDLKYATLATISRCGMVWFSEEILTTQMIFQNYLDTLSNEPFDPQEKEQ 1083 (3245)
T ss_dssp             THHHHSSSCEECCTTSCCEECCTTEEEEEEESCCTTCCHHHHHTSEEEECCTTSSCHHHHHHHHHHHHTTSCSCHHHHHH
T ss_pred             HHHHhcCCCeeecCCCCeeecCCCCEEEEEeccccccChhhheeeeEEEEcccccCchHHHHHHHHhCccccccchhhhh
Confidence                                                               000          00              


Q ss_pred             -----------------------------------------------hHHHHHHHHHHccCCCC----------CCCC--
Q psy17974        275 -----------------------------------------------KARMICSLMESTLIEPG----------MLDR--  295 (583)
Q Consensus       275 -----------------------------------------------~v~s~~~ll~~ll~~~~----------~~~~--  295 (583)
                                                                     ....+..+++.++....          ....  
T Consensus      1084 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~~~l~~~~~~~~i~ 1163 (3245)
T 3vkg_A         1084 QKRNENAQLQQQQQTTITSPILTSPPTTSSSSRSTTSTTSMIPAGLKVQKECAAIISQYFEPGGLVHKVLEDAGQRPHIM 1163 (3245)
T ss_dssp             HHHHHTC----------------------------------CCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHTSCCSS
T ss_pred             hcccccchhhhcccccccccccccccccccccccccccccccchhHHHHHHHHHHHHHHhcccccHHHHHHHHHhcCccc
Confidence                                                           00001111211110000          0000  


Q ss_pred             --------------------------------CCCCCChhhHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCCCC
Q psy17974        296 --------------------------------SHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPN  343 (583)
Q Consensus       296 --------------------------------~~~~~~~~~~i~~~f~fa~iWs~Gg~L~~~~r~~Fd~~i~~~~~~~~~  343 (583)
                                                      ..+.+..+.+++.+|+||++|||||+++.++|.+||+|+++...    
T Consensus      1164 ~~~~~~~v~~l~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~faliWs~Gg~l~~~~R~~F~~~~~~~~~---- 1239 (3245)
T 3vkg_A         1164 DFTRLRVLNSFFSLMNRSIVNVIEYNQLHSDFPMSPENQSNYITNRLLYSLMWGLGGSMGLVERENFSKFIQTIAI---- 1239 (3245)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHHHHHTTTSCCCHHHHHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHTTCS----
T ss_pred             CccHHHHHHHHHHHHHHHhhhhcccccccccCCCCHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhcC----
Confidence                                            00111233467889999999999999999999999999999765    


Q ss_pred             CCCC-CCCCcceEEEECCCCceeeccccCCccccCCC-CCCccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHH
Q psy17974        344 VSLG-KDPDLRSYFVSKDTKQLTPWTTITPIFTYDPT-MPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTV  421 (583)
Q Consensus       344 ~~~P-~~~~vfdy~~d~~~~~w~~W~~~~~~~~~~~~-~~~~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~  421 (583)
                      .++| .+++|||||+|.+++.|.+|.+.+|.+.+++. .++.+++|||+||+|+.++++.++..++||||+||||||||+
T Consensus      1240 ~~~p~~~~~v~Dy~~~~~~~~w~~W~~~v~~~~~~~~~~~~~~ilVPT~DTvR~~~ll~~ll~~~~pvLL~GptGtGKT~ 1319 (3245)
T 3vkg_A         1240 TPVPANTIPLLDYSVSIDDANWSLWKNKVPSVEVETHKVASPDVVIPTVDTTRHVDVLHAWLSEHRPLILCGPPGSGKTM 1319 (3245)
T ss_dssp             SCCCCTTSCGGGEEECTTTCSEEETTCCC---CCCSTTTTCTTCCCCCHHHHHHHHHHHHHHHTTCCCEEESSTTSSHHH
T ss_pred             CCCCCCCCceEEEEEECCCCeeeehhhcCCccccCCccCCcccceecchHHHHHHHHHHHHHHCCCcEEEECCCCCCHHH
Confidence            3455 46899999999999999999999999988875 788999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcC---c-cccCCC-CCeEEEEecCCCCCCcccCCCCCh
Q psy17974        422 VARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTK---T-LLGAPL-GKRLAVFVDDVNMPKLETYGAQPP  496 (583)
Q Consensus       422 li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~---~-~~~p~~-gk~~vlfiDDln~p~~d~yg~q~~  496 (583)
                      ++++++..+.   ++.++.+|||++|+++.+|+.++++++++++   | +++|+. ||++|+||||+|||..|+||+|+|
T Consensus      1320 li~~~L~~l~---~~~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~~~~p~~~Gk~~VlFiDDiNmp~~D~yGtQ~~ 1396 (3245)
T 3vkg_A         1320 TLTSTLRAFP---DFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLVVFCDEINLPSTDKYGTQRV 1396 (3245)
T ss_dssp             HHHHHGGGCT---TEEEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCEEEEESSTTCEEEEEETTTTCCCCCTTSCCHH
T ss_pred             HHHHHHHhCC---CCceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCcccCCCcCCceEEEEecccCCCCccccccccH
Confidence            9999888763   4678899999999999999999999987653   4 567774 999999999999999999999999


Q ss_pred             HHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhccccc
Q psy17974        497 IELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPGKQ  573 (583)
Q Consensus       497 lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~~l~  573 (583)
                      +|+|||++|+|||||+++.+|+.++|+++|||||||+ |||+++++||+|||+++++++|+.+++.+||++++.+++.
T Consensus      1397 ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r~F~vi~i~~ps~esL~~If~til~~~l~ 1474 (3245)
T 3vkg_A         1397 ITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLRHAPILLVDFPSTSSLTQIYGTFNRALMK 1474 (3245)
T ss_dssp             HHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHTTCCEEECCCCCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHhhceEEEeCCCCHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999998 8999999999999999999999999999999999998875

>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=100.00  E-value=1.4e-107  Score=1020.12  Aligned_cols=564  Identities=28%  Similarity=0.470  Sum_probs=487.3

Q ss_pred             CcccccCcceeeeccCCChHHHHHHHHHHHHHHHHHHHHHHhhhhccCCceEecCchHHHHHHhcCCCCcchhcchhhhc
Q psy17974          1 MAKTAEKPQAFSTATSPDFLPAFQTNNAHLESILKSLESYLDVKRSAFPRFYFLSNEELLEILGQARNPQAVQPHLGKCF   80 (583)
Q Consensus         1 m~~~~~~~~v~~~~~~~~~~~~l~~~~~~l~~i~k~l~~yLe~kR~~FpRf~Fls~~ell~il~~~~~~~~i~~~l~k~f   80 (583)
                      |+++.++|+|+++|+.+++++.|+++++.||.|||+|++|||+||.+|||||||||+|||+|||+++||..||+|++|||
T Consensus       343 m~~~~~~~~v~~~~~~~~~~~~L~~~~~~Le~iqk~L~~yLe~KR~~FPRFyFlsd~eLLeiLs~~~dp~~vq~hl~k~F  422 (2695)
T 4akg_A          343 TTRAFQLDTTIEVIHIPNFDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDLLKIIGSGKHHDQVSKFMKKMF  422 (2695)
T ss_dssp             HHHHHTTCCSGGGGGSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTHHHHCHHHHHHHHHTTTTSGGGHHHHHHHT
T ss_pred             HHHHHhCCCeeeecccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCcceecCcHHHHHHHhcCCCHHHHHHHHHHHh
Confidence            67889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcccCc----------------------------CccHHHHHH----HHHHhH---------------------------
Q psy17974         81 DGIAGW----------------------------TPYVKSWLN----LLFDKV---------------------------  101 (583)
Q Consensus        81 ~~i~~~----------------------------~~~ve~WL~----~m~~tl---------------------------  101 (583)
                      +||+++                            ++.||.||+    +|+.||                           
T Consensus       423 ~~i~~l~f~~~~i~~m~s~egE~v~~~~~v~~~~~~~ve~WL~~le~~m~~tl~~~~~~~~~~~~~~~~~~~w~~~~p~Q  502 (2695)
T 4akg_A          423 GSIESIIFLEDFITGVRSVEGEVLNLNEKIELKDSIQAQEWLNILDTEIKLSVFTQFRDCLGQIKDGTDIEVVVSKYIFQ  502 (2695)
T ss_dssp             SSEEEEEECSSEEEEEEETTSCEEEEEEEEECCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHTTSCHH
T ss_pred             hhhhhEEecCceEEEEEcCCCCEEEeCCceecCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHChHH
Confidence            999832                            347999998    788887                           


Q ss_pred             ---------------H--------HHHHH------------------HHHHHHhccc-----ccc---------------
Q psy17974        102 ---------------P--------LIREE------------------FEEVILALFE-----KYV---------------  120 (583)
Q Consensus       102 ---------------~--------~~~~~------------------l~~~i~~Li~-----rdv---------------  120 (583)
                                     .        .....                  ...++++||+     |||               
T Consensus       503 v~l~~~qi~wt~~ve~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~r~k~~~li~~~vh~rDvv~~l~~~~v~~~~~f  582 (2695)
T 4akg_A          503 AILLSAQVMWTELVEKCLQTNQFSKYWKEVDMKIKGLLDKLNKSSDNVKKKIEALLVEYLHFNNVIGQLKNCSTKEEARL  582 (2695)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHHCSSHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHhhccCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcchH
Confidence                           0        00000                  0134556655     444               


Q ss_pred             --------------------------------------------------------------------------------
Q psy17974        121 --------------------------------------------------------------------------------  120 (583)
Q Consensus       121 --------------------------------------------------------------------------------  120 (583)
                                                                                                      
T Consensus       583 ~W~~qlR~y~~~~~~~~~~~~~v~~~~~~~~YgyEYlG~~~rlViTPltdr~~~tl~~Al~~~~~~~l~GpaGtGKTe~v  662 (2695)
T 4akg_A          583 LWAKVQKFYQKNDTLDDLNSVFISQSGYLLQYKFEYIGIPERLIYTPLLLIGFATLTDSLHQKYGGCFFGPAGTGKTETV  662 (2695)
T ss_dssp             HHHHSCEEEECSSCSCGGGTEEEEETTEEEECCCCCCCSCCCCCCCHHHHHHHHHHHHHHHTTCEEEEECCTTSCHHHHH
T ss_pred             hHHhcceEEEcCccccccceeEEEEcCeEeeccccccCCCCcceecHHHHHHHHHHHHHHHhCCCCcccCCCCCCcHHHH
Confidence                                                                                            


Q ss_pred             ----------------cchhhH--HhHhh--------------------------hhcce-----------------eee
Q psy17974        121 ----------------DPGLNF--VRKFC--------------------------ATAIH-----------------QMI  139 (583)
Q Consensus       121 ----------------~e~ld~--~~r~~--------------------------a~qi~-----------------~~I  139 (583)
                                      +|++|+  |+++|                          ++|+.                 +++
T Consensus       663 k~LA~~lg~~~v~~nc~e~ld~~~lg~~~~g~~~~Gaw~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i  742 (2695)
T 4akg_A          663 KAFGQNLGRVVVVFNCDDSFDYQVLSRLLVGITQIGAWGCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEET  742 (2695)
T ss_dssp             HHHHHTTTCCCEEEETTSSCCHHHHHHHHHHHHHHTCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEE
T ss_pred             HHHHHHhCCcEEEEECCCCCChhHhhHHHHHHHhcCCEeeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEE
Confidence                            888888  88876                          33332                 579


Q ss_pred             eecccccEEEEecCCCCCCCCCchHHHhcccceeeecCCcchhHHHHhhcccccchHHHHHHHHHHHHHHHhhCCCCccc
Q psy17974        140 NLVPSCAAFITMNPGYAGRTELPDNLKALFRPMAMMVPDYGLIAEVVLYSEGFESSKNLAQKMVNMYKLCSEQLSQQDHY  219 (583)
Q Consensus       140 ~L~~~~~ifiTmnp~y~gr~eLP~nlk~lfr~~~m~~pd~~~I~e~~l~~~gf~~a~~l~~k~~~~~~~~~~~ls~q~hy  219 (583)
                      +++|++++||||||||+||++||+|||++||||+|++||+..|+||+|++.||.+|+.||+|++.+|++|++|+|+|.||
T Consensus       743 ~l~~~~~vfiT~NPgy~g~~eLP~~Lk~~Fr~v~m~~Pd~~~i~ei~l~s~Gf~~a~~la~kiv~~~~l~~e~ls~q~hy  822 (2695)
T 4akg_A          743 PLSPHTAVFITLNPGYNGRSELPENLKKSFREFSMKSPQSGTIAEMILQIMGFEDSKSLASKIVHFLELLSSKCSSMNHY  822 (2695)
T ss_dssp             ECCTTCEEEEEECCCSSSSCCCCHHHHTTEEEEECCCCCHHHHHHHHHHHHHCSSHHHHHHHHHHHHHHHHHHSCCCTTC
T ss_pred             ecCCCceEEEEeCCCccCcccccHHHHhheEEEEeeCCCHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHhCcCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccchhHHHHHHHhhhhhhhCCCCchHHHHHHHHHhcCCCcccccccccc------------------------------
Q psy17974        220 DFGMRAVKSVLVMAGSLKRANPDKNEDVVLIRALRDSNLPKFLADDAGLF------------------------------  269 (583)
Q Consensus       220 dfglR~lk~vl~~a~~~~~~~~~~~E~~i~l~al~d~~lPKl~~~D~~lF------------------------------  269 (583)
                      |||||++|+||+.||++||..+  .|+.++++||+++++|||+.+|.++|                              
T Consensus       823 dfglRalksvL~~ag~lkr~~~--~e~~~l~~al~~~~lpk~~~~D~~lf~~li~dlFp~~~~~~~~~~l~~~i~~~~~~  900 (2695)
T 4akg_A          823 HFGLRTLKGVLRNCSPLISEFG--EGEKTVVESLKRVILPSLGDTDELVFKDELSKIFDSAGTPLNSKAIVQCLKDAGQR  900 (2695)
T ss_dssp             CCSHHHHHHHHHHHHHHHHHSC--SSHHHHHHHHHHHTGGGCCHHHHHHHHHHHHHHCCCCSCCSSSSHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhhccCC--cHHHHHHHHHHHhccccCchhhHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHH
Confidence            9999999999999999999985  58889999999999999999999998                              


Q ss_pred             --------------------------------------------------------------------------------
Q psy17974        270 --------------------------------------------------------------------------------  269 (583)
Q Consensus       270 --------------------------------------------------------------------------------  269 (583)
                                                                                                      
T Consensus       901 ~~l~~~~~~~~K~~ql~e~~~~r~gvmlvGptgsGKTt~~~~La~al~~l~~~~~~~~~inpk~~t~~el~G~~d~~t~e  980 (2695)
T 4akg_A          901 SGFSMSEEFLKKCMQFYYMQKTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYVIDTKVLTKESLYGSMLKATLE  980 (2695)
T ss_dssp             HTCCCCHHHHHHHHHHHHHHHHCSEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEEEECTTTSCHHHHTTEECTTTCC
T ss_pred             cCCcccHHHHHHHHHHHHHHHhcceEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEeCCCCCCHHHhcceecCCCCe
Confidence                                                                                            


Q ss_pred             --------------------------------------------------------------------------------
Q psy17974        270 --------------------------------------------------------------------------------  269 (583)
Q Consensus       270 --------------------------------------------------------------------------------  269 (583)
                                                                                                      
T Consensus       981 W~DGils~~~R~~~~~~~~~~~~~~~WivfDG~vD~~WIE~LNsVLDDNk~L~L~ngErI~l~~~~~llFEv~dL~~ASP 1060 (2695)
T 4akg_A          981 WRDGLFTSILRRVNDDITGTFKNSRIWVVFDSDLDPEYVEAMNSVLDDNKILTLPNGERLPIPPNFRILFETDNLDHTTP 1060 (2695)
T ss_dssp             EECCSHHHHHHHHHTCCCSSCSSEEEEEEECSCCCHHHHHTTHHHHSTTCEEECSSSCEEECCSSCEEEEEESCCTTSCH
T ss_pred             EecChHHHHHHHHHhccccccCCCCeEEEECCCCCHHHHHHHHHHhcCCCccccCCCCEEecCCCcEEEEEecccccCCc
Confidence                                                                                            


Q ss_pred             ------------cch-------------------------------------------------------------hhhH
Q psy17974        270 ------------LVD-------------------------------------------------------------VSKA  276 (583)
Q Consensus       270 ------------~~~-------------------------------------------------------------~~~v  276 (583)
                                  ..+                                                             .+.+
T Consensus      1061 ATVSRcGmvy~~~~~l~~~~~~~~wl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v 1140 (2695)
T 4akg_A         1061 ATITRCGLLWFSTDVCSISSKIDHLLNKSYEALDNKLSMFELDKLKDLISDSFDMASLTNIFTCSNDLVHILGVRTFNKL 1140 (2695)
T ss_dssp             HHHHHSEEEECCSCSSCHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHSSCCSSCCCHHHHH
T ss_pred             cceeeeeEEEecCCcCChHHHHHHHHHhcchhhhhhhhhHHHHHHHHHHHHHcCHHHHHHHHHHHhccCccccchHHHHH
Confidence                        000                                                             0000


Q ss_pred             HHHHHHHHHccCCCCCCCCCCCCCChhhHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCCCCCCCCCCCCcceEE
Q psy17974        277 RMICSLMESTLIEPGMLDRSHNSENTGPLLVQTFLWSYLWAVGGNLTDESRDRFEAFAREQFTDEPNVSLGKDPDLRSYF  356 (583)
Q Consensus       277 ~s~~~ll~~ll~~~~~~~~~~~~~~~~~~i~~~f~fa~iWs~Gg~L~~~~r~~Fd~~i~~~~~~~~~~~~P~~~~vfdy~  356 (583)
                      .+++.++++++....+.....+....+.+++.+|+||++|||||.++.++|.+|++|+++.+.   ...+|. +++|||+
T Consensus      1141 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~f~f~~iWs~g~~l~~~~R~~f~~~~~~~~~---~~~~p~-~~~~dy~ 1216 (2695)
T 4akg_A         1141 ETAVQLAVHLISSYRQWFQNLDDKSLKDVITLLIKRSLLYALAGDSTGESQRAFIQTINTYFG---HDSQEL-SDYSTIV 1216 (2695)
T ss_dssp             HHHHHHHHHHHHHTCGGGTSSCHHHHHHHHHHHHHHHHHHHHHTTSCSHHHHHHHHHHHHHSC---SSSCCC-CSSCCCB
T ss_pred             HHHHHHHHHHHHHHHhhhccCCchhHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhhc---ccCCCC-CCeeEEE
Confidence            011111111110000000000011123456788999999999999999999999999999986   345675 6899999


Q ss_pred             EECCCCceeeccccCCccccCC-CCCCccceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCC
Q psy17974        357 VSKDTKQLTPWTTITPIFTYDP-TMPFFDMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNT  435 (583)
Q Consensus       357 ~d~~~~~w~~W~~~~~~~~~~~-~~~~~~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~  435 (583)
                      +|.++++|.+|.+.+|.+.+++ +.++.+++|||+||+|+.++++.+++.++||||+||||||||+++++++...   .+
T Consensus      1217 ~~~~~~~w~~W~~~v~~~~~~~~~~~~~~iiVpT~DT~R~~~ll~~~l~~~~~vLL~GPpGtGKT~la~~~l~~~---~~ 1293 (2695)
T 4akg_A         1217 IANDKLSFSSFCSEIPSVSLEAHEVMRPDIVIPTIDTIKHEKIFYDLLNSKRGIILCGPPGSGKTMIMNNALRNS---SL 1293 (2695)
T ss_dssp             CCSSSCCCBCCCCCCCCCCCCSGGGSCSSCCCCCHHHHHHHHHHHHHHHHTCEEEEECSTTSSHHHHHHHHHHSC---SS
T ss_pred             EECCCCceeechhcCCCcccCccccCccceeEeccchHHHHHHHHHHHHCCCeEEEECCCCCCHHHHHHHHHhcC---CC
Confidence            9999999999999999988877 5788999999999999999999999999999999999999999999888864   36


Q ss_pred             ceEEEEEeccCCChHHHHHHHHhhhhhh---cCccccCC-CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeee
Q psy17974        436 WAALTINFSAQTSSARTQEILEGKLDKR---TKTLLGAP-LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYD  511 (583)
Q Consensus       436 ~~~~~i~fS~~Tt~~~lq~~ie~~l~~~---~~~~~~p~-~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd  511 (583)
                      +.+..+|||+.|++.++|+.+++.++++   .+.+++|+ +|+++|+||||+|||..|+||+|+++|+|||++|+||||+
T Consensus      1294 ~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd 1373 (2695)
T 4akg_A         1294 YDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWK 1373 (2695)
T ss_dssp             CEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEEC
T ss_pred             CceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCCCCCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEE
Confidence            7889999999999999999999988753   24467875 8999999999999999999999999999999999999999


Q ss_pred             cCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhccccc
Q psy17974        512 RDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSPGKQ  573 (583)
Q Consensus       512 ~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~~l~  573 (583)
                      +.+..|+.++|+++|||||||+ +||+.|++||+|||++++++.|+.+++.+||++++.+++.
T Consensus      1374 ~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi~i~~P~~~~l~~I~~~il~~~l~ 1436 (2695)
T 4akg_A         1374 TPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAILYLGYPSGKSLSQIYEIYYKAIFK 1436 (2695)
T ss_dssp             TTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEEECCCCTTTHHHHHHHHHHHHHTT
T ss_pred             cCCCcEEEecCEEEEEecCCCccCCCccCChhhhheeeEEEeCCCCHHHHHHHHHHHHHHHhc
Confidence            9888999999999999999997 8999999999999999999999999999999999999985

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.38  E-value=5.2e-12  Score=133.76  Aligned_cols=143  Identities=17%  Similarity=0.280  Sum_probs=97.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEe
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFV  480 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfi  480 (583)
                      +...+.|||+||||||||+++++++...    +..++.++.|...+.  ....+.+..-+..       +....++|+||
T Consensus       179 i~~prGvLL~GPPGTGKTllAkAiA~e~----~~~f~~v~~s~l~sk~vGese~~vr~lF~~-------Ar~~aP~IIFi  247 (405)
T 4b4t_J          179 IAQPKGVILYGPPGTGKTLLARAVAHHT----DCKFIRVSGAELVQKYIGEGSRMVRELFVM-------AREHAPSIIFM  247 (405)
T ss_dssp             CCCCCCEEEESCSSSSHHHHHHHHHHHH----TCEEEEEEGGGGSCSSTTHHHHHHHHHHHH-------HHHTCSEEEEE
T ss_pred             CCCCCceEEeCCCCCCHHHHHHHHHHhh----CCCceEEEhHHhhccccchHHHHHHHHHHH-------HHHhCCceEee
Confidence            4446899999999999999999999986    456777777664432  1112222222221       11234789999


Q ss_pred             cCCCCCCcccCC-----CCC----hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-
Q psy17974        481 DDVNMPKLETYG-----AQP----PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-  548 (583)
Q Consensus       481 DDln~p~~d~yg-----~q~----~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-  548 (583)
                      ||++.-......     ...    ..++|.++ |  |+-.        -.++.+|||+|.|.    .|+++++|  ||. 
T Consensus       248 DEiDai~~~R~~~~~~~~~~~~~~l~~lL~~l-D--g~~~--------~~~V~vIaATNrpd----~LDpAllRpGRfD~  312 (405)
T 4b4t_J          248 DEIDSIGSTRVEGSGGGDSEVQRTMLELLNQL-D--GFET--------SKNIKIIMATNRLD----ILDPALLRPGRIDR  312 (405)
T ss_dssp             ESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHH-H--TTTC--------CCCEEEEEEESCSS----SSCHHHHSTTSSCC
T ss_pred             ecchhhccCCCCCCCCCcHHHHHHHHHHHHhh-h--ccCC--------CCCeEEEeccCChh----hCCHhHcCCCcCce
Confidence            999975443211     111    23344333 2  2211        24788999999987    89999999  885 


Q ss_pred             EEEeCCCCHHHHHHHHHHHhccc
Q psy17974        549 LLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       549 vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      .|+++.|+.++...|+..+++.+
T Consensus       313 ~I~i~lPd~~~R~~Il~~~~~~~  335 (405)
T 4b4t_J          313 KIEFPPPSVAARAEILRIHSRKM  335 (405)
T ss_dssp             EEECCCCCHHHHHHHHHHHHTTS
T ss_pred             EEEcCCcCHHHHHHHHHHHhcCC
Confidence            89999999999999999888754

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.37  E-value=2.3e-12  Score=133.53  Aligned_cols=156  Identities=12%  Similarity=0.118  Sum_probs=109.2

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc--cCCCCCeEEE
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL--GAPLGKRLAV  478 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~--~p~~gk~~vl  478 (583)
                      ..+..+.|+||+||||||||++++.+.+.+.    .....+++++.+++.++..   ........+.+  .+..-...|+
T Consensus        41 ~~l~~~~~vll~G~pGtGKT~la~~la~~~~----~~~~~i~~~~~~~~~~l~g---~~~~~~~~~~~~~~~g~l~~~vl  113 (331)
T 2r44_A           41 IGICTGGHILLEGVPGLAKTLSVNTLAKTMD----LDFHRIQFTPDLLPSDLIG---TMIYNQHKGNFEVKKGPVFSNFI  113 (331)
T ss_dssp             HHHHHTCCEEEESCCCHHHHHHHHHHHHHTT----CCEEEEECCTTCCHHHHHE---EEEEETTTTEEEEEECTTCSSEE
T ss_pred             HHHHcCCeEEEECCCCCcHHHHHHHHHHHhC----CCeEEEecCCCCChhhcCC---ceeecCCCCceEeccCcccccEE
Confidence            3445588999999999999999999998762    3466788887777665432   11111111211  1111113589


Q ss_pred             EecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhccceE-EEeCCCC
Q psy17974        479 FVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVRHFGL-LSLPSPT  556 (583)
Q Consensus       479 fiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr~f~v-i~i~~p~  556 (583)
                      ||||+|....+      ..+.|.+.++.+.+.. .......-.++.++||+||.. .|+..+++++++||.+ +.+++|+
T Consensus       114 ~iDEi~~~~~~------~~~~Ll~~l~~~~~~~-~g~~~~~~~~~~viat~np~~~~~~~~l~~~l~~Rf~~~i~i~~p~  186 (331)
T 2r44_A          114 LADEVNRSPAK------VQSALLECMQEKQVTI-GDTTYPLDNPFLVLATQNPVEQEGTYPLPEAQVDRFMMKIHLTYLD  186 (331)
T ss_dssp             EEETGGGSCHH------HHHHHHHHHHHSEEEE-TTEEEECCSSCEEEEEECTTCCSCCCCCCHHHHTTSSEEEECCCCC
T ss_pred             EEEccccCCHH------HHHHHHHHHhcCceee-CCEEEECCCCEEEEEecCCCcccCcccCCHHHHhheeEEEEcCCCC
Confidence            99999986543      4677788888775543 222233345688999999875 4777899999999985 9999999


Q ss_pred             HHHHHHHHHHHhcc
Q psy17974        557 EDTLKVIFKVRTSP  570 (583)
Q Consensus       557 ~~sl~~I~~~~l~~  570 (583)
                      .++...|.......
T Consensus       187 ~~~~~~il~~~~~~  200 (331)
T 2r44_A          187 KESELEVMRRVSNM  200 (331)
T ss_dssp             HHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhcccc
Confidence            99999999887754

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.32  E-value=1.2e-11  Score=131.61  Aligned_cols=144  Identities=22%  Similarity=0.281  Sum_probs=95.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEecC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDD  482 (583)
                      ..+.|||+||||||||+++++++.+.    +..++.++.|...+.  ....+.+..-+..       +....++|+||||
T Consensus       215 ~prGvLLyGPPGTGKTlLAkAiA~e~----~~~fi~v~~s~l~sk~vGesek~ir~lF~~-------Ar~~aP~IIfiDE  283 (437)
T 4b4t_I          215 PPKGVILYGAPGTGKTLLAKAVANQT----SATFLRIVGSELIQKYLGDGPRLCRQIFKV-------AGENAPSIVFIDE  283 (437)
T ss_dssp             CCSEEEEESSTTTTHHHHHHHHHHHH----TCEEEEEESGGGCCSSSSHHHHHHHHHHHH-------HHHTCSEEEEEEE
T ss_pred             CCCCCceECCCCchHHHHHHHHHHHh----CCCEEEEEHHHhhhccCchHHHHHHHHHHH-------HHhcCCcEEEEeh
Confidence            45789999999999999999999986    455666766554331  1111222222221       1123478999999


Q ss_pred             CCCCCcccCC-----CCChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEeC
Q psy17974        483 VNMPKLETYG-----AQPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSLP  553 (583)
Q Consensus       483 ln~p~~d~yg-----~q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i~  553 (583)
                      ++.......+     .......+-++++. .|+ +       .-.++.+|||+|.|.    .|+++|+|  ||. .|+++
T Consensus       284 iDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~-~-------~~~~ViVIaATNrpd----~LDpALlRpGRfD~~I~v~  351 (437)
T 4b4t_I          284 IDAIGTKRYDSNSGGEREIQRTMLELLNQLDGF-D-------DRGDVKVIMATNKIE----TLDPALIRPGRIDRKILFE  351 (437)
T ss_dssp             ESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHC-C-------CSSSEEEEEEESCST----TCCTTSSCTTTEEEEECCC
T ss_pred             hhhhcccCCCCCCCccHHHHHHHHHHHHHhhCc-C-------CCCCEEEEEeCCChh----hcCHHHhcCCceeEEEEcC
Confidence            9976544321     21122222233321 121 1       124788999999987    89999999  885 79999


Q ss_pred             CCCHHHHHHHHHHHhccc
Q psy17974        554 SPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~~~  571 (583)
                      .|+.++...|+..++..+
T Consensus       352 lPd~~~R~~Il~~~l~~~  369 (437)
T 4b4t_I          352 NPDLSTKKKILGIHTSKM  369 (437)
T ss_dssp             CCCHHHHHHHHHHHHTTS
T ss_pred             CcCHHHHHHHHHHHhcCC
Confidence            999999999999888754

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.32  E-value=2.2e-11  Score=130.74  Aligned_cols=142  Identities=23%  Similarity=0.356  Sum_probs=96.0

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEec
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVD  481 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiD  481 (583)
                      ...+.|||+||||||||+++++++..+    +..++.++.|...+.  ....+.+..-+..       +....++|+|||
T Consensus       213 ~~prGvLL~GPPGtGKTllAkAiA~e~----~~~~~~v~~s~l~sk~~Gese~~ir~~F~~-------A~~~~P~IifiD  281 (437)
T 4b4t_L          213 KPPKGVLLYGPPGTGKTLLAKAVAATI----GANFIFSPASGIVDKYIGESARIIREMFAY-------AKEHEPCIIFMD  281 (437)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHH----TCEEEEEEGGGTCCSSSSHHHHHHHHHHHH-------HHHSCSEEEEEE
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHh----CCCEEEEehhhhccccchHHHHHHHHHHHH-------HHhcCCceeeee
Confidence            345899999999999999999999987    456777777664431  1111222222221       112357999999


Q ss_pred             CCCCCCcccC--CC---CC----hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhcc--ce-E
Q psy17974        482 DVNMPKLETY--GA---QP----PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRH--FG-L  549 (583)
Q Consensus       482 Dln~p~~d~y--g~---q~----~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~--f~-v  549 (583)
                      |++.......  |.   ..    ..++|.++ |  |+-.        ..++.+|||+|.|.    .|+++|+|.  |. .
T Consensus       282 EiDai~~~R~~~~~~~~~~~~~~l~~lL~~l-D--g~~~--------~~~vivI~ATNrp~----~LDpAllRpGRfD~~  346 (437)
T 4b4t_L          282 EVDAIGGRRFSEGTSADREIQRTLMELLTQM-D--GFDN--------LGQTKIIMATNRPD----TLDPALLRPGRLDRK  346 (437)
T ss_dssp             CCCSSSCCCSSSCCSSTTHHHHHHHHHHHHH-H--SSSC--------TTSSEEEEEESSTT----SSCTTTTSTTSEEEE
T ss_pred             cccccccccccCCCCcchHHHHHHHHHHHHh-h--cccC--------CCCeEEEEecCCch----hhCHHHhCCCcccee
Confidence            9997654332  11   11    22344333 2  2221        24688999999987    799999996  74 7


Q ss_pred             EEeCCCCHHHHHHHHHHHhccc
Q psy17974        550 LSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      |+++.|+.++...|+..++...
T Consensus       347 I~i~lPd~~~R~~Il~~~~~~~  368 (437)
T 4b4t_L          347 VEIPLPNEAGRLEIFKIHTAKV  368 (437)
T ss_dssp             ECCCCCCHHHHHHHHHHHHHTS
T ss_pred             eecCCcCHHHHHHHHHHHhcCC
Confidence            9999999999999999888754

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.29  E-value=1.6e-11  Score=131.73  Aligned_cols=146  Identities=16%  Similarity=0.263  Sum_probs=94.9

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEec
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVD  481 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiD  481 (583)
                      ...+.|||+||||||||+++++++..+    +..++.++.|...+.  ....+.+..-+..       +....++|+|||
T Consensus       213 ~~prGvLLyGPPGTGKTllAkAiA~e~----~~~f~~v~~s~l~~~~vGese~~ir~lF~~-------A~~~aP~IifiD  281 (434)
T 4b4t_M          213 RAPKGALMYGPPGTGKTLLARACAAQT----NATFLKLAAPQLVQMYIGEGAKLVRDAFAL-------AKEKAPTIIFID  281 (434)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHH----TCEEEEEEGGGGCSSCSSHHHHHHHHHHHH-------HHHHCSEEEEEE
T ss_pred             CCCCeeEEECcCCCCHHHHHHHHHHHh----CCCEEEEehhhhhhcccchHHHHHHHHHHH-------HHhcCCeEEeec
Confidence            345789999999999999999999987    456666766654321  1111122111111       111247899999


Q ss_pred             CCCCCCccc-----CCCCChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEe
Q psy17974        482 DVNMPKLET-----YGAQPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSL  552 (583)
Q Consensus       482 Dln~p~~d~-----yg~q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i  552 (583)
                      |++.-....     .|.......+.+++.. .|+-.        -.++.+|||+|.|.    .|+++++|  ||. .|++
T Consensus       282 EiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~--------~~~ViVIaaTNrp~----~LD~AllRpGRfD~~I~i  349 (434)
T 4b4t_M          282 ELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSS--------DDRVKVLAATNRVD----VLDPALLRSGRLDRKIEF  349 (434)
T ss_dssp             CTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCS--------SCSSEEEEECSSCC----CCCTTTCSTTSEEEEEEC
T ss_pred             chhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCC--------CCCEEEEEeCCCch----hcCHhHhcCCceeEEEEe
Confidence            998643322     1211222222333321 23221        23688999999987    79999999  885 7999


Q ss_pred             CCCCHHHHHHHHHHHhcccc
Q psy17974        553 PSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       553 ~~p~~~sl~~I~~~~l~~~l  572 (583)
                      +.|+.++...|+..+++..-
T Consensus       350 ~lPd~~~R~~Il~~~~~~~~  369 (434)
T 4b4t_M          350 PLPSEDSRAQILQIHSRKMT  369 (434)
T ss_dssp             CCCCHHHHHHHHHHHHHHSC
T ss_pred             CCcCHHHHHHHHHHHhcCCC
Confidence            99999999999998887553

>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=99.28  E-value=5.4e-11  Score=114.03  Aligned_cols=171  Identities=12%  Similarity=0.146  Sum_probs=111.3

Q ss_pred             ceeeccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhccc-CCceEE
Q psy17974        363 QLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLLAS-NTWAAL  439 (583)
Q Consensus       363 ~w~~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~  439 (583)
                      .|.+|.+..++..      +.+ ++...+..   .-+..++..+  .+++|+||+|||||++++.+++.+... .....+
T Consensus         3 ~~~~~~~~~~p~~------~~~-~~g~~~~~---~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~   72 (226)
T 2chg_A            3 NFEIWVEKYRPRT------LDE-VVGQDEVI---QRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFI   72 (226)
T ss_dssp             -CCCHHHHTSCSS------GGG-CCSCHHHH---HHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEE
T ss_pred             chhhHHHhcCCCC------HHH-HcCcHHHH---HHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceE
Confidence            4778877654321      222 33222222   2234444444  369999999999999999998865211 123456


Q ss_pred             EEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEe
Q psy17974        440 TINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKT  519 (583)
Q Consensus       440 ~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~  519 (583)
                      .++.+.......+...+......     .....+++.+++|||++....+      ..+.|+++++...           
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~vliiDe~~~l~~~------~~~~l~~~l~~~~-----------  130 (226)
T 2chg_A           73 EMNASDERGIDVVRHKIKEFART-----APIGGAPFKIIFLDEADALTAD------AQAALRRTMEMYS-----------  130 (226)
T ss_dssp             EEETTCTTCHHHHHHHHHHHHTS-----CCSTTCSCEEEEEETGGGSCHH------HHHHHHHHHHHTT-----------
T ss_pred             EeccccccChHHHHHHHHHHhcc-----cCCCccCceEEEEeChhhcCHH------HHHHHHHHHHhcC-----------
Confidence            67766666655555444332221     0122356789999999876543      4667777777531           


Q ss_pred             ecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        520 LQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       520 i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                       .++.+|++++.+.    .+.+++.++|.++.+++|+.+++..++...+..
T Consensus       131 -~~~~~i~~~~~~~----~~~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~~  176 (226)
T 2chg_A          131 -KSCRFILSCNYVS----RIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEK  176 (226)
T ss_dssp             -TTEEEEEEESCGG----GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             -CCCeEEEEeCChh----hcCHHHHHhCceeecCCCCHHHHHHHHHHHHHH
Confidence             3567888888764    688999999999999999999999999887653

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.26  E-value=1.8e-11  Score=131.21  Aligned_cols=141  Identities=20%  Similarity=0.269  Sum_probs=94.5

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEecC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDD  482 (583)
                      ..+.+||+||||||||++++++++.+    +..++.++.+...+.  ....+.+..-+..-       ....++|+|+||
T Consensus       205 ~prGiLL~GPPGtGKT~lakAiA~~~----~~~~~~v~~~~l~~~~~Ge~e~~ir~lF~~A-------~~~aP~IifiDE  273 (428)
T 4b4t_K          205 PPRGVLLYGPPGTGKTMLVKAVANST----KAAFIRVNGSEFVHKYLGEGPRMVRDVFRLA-------RENAPSIIFIDE  273 (428)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHHHH----TCEEEEEEGGGTCCSSCSHHHHHHHHHHHHH-------HHTCSEEEEEEC
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHh----CCCeEEEecchhhccccchhHHHHHHHHHHH-------HHcCCCeeechh
Confidence            35679999999999999999999987    456777777664331  11122222222211       123478999999


Q ss_pred             CCCCCccc-----CCCCC----hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EE
Q psy17974        483 VNMPKLET-----YGAQP----PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LL  550 (583)
Q Consensus       483 ln~p~~d~-----yg~q~----~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi  550 (583)
                      ++.-....     .+...    ..++|.++-   |+..        -.++.+|||+|.|.    .|+++++|  ||. .|
T Consensus       274 iD~i~~~R~~~~~~~~~~~~r~l~~lL~~ld---g~~~--------~~~v~vI~aTN~~~----~LD~AllRpGRfd~~I  338 (428)
T 4b4t_K          274 VDSIATKRFDAQTGSDREVQRILIELLTQMD---GFDQ--------STNVKVIMATNRAD----TLDPALLRPGRLDRKI  338 (428)
T ss_dssp             THHHHCSCSSSCSCCCCHHHHHHHHHHHHHH---HSCS--------SCSEEEEEEESCSS----SCCHHHHSSSSEEEEE
T ss_pred             hhhhhccccCCCCCCChHHHHHHHHHHHHhh---CCCC--------CCCEEEEEecCChh----hcChhhhcCCcceEEE
Confidence            98643322     11111    344554432   2221        24688999999987    79999999  785 68


Q ss_pred             EeC-CCCHHHHHHHHHHHhccc
Q psy17974        551 SLP-SPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       551 ~i~-~p~~~sl~~I~~~~l~~~  571 (583)
                      .+| .|+.+....|+..+++.+
T Consensus       339 ~~p~lPd~~~R~~Il~~~~~~~  360 (428)
T 4b4t_K          339 EFPSLRDRRERRLIFGTIASKM  360 (428)
T ss_dssp             ECCSSCCHHHHHHHHHHHHHSS
T ss_pred             EcCCCCCHHHHHHHHHHHhcCC
Confidence            996 799999999999988754

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.26  E-value=5.6e-11  Score=127.56  Aligned_cols=143  Identities=20%  Similarity=0.325  Sum_probs=96.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEe
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFV  480 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfi  480 (583)
                      +...+.|||+||||||||++++++++++    +..++.++.+...+.  ....+.+..-+..       +....++|+||
T Consensus       240 i~pprGILLyGPPGTGKTlLAkAiA~e~----~~~fi~vs~s~L~sk~vGesek~ir~lF~~-------Ar~~aP~IIfi  308 (467)
T 4b4t_H          240 IDPPKGILLYGPPGTGKTLCARAVANRT----DATFIRVIGSELVQKYVGEGARMVRELFEM-------ARTKKACIIFF  308 (467)
T ss_dssp             CCCCSEEEECSCTTSSHHHHHHHHHHHH----TCEEEEEEGGGGCCCSSSHHHHHHHHHHHH-------HHHTCSEEEEE
T ss_pred             CCCCCceEeeCCCCCcHHHHHHHHHhcc----CCCeEEEEhHHhhcccCCHHHHHHHHHHHH-------HHhcCCceEee
Confidence            3456899999999999999999999987    455667776654331  1111222211211       11234789999


Q ss_pred             cCCCCCCcccC--CCC---C----hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-
Q psy17974        481 DDVNMPKLETY--GAQ---P----PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-  548 (583)
Q Consensus       481 DDln~p~~d~y--g~q---~----~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-  548 (583)
                      ||++.......  ++.   .    ..++|.++ |  |+-.        -.++.+|||+|.|.    .|+++++|  ||. 
T Consensus       309 DEiDai~~~R~~~~~~~~~~~~~~l~~lL~~l-D--g~~~--------~~~ViVIaATNrpd----~LDpALlRpGRFD~  373 (467)
T 4b4t_H          309 DEIDAVGGARFDDGAGGDNEVQRTMLELITQL-D--GFDP--------RGNIKVMFATNRPN----TLDPALLRPGRIDR  373 (467)
T ss_dssp             ECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHH-H--SSCC--------TTTEEEEEECSCTT----SBCHHHHSTTTCCE
T ss_pred             cccccccccccCcCCCccHHHHHHHHHHHHHh-h--ccCC--------CCcEEEEeCCCCcc----cCChhhhccccccE
Confidence            99997654332  111   1    22334333 2  2211        24688999999987    89999999  885 


Q ss_pred             EEEeCCCCHHHHHHHHHHHhccc
Q psy17974        549 LLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       549 vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      .|+++.|+.++...|+..+++..
T Consensus       374 ~I~i~lPd~~~R~~Ilk~~l~~~  396 (467)
T 4b4t_H          374 KVEFSLPDLEGRANIFRIHSKSM  396 (467)
T ss_dssp             EECCCCCCHHHHHHHHHHHHTTS
T ss_pred             EEEeCCcCHHHHHHHHHHHhcCC
Confidence            89999999999999999888754

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.24  E-value=1.2e-10  Score=120.70  Aligned_cols=150  Identities=19%  Similarity=0.177  Sum_probs=103.9

Q ss_pred             hHHHHHHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccC
Q psy17974        394 RFGSIMEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGA  470 (583)
Q Consensus       394 r~~~ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p  470 (583)
                      +....+......+   .+|||+||||||||++++.+.+.+    +..++.++++.......+...+..            
T Consensus        40 ~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~----~~~~~~~~~~~~~~~~~~~~~~~~------------  103 (338)
T 3pfi_A           40 NLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM----SANIKTTAAPMIEKSGDLAAILTN------------  103 (338)
T ss_dssp             HHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT----TCCEEEEEGGGCCSHHHHHHHHHT------------
T ss_pred             HHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh----CCCeEEecchhccchhHHHHHHHh------------
Confidence            3444444443223   699999999999999999998876    335677888776666555544322            


Q ss_pred             CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecC------CCeeEeecCeEEEEecCCCCCCCCCCChhhh
Q psy17974        471 PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRD------KMFWKTLQDVVLCTACAPPGGGRMPLTPRFV  544 (583)
Q Consensus       471 ~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~------~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rll  544 (583)
                       .++..++||||++....+      ..+.|++.++.+...-..      ...-....++.+|+|+|.++    .+++.+.
T Consensus       104 -~~~~~vl~lDEi~~l~~~------~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~----~l~~~L~  172 (338)
T 3pfi_A          104 -LSEGDILFIDEIHRLSPA------IEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAG----MLSNPLR  172 (338)
T ss_dssp             -CCTTCEEEEETGGGCCHH------HHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGG----GSCHHHH
T ss_pred             -ccCCCEEEEechhhcCHH------HHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCcc----ccCHHHH
Confidence             123568999999965433      466777778766532110      00011123689999999865    5889999


Q ss_pred             ccc-eEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        545 RHF-GLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       545 r~f-~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      +|| .++.++.|+.+++..|+......
T Consensus       173 ~R~~~~i~l~~~~~~e~~~il~~~~~~  199 (338)
T 3pfi_A          173 DRFGMQFRLEFYKDSELALILQKAALK  199 (338)
T ss_dssp             TTCSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             hhcCEEeeCCCcCHHHHHHHHHHHHHh
Confidence            999 79999999999999999887653

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.23  E-value=1.3e-10  Score=120.45  Aligned_cols=145  Identities=16%  Similarity=0.236  Sum_probs=93.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      .+++||+||||||||++++++++.+.   ...++.++.+...+.  ....+.+..-++..       ...+++|+||||+
T Consensus        45 ~~~iLL~GppGtGKT~la~ala~~~~---~~~~~~i~~~~l~~~~~g~~~~~~~~lf~~a-------~~~~~~vl~iDEi  114 (322)
T 1xwi_A           45 WRGILLFGPPGTGKSYLAKAVATEAN---NSTFFSISSSDLVSKWLGESEKLVKNLFQLA-------RENKPSIIFIDEI  114 (322)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHHTT---SCEEEEEECCSSCCSSCCSCHHHHHHHHHHH-------HHTSSEEEEEETT
T ss_pred             CceEEEECCCCccHHHHHHHHHHHcC---CCcEEEEEhHHHHhhhhhHHHHHHHHHHHHH-------HhcCCcEEEeecH
Confidence            46899999999999999999998762   335566666543221  00111111111110       1235679999999


Q ss_pred             CCCCcccCCCC-C-hHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc-eEEEeCCCCHHH
Q psy17974        484 NMPKLETYGAQ-P-PIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF-GLLSLPSPTEDT  559 (583)
Q Consensus       484 n~p~~d~yg~q-~-~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f-~vi~i~~p~~~s  559 (583)
                      +.......+.+ . ....+.+++.. .|.-.       ...++.+|||+|.|.    .++++++||| ..++++.|+.++
T Consensus       115 d~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~-------~~~~v~vI~atn~~~----~ld~al~rRf~~~i~i~~P~~~~  183 (322)
T 1xwi_A          115 DSLCGSRSENESEAARRIKTEFLVQMQGVGV-------DNDGILVLGATNIPW----VLDSAIRRRFEKRIYIPLPEPHA  183 (322)
T ss_dssp             TGGGCCSSSCCTTHHHHHHHHHHHHHHCSSS-------CCTTEEEEEEESCTT----TSCHHHHHTCCEEEECCCCCHHH
T ss_pred             HHhccccccccchHHHHHHHHHHHHHhcccc-------cCCCEEEEEecCCcc----cCCHHHHhhcCeEEEeCCcCHHH
Confidence            97644332222 1 22333333321 11110       124789999999985    7999999999 689999999999


Q ss_pred             HHHHHHHHhccc
Q psy17974        560 LKVIFKVRTSPG  571 (583)
Q Consensus       560 l~~I~~~~l~~~  571 (583)
                      ...|+..++...
T Consensus       184 r~~il~~~l~~~  195 (322)
T 1xwi_A          184 RAAMFKLHLGTT  195 (322)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHhcC
Confidence            999999987644

>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=99.22  E-value=9e-11  Score=117.59  Aligned_cols=170  Identities=14%  Similarity=0.152  Sum_probs=107.0

Q ss_pred             CchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc
Q psy17974        389 TIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL  468 (583)
Q Consensus       389 T~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~  468 (583)
                      .....+....+..+...+.||||+||||||||++++.+.+... .....++.++++..+ ...    +++.+-...++.|
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~-~~~~~~~~v~~~~~~-~~~----~~~~l~g~~~~~~   85 (265)
T 2bjv_A           12 ANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSS-RWQGPFISLNCAALN-ENL----LDSELFGHEAGAF   85 (265)
T ss_dssp             CHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTST-TTTSCEEEEEGGGSC-HHH----HHHHHHCCC----
T ss_pred             CHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcC-ccCCCeEEEecCCCC-hhH----HHHHhcCCccccc
Confidence            3334445556667777889999999999999999999988763 334567888888753 222    2232221111111


Q ss_pred             cC-C--------CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC---CC
Q psy17974        469 GA-P--------LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG---GR  536 (583)
Q Consensus       469 ~p-~--------~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~---gr  536 (583)
                      .. .        .....++||||++....+      ..+.|.++++.+.+... ......-.++.+|+|+|++-.   ..
T Consensus        86 ~g~~~~~~~~l~~a~~~~l~lDEi~~l~~~------~q~~Ll~~l~~~~~~~~-g~~~~~~~~~~iI~atn~~~~~~~~~  158 (265)
T 2bjv_A           86 TGAQKRHPGRFERADGGTLFLDELATAPMM------VQEKLLRVIEYGELERV-GGSQPLQVNVRLVCATNADLPAMVNE  158 (265)
T ss_dssp             -----CCCCHHHHTTTSEEEEESGGGSCHH------HHHHHHHHHHHCEECCC-CC--CEECCCEEEEEESSCHHHHHHH
T ss_pred             ccccccccchhhhcCCcEEEEechHhcCHH------HHHHHHHHHHhCCeecC-CCcccccCCeEEEEecCcCHHHHHHc
Confidence            10 0        012358999999976554      45677888988866432 222333467899999998521   12


Q ss_pred             CCCChhhhccceE--EEeCCCCH--HHHHHHHHHHhccc
Q psy17974        537 MPLTPRFVRHFGL--LSLPSPTE--DTLKVIFKVRTSPG  571 (583)
Q Consensus       537 ~~l~~Rllr~f~v--i~i~~p~~--~sl~~I~~~~l~~~  571 (583)
                      ..+.++|.+||.+  +.+|+..+  +++..+...++...
T Consensus       159 ~~~~~~L~~Rl~~~~i~lp~L~~R~~di~~l~~~~l~~~  197 (265)
T 2bjv_A          159 GTFRADLLDALAFDVVQLPPLRERESDIMLMAEYFAIQM  197 (265)
T ss_dssp             TSSCHHHHHHHCSEEEECCCGGGCHHHHHHHHHHHHHHH
T ss_pred             CCccHHHHHhhcCcEEeCCChhhhhHHHHHHHHHHHHHH
Confidence            2467999999964  56666554  67777776666543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.18  E-value=9.1e-12  Score=116.63  Aligned_cols=139  Identities=17%  Similarity=0.279  Sum_probs=90.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCC----hHHHHHHHHhhhhhhcCccccCCCCCe
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTS----SARTQEILEGKLDKRTKTLLGAPLGKR  475 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt----~~~lq~~ie~~l~~~~~~~~~p~~gk~  475 (583)
                      +.+++|+||+|||||++++.+++.+...      ....++.++++....    .......+...+..-.      ..+++
T Consensus        43 ~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~  116 (195)
T 1jbk_A           43 KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLNDLA------KQEGN  116 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHHHHHHHHHHHHH------HSTTT
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhccCCccccHHHHHHHHHHHHh------hcCCC
Confidence            4789999999999999999998876211      234566666654321    1222222222222110      12346


Q ss_pred             EEEEecCCCCCCcc--cCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhccceEEEe
Q psy17974        476 LAVFVDDVNMPKLE--TYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVRHFGLLSL  552 (583)
Q Consensus       476 ~vlfiDDln~p~~d--~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr~f~vi~i  552 (583)
                      .|++|||++.....  ..+.+...++|+.+++.+              ++.+|++++++. .....+++++.++|..+.+
T Consensus       117 ~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~i~~~~~~~~~~~~~~~~~l~~r~~~i~~  182 (195)
T 1jbk_A          117 VILFIDELHTMVGAGKADGAMDAGNMLKPALARG--------------ELHCVGATTLDEYRQYIEKDAALERRFQKVFV  182 (195)
T ss_dssp             EEEEEETGGGGTT------CCCCHHHHHHHHHTT--------------SCCEEEEECHHHHHHHTTTCHHHHTTEEEEEC
T ss_pred             eEEEEeCHHHHhccCcccchHHHHHHHHHhhccC--------------CeEEEEeCCHHHHHHHHhcCHHHHHHhceeec
Confidence            78999999874322  233556788898888743              456788887653 2233578999999999999


Q ss_pred             CCCCHHHHHHHH
Q psy17974        553 PSPTEDTLKVIF  564 (583)
Q Consensus       553 ~~p~~~sl~~I~  564 (583)
                      +.|+.++...|+
T Consensus       183 ~~p~~~~~~~il  194 (195)
T 1jbk_A          183 AEPSVEDTIAIL  194 (195)
T ss_dssp             CCCCHHHHHTTC
T ss_pred             CCCCHHHHHHHh
Confidence            999999887653

>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=99.18  E-value=1.9e-10  Score=120.71  Aligned_cols=141  Identities=19%  Similarity=0.280  Sum_probs=88.5

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC--hHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS--SARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt--~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      .+++||+||||||||++++++++.+    +..++.++++....  .....+.+..-+..       ...++++||||||+
T Consensus        84 ~~~iLL~GppGtGKT~la~ala~~~----~~~~~~v~~~~l~~~~~g~~~~~~~~~f~~-------a~~~~~~vl~iDEi  152 (355)
T 2qp9_X           84 TSGILLYGPPGTGKSYLAKAVATEA----NSTFFSVSSSDLVSKWMGESEKLVKQLFAM-------ARENKPSIIFIDQV  152 (355)
T ss_dssp             CCCEEEECSTTSCHHHHHHHHHHHH----TCEEEEEEHHHHHSCC---CHHHHHHHHHH-------HHHTSSEEEEEECG
T ss_pred             CceEEEECCCCCcHHHHHHHHHHHh----CCCEEEeeHHHHhhhhcchHHHHHHHHHHH-------HHHcCCeEEEEech
Confidence            4689999999999999999999987    34556666543111  00001111111111       11235689999999


Q ss_pred             CCCCcccCCCCC------hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc-eEEEeCCCC
Q psy17974        484 NMPKLETYGAQP------PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF-GLLSLPSPT  556 (583)
Q Consensus       484 n~p~~d~yg~q~------~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f-~vi~i~~p~  556 (583)
                      +.......+.+.      ..++|.++ +.-.         ....++.+|||+|.|.    .+++.++||| ..++++.|+
T Consensus       153 d~l~~~r~~~~~~~~~~~~~~ll~~l-~~~~---------~~~~~v~vI~atn~~~----~ld~al~rRf~~~i~i~~P~  218 (355)
T 2qp9_X          153 DALTGTRGEGESEASRRIKTELLVQM-NGVG---------NDSQGVLVLGATNIPW----QLDSAIRRRFERRIYIPLPD  218 (355)
T ss_dssp             GGGTC------CTHHHHHHHHHHHHH-HHCC------------CCEEEEEEESCGG----GSCHHHHHTCCEEEECCCCC
T ss_pred             HhhcccCCCCcchHHHHHHHHHHHHh-hccc---------ccCCCeEEEeecCCcc----cCCHHHHcccCEEEEeCCcC
Confidence            975443222221      12333332 2110         0124689999999886    7899999999 689999999


Q ss_pred             HHHHHHHHHHHhccc
Q psy17974        557 EDTLKVIFKVRTSPG  571 (583)
Q Consensus       557 ~~sl~~I~~~~l~~~  571 (583)
                      .++...|+..++...
T Consensus       219 ~~~r~~il~~~l~~~  233 (355)
T 2qp9_X          219 LAARTTMFEINVGDT  233 (355)
T ss_dssp             HHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHhhC
Confidence            999999999888654

>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=99.17  E-value=3e-10  Score=143.98  Aligned_cols=159  Identities=15%  Similarity=0.090  Sum_probs=125.0

Q ss_pred             cceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhh
Q psy17974        384 DMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKR  463 (583)
Q Consensus       384 ~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~  463 (583)
                      .-+|-|+-|.|...-+-..+..+.|+++.||+|||||.+++++++.+    +..++.+||+..+++.++.+++.+-+.. 
T Consensus       623 ~rlViTPltdr~~~tl~~Al~~~~~~~l~GpaGtGKTe~vk~LA~~l----g~~~v~~nc~e~ld~~~lg~~~~g~~~~-  697 (2695)
T 4akg_A          623 ERLIYTPLLLIGFATLTDSLHQKYGGCFFGPAGTGKTETVKAFGQNL----GRVVVVFNCDDSFDYQVLSRLLVGITQI-  697 (2695)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHTTCEEEEECCTTSCHHHHHHHHHHTT----TCCCEEEETTSSCCHHHHHHHHHHHHHH-
T ss_pred             CcceecHHHHHHHHHHHHHHHhCCCCcccCCCCCCcHHHHHHHHHHh----CCcEEEEECCCCCChhHhhHHHHHHHhc-
Confidence            35899999999988888899999999999999999999999999987    3457789999999998887665443321 


Q ss_pred             cCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHH-------H-HHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        464 TKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLR-------Q-FLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       464 ~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLR-------q-~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                               |  .++++||+|....+      +++.|-       . +.+...-+...+....-..++.+++||||..+|
T Consensus       698 ---------G--aw~~~DE~nr~~~e------vLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g  760 (2695)
T 4akg_A          698 ---------G--AWGCFDEFNRLDEK------VLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNG  760 (2695)
T ss_dssp             ---------T--CEEEEETTTSSCHH------HHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSS
T ss_pred             ---------C--CEeeehhhhhcChH------HHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccC
Confidence                     2  35678999998775      455442       2 223333333333344445678999999998789


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHH
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIF  564 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~  564 (583)
                      |.++|+.+.++|+.++++.|+.+.+..|.
T Consensus       761 ~~eLP~~Lk~~Fr~v~m~~Pd~~~i~ei~  789 (2695)
T 4akg_A          761 RSELPENLKKSFREFSMKSPQSGTIAEMI  789 (2695)
T ss_dssp             SCCCCHHHHTTEEEEECCCCCHHHHHHHH
T ss_pred             cccccHHHHhheEEEEeeCCCHHHHHHHH
Confidence            99999999999999999999999888874

>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=99.17  E-value=1.5e-10  Score=119.82  Aligned_cols=141  Identities=18%  Similarity=0.264  Sum_probs=90.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC--hHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS--SARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt--~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      .+++||+||||||||++++++++.+    +..++.++++...+  .....+.+..-+..-       ...++.|+||||+
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~~~----~~~~~~v~~~~l~~~~~g~~~~~~~~~f~~a-------~~~~~~vl~iDEi  119 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVATEA----NSTFFSVSSSDLVSKWMGESEKLVKQLFAMA-------RENKPSIIFIDQV  119 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHHHH----TCEEEEEEHHHHHTTTGGGHHHHHHHHHHHH-------HHTSSEEEEEECG
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH----CCCEEEEchHHHhhcccchHHHHHHHHHHHH-------HhcCCeEEEechh
Confidence            3579999999999999999999876    34566666654211  111122222111111       1234679999999


Q ss_pred             CCCCcccCC--CCC----hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc-eEEEeCCCC
Q psy17974        484 NMPKLETYG--AQP----PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF-GLLSLPSPT  556 (583)
Q Consensus       484 n~p~~d~yg--~q~----~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f-~vi~i~~p~  556 (583)
                      +.......+  ...    ..++++++-.   .-.       .-.++.+|||+|.|.    .+++++.|+| ..++++.|+
T Consensus       120 d~l~~~~~~~~~~~~~~~~~~ll~~l~~---~~~-------~~~~v~vi~atn~~~----~ld~al~~Rf~~~i~~~~p~  185 (322)
T 3eie_A          120 DALTGTRGEGESEASRRIKTELLVQMNG---VGN-------DSQGVLVLGATNIPW----QLDSAIRRRFERRIYIPLPD  185 (322)
T ss_dssp             GGGSCC------CCTHHHHHHHHHHHGG---GGT-------SCCCEEEEEEESCGG----GSCHHHHHHCCEEEECCCCC
T ss_pred             hhhhccCCCCcchHHHHHHHHHHHHhcc---ccc-------cCCceEEEEecCChh----hCCHHHHcccCeEEEeCCCC
Confidence            965432211  111    1234433321   110       123688999999886    6999999999 579999999


Q ss_pred             HHHHHHHHHHHhccc
Q psy17974        557 EDTLKVIFKVRTSPG  571 (583)
Q Consensus       557 ~~sl~~I~~~~l~~~  571 (583)
                      .++...|+..++...
T Consensus       186 ~~~r~~il~~~~~~~  200 (322)
T 3eie_A          186 LAARTTMFEINVGDT  200 (322)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccC
Confidence            999999999987654

>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=99.16  E-value=1.2e-10  Score=119.37  Aligned_cols=143  Identities=22%  Similarity=0.359  Sum_probs=90.8

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecC
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDD  482 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDD  482 (583)
                      ..++++||+||||||||+++++++..+    ....+.++++.      +.....+..++..+..|. +....++|+|+||
T Consensus        47 ~~~~~vLL~Gp~GtGKT~la~ala~~~----~~~~i~v~~~~------l~~~~~g~~~~~~~~~f~~a~~~~p~il~iDE  116 (301)
T 3cf0_A           47 TPSKGVLFYGPPGCGKTLLAKAIANEC----QANFISIKGPE------LLTMWFGESEANVREIFDKARQAAPCVLFFDE  116 (301)
T ss_dssp             CCCSEEEEECSSSSSHHHHHHHHHHHT----TCEEEEECHHH------HHHHHHTTCTTHHHHHHHHHHHTCSEEEEECS
T ss_pred             CCCceEEEECCCCcCHHHHHHHHHHHh----CCCEEEEEhHH------HHhhhcCchHHHHHHHHHHHHhcCCeEEEEEC
Confidence            456789999999999999999999876    23445554332      111111111111111221 1123468999999


Q ss_pred             CCCCCcccCC-------C-CC-hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EE
Q psy17974        483 VNMPKLETYG-------A-QP-PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LL  550 (583)
Q Consensus       483 ln~p~~d~yg-------~-q~-~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi  550 (583)
                      ++....+..+       . .. ..++|+.+ +  |...        -.++.+|||+|.|.    .++++++|  +|. ++
T Consensus       117 id~l~~~~~~~~~~~~~~~~~~~~~lL~~l-~--~~~~--------~~~v~vi~atn~~~----~ld~al~r~gRf~~~i  181 (301)
T 3cf0_A          117 LDSIAKARGGNIGDGGGAADRVINQILTEM-D--GMST--------KKNVFIIGATNRPD----IIDPAILRPGRLDQLI  181 (301)
T ss_dssp             TTHHHHHHTTTTCCSSCSCCHHHHHHHHHH-H--SSCT--------TSSEEEEEEESCGG----GSCGGGGSTTSSCEEE
T ss_pred             hHHHhhccCCCcCCcchHHHHHHHHHHHHh-h--cccC--------CCCEEEEEecCCcc----ccChHHhcCCccceEE
Confidence            9964332211       1 11 34555443 3  1111        14689999999885    68999998  884 89


Q ss_pred             EeCCCCHHHHHHHHHHHhccc
Q psy17974        551 SLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       551 ~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      +++.|+.++...|+..+++..
T Consensus       182 ~i~~p~~~~r~~il~~~l~~~  202 (301)
T 3cf0_A          182 YIPLPDEKSRVAILKANLRKS  202 (301)
T ss_dssp             ECCCCCHHHHHHHHHHHHTTS
T ss_pred             ecCCcCHHHHHHHHHHHHccC
Confidence            999999999999998887643

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.15  E-value=1.9e-10  Score=116.25  Aligned_cols=146  Identities=18%  Similarity=0.269  Sum_probs=94.8

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEec
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVD  481 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiD  481 (583)
                      ..+.++||+||||||||++++.+++.+    +..++.++.+.....  ......+...+....       .+++.|+|||
T Consensus        49 ~~~~~~ll~G~~GtGKT~la~~la~~~----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~vl~iD  117 (285)
T 3h4m_A           49 EPPKGILLYGPPGTGKTLLAKAVATET----NATFIRVVGSELVKKFIGEGASLVKDIFKLAK-------EKAPSIIFID  117 (285)
T ss_dssp             CCCSEEEEESSSSSSHHHHHHHHHHHT----TCEEEEEEGGGGCCCSTTHHHHHHHHHHHHHH-------HTCSEEEEEE
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHh----CCCEEEEehHHHHHhccchHHHHHHHHHHHHH-------HcCCeEEEEE
Confidence            456789999999999999999999876    345666666553221  111222222222111       1235799999


Q ss_pred             CCCCCCcccCC-----CCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEeC
Q psy17974        482 DVNMPKLETYG-----AQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSLP  553 (583)
Q Consensus       482 Dln~p~~d~yg-----~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i~  553 (583)
                      |++.......+     .....+.+.++++....+..       -.++.+|+|+|++.    .++++++|  +|. ++.++
T Consensus       118 Eid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~-------~~~~~vI~ttn~~~----~l~~~l~~~~Rf~~~i~~~  186 (285)
T 3h4m_A          118 EIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA-------RGDVKIIGATNRPD----ILDPAILRPGRFDRIIEVP  186 (285)
T ss_dssp             TTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS-------SSSEEEEEECSCGG----GBCHHHHSTTSEEEEEECC
T ss_pred             CHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC-------CCCEEEEEeCCCch----hcCHHHcCCCcCCeEEEEC
Confidence            99875332211     22234445555543211111       13688999999885    68999998  885 89999


Q ss_pred             CCCHHHHHHHHHHHhccc
Q psy17974        554 SPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~~~  571 (583)
                      .|+.++...|+..++...
T Consensus       187 ~p~~~~r~~il~~~~~~~  204 (285)
T 3h4m_A          187 APDEKGRLEILKIHTRKM  204 (285)
T ss_dssp             CCCHHHHHHHHHHHHTTS
T ss_pred             CCCHHHHHHHHHHHHhcC
Confidence            999999999999887644

>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=99.15  E-value=5.2e-10  Score=114.86  Aligned_cols=140  Identities=19%  Similarity=0.132  Sum_probs=98.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVN  484 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln  484 (583)
                      ...+++|+||||||||++++.+.+.+    ......++++.......+.+.+..            ..+++.++||||++
T Consensus        37 ~~~~vll~G~~GtGKT~la~~i~~~~----~~~~~~~~~~~~~~~~~l~~~l~~------------~~~~~~~l~lDEi~  100 (324)
T 1hqc_A           37 PLEHLLLFGPPGLGKTTLAHVIAHEL----GVNLRVTSGPAIEKPGDLAAILAN------------SLEEGDILFIDEIH  100 (324)
T ss_dssp             CCCCCEEECCTTCCCHHHHHHHHHHH----TCCEEEECTTTCCSHHHHHHHHTT------------TCCTTCEEEETTTT
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHh----CCCEEEEeccccCChHHHHHHHHH------------hccCCCEEEEECCc
Confidence            34799999999999999999998876    234566777776665555443322            11234589999998


Q ss_pred             CCCcccCCCCChHHHHHHHHHhCCeeecC-----CCeeE-eecCeEEEEecCCCCCCCCCCChhhhccc-eEEEeCCCCH
Q psy17974        485 MPKLETYGAQPPIELLRQFLDFGGLYDRD-----KMFWK-TLQDVVLCTACAPPGGGRMPLTPRFVRHF-GLLSLPSPTE  557 (583)
Q Consensus       485 ~p~~d~yg~q~~lElLRq~ld~~g~yd~~-----~~~~~-~i~~i~~iaa~~p~~~gr~~l~~Rllr~f-~vi~i~~p~~  557 (583)
                      ....+      ..+.|..+++.+...-..     ...+. ...++.+|+|+|.++    .+.+.+.++| .++.++.|+.
T Consensus       101 ~l~~~------~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~----~~~~~l~~R~~~~i~l~~~~~  170 (324)
T 1hqc_A          101 RLSRQ------AEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPG----LITAPLLSRFGIVEHLEYYTP  170 (324)
T ss_dssp             SCCHH------HHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCS----SCSCSTTTTCSCEEECCCCCH
T ss_pred             ccccc------hHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcc----cCCHHHHhcccEEEecCCCCH
Confidence            75533      356677777766543111     11111 234789999999875    5677888889 5999999999


Q ss_pred             HHHHHHHHHHhcc
Q psy17974        558 DTLKVIFKVRTSP  570 (583)
Q Consensus       558 ~sl~~I~~~~l~~  570 (583)
                      +++..++..++..
T Consensus       171 ~e~~~~l~~~~~~  183 (324)
T 1hqc_A          171 EELAQGVMRDARL  183 (324)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999988887653

>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=99.14  E-value=2.8e-10  Score=117.34  Aligned_cols=139  Identities=13%  Similarity=0.177  Sum_probs=96.7

Q ss_pred             HHHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCC
Q psy17974        398 IMEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGK  474 (583)
Q Consensus       398 ll~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk  474 (583)
                      .+..++..+.   .+|+.||||||||++++.+++.+    +..++.++.+... ...+.+.+......      .+..++
T Consensus        37 ~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l----~~~~~~i~~~~~~-~~~i~~~~~~~~~~------~~~~~~  105 (324)
T 3u61_B           37 TFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV----NADMMFVNGSDCK-IDFVRGPLTNFASA------ASFDGR  105 (324)
T ss_dssp             HHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT----TEEEEEEETTTCC-HHHHHTHHHHHHHB------CCCSSC
T ss_pred             HHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh----CCCEEEEcccccC-HHHHHHHHHHHHhh------cccCCC
Confidence            3445555543   45777889999999999999876    3456677765432 44444443332221      233456


Q ss_pred             eEEEEecCCCCCC-cccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeC
Q psy17974        475 RLAVFVDDVNMPK-LETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLP  553 (583)
Q Consensus       475 ~~vlfiDDln~p~-~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~  553 (583)
                      +.|+||||++... .+      ..+.|+.+++..            -.++.+|+++|++.    .+++++.++|.++.++
T Consensus       106 ~~vliiDEi~~l~~~~------~~~~L~~~le~~------------~~~~~iI~~~n~~~----~l~~~l~sR~~~i~~~  163 (324)
T 3u61_B          106 QKVIVIDEFDRSGLAE------SQRHLRSFMEAY------------SSNCSIIITANNID----GIIKPLQSRCRVITFG  163 (324)
T ss_dssp             EEEEEEESCCCGGGHH------HHHHHHHHHHHH------------GGGCEEEEEESSGG----GSCTTHHHHSEEEECC
T ss_pred             CeEEEEECCcccCcHH------HHHHHHHHHHhC------------CCCcEEEEEeCCcc----ccCHHHHhhCcEEEeC
Confidence            7899999999865 43      456677777642            14678999999875    6899999999999999


Q ss_pred             CCCHHHHHHHHHHHhc
Q psy17974        554 SPTEDTLKVIFKVRTS  569 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~  569 (583)
                      .|+.+++..|+..++.
T Consensus       164 ~~~~~e~~~il~~~~~  179 (324)
T 3u61_B          164 QPTDEDKIEMMKQMIR  179 (324)
T ss_dssp             CCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999997776665544

>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=99.14  E-value=3.8e-10  Score=122.05  Aligned_cols=148  Identities=18%  Similarity=0.234  Sum_probs=92.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDDV  483 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDDl  483 (583)
                      ..+++||+||||||||++++++++.+.   ...++.++++...+.     .+ +..++..+..+. ....++.||||||+
T Consensus       166 ~~~~vLL~GppGtGKT~lA~aia~~~~---~~~~~~v~~~~l~~~-----~~-g~~~~~~~~~f~~a~~~~~~vl~iDEi  236 (444)
T 2zan_A          166 PWRGILLFGPPGTGKSYLAKAVATEAN---NSTFFSISSSDLVSK-----WL-GESEKLVKNLFQLARENKPSIIFIDEI  236 (444)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHCC---SSEEEEECCC---------------CCCTHHHHHHHHHHSCSEEEEESCT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHcC---CCCEEEEeHHHHHhh-----hc-chHHHHHHHHHHHHHHcCCeEEEEech
Confidence            347899999999999999999998762   334555555432211     00 000000011111 01235689999999


Q ss_pred             CCCCcccCC--CCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc-eEEEeCCCCHHHH
Q psy17974        484 NMPKLETYG--AQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF-GLLSLPSPTEDTL  560 (583)
Q Consensus       484 n~p~~d~yg--~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f-~vi~i~~p~~~sl  560 (583)
                      +.......+  ......++.+++..-.....      ...++.+|||+|.|.    .++++++||| .+++++.|+.+..
T Consensus       237 d~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~------~~~~v~vI~atn~~~----~ld~al~rRf~~~i~i~~P~~~~r  306 (444)
T 2zan_A          237 DSLCGSRSENESEAARRIKTEFLVQMQGVGV------DNDGILVLGATNIPW----VLDSAIRRRFEKRIYIPLPEAHAR  306 (444)
T ss_dssp             TTTCCCSSCCCCGGGHHHHHHHHTTTTCSSC------CCSSCEEEEEESCGG----GSCHHHHTTCCEEEECCCCCHHHH
T ss_pred             HhhccCCCCccccHHHHHHHHHHHHHhCccc------CCCCEEEEecCCCcc----ccCHHHHhhcceEEEeCCcCHHHH
Confidence            965433222  22233455555542211110      124789999999985    7999999999 4899999999999


Q ss_pred             HHHHHHHhccc
Q psy17974        561 KVIFKVRTSPG  571 (583)
Q Consensus       561 ~~I~~~~l~~~  571 (583)
                      ..|+..++...
T Consensus       307 ~~il~~~l~~~  317 (444)
T 2zan_A          307 AAMFRLHLGST  317 (444)
T ss_dssp             HHHHHHHHTTS
T ss_pred             HHHHHHHHhcC
Confidence            99999987643

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.14  E-value=5.7e-11  Score=121.47  Aligned_cols=151  Identities=12%  Similarity=0.096  Sum_probs=86.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVN  484 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln  484 (583)
                      ..+||+||||||||++++++++.+    +..++.++++...+.  ....+.+...+..-. ..  ...++++|+||||++
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~~l----~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~-~~--~~~~~~~vl~iDEiD  109 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFRKM----GINPIMMSAGELESGNAGEPAKLIRQRYREAA-EI--IRKGNMCCLFINDLD  109 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHHH----TCCCEEEEHHHHHCC---HHHHHHHHHHHHHH-HH--HTTSSCCCEEEECCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh----CCCEEEEeHHHhhhccCchhHHHHHHHHHHHH-HH--HhcCCCeEEEEechh
Confidence            468999999999999999999987    345666766542211  111111211121110 00  013456799999998


Q ss_pred             CCCcccCCCC-------ChHHHHHHHHHhCCeeecCCC-eeEeecCeEEEEecCCCCCCCCCCChhhhc--cceE-EEeC
Q psy17974        485 MPKLETYGAQ-------PPIELLRQFLDFGGLYDRDKM-FWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFGL-LSLP  553 (583)
Q Consensus       485 ~p~~d~yg~q-------~~lElLRq~ld~~g~yd~~~~-~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~v-i~i~  553 (583)
                      ......-|..       .+...|-+++|.......... ......++.+|+|+|.+.    .++++++|  +|.. +.  
T Consensus       110 ~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~----~ld~al~R~~R~d~~i~--  183 (293)
T 3t15_A          110 AGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFS----TLYAPLIRDGRMEKFYW--  183 (293)
T ss_dssp             --------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCC----C--CHHHHHHHEEEEEE--
T ss_pred             hhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcc----cCCHHHhCCCCCceeEe--
Confidence            7554322222       245677788875443322111 112345799999999876    79999997  6653 54  


Q ss_pred             CCCHHHHHHHHHHHhcc
Q psy17974        554 SPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~~  570 (583)
                      .|+.++...|+..++..
T Consensus       184 ~P~~~~r~~Il~~~~~~  200 (293)
T 3t15_A          184 APTREDRIGVCTGIFRT  200 (293)
T ss_dssp             CCCHHHHHHHHHHHHGG
T ss_pred             CcCHHHHHHHHHHhccC
Confidence            47999999999987753

>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=99.13  E-value=7.6e-10  Score=110.02  Aligned_cols=146  Identities=15%  Similarity=0.169  Sum_probs=85.9

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEec
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVD  481 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiD  481 (583)
                      ....++||+||||||||++++.+++.+    ....+.++++...+.  ......+..-++...       ...+.|+|||
T Consensus        37 ~~~~~vll~G~~GtGKT~la~~la~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~-------~~~~~vl~iD  105 (262)
T 2qz4_A           37 KVPKGALLLGPPGCGKTLLAKAVATEA----QVPFLAMAGAEFVEVIGGLGAARVRSLFKEAR-------ARAPCIVYID  105 (262)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHH----TCCEEEEETTTTSSSSTTHHHHHHHHHHHHHH-------HTCSEEEEEE
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHh----CCCEEEechHHHHhhccChhHHHHHHHHHHHH-------hcCCeEEEEe
Confidence            345689999999999999999999876    234566666543221  111111111122111       1235799999


Q ss_pred             CCCCCCcccCC------CCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEe
Q psy17974        482 DVNMPKLETYG------AQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSL  552 (583)
Q Consensus       482 Dln~p~~d~yg------~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i  552 (583)
                      |++.......+      .....+.+.++++.   .+...    .-.++.+|+|+|.+.    .+++++.|  +| ..+++
T Consensus       106 eid~l~~~~~~~~~~~~~~~~~~~l~~ll~~---~~~~~----~~~~~~vi~~tn~~~----~ld~~l~~~~R~~~~i~i  174 (262)
T 2qz4_A          106 EIDAVGKKRSTTMSGFSNTEEEQTLNQLLVE---MDGMG----TTDHVIVLASTNRAD----ILDGALMRPGRLDRHVFI  174 (262)
T ss_dssp             CC-------------------CHHHHHHHHH---HHTCC----TTCCEEEEEEESCGG----GGGSGGGSTTSCCEEEEC
T ss_pred             CcchhhccccccccCccchhHHHHHHHHHHH---hhCcC----CCCCEEEEecCCChh----hcCHHHhcCCcCCeEEEe
Confidence            99975332211      11111223333321   01000    013688999999875    67889998  88 58999


Q ss_pred             CCCCHHHHHHHHHHHhccc
Q psy17974        553 PSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       553 ~~p~~~sl~~I~~~~l~~~  571 (583)
                      +.|+.++...|+..++...
T Consensus       175 ~~p~~~~r~~il~~~~~~~  193 (262)
T 2qz4_A          175 DLPTLQERREIFEQHLKSL  193 (262)
T ss_dssp             CSCCHHHHHHHHHHHHHHT
T ss_pred             CCcCHHHHHHHHHHHHHhC
Confidence            9999999999999887653

>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=99.12  E-value=7.4e-10  Score=112.65  Aligned_cols=150  Identities=13%  Similarity=0.162  Sum_probs=98.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--------HHHHHHHHhhhhhhcCccccCCCCCeE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--------ARTQEILEGKLDKRTKTLLGAPLGKRL  476 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--------~~lq~~ie~~l~~~~~~~~~p~~gk~~  476 (583)
                      ...++||+||||||||++++.+++.+    +...+.++++..+..        ..+.+..+..     .+.+.. .+++.
T Consensus        49 ~~~~vll~G~~GtGKT~la~~la~~l----~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~-~~~~~  118 (310)
T 1ofh_A           49 TPKNILMIGPTGVGKTEIARRLAKLA----NAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSA-----GGAIDA-VEQNG  118 (310)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH----TCCEEEEEGGGGSSCCSGGGSTTHHHHHHHHTT-----TTCHHH-HHHHC
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHh----CCCEEEEcchhcccCCccCccHHHHHHHHHHHh-----hHHHhh-ccCCC
Confidence            36799999999999999999999877    234667777665431        1122222111     111000 02256


Q ss_pred             EEEecCCCCCCcccCCCCC------hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-E
Q psy17974        477 AVFVDDVNMPKLETYGAQP------PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-L  549 (583)
Q Consensus       477 vlfiDDln~p~~d~yg~q~------~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-v  549 (583)
                      |+||||++....+..+...      ....|.++++.+.++....  .....++.+|+|+++.......+++++.+||. +
T Consensus       119 vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~--~~~~~~~~~i~~~~~~~~~~~~l~~~l~~R~~~~  196 (310)
T 1ofh_A          119 IVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHG--MVKTDHILFIASGAFQVARPSDLIPELQGRLPIR  196 (310)
T ss_dssp             EEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTE--EEECTTCEEEEEECCSSSCGGGSCHHHHHTCCEE
T ss_pred             EEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEecccc--cccCCcEEEEEcCCcccCCcccCCHHHHhhCCce
Confidence            9999999986655432222      1455667788665554322  33446788999876433333478999999996 5


Q ss_pred             EEeCCCCHHHHHHHHHH
Q psy17974        550 LSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~  566 (583)
                      +.+++|+.+++..|...
T Consensus       197 i~~~~~~~~~~~~il~~  213 (310)
T 1ofh_A          197 VELTALSAADFERILTE  213 (310)
T ss_dssp             EECCCCCHHHHHHHHHS
T ss_pred             EEcCCcCHHHHHHHHHh
Confidence            99999999999999884

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.11  E-value=4.2e-10  Score=114.92  Aligned_cols=157  Identities=18%  Similarity=0.260  Sum_probs=106.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhh---hhhcCccc-cC-CCCCeEEEEec
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKL---DKRTKTLL-GA-PLGKRLAVFVD  481 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l---~~~~~~~~-~p-~~gk~~vlfiD  481 (583)
                      .+++|+||||||||++++.++..+. .....++.++++..+........+....   ....++.+ +. ......|+|||
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~~~~-~~~~~~~~~~~~~~~~~~~~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lD  126 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAATLF-DTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFD  126 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHHHHH-SCGGGEEEEEGGGCCSTTHHHHHHCCCTTSTTTTTCCHHHHHHHHCSSEEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHHHHHc-CCCcceEEeecccccccccHHHhcCCCCccccccccchHHHHHHhCCCeEEEEe
Confidence            5899999999999999999988763 3344577888887665443333331100   00000100 00 01123699999


Q ss_pred             CCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC------C----------------CCCC
Q psy17974        482 DVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG------G----------------RMPL  539 (583)
Q Consensus       482 Dln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~------g----------------r~~l  539 (583)
                      |++....+      ....|.++++.+.+.+. ......+.++.+|+|+|++..      +                ...+
T Consensus       127 Ei~~l~~~------~~~~Ll~~le~~~~~~~-~~~~~~~~~~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~  199 (311)
T 4fcw_A          127 AIEKAHPD------VFNILLQMLDDGRLTDS-HGRTVDFRNTVIIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHF  199 (311)
T ss_dssp             TGGGSCHH------HHHHHHHHHHHSEEECT-TSCEEECTTEEEEEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHS
T ss_pred             ChhhcCHH------HHHHHHHHHhcCEEEcC-CCCEEECCCcEEEEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhC
Confidence            99876543      56788888998877653 334556678889999998310      0                2257


Q ss_pred             Chhhhccc-eEEEeCCCCHHHHHHHHHHHhccc
Q psy17974        540 TPRFVRHF-GLLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       540 ~~Rllr~f-~vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      ++.|.+|| .++.+++|+.+++..|...++...
T Consensus       200 ~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l~~~  232 (311)
T 4fcw_A          200 RPEFLNRLDEIVVFRPLTKEQIRQIVEIQMSYL  232 (311)
T ss_dssp             CHHHHTTCSEEEECCCCCHHHHHHHHHHHTHHH
T ss_pred             CHHHHhcCCeEEEeCCCCHHHHHHHHHHHHHHH
Confidence            88999999 588899999999999999988654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.11  E-value=4.8e-10  Score=115.72  Aligned_cols=162  Identities=9%  Similarity=0.057  Sum_probs=106.3

Q ss_pred             hHHHHHHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCChHHHHHHHHhhhhhhc-
Q psy17974        394 RFGSIMEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSSARTQEILEGKLDKRT-  464 (583)
Q Consensus       394 r~~~ll~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~-  464 (583)
                      +....+...+..+  .+++|+||||||||++++.+++.+...      ..+.++.+|+...+++..+-..|-..+.... 
T Consensus        31 ~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~~  110 (318)
T 3te6_A           31 RIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENL  110 (318)
T ss_dssp             HHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC-
T ss_pred             HHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCCC
Confidence            3445666666654  469999999999999999999887321      1467889999888887665544444442110 


Q ss_pred             --C-------cccc---CCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC
Q psy17974        465 --K-------TLLG---APLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP  532 (583)
Q Consensus       465 --~-------~~~~---p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~  532 (583)
                        +       ..|.   ...++++|+++||++.-.     .|   ++|..+++   |....      -.++.+||++|..
T Consensus       111 ~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~-----~q---~~L~~l~~---~~~~~------~s~~~vI~i~n~~  173 (318)
T 3te6_A          111 CGDISLEALNFYITNVPKAKKRKTLILIQNPENLL-----SE---KILQYFEK---WISSK------NSKLSIICVGGHN  173 (318)
T ss_dssp             -CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC-----CT---HHHHHHHH---HHHCS------SCCEEEEEECCSS
T ss_pred             CchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh-----cc---hHHHHHHh---ccccc------CCcEEEEEEecCc
Confidence              0       0111   124567899999998765     23   44555554   21111      1357888888765


Q ss_pred             CCCCCCCChhhhccc--eEEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        533 GGGRMPLTPRFVRHF--GLLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       533 ~~gr~~l~~Rllr~f--~vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      ..-...+++|+.++|  .+|.+++++.+++..|...-++...
T Consensus       174 d~~~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~~~  215 (318)
T 3te6_A          174 VTIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLKSLL  215 (318)
T ss_dssp             CCCHHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHHHHC
T ss_pred             ccchhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHHHhhh
Confidence            421123566677787  5799999999999999999998653

>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=99.09  E-value=4.6e-11  Score=139.37  Aligned_cols=146  Identities=16%  Similarity=0.248  Sum_probs=87.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCChHHH----HHHHHhhhhhhcCccccCCCCCe
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSSART----QEILEGKLDKRTKTLLGAPLGKR  475 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~~~l----q~~ie~~l~~~~~~~~~p~~gk~  475 (583)
                      +.+++|+||||||||++++.++..+...      .+..++.++++........    ...+..-+..-.      ..+++
T Consensus       191 ~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~~~g~~~~~l~~~~~~~~------~~~~~  264 (854)
T 1qvr_A          191 KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAVIQEVV------QSQGE  264 (854)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHHHHHHHHHHHHH------TTCSS
T ss_pred             CCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCccchHHHHHHHHHHHHHH------hcCCC
Confidence            4589999999999999999998876221      1456777777665422211    111111111111      12356


Q ss_pred             EEEEecCCCCCC--cccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeC
Q psy17974        476 LAVFVDDVNMPK--LETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLP  553 (583)
Q Consensus       476 ~vlfiDDln~p~--~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~  553 (583)
                      .|+||||+|...  .+..|++.+..+|+++++.+              ++.+|+|++++...+..++++|.|||.++.++
T Consensus       265 ~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~--------------~i~~I~at~~~~~~~~~~d~aL~rRf~~i~l~  330 (854)
T 1qvr_A          265 VILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--------------ELRLIGATTLDEYREIEKDPALERRFQPVYVD  330 (854)
T ss_dssp             EEEEECCC-------------------HHHHHTT--------------CCCEEEEECHHHHHHHTTCTTTCSCCCCEEEC
T ss_pred             eEEEEecHHHHhccCCccchHHHHHHHHHHHhCC--------------CeEEEEecCchHHhhhccCHHHHhCCceEEeC
Confidence            899999999743  33456677788899998754              35688998876422246789999999999999


Q ss_pred             CCCHHHHHHHHHHHhccc
Q psy17974        554 SPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~~~  571 (583)
                      +|+.++...|+..++..+
T Consensus       331 ~p~~~e~~~iL~~~~~~~  348 (854)
T 1qvr_A          331 EPTVEETISILRGLKEKY  348 (854)
T ss_dssp             CCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHhhhhhh
Confidence            999999999998877644

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.08  E-value=4.3e-11  Score=111.90  Aligned_cols=131  Identities=17%  Similarity=0.258  Sum_probs=83.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCC----ChHHHHHHHHhhhhhhcCccccCCCCCe
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQT----SSARTQEILEGKLDKRTKTLLGAPLGKR  475 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~T----t~~~lq~~ie~~l~~~~~~~~~p~~gk~  475 (583)
                      +.+++|+||+|||||++++.+++.+...      ....+..++++...    ........+...+..-.      ..+++
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~  116 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYRGDFEERLKSILKEVQ------DAEGQ  116 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHHHHHHCCSHHHHHHHHHHHHHHHH------HTTTS
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHHhhcCCCchhHHHHHHHHHHHHHH------hcCCc
Confidence            5789999999999999999998876321      14455555554321    11111112221111110      01346


Q ss_pred             EEEEecCCCCCCcc---cCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhccceEEE
Q psy17974        476 LAVFVDDVNMPKLE---TYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVRHFGLLS  551 (583)
Q Consensus       476 ~vlfiDDln~p~~d---~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr~f~vi~  551 (583)
                      .+++|||++.....   ..+.+...++|+++++.+              ++.+|++++++. .....+++++.+||..+.
T Consensus       117 ~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~ii~~~~~~~~~~~~~~~~~l~~R~~~i~  182 (187)
T 2p65_A          117 VVMFIDEIHTVVGAGAVAEGALDAGNILKPMLARG--------------ELRCIGATTVSEYRQFIEKDKALERRFQQIL  182 (187)
T ss_dssp             EEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHHTT--------------CSCEEEEECHHHHHHHTTTCHHHHHHEEEEE
T ss_pred             eEEEEeCHHHhcccccccccchHHHHHHHHHHhcC--------------CeeEEEecCHHHHHHHHhccHHHHHhcCccc
Confidence            79999999875422   223466788888888642              467889888753 112357999999999999


Q ss_pred             eCCCC
Q psy17974        552 LPSPT  556 (583)
Q Consensus       552 i~~p~  556 (583)
                      ++.|+
T Consensus       183 i~~p~  187 (187)
T 2p65_A          183 VEQPS  187 (187)
T ss_dssp             CCSCC
T ss_pred             CCCCC
Confidence            99986

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.07  E-value=7.5e-10  Score=119.79  Aligned_cols=140  Identities=16%  Similarity=0.233  Sum_probs=92.1

Q ss_pred             HHHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCe
Q psy17974        398 IMEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKR  475 (583)
Q Consensus       398 ll~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~  475 (583)
                      .+...+..++  ++||+||||||||++++.+.+.+.    .....++.+. .....+.+.++......       ..+++
T Consensus        40 ~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~----~~f~~l~a~~-~~~~~ir~~~~~a~~~~-------~~~~~  107 (447)
T 3pvs_A           40 PLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYAN----ADVERISAVT-SGVKEIREAIERARQNR-------NAGRR  107 (447)
T ss_dssp             HHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTT----CEEEEEETTT-CCHHHHHHHHHHHHHHH-------HTTCC
T ss_pred             HHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhC----CCeEEEEecc-CCHHHHHHHHHHHHHhh-------hcCCC
Confidence            3445555554  699999999999999999998762    2344444332 33445555544322211       13457


Q ss_pred             EEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCC
Q psy17974        476 LAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSP  555 (583)
Q Consensus       476 ~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p  555 (583)
                      .|+||||++.-..+.      .+.|...++.+              .+.+|+|++...  ...+.+++.+++.++.++.|
T Consensus       108 ~iLfIDEI~~l~~~~------q~~LL~~le~~--------------~v~lI~att~n~--~~~l~~aL~sR~~v~~l~~l  165 (447)
T 3pvs_A          108 TILFVDEVHRFNKSQ------QDAFLPHIEDG--------------TITFIGATTENP--SFELNSALLSRARVYLLKSL  165 (447)
T ss_dssp             EEEEEETTTCC------------CCHHHHHTT--------------SCEEEEEESSCG--GGSSCHHHHTTEEEEECCCC
T ss_pred             cEEEEeChhhhCHHH------HHHHHHHHhcC--------------ceEEEecCCCCc--ccccCHHHhCceeEEeeCCc
Confidence            799999999865442      22233445532              266777764322  23789999999999999999


Q ss_pred             CHHHHHHHHHHHhccc
Q psy17974        556 TEDTLKVIFKVRTSPG  571 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~~  571 (583)
                      +.+++..|....+...
T Consensus       166 ~~edi~~il~~~l~~~  181 (447)
T 3pvs_A          166 STEDIEQVLTQAMEDK  181 (447)
T ss_dssp             CHHHHHHHHHHHHHCT
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            9999999999998753

>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=99.06  E-value=1.3e-09  Score=120.04  Aligned_cols=140  Identities=20%  Similarity=0.214  Sum_probs=94.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhh-cCcccc------CCCCCeEEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKR-TKTLLG------APLGKRLAV  478 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~-~~~~~~------p~~gk~~vl  478 (583)
                      .+++||+||||||||++++.+++.+    ++.++.++++...+...+...+....... ..+.+.      +..+++.|+
T Consensus        77 ~~~lLL~GppGtGKTtla~~la~~l----~~~~i~in~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vl  152 (516)
T 1sxj_A           77 FRAAMLYGPPGIGKTTAAHLVAQEL----GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVI  152 (516)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHT----TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc----CCCEEEEeCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEE
Confidence            3789999999999999999999976    46777888877666544443332221111 112222      234678899


Q ss_pred             EecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHH
Q psy17974        479 FVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTED  558 (583)
Q Consensus       479 fiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~  558 (583)
                      ||||++....+   .|..++.|.++++.+              +..+|++|+....   ..-+++.|++..+.++.|+.+
T Consensus       153 iIDEid~l~~~---~~~~l~~L~~~l~~~--------------~~~iIli~~~~~~---~~l~~l~~r~~~i~f~~~~~~  212 (516)
T 1sxj_A          153 IMDEVDGMSGG---DRGGVGQLAQFCRKT--------------STPLILICNERNL---PKMRPFDRVCLDIQFRRPDAN  212 (516)
T ss_dssp             EECSGGGCCTT---STTHHHHHHHHHHHC--------------SSCEEEEESCTTS---STTGGGTTTSEEEECCCCCHH
T ss_pred             EEECCCccchh---hHHHHHHHHHHHHhc--------------CCCEEEEEcCCCC---ccchhhHhceEEEEeCCCCHH
Confidence            99999865433   345677788888753              2235555554321   223567888899999999999


Q ss_pred             HHHHHHHHHhc
Q psy17974        559 TLKVIFKVRTS  569 (583)
Q Consensus       559 sl~~I~~~~l~  569 (583)
                      ++..++..+..
T Consensus       213 ~~~~~L~~i~~  223 (516)
T 1sxj_A          213 SIKSRLMTIAI  223 (516)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999887764

>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=99.05  E-value=2e-10  Score=127.33  Aligned_cols=153  Identities=15%  Similarity=0.123  Sum_probs=89.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcC---ccccCCCCCeEEEEecC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTK---TLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~---~~~~p~~gk~~vlfiDD  482 (583)
                      +.+++|+||||||||++++.+...+.    .....++++.......+............+   ..+........|+|+||
T Consensus       108 g~~vll~Gp~GtGKTtlar~ia~~l~----~~~~~i~~~~~~~~~~~~g~~~~~ig~~~~~~~~~~~~a~~~~~vl~lDE  183 (543)
T 3m6a_A          108 GPILCLAGPPGVGKTSLAKSIAKSLG----RKFVRISLGGVRDESEIRGHRRTYVGAMPGRIIQGMKKAGKLNPVFLLDE  183 (543)
T ss_dssp             SCEEEEESSSSSSHHHHHHHHHHHHT----CEEEEECCCC--------------------CHHHHHHTTCSSSEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC----CCeEEEEecccchhhhhhhHHHHHhccCchHHHHHHHHhhccCCEEEEhh
Confidence            67899999999999999999988762    245667776643322221110000000000   11111222334899999


Q ss_pred             CCCCCcccCCCCChHHHHHHHHHhCC---eeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHH
Q psy17974        483 VNMPKLETYGAQPPIELLRQFLDFGG---LYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDT  559 (583)
Q Consensus       483 ln~p~~d~yg~q~~lElLRq~ld~~g---~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~s  559 (583)
                      ++....+..|.  +.+.|.+.+|.+.   +.+.....-....++.+|+|+|++.    .+++.|++||.+|.++.|+.++
T Consensus       184 id~l~~~~~~~--~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~~~----~l~~aL~~R~~vi~~~~~~~~e  257 (543)
T 3m6a_A          184 IDKMSSDFRGD--PSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANNLA----TIPGPLRDRMEIINIAGYTEIE  257 (543)
T ss_dssp             SSSCC-----------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSSTT----TSCHHHHHHEEEEECCCCCHHH
T ss_pred             hhhhhhhhccC--HHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCccc----cCCHHHHhhcceeeeCCCCHHH
Confidence            99766553221  2333445554321   2221111223346899999999976    7999999999999999999999


Q ss_pred             HHHHHHHHh
Q psy17974        560 LKVIFKVRT  568 (583)
Q Consensus       560 l~~I~~~~l  568 (583)
                      ...|+..++
T Consensus       258 ~~~Il~~~l  266 (543)
T 3m6a_A          258 KLEIVKDHL  266 (543)
T ss_dssp             HHHHHHHTH
T ss_pred             HHHHHHHHH
Confidence            999998876

>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=99.05  E-value=7.7e-10  Score=107.84  Aligned_cols=142  Identities=12%  Similarity=0.085  Sum_probs=88.2

Q ss_pred             HHHHHh--cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeE
Q psy17974        399 MEKLLL--VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRL  476 (583)
Q Consensus       399 l~~~l~--~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~  476 (583)
                      +..++.  .+.+++|+||||||||++++.+++.+. ...+.+..++++.....  +    ...+.         .-+++.
T Consensus        43 l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~-~~~~~~~~~~~~~~~~~--~----~~~~~---------~~~~~~  106 (242)
T 3bos_A           43 LKSAASGDGVQAIYLWGPVKSGRTHLIHAACARAN-ELERRSFYIPLGIHASI--S----TALLE---------GLEQFD  106 (242)
T ss_dssp             HHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEEGGGGGGS--C----GGGGT---------TGGGSS
T ss_pred             HHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEEHHHHHHH--H----HHHHH---------hccCCC
Confidence            444444  478999999999999999999988763 33456667766542210  0    00111         012345


Q ss_pred             EEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc---eEEEeC
Q psy17974        477 AVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF---GLLSLP  553 (583)
Q Consensus       477 vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f---~vi~i~  553 (583)
                      +++|||++....+....+...++++...+.+              .+.+|.+++.+......+.+++.++|   .++.++
T Consensus       107 vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~--------------~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~  172 (242)
T 3bos_A          107 LICIDDVDAVAGHPLWEEAIFDLYNRVAEQK--------------RGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQ  172 (242)
T ss_dssp             EEEEETGGGGTTCHHHHHHHHHHHHHHHHHC--------------SCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECC
T ss_pred             EEEEeccccccCCHHHHHHHHHHHHHHHHcC--------------CCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeC
Confidence            8999999875433211111233333333322              12355555543322334568999999   899999


Q ss_pred             CCCHHHHHHHHHHHhcc
Q psy17974        554 SPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~~  570 (583)
                      .|+.+++..|+...+..
T Consensus       173 ~~~~~~~~~~l~~~~~~  189 (242)
T 3bos_A          173 PMMDDEKLAALQRRAAM  189 (242)
T ss_dssp             CCCGGGHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHH
Confidence            99999999999888763

>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=99.04  E-value=1.2e-09  Score=125.88  Aligned_cols=152  Identities=18%  Similarity=0.253  Sum_probs=105.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHh---hhhhhcCcc-ccC-CCCCeEEEEecC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEG---KLDKRTKTL-LGA-PLGKRLAVFVDD  482 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~---~l~~~~~~~-~~p-~~gk~~vlfiDD  482 (583)
                      ++||+||||||||++++.+++.+    +..++.+++|..+....+.+.+..   ......++. .+. ......|+|+||
T Consensus       490 ~~ll~G~~GtGKT~la~~la~~l----~~~~~~i~~s~~~~~~~~~~l~g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDE  565 (758)
T 1r6b_X          490 SFLFAGPTGVGKTEVTVQLSKAL----GIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDE  565 (758)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH----TCEEEEEEGGGCSSSSCCSSSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEET
T ss_pred             EEEEECCCCCcHHHHHHHHHHHh----cCCEEEEechhhcchhhHhhhcCCCCCCcCccccchHHHHHHhCCCcEEEEeC
Confidence            69999999999999999999877    246778898876542111000000   000000000 000 011257999999


Q ss_pred             CCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC---------------------CCCCCh
Q psy17974        483 VNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG---------------------RMPLTP  541 (583)
Q Consensus       483 ln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g---------------------r~~l~~  541 (583)
                      ++...++      +.+.|.|++|.|.+.+.. .......++.+|+|+|++...                     +..+++
T Consensus       566 i~~~~~~------~~~~Ll~~le~~~~~~~~-g~~~~~~~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~  638 (758)
T 1r6b_X          566 IEKAHPD------VFNILLQVMDNGTLTDNN-GRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTP  638 (758)
T ss_dssp             GGGSCHH------HHHHHHHHHHHSEEEETT-TEEEECTTEEEEEEECSSCC-----------------CHHHHHHHSCH
T ss_pred             ccccCHH------HHHHHHHHhcCcEEEcCC-CCEEecCCeEEEEecCcchhhhhhcccCccccchHHHHHHHHHHhcCH
Confidence            9976554      788999999998887754 455666899999999985411                     015789


Q ss_pred             hhhccc-eEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        542 RFVRHF-GLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       542 Rllr~f-~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .|++|| .+|.+++++.+++..|...++..
T Consensus       639 ~l~~R~~~~i~~~~l~~~~~~~i~~~~l~~  668 (758)
T 1r6b_X          639 EFRNRLDNIIWFDHLSTDVIHQVVDKFIVE  668 (758)
T ss_dssp             HHHTTCSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             HHHhhCCcceeeCCCCHHHHHHHHHHHHHH
Confidence            999999 68999999999999999988864

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.04  E-value=6.2e-11  Score=129.12  Aligned_cols=135  Identities=17%  Similarity=0.290  Sum_probs=82.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccC-CCCCeEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGA-PLGKRLA  477 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p-~~gk~~v  477 (583)
                      .+.|+||+||||||||++++.++..+...      .+..++.++++....         +..+.+.+.++.. ...++.|
T Consensus       200 ~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~~~---------g~~e~~~~~~~~~~~~~~~~i  270 (468)
T 3pxg_A          200 TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYR---------GEFEDRLKKVMDEIRQAGNII  270 (468)
T ss_dssp             SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-------------------CTTHHHHHHHHHTCCCCE
T ss_pred             CCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCcccc---------chHHHHHHHHHHHHHhcCCeE
Confidence            45699999999999999999998876211      133455555541110         0111111111110 1124569


Q ss_pred             EEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-CCCCCChhhhccceEEEeCCCC
Q psy17974        478 VFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLTPRFVRHFGLLSLPSPT  556 (583)
Q Consensus       478 lfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-gr~~l~~Rllr~f~vi~i~~p~  556 (583)
                      +|||          |++.....|+..++.|              ++.+|||+|++.. +...++++|.|||.+|.+++|+
T Consensus       271 LfiD----------~~~~a~~~L~~~L~~g--------------~v~vI~at~~~e~~~~~~~~~al~~Rf~~i~v~~p~  326 (468)
T 3pxg_A          271 LFID----------AAIDASNILKPSLARG--------------ELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPS  326 (468)
T ss_dssp             EEEC----------C--------CCCTTSS--------------SCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCC
T ss_pred             EEEe----------CchhHHHHHHHhhcCC--------------CEEEEecCCHHHHHHHhhcCHHHHHhCccceeCCCC
Confidence            9999          4444445555555432              5789999998752 2236899999999999999999


Q ss_pred             HHHHHHHHHHHhcccc
Q psy17974        557 EDTLKVIFKVRTSPGK  572 (583)
Q Consensus       557 ~~sl~~I~~~~l~~~l  572 (583)
                      .++...|+..++..+.
T Consensus       327 ~e~~~~iL~~~~~~~~  342 (468)
T 3pxg_A          327 VDESIQILQGLRDRYE  342 (468)
T ss_dssp             HHHHHHHHHHTTTTSG
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999998877643

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.03  E-value=5.4e-10  Score=118.59  Aligned_cols=143  Identities=19%  Similarity=0.239  Sum_probs=88.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChH--HHHHHHHhhhhhhcCccccCCCCCeEEEEecC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA--RTQEILEGKLDKRTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~--~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDD  482 (583)
                      ...++||+||||||||++++.++..+    +..++.++++......  .....+...++...       ..++.||||||
T Consensus       147 ~~~~vLL~GppGtGKT~la~aia~~~----~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~-------~~~~~il~iDE  215 (389)
T 3vfd_A          147 PARGLLLFGPPGNGKTMLAKAVAAES----NATFFNISAASLTSKYVGEGEKLVRALFAVAR-------ELQPSIIFIDQ  215 (389)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHHHT----TCEEEEECSCCC-------CHHHHHHHHHHHH-------HSSSEEEEEET
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhh----cCcEEEeeHHHhhccccchHHHHHHHHHHHHH-------hcCCeEEEEEC
Confidence            35799999999999999999998875    3456677765533210  11111111111111       12356999999


Q ss_pred             CCCCCccc-CCCCC-h----HHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeCCC
Q psy17974        483 VNMPKLET-YGAQP-P----IELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLPSP  555 (583)
Q Consensus       483 ln~p~~d~-yg~q~-~----lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~~p  555 (583)
                      ++....+. .+.+. .    .++++.+-.   ....      .-.++.+|||+|++.    .+++.+.|||. +++++.|
T Consensus       216 id~l~~~~~~~~~~~~~~~~~~ll~~l~~---~~~~------~~~~v~vI~atn~~~----~l~~~l~~R~~~~i~i~~p  282 (389)
T 3vfd_A          216 VDSLLCERREGEHDASRRLKTEFLIEFDG---VQSA------GDDRVLVMGATNRPQ----ELDEAVLRRFIKRVYVSLP  282 (389)
T ss_dssp             GGGGC--------CTHHHHHHHHHHHHHH---HC-----------CEEEEEEESCGG----GCCHHHHTTCCEEEECCCC
T ss_pred             chhhcccCCCccchHHHHHHHHHHHHhhc---cccc------CCCCEEEEEecCCch----hcCHHHHcCcceEEEcCCc
Confidence            98653222 11111 1    234444332   1110      124689999999876    78999999995 8999999


Q ss_pred             CHHHHHHHHHHHhccc
Q psy17974        556 TEDTLKVIFKVRTSPG  571 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~~  571 (583)
                      +.++...|+..++..+
T Consensus       283 ~~~~r~~il~~~~~~~  298 (389)
T 3vfd_A          283 NEETRLLLLKNLLCKQ  298 (389)
T ss_dssp             CHHHHHHHHHHHHTTS
T ss_pred             CHHHHHHHHHHHHHhc
Confidence            9999999999887653

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.02  E-value=1.5e-09  Score=111.49  Aligned_cols=166  Identities=15%  Similarity=0.117  Sum_probs=103.9

Q ss_pred             hhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccC
Q psy17974        391 DTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGA  470 (583)
Q Consensus       391 dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p  470 (583)
                      ...+....+......+.||||+||||||||++++.+..... ..+..++.+|+++...     ..+++.+-...++.|..
T Consensus        10 ~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~-~~~~~~v~v~~~~~~~-----~l~~~~lfg~~~g~~tg   83 (304)
T 1ojl_A           10 AMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSA-RSDRPLVTLNCAALNE-----SLLESELFGHEKGAFTG   83 (304)
T ss_dssp             HHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSS-CSSSCCCEEECSSCCH-----HHHHHHHTCCCSSCCC-
T ss_pred             HHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCc-ccCCCeEEEeCCCCCh-----HHHHHHhcCccccccCc
Confidence            34445556666677889999999999999999999988652 3345677888876432     23444443333333321


Q ss_pred             -C---C-----CCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-----CCC
Q psy17974        471 -P---L-----GKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-----GGR  536 (583)
Q Consensus       471 -~---~-----gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-----~gr  536 (583)
                       .   .     ....++||||++....+      ....|.++++.+.+.. .......-.++.+|+|+|++-     .| 
T Consensus        84 ~~~~~~g~~~~a~~g~L~LDEi~~l~~~------~q~~Ll~~l~~~~~~~-~g~~~~~~~~~riI~atn~~l~~~v~~g-  155 (304)
T 1ojl_A           84 ADKRREGRFVEADGGTLFLDEIGDISPL------MQVRLLRAIQEREVQR-VGSNQTISVDVRLIAATHRDLAEEVSAG-  155 (304)
T ss_dssp             --CCCCCHHHHHTTSEEEEESCTTCCHH------HHHHHHHHHHSSBCCB-TTBCCCCBCCCEEEEEESSCHHHHHHHT-
T ss_pred             hhhhhcCHHHhcCCCEEEEeccccCCHH------HHHHHHHHHhcCEeee-cCCcccccCCeEEEEecCccHHHHHHhC-
Confidence             1   0     11358999999976543      3344555666654432 222222235799999999862     13 


Q ss_pred             CCCChhhhccceEEE--eCCCC--HHHHHHHHHHHhccc
Q psy17974        537 MPLTPRFVRHFGLLS--LPSPT--EDTLKVIFKVRTSPG  571 (583)
Q Consensus       537 ~~l~~Rllr~f~vi~--i~~p~--~~sl~~I~~~~l~~~  571 (583)
                       .+.++|..+|+++.  +|+..  .+++..+...++..+
T Consensus       156 -~fr~~L~~Rl~~~~i~lPpL~eR~edi~~l~~~~l~~~  193 (304)
T 1ojl_A          156 -RFRQDLYYRLNVVAIEMPSLRQRREDIPLLADHFLRRF  193 (304)
T ss_dssp             -SSCHHHHHHHSSEEEECCCSGGGGGGHHHHHHHHHHHH
T ss_pred             -CcHHHHHhhcCeeEEeccCHHHhHhhHHHHHHHHHHHH
Confidence             35688988987655  55544  567777777776543

>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=99.02  E-value=2.1e-09  Score=111.46  Aligned_cols=149  Identities=13%  Similarity=0.147  Sum_probs=97.8

Q ss_pred             HHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhccc--CCceEEEEEeccCCChHHHHHHHHhhhhhhcCcc-----cc
Q psy17974        399 MEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLLAS--NTWAALTINFSAQTSSARTQEILEGKLDKRTKTL-----LG  469 (583)
Q Consensus       399 l~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~--~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~-----~~  469 (583)
                      +..++..+  .+++|+||||||||++++.+++.+..+  ....+..++.+.......+.+.+...........     -+
T Consensus        49 l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (353)
T 1sxj_D           49 LKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLEN  128 (353)
T ss_dssp             HHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHHSCCCCCCTTHHHH
T ss_pred             HHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHHHHHHHHhhhcccccchhhccc
Confidence            45556666  579999999999999999998875211  1234556666554454444433322111100000     01


Q ss_pred             CCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceE
Q psy17974        470 APLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGL  549 (583)
Q Consensus       470 p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~v  549 (583)
                      .+.+++.|++|||++....+      ..+.|+.+++...            .+..+|.++|.+.    .+.+++.+|+.+
T Consensus       129 ~~~~~~~vliiDE~~~l~~~------~~~~Ll~~le~~~------------~~~~~il~~~~~~----~l~~~l~sR~~~  186 (353)
T 1sxj_D          129 YPCPPYKIIILDEADSMTAD------AQSALRRTMETYS------------GVTRFCLICNYVT----RIIDPLASQCSK  186 (353)
T ss_dssp             SCCCSCEEEEETTGGGSCHH------HHHHHHHHHHHTT------------TTEEEEEEESCGG----GSCHHHHHHSEE
T ss_pred             CCCCCceEEEEECCCccCHH------HHHHHHHHHHhcC------------CCceEEEEeCchh----hCcchhhccCce
Confidence            22345679999999876543      2455666666431            2456777787765    588999999999


Q ss_pred             EEeCCCCHHHHHHHHHHHhc
Q psy17974        550 LSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~~l~  569 (583)
                      +.+++|+.+++..+...++.
T Consensus       187 i~~~~~~~~~~~~~l~~~~~  206 (353)
T 1sxj_D          187 FRFKALDASNAIDRLRFISE  206 (353)
T ss_dssp             EECCCCCHHHHHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHHHHH
Confidence            99999999999999888765

>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=99.02  E-value=1.2e-09  Score=125.20  Aligned_cols=143  Identities=20%  Similarity=0.310  Sum_probs=93.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC--hHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS--SARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt--~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      .+.|||+||||||||++++++++++    +..++.++.+...+  .....+.+..-++.       +....++|+||||+
T Consensus       238 p~GILL~GPPGTGKT~LAraiA~el----g~~~~~v~~~~l~sk~~gese~~lr~lF~~-------A~~~~PsIIfIDEi  306 (806)
T 3cf2_A          238 PRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMSKLAGESESNLRKAFEE-------AEKNAPAIIFIDEL  306 (806)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHTTT----TCEEEEEEHHHHHSSCTTHHHHHHHHHHHH-------HTTSCSEEEEEESG
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh----CCeEEEEEhHHhhcccchHHHHHHHHHHHH-------HHHcCCeEEEEehh
Confidence            4689999999999999999999876    34566676544221  11112222222221       22345799999999


Q ss_pred             CCCCcccCC--CCChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEeCCCCH
Q psy17974        484 NMPKLETYG--AQPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSLPSPTE  557 (583)
Q Consensus       484 n~p~~d~yg--~q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i~~p~~  557 (583)
                      +.-.+..-+  .+.--..+.|++.. .|+-        .-.++.+|||+|.|.    .|++.++|  +|. .|.++.|+.
T Consensus       307 Dal~~~r~~~~~~~~~riv~~LL~~mdg~~--------~~~~V~VIaaTN~~d----~LD~ALrR~GRFd~~I~i~~Pd~  374 (806)
T 3cf2_A          307 DAIAPKREKTHGEVERRIVSQLLTLMDGLK--------QRAHVIVMAATNRPN----SIDPALRRFGRFDREVDIGIPDA  374 (806)
T ss_dssp             GGTCCTTTTCCCTTHHHHHHHHHTHHHHCC--------GGGCEEEEEECSSTT----TSCTTTTSTTSSCEEEECCCCCH
T ss_pred             cccccccCCCCChHHHHHHHHHHHHHhccc--------ccCCEEEEEecCChh----hcCHHHhCCcccceEEecCCCCH
Confidence            975443222  22222233333310 0111        123688999999886    79999999  785 799999999


Q ss_pred             HHHHHHHHHHhccc
Q psy17974        558 DTLKVIFKVRTSPG  571 (583)
Q Consensus       558 ~sl~~I~~~~l~~~  571 (583)
                      +....|+..+++.+
T Consensus       375 ~~R~~IL~~~l~~~  388 (806)
T 3cf2_A          375 TGRLEILQIHTKNM  388 (806)
T ss_dssp             HHHHHHHHHTCSSS
T ss_pred             HHHHHHHHHHhcCC
Confidence            99999999887654

>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=99.02  E-value=7.3e-10  Score=114.35  Aligned_cols=141  Identities=15%  Similarity=0.144  Sum_probs=83.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .+++|+||||||||++++.+++.+. ..+..++.++++..  ...+...+...    ....+....+++.++||||++..
T Consensus        38 ~~lll~G~~GtGKT~la~~i~~~~~-~~~~~~~~i~~~~~--~~~~~~~~~~~----~~~~~~~~~~~~~vL~iDEi~~l  110 (324)
T 1l8q_A           38 NPIFIYGSVGTGKTHLLQAAGNEAK-KRGYRVIYSSADDF--AQAMVEHLKKG----TINEFRNMYKSVDLLLLDDVQFL  110 (324)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHH-HTTCCEEEEEHHHH--HHHHHHHHHHT----CHHHHHHHHHTCSEEEEECGGGG
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEEHHHH--HHHHHHHHHcC----cHHHHHHHhcCCCEEEEcCcccc
Confidence            6999999999999999999988763 22455666765432  12222222111    00001000112458999999875


Q ss_pred             CcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc---eEEEeCCCCHHHHHHH
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF---GLLSLPSPTEDTLKVI  563 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f---~vi~i~~p~~~sl~~I  563 (583)
                      ..+....+..+.+++.+.+.+              ...++++.++|. .-..+.+++.++|   .++.+++ +.++...|
T Consensus       111 ~~~~~~~~~l~~~l~~~~~~~--------------~~iii~~~~~~~-~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~i  174 (324)
T 1l8q_A          111 SGKERTQIEFFHIFNTLYLLE--------------KQIILASDRHPQ-KLDGVSDRLVSRFEGGILVEIEL-DNKTRFKI  174 (324)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTT--------------CEEEEEESSCGG-GCTTSCHHHHHHHHTSEEEECCC-CHHHHHHH
T ss_pred             cCChHHHHHHHHHHHHHHHCC--------------CeEEEEecCChH-HHHHhhhHhhhcccCceEEEeCC-CHHHHHHH
Confidence            432111112233343333322              123444444443 2235899999999   7899999 99999999


Q ss_pred             HHHHhcc
Q psy17974        564 FKVRTSP  570 (583)
Q Consensus       564 ~~~~l~~  570 (583)
                      +...+..
T Consensus       175 l~~~~~~  181 (324)
T 1l8q_A          175 IKEKLKE  181 (324)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9888753

>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=99.01  E-value=1.6e-09  Score=113.65  Aligned_cols=143  Identities=18%  Similarity=0.252  Sum_probs=91.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEecC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDD  482 (583)
                      ..+++||+||||||||++++++++.+    +..++.++++.....  ....+.+...+...       ...++.|+||||
T Consensus       116 ~~~~vLl~GppGtGKT~la~aia~~~----~~~~~~i~~~~l~~~~~g~~~~~~~~~~~~a-------~~~~~~vl~iDE  184 (357)
T 3d8b_A          116 PPKGILLFGPPGTGKTLIGKCIASQS----GATFFSISASSLTSKWVGEGEKMVRALFAVA-------RCQQPAVIFIDE  184 (357)
T ss_dssp             CCSEEEEESSTTSSHHHHHHHHHHHT----TCEEEEEEGGGGCCSSTTHHHHHHHHHHHHH-------HHTCSEEEEEET
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHc----CCeEEEEehHHhhccccchHHHHHHHHHHHH-------HhcCCeEEEEeC
Confidence            46799999999999999999999876    456777777664331  11112222212111       113467999999


Q ss_pred             CCCCCccc-CCCCC-h----HHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeCCC
Q psy17974        483 VNMPKLET-YGAQP-P----IELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLPSP  555 (583)
Q Consensus       483 ln~p~~d~-yg~q~-~----lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~~p  555 (583)
                      ++...... -|.+. .    .++|.++.   |...      ..-.++.+|||+|.+.    .+++.+.|+|. ++.++.|
T Consensus       185 id~l~~~~~~~~~~~~~~~~~~lL~~l~---~~~~------~~~~~v~vI~atn~~~----~l~~~l~~Rf~~~i~i~~p  251 (357)
T 3d8b_A          185 IDSLLSQRGDGEHESSRRIKTEFLVQLD---GATT------SSEDRILVVGATNRPQ----EIDEAARRRLVKRLYIPLP  251 (357)
T ss_dssp             HHHHTBC------CHHHHHHHHHHHHHH---C----------CCCCEEEEEEESCGG----GBCHHHHTTCCEEEECCCC
T ss_pred             chhhhccCCCCcchHHHHHHHHHHHHHh---cccc------cCCCCEEEEEecCChh----hCCHHHHhhCceEEEeCCc
Confidence            97643321 11122 2    23443332   1111      0124688999999875    68999999997 8999999


Q ss_pred             CHHHHHHHHHHHhccc
Q psy17974        556 TEDTLKVIFKVRTSPG  571 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~~  571 (583)
                      +.++...|+..++...
T Consensus       252 ~~~~r~~il~~~~~~~  267 (357)
T 3d8b_A          252 EASARKQIVINLMSKE  267 (357)
T ss_dssp             CHHHHHHHHHHHHHTS
T ss_pred             CHHHHHHHHHHHHhhc
Confidence            9999999998887643

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.01  E-value=4.1e-09  Score=104.97  Aligned_cols=138  Identities=21%  Similarity=0.334  Sum_probs=87.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC------hHHHHHHHHhhhhhhcCccccCCCCCeEEEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS------SARTQEILEGKLDKRTKTLLGAPLGKRLAVF  479 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt------~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlf  479 (583)
                      .++++|+||||||||++++.++..+.    ...+.++.+....      ...+...+    +..       ..+.++++|
T Consensus        45 ~~~vll~G~~GtGKT~la~~la~~~~----~~~~~i~~~~~~~~~~~~~~~~~~~~~----~~a-------~~~~~~il~  109 (257)
T 1lv7_A           45 PKGVLMVGPPGTGKTLLAKAIAGEAK----VPFFTISGSDFVEMFVGVGASRVRDMF----EQA-------KKAAPCIIF  109 (257)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHT----CCEEEECSCSSTTSCCCCCHHHHHHHH----HHH-------HTTCSEEEE
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHHcC----CCEEEEeHHHHHHHhhhhhHHHHHHHH----HHH-------HHcCCeeeh
Confidence            56899999999999999999988762    2345555543221      11222221    111       123467999


Q ss_pred             ecCCCCCCcccC----CCCC-hHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EE
Q psy17974        480 VDDVNMPKLETY----GAQP-PIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LL  550 (583)
Q Consensus       480 iDDln~p~~d~y----g~q~-~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi  550 (583)
                      +||++....+..    |.+. ..+.+.+++.. +++..        -.++.+|+|+|.|.    .+++++.|  +|. .+
T Consensus       110 iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--------~~~~~vI~~tn~~~----~l~~~l~r~~rf~~~i  177 (257)
T 1lv7_A          110 IDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG--------NEGIIVIAATNRPD----VLDPALLRPGRFDRQV  177 (257)
T ss_dssp             ETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS--------SSCEEEEEEESCTT----TSCGGGGSTTSSCEEE
T ss_pred             hhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCccc--------CCCEEEEEeeCCch----hCCHHHcCCCcCCeEE
Confidence            999964332221    1111 22344444322 22211        24688999999885    78899988  774 79


Q ss_pred             EeCCCCHHHHHHHHHHHhcc
Q psy17974        551 SLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       551 ~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .++.|+.++...|+..+++.
T Consensus       178 ~i~~P~~~~r~~il~~~~~~  197 (257)
T 1lv7_A          178 VVGLPDVRGREQILKVHMRR  197 (257)
T ss_dssp             ECCCCCHHHHHHHHHHHHTT
T ss_pred             EeCCCCHHHHHHHHHHHHhc
Confidence            99999999999998887754

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.00  E-value=7.7e-10  Score=121.07  Aligned_cols=155  Identities=12%  Similarity=0.102  Sum_probs=89.7

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCC---C
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLG---K  474 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~g---k  474 (583)
                      +...+..+.||||+||||||||++++.+...+..  ......+++.. ++++.+.+..... .....+.+. ...|   .
T Consensus        34 l~~al~~~~~VLL~GpPGtGKT~LAraLa~~l~~--~~~f~~~~~~~-~t~~dL~G~~~~~-~~~~~g~~~~~~~g~l~~  109 (500)
T 3nbx_X           34 CLLAALSGESVFLLGPPGIAKSLIARRLKFAFQN--ARAFEYLMTRF-STPEEVFGPLSIQ-ALKDEGRYERLTSGYLPE  109 (500)
T ss_dssp             HHHHHHHTCEEEEECCSSSSHHHHHHHGGGGBSS--CCEEEEECCTT-CCHHHHHCCBC-----------CBCCTTSGGG
T ss_pred             HHHHHhcCCeeEeecCchHHHHHHHHHHHHHHhh--hhHHHHHHHhc-CCHHHhcCcccHH-HHhhchhHHhhhccCCCc
Confidence            4455667899999999999999999999887631  11223333322 3554443211100 011122222 2222   3


Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC-CCCCCCCChhhhccceE-EEe
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-GGGRMPLTPRFVRHFGL-LSL  552 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~-~~gr~~l~~Rllr~f~v-i~i  552 (583)
                      ..|+||||+|...++      ....|.+.++.+.+.. .... .....-.+|+|+|+. ..|.  ..+++++||.+ +.+
T Consensus       110 ~~IL~IDEI~r~~~~------~q~~LL~~lee~~v~i-~G~~-~~~~~~~iI~ATN~lpe~~~--~~~aLldRF~~~i~v  179 (500)
T 3nbx_X          110 AEIVFLDEIWKAGPA------ILNTLLTAINERQFRN-GAHV-EKIPMRLLVAASNELPEADS--SLEALYDRMLIRLWL  179 (500)
T ss_dssp             CSEEEEESGGGCCHH------HHHHHHHHHHSSEEEC-SSSE-EECCCCEEEEEESSCCCTTC--TTHHHHTTCCEEEEC
T ss_pred             ceeeeHHhHhhhcHH------HHHHHHHHHHHHhccC-CCCc-CCcchhhhhhccccCCCccc--cHHHHHHHHHHHHHH
Confidence            568999999875543      4566777787664432 2222 222222357777763 3333  34789999864 899


Q ss_pred             CCCCH-HHHHHHHHHH
Q psy17974        553 PSPTE-DTLKVIFKVR  567 (583)
Q Consensus       553 ~~p~~-~sl~~I~~~~  567 (583)
                      ++|+. ++...|....
T Consensus       180 ~~p~~~ee~~~IL~~~  195 (500)
T 3nbx_X          180 DKVQDKANFRSMLTSQ  195 (500)
T ss_dssp             CSCCCHHHHHHHHTCC
T ss_pred             HHhhhhhhHHHHHhcc
Confidence            99987 6667776654

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.00  E-value=9e-09  Score=104.51  Aligned_cols=141  Identities=21%  Similarity=0.254  Sum_probs=89.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC-----hHHHHHHHHhhhhhhcCccccCCCCCeEEEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS-----SARTQEILEGKLDKRTKTLLGAPLGKRLAVF  479 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt-----~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlf  479 (583)
                      .++++||+||||||||++++.++..+    ....+.++++....     .....+.+.....          ..++.|+|
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~~~----~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~~----------~~~~~vl~  118 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVATEC----SATFLNISAASLTSKYVGDGEKLVRALFAVAR----------HMQPSIIF  118 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHT----TCEEEEEESTTTSSSSCSCHHHHHHHHHHHHH----------HTCSEEEE
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHh----CCCeEEeeHHHHhhcccchHHHHHHHHHHHHH----------HcCCcEEE
Confidence            46899999999999999999999876    34566677655322     1111111111111          13457999


Q ss_pred             ecCCCCCCcccCC--CCC----hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc-eEEEe
Q psy17974        480 VDDVNMPKLETYG--AQP----PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF-GLLSL  552 (583)
Q Consensus       480 iDDln~p~~d~yg--~q~----~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f-~vi~i  552 (583)
                      |||++........  ...    ..++|+.+-.....        ..-.++.+|+|+|.|.    .+++.+.|+| ..+.+
T Consensus       119 iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~--------~~~~~v~vi~~tn~~~----~l~~~l~~R~~~~i~~  186 (297)
T 3b9p_A          119 IDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGN--------PDGDRIVVLAATNRPQ----ELDEAALRRFTKRVYV  186 (297)
T ss_dssp             EETGGGTSBCC-----CCSHHHHHHHHHHHHHCC--------------CEEEEEEESCGG----GBCHHHHHHCCEEEEC
T ss_pred             eccHHHhccccccCcchHHHHHHHHHHHHHhccccc--------CCCCcEEEEeecCChh----hCCHHHHhhCCeEEEe
Confidence            9999875433211  111    12344443321110        0113578999999885    6899999999 58999


Q ss_pred             CCCCHHHHHHHHHHHhccc
Q psy17974        553 PSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       553 ~~p~~~sl~~I~~~~l~~~  571 (583)
                      +.|+.+....|+..++...
T Consensus       187 ~~p~~~~r~~il~~~~~~~  205 (297)
T 3b9p_A          187 SLPDEQTRELLLNRLLQKQ  205 (297)
T ss_dssp             CCCCHHHHHHHHHHHHGGG
T ss_pred             CCcCHHHHHHHHHHHHHhc
Confidence            9999999999998887643

>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=98.99  E-value=4.9e-10  Score=114.37  Aligned_cols=169  Identities=12%  Similarity=0.153  Sum_probs=104.2

Q ss_pred             ceeeccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhcccC-CceEE
Q psy17974        363 QLTPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLASN-TWAAL  439 (583)
Q Consensus       363 ~w~~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~~-~~~~~  439 (583)
                      +|.||.++..+..      +.+ ++-..+.   ...+..++..+.  +++|+||+|||||++++.+++.+.... ...++
T Consensus         3 ~~~~~~~k~~p~~------~~~-~~g~~~~---~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~   72 (319)
T 2chq_A            3 NFEIWVEKYRPRT------LDE-VVGQDEV---IQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFI   72 (319)
T ss_dssp             ---CTTTTTSCSS------GGG-SCSCHHH---HHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCE
T ss_pred             ccccHHHhcCCCC------HHH-HhCCHHH---HHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeE
Confidence            4678888764422      222 2222221   122344454444  799999999999999999988752111 23355


Q ss_pred             EEEeccCCChHHHHHHHHhhhhhhcCccccCC-CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeE
Q psy17974        440 TINFSAQTSSARTQEILEGKLDKRTKTLLGAP-LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWK  518 (583)
Q Consensus       440 ~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~-~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~  518 (583)
                      .++.+.......+.+.+......      .|. .+++.|++|||++....+      ..+.|+.+++..           
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~vliiDe~~~l~~~------~~~~L~~~le~~-----------  129 (319)
T 2chq_A           73 EMNASDERGIDVVRHKIKEFART------APIGGAPFKIIFLDEADALTAD------AQAALRRTMEMY-----------  129 (319)
T ss_dssp             EEETTSTTCTTTSSHHHHHHHHS------CCSSSCCCEEEEEETGGGSCHH------HHHTTGGGTSSS-----------
T ss_pred             EEeCccccChHHHHHHHHHHHhc------CCCCCCCceEEEEeCCCcCCHH------HHHHHHHHHHhc-----------
Confidence            66766544433333333222111      122 356789999999875443      234444454421           


Q ss_pred             eecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        519 TLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       519 ~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                       ..++.+|++++.+.    .+.+.+.+++.++.+++|+.+++..+...++.
T Consensus       130 -~~~~~~i~~~~~~~----~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~  175 (319)
T 2chq_A          130 -SKSCRFILSCNYVS----RIIEPIQSRCAVFRFKPVPKEAMKKRLLEICE  175 (319)
T ss_dssp             -SSSEEEEEEESCGG----GSCHHHHTTCEEEECCCCCHHHHHHHHHHHHH
T ss_pred             -CCCCeEEEEeCChh----hcchHHHhhCeEEEecCCCHHHHHHHHHHHHH
Confidence             24677888888764    68899999999999999999999998887765

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.99  E-value=4.5e-10  Score=114.68  Aligned_cols=144  Identities=19%  Similarity=0.176  Sum_probs=91.0

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccC---CceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEe
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASN---TWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFV  480 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~---~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfi  480 (583)
                      +.++||+||||||||++++.+++.+....   ...++.++.+.....  ......+...++..          +..|+||
T Consensus        67 ~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~----------~~~vl~i  136 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA----------MGGVLFI  136 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTCCSSTTCHHHHHHHHHHHH----------TTSEEEE
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhhhhcccccHHHHHHHHHhc----------CCCEEEE
Confidence            45799999999999999998887662211   124555554432210  00111111222221          1248999


Q ss_pred             cCCCCCCccc---CCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhccc-eEEEeCCC
Q psy17974        481 DDVNMPKLET---YGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVRHF-GLLSLPSP  555 (583)
Q Consensus       481 DDln~p~~d~---yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr~f-~vi~i~~p  555 (583)
                      ||++......   -.++..++.|.++++.+.            .++.+|++++++. .....+++++.+|| .++.++.|
T Consensus       137 DEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~------------~~~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~  204 (309)
T 3syl_A          137 DEAYYLYRPDNERDYGQEAIEILLQVMENNR------------DDLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDY  204 (309)
T ss_dssp             ETGGGSCCCC---CCTHHHHHHHHHHHHHCT------------TTCEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCC
T ss_pred             EChhhhccCCCcccccHHHHHHHHHHHhcCC------------CCEEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCc
Confidence            9998653221   123345667777777542            4678889887653 11123468999999 79999999


Q ss_pred             CHHHHHHHHHHHhccc
Q psy17974        556 TEDTLKVIFKVRTSPG  571 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~~  571 (583)
                      +.+++..|+..++...
T Consensus       205 ~~~~~~~il~~~l~~~  220 (309)
T 3syl_A          205 SDEELFEIAGHMLDDQ  220 (309)
T ss_dssp             CHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHc
Confidence            9999999999888643

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=98.99  E-value=9.1e-11  Score=131.36  Aligned_cols=148  Identities=12%  Similarity=0.112  Sum_probs=93.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCC-----CCCeEEEEecC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAP-----LGKRLAVFVDD  482 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~-----~gk~~vlfiDD  482 (583)
                      ||||+||||||||++++.+++.+. ...+     .+...+++..+-.   ........+.+...     .....|+||||
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~-r~~~-----~~~~~~~~~~l~~---~~~~~~~~g~~~~~~G~l~~A~~gil~IDE  399 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAP-RAVY-----TTGKGSTAAGLTA---AVVREKGTGEYYLEAGALVLADGGIAVIDE  399 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCS-CEEC-----CCTTCSTTTTSEE---ECSSGGGTSSCSEEECHHHHHSSSEECCTT
T ss_pred             ceEEECCCchHHHHHHHHHHHhCC-Ccee-----cCCCccccccccc---eeeeccccccccccCCeeEecCCCcEEeeh
Confidence            999999999999999998887652 1111     1111111111100   00000011111100     11235899999


Q ss_pred             CCCCCcccCCCCChHHHHHHHHHhCCeeec-CCCeeEeecCeEEEEecCCCCCCCC----------CCChhhhccc--eE
Q psy17974        483 VNMPKLETYGAQPPIELLRQFLDFGGLYDR-DKMFWKTLQDVVLCTACAPPGGGRM----------PLTPRFVRHF--GL  549 (583)
Q Consensus       483 ln~p~~d~yg~q~~lElLRq~ld~~g~yd~-~~~~~~~i~~i~~iaa~~p~~~gr~----------~l~~Rllr~f--~v  549 (583)
                      ++...++      ..+.|.+.+|.+.+.-. .......-.++.+|||+||+. |+.          .+++.+++||  ..
T Consensus       400 id~l~~~------~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~-G~~~~~~~~~~ni~l~~aLl~RFDl~~  472 (595)
T 3f9v_A          400 IDKMRDE------DRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKF-GRYISERPVSDNINLPPTILSRFDLIF  472 (595)
T ss_dssp             TTCCCSH------HHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTT-CCSCTTSCSCTTTCSCSSSGGGCSCCE
T ss_pred             hhhCCHh------HhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcC-CccCcccCchhccCCCHHHHhhCeEEE
Confidence            9976554      46788899998876532 233334446899999999984 444          8999999999  46


Q ss_pred             EEeCCCCHHHHHHHHHHHhcccc
Q psy17974        550 LSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      +..++|+.+ ...|...++..+-
T Consensus       473 ~~~~~~~~e-~~~i~~~il~~~~  494 (595)
T 3f9v_A          473 ILKDQPGEQ-DRELANYILDVHS  494 (595)
T ss_dssp             EECCTTHHH-HHHHHHHHHTTTC
T ss_pred             EeCCCCCHH-HHHHHHHHHHHhh
Confidence            777888888 7888888877654

>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=98.98  E-value=1.8e-10  Score=132.10  Aligned_cols=143  Identities=22%  Similarity=0.357  Sum_probs=84.5

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEEEEecC
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLAVFVDD  482 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~vlfiDD  482 (583)
                      ...+.+||+||||||||+++++++.++    +...+.+..+.      +.....+.-++.-+.+|. +....++|+||||
T Consensus       509 ~~~~gvLl~GPPGtGKT~lAkaiA~e~----~~~f~~v~~~~------l~s~~vGese~~vr~lF~~Ar~~~P~IifiDE  578 (806)
T 3cf2_A          509 TPSKGVLFYGPPGCGKTLLAKAIANEC----QANFISIKGPE------LLTMWFGESEANVREIFDKARQAAPCVLFFDE  578 (806)
T ss_dssp             CCCSCCEEESSTTSSHHHHHHHHHHTT----TCEEEECCHHH------HHTTTCSSCHHHHHHHHHHHHTTCSEEEECSC
T ss_pred             CCCceEEEecCCCCCchHHHHHHHHHh----CCceEEeccch------hhccccchHHHHHHHHHHHHHHcCCceeechh
Confidence            345789999999999999999999976    33344332222      111000011111112221 1234579999999


Q ss_pred             CCCCCcccC-------CC-C-ChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EE
Q psy17974        483 VNMPKLETY-------GA-Q-PPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LL  550 (583)
Q Consensus       483 ln~p~~d~y-------g~-q-~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi  550 (583)
                      ++.-.....       |. . -..+||.++ |  |+-.        -.++.+|||+|.|.    .|++.++|  ||. .|
T Consensus       579 iDsl~~~R~~~~~~~~~~~~rv~~~lL~~m-d--g~~~--------~~~V~vi~aTN~p~----~lD~AllRpgRfd~~i  643 (806)
T 3cf2_A          579 LDSIAKARGGNIGDGGGAADRVINQILTEM-D--GMST--------KKNVFIIGATNRPD----IIDPAILRPGRLDQLI  643 (806)
T ss_dssp             GGGCC--------------CHHHHHHHHHH-H--SSCS--------SSSEEEECC-CCSS----SSCHHHHSTTTSCCEE
T ss_pred             hhHHhhccCCCCCCCchHHHHHHHHHHHHH-h--CCCC--------CCCEEEEEeCCCch----hCCHhHcCCCcceEEE
Confidence            997543221       11 1 134555444 2  2211        24688999999986    89999999  885 89


Q ss_pred             EeCCCCHHHHHHHHHHHhccc
Q psy17974        551 SLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       551 ~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      +++.|+.++...|+..+++..
T Consensus       644 ~v~lPd~~~R~~il~~~l~~~  664 (806)
T 3cf2_A          644 YIPLPDEKSRVAILKANLRKS  664 (806)
T ss_dssp             EC-----CHHHHTTTTTSSCC
T ss_pred             EECCcCHHHHHHHHHHHhcCC
Confidence            999999999999998887654

>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=98.97  E-value=6.6e-09  Score=100.43  Aligned_cols=143  Identities=18%  Similarity=0.260  Sum_probs=90.9

Q ss_pred             HHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccCC--------------------ceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASNT--------------------WAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~~--------------------~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..++..+.   +++|+||+|+|||++++.+++.+.....                    .....+..+.......+...
T Consensus        35 l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  114 (250)
T 1njg_A           35 LANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDL  114 (250)
T ss_dssp             HHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSEEEEETTCGGGHHHHHHH
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcceEEecCcccccHHHHHHH
Confidence            334444444   6999999999999999999876632110                    01222222222222223322


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++. +      ...+..+++.+++|||++....+      ..+.|..+++..            -.++.+|++++.+.  
T Consensus       115 ~~~-~------~~~~~~~~~~vlviDe~~~l~~~------~~~~l~~~l~~~------------~~~~~~i~~t~~~~--  167 (250)
T 1njg_A          115 LDN-V------QYAPARGRFKVYLIDEVHMLSRH------SFNALLKTLEEP------------PEHVKFLLATTDPQ--  167 (250)
T ss_dssp             HHS-C------CCSCSSSSSEEEEEETGGGSCHH------HHHHHHHHHHSC------------CTTEEEEEEESCGG--
T ss_pred             HHH-h------hhchhcCCceEEEEECcccccHH------HHHHHHHHHhcC------------CCceEEEEEeCChH--
Confidence            211 1      11233566789999999875432      345555666532            13577888877654  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                        .+.+.+.+++.++.+++++.+++..++...+..
T Consensus       168 --~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~  200 (250)
T 1njg_A          168 --KLPVTILSRCLQFHLKALDVEQIRHQLEHILNE  200 (250)
T ss_dssp             --GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             --hCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHh
Confidence              578899999999999999999999999887753

>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=98.97  E-value=5.5e-09  Score=113.56  Aligned_cols=142  Identities=20%  Similarity=0.285  Sum_probs=88.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      .+++||+||||||||++++.++...    +..++.++.+.....  ..-...+...+..       ...+.++|+||||+
T Consensus        49 p~gvLL~GppGtGKT~Laraia~~~----~~~f~~is~~~~~~~~~g~~~~~~r~lf~~-------A~~~~p~ILfIDEi  117 (476)
T 2ce7_A           49 PKGILLVGPPGTGKTLLARAVAGEA----NVPFFHISGSDFVELFVGVGAARVRDLFAQ-------AKAHAPCIVFIDEI  117 (476)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHH----TCCEEEEEGGGTTTCCTTHHHHHHHHHHHH-------HHHTCSEEEEEETG
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc----CCCeeeCCHHHHHHHHhcccHHHHHHHHHH-------HHhcCCCEEEEech
Confidence            4689999999999999999999876    334566666553321  0000001111111       11234789999999


Q ss_pred             CCCCccc----CCCCC-hHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEeCC
Q psy17974        484 NMPKLET----YGAQP-PIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSLPS  554 (583)
Q Consensus       484 n~p~~d~----yg~q~-~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i~~  554 (583)
                      +......    .|..+ ..+.+.+++.. .|+-        .-.++.+|||+|.|.    .++++++|  +|. .+.++.
T Consensus       118 d~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~--------~~~~viVIaaTn~~~----~Ld~allR~gRFd~~i~i~~  185 (476)
T 2ce7_A          118 DAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFD--------SKEGIIVMAATNRPD----ILDPALLRPGRFDKKIVVDP  185 (476)
T ss_dssp             GGTCCC---------CHHHHHHHHHHHHHHHSC--------GGGTEEEEEEESCGG----GSCGGGGSTTSSCEEEECCC
T ss_pred             hhhhhhcccccCcCcHHHHHHHHHHHHHHhccC--------CCCCEEEEEecCChh----hhchhhcccCcceeEeecCC
Confidence            8754432    12222 12334443321 1111        124789999999885    68899988  786 899999


Q ss_pred             CCHHHHHHHHHHHhcc
Q psy17974        555 PTEDTLKVIFKVRTSP  570 (583)
Q Consensus       555 p~~~sl~~I~~~~l~~  570 (583)
                      |+.+....|+..+++.
T Consensus       186 Pd~~~R~~Il~~~~~~  201 (476)
T 2ce7_A          186 PDMLGRKKILEIHTRN  201 (476)
T ss_dssp             CCHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999998877764

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.97  E-value=4.4e-09  Score=109.96  Aligned_cols=83  Identities=16%  Similarity=0.204  Sum_probs=53.8

Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeE--eecCeEEEEecCCCCCCCCCCChhhhccceEEEe
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWK--TLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSL  552 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~--~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i  552 (583)
                      +.|+||||++....+      ..+.|+..++....     ....  .-.++.+|++++..  ....+++++.+||.++.+
T Consensus       190 ~~vl~IDEi~~l~~~------~~~~L~~~le~~~~-----~~~ii~t~~~~~~i~~t~~~--~~~~l~~~l~sR~~~i~~  256 (368)
T 3uk6_A          190 PGVLFIDEVHMLDIE------SFSFLNRALESDMA-----PVLIMATNRGITRIRGTSYQ--SPHGIPIDLLDRLLIVST  256 (368)
T ss_dssp             BCEEEEESGGGSBHH------HHHHHHHHTTCTTC-----CEEEEEESCSEEECBTSSCE--EETTCCHHHHTTEEEEEE
T ss_pred             CceEEEhhccccChH------HHHHHHHHhhCcCC-----CeeeeecccceeeeeccCCC--CcccCCHHHHhhccEEEe
Confidence            469999999976543      45666666653211     0000  01123344333210  123689999999999999


Q ss_pred             CCCCHHHHHHHHHHHhcc
Q psy17974        553 PSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       553 ~~p~~~sl~~I~~~~l~~  570 (583)
                      ++|+.+++..|+...+..
T Consensus       257 ~~~~~~e~~~il~~~~~~  274 (368)
T 3uk6_A          257 TPYSEKDTKQILRIRCEE  274 (368)
T ss_dssp             CCCCHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHH
Confidence            999999999999987764

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.95  E-value=1e-09  Score=126.32  Aligned_cols=146  Identities=20%  Similarity=0.313  Sum_probs=100.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHH-HHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQ-EILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq-~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      ++||+||||||||++++.+.+.+. ..+..++.+++|..+...... +.+...+.+          +...|+|+||++..
T Consensus       523 ~~Ll~Gp~GtGKT~lA~ala~~l~-~~~~~~i~i~~s~~~~~~~~~~~~l~~~~~~----------~~~~vl~lDEi~~~  591 (758)
T 3pxi_A          523 SFIFLGPTGVGKTELARALAESIF-GDEESMIRIDMSEYMEKHSTSGGQLTEKVRR----------KPYSVVLLDAIEKA  591 (758)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHH-SCTTCEEEEEGGGGCSSCCCC---CHHHHHH----------CSSSEEEEECGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc-CCCcceEEEechhcccccccccchhhHHHHh----------CCCeEEEEeCcccc
Confidence            599999999999999999988763 335578899998865432110 001111111          11349999999876


Q ss_pred             CcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC--------CCCCChhhhccc-eEEEeCCCCH
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG--------RMPLTPRFVRHF-GLLSLPSPTE  557 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g--------r~~l~~Rllr~f-~vi~i~~p~~  557 (583)
                      .++      +...|.+++|.|.+.+... .-....++.+|+|+|.+...        +..+.|.|.+|| .++.+++|+.
T Consensus       592 ~~~------~~~~Ll~~le~g~~~~~~g-~~~~~~~~~iI~ttn~~~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~  664 (758)
T 3pxi_A          592 HPD------VFNILLQVLEDGRLTDSKG-RTVDFRNTILIMTSNVGASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEK  664 (758)
T ss_dssp             CHH------HHHHHHHHHHHSBCC------CCBCTTCEEEEEESSSTTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CH
T ss_pred             CHH------HHHHHHHHhccCeEEcCCC-CEeccCCeEEEEeCCCChhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCH
Confidence            544      6788889999887776432 23445789999999976532        122789999999 6999999999


Q ss_pred             HHHHHHHHHHhccc
Q psy17974        558 DTLKVIFKVRTSPG  571 (583)
Q Consensus       558 ~sl~~I~~~~l~~~  571 (583)
                      +++..|...++...
T Consensus       665 ~~~~~i~~~~l~~~  678 (758)
T 3pxi_A          665 KHLTEIVSLMSDQL  678 (758)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999887653

>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=98.95  E-value=3.5e-09  Score=108.37  Aligned_cols=143  Identities=14%  Similarity=0.232  Sum_probs=94.6

Q ss_pred             HHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhcccC-CceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCC-CC
Q psy17974        399 MEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLASN-TWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPL-GK  474 (583)
Q Consensus       399 l~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~~-~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~-gk  474 (583)
                      +..++..+.  +++|+||+|+|||++++.+++.+.... ...++.++.+.......+...+.....      ..|.. ++
T Consensus        37 l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~  110 (327)
T 1iqp_A           37 LKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFAR------TKPIGGAS  110 (327)
T ss_dssp             HHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHHHHHH------SCCGGGCS
T ss_pred             HHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHHHHHHHHHHh------hCCcCCCC
Confidence            344555554  799999999999999999988762111 123445554432222223222222111      12222 56


Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCC
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPS  554 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~  554 (583)
                      +.|++|||++....+      ..+.|+.+++...            .++.+|++++.+.    .+.+.+.+++.++.+++
T Consensus       111 ~~vliiDe~~~l~~~------~~~~L~~~le~~~------------~~~~~i~~~~~~~----~l~~~l~sr~~~~~~~~  168 (327)
T 1iqp_A          111 FKIIFLDEADALTQD------AQQALRRTMEMFS------------SNVRFILSCNYSS----KIIEPIQSRCAIFRFRP  168 (327)
T ss_dssp             CEEEEEETGGGSCHH------HHHHHHHHHHHTT------------TTEEEEEEESCGG----GSCHHHHHTEEEEECCC
T ss_pred             CeEEEEeCCCcCCHH------HHHHHHHHHHhcC------------CCCeEEEEeCCcc----ccCHHHHhhCcEEEecC
Confidence            779999999876543      3566677776431            3567888887764    58899999999999999


Q ss_pred             CCHHHHHHHHHHHhc
Q psy17974        555 PTEDTLKVIFKVRTS  569 (583)
Q Consensus       555 p~~~sl~~I~~~~l~  569 (583)
                      ++.+++..++..++.
T Consensus       169 l~~~~~~~~l~~~~~  183 (327)
T 1iqp_A          169 LRDEDIAKRLRYIAE  183 (327)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999998887764

>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=98.95  E-value=2.7e-09  Score=116.63  Aligned_cols=144  Identities=19%  Similarity=0.260  Sum_probs=93.2

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEe
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFV  480 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfi  480 (583)
                      +....+|||+||||||||++++++.+.+    +..++.++++...+.  ......+...++.       ...++++++||
T Consensus       235 ~~~~~~vLL~GppGtGKT~lAraia~~~----~~~fv~vn~~~l~~~~~g~~~~~~~~~f~~-------A~~~~p~iLfL  303 (489)
T 3hu3_A          235 VKPPRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMSKLAGESESNLRKAFEE-------AEKNAPAIIFI  303 (489)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHHHC----SSEEEEEEHHHHHTSCTTHHHHHHHHHHHH-------HHHTCSEEEEE
T ss_pred             CCCCCcEEEECcCCCCHHHHHHHHHHHh----CCCEEEEEchHhhhhhcchhHHHHHHHHHH-------HHhcCCcEEEe
Confidence            3456789999999999999999998875    346777776553211  1111111111221       12244689999


Q ss_pred             cCCCCCCcccCCCCC-----hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEe
Q psy17974        481 DDVNMPKLETYGAQP-----PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSL  552 (583)
Q Consensus       481 DDln~p~~d~yg~q~-----~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i  552 (583)
                      ||++.......+.+.     ....|..+++..          ..-.++.+|||+|.|.    .+++++.|  +|. ++.+
T Consensus       304 DEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~----------~~~~~v~vIaaTn~~~----~Ld~al~r~gRf~~~i~i  369 (489)
T 3hu3_A          304 DELDAIAPKREKTHGEVERRIVSQLLTLMDGL----------KQRAHVIVMAATNRPN----SIDPALRRFGRFDREVDI  369 (489)
T ss_dssp             ESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHS----------CTTSCEEEEEEESCGG----GBCGGGGSTTSSCEEEEC
T ss_pred             cchhhhccccccccchHHHHHHHHHHHHhhcc----------ccCCceEEEEecCCcc----ccCHHHhCCCcCceEEEe
Confidence            999764433222221     222233334411          0124789999999985    68899988  775 7999


Q ss_pred             CCCCHHHHHHHHHHHhccc
Q psy17974        553 PSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       553 ~~p~~~sl~~I~~~~l~~~  571 (583)
                      +.|+.++...|+..+++..
T Consensus       370 ~~P~~~eR~~IL~~~~~~~  388 (489)
T 3hu3_A          370 GIPDATGRLEILQIHTKNM  388 (489)
T ss_dssp             CCCCHHHHHHHHHHHTTTS
T ss_pred             CCCCHHHHHHHHHHHHhcC
Confidence            9999999999999887654

>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=98.95  E-value=5.1e-09  Score=108.53  Aligned_cols=84  Identities=24%  Similarity=0.397  Sum_probs=61.0

Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHHhCC-eeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceE-EEe
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGG-LYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGL-LSL  552 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g-~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~v-i~i  552 (583)
                      ..|+||||++....+      ..+.|+++++.+. .+.+.........++.+|||+||..   ..+++++++||.+ +.+
T Consensus       145 ~~vl~iDEi~~l~~~------~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~---~~l~~~L~~R~~~~~~l  215 (350)
T 1g8p_A          145 RGYLYIDECNLLEDH------IVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEE---GDLRPQLLDRFGLSVEV  215 (350)
T ss_dssp             TEEEEETTGGGSCHH------HHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCS---CCCCHHHHTTCSEEEEC
T ss_pred             CCEEEEeChhhCCHH------HHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCC---CCCCHHHHhhcceEEEc
Confidence            569999999976544      5678888888764 3444444444456899999999743   2589999999986 999


Q ss_pred             CCC-CHHHHHHHHHHH
Q psy17974        553 PSP-TEDTLKVIFKVR  567 (583)
Q Consensus       553 ~~p-~~~sl~~I~~~~  567 (583)
                      ++| +.+....|....
T Consensus       216 ~~~~~~~~~~~il~~~  231 (350)
T 1g8p_A          216 LSPRDVETRVEVIRRR  231 (350)
T ss_dssp             CCCCSHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHH
Confidence            999 455555676553

>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=98.94  E-value=2.9e-09  Score=111.71  Aligned_cols=161  Identities=17%  Similarity=0.216  Sum_probs=103.0

Q ss_pred             hhHHHHHHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhccc------C-CceEEEEEeccCC-ChHHHHHHHHhhhhh
Q psy17974        393 IRFGSIMEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLLAS------N-TWAALTINFSAQT-SSARTQEILEGKLDK  462 (583)
Q Consensus       393 ~r~~~ll~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~------~-~~~~~~i~fS~~T-t~~~lq~~ie~~l~~  462 (583)
                      .+....+..++..+  .+++|+||||||||++++.+++.+...      . .+.++.++++... ++..+...+...+..
T Consensus        30 ~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~~l~~  109 (384)
T 2qby_B           30 RDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTG  109 (384)
T ss_dssp             HHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHHHHHHHHHhcC
Confidence            34445556665554  459999999999999999998875211      1 5677888887766 665544433333310


Q ss_pred             hc----C----c----cccCCCCCeEEEEecCCCCCCcccCCCCChHHH-HHHHHHhCCeeecCCCeeEeecCeEEEEec
Q psy17974        463 RT----K----T----LLGAPLGKRLAVFVDDVNMPKLETYGAQPPIEL-LRQFLDFGGLYDRDKMFWKTLQDVVLCTAC  529 (583)
Q Consensus       463 ~~----~----~----~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lEl-LRq~ld~~g~yd~~~~~~~~i~~i~~iaa~  529 (583)
                      ..    +    .    .......++.|++|||++......  .   .+. +..+.+..             .++.+|+++
T Consensus       110 ~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~--~---~~~~l~~l~~~~-------------~~~~iI~~t  171 (384)
T 2qby_B          110 FSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRR--G---GDIVLYQLLRSD-------------ANISVIMIS  171 (384)
T ss_dssp             SCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHST--T---SHHHHHHHHTSS-------------SCEEEEEEC
T ss_pred             CCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCC--C---CceeHHHHhcCC-------------cceEEEEEE
Confidence            00    0    0    000001122399999998643221  1   234 55555421             578899998


Q ss_pred             CCCCCCCCCCChhhhccc-eEEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        530 APPGGGRMPLTPRFVRHF-GLLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       530 ~p~~~gr~~l~~Rllr~f-~vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      +.+. ....+.+++.++| .++.+++++.+++..|+...+...+
T Consensus       172 ~~~~-~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~  214 (384)
T 2qby_B          172 NDIN-VRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGL  214 (384)
T ss_dssp             SSTT-TTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTS
T ss_pred             CCCc-hHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhc
Confidence            8753 2346889998887 5899999999999999999887433

>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=98.89  E-value=2.8e-10  Score=131.02  Aligned_cols=146  Identities=12%  Similarity=0.202  Sum_probs=93.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCCh----HHHHHHHHhhhhhhcCccccCCCCC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSS----ARTQEILEGKLDKRTKTLLGAPLGK  474 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~----~~lq~~ie~~l~~~~~~~~~p~~gk  474 (583)
                      .+.+++|+||||||||++++.++..+...      .+..+..++++.....    ..+.+.+..-++.-       ...+
T Consensus       206 ~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g~~e~~l~~~~~~~-------~~~~  278 (758)
T 1r6b_X          206 RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQL-------EQDT  278 (758)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHHHHHHHHHH-------SSSS
T ss_pred             CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccchHHHHHHHHHHHH-------HhcC
Confidence            46799999999999999999998765211      1223444444332211    11222222222211       1124


Q ss_pred             eEEEEecCCCCCCcccC---CCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-CCCCCCChhhhccceEE
Q psy17974        475 RLAVFVDDVNMPKLETY---GAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-GGRMPLTPRFVRHFGLL  550 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~y---g~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-~gr~~l~~Rllr~f~vi  550 (583)
                      +.|+||||++.......   |.+.+..+|+++++.              .++.+|+|++++. .++..++++|.|||.++
T Consensus       279 ~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~--------------~~~~~I~at~~~~~~~~~~~d~aL~~Rf~~i  344 (758)
T 1r6b_X          279 NSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--------------GKIRVIGSTTYQEFSNIFEKDRALARRFQKI  344 (758)
T ss_dssp             CEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS--------------CCCEEEEEECHHHHHCCCCCTTSSGGGEEEE
T ss_pred             CeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhC--------------CCeEEEEEeCchHHhhhhhcCHHHHhCceEE
Confidence            58999999996532211   233344555554442              2577899998765 46677899999999999


Q ss_pred             EeCCCCHHHHHHHHHHHhccc
Q psy17974        551 SLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       551 ~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      .++.|+.++...|+..+...+
T Consensus       345 ~v~~p~~~e~~~il~~l~~~~  365 (758)
T 1r6b_X          345 DITEPSIEETVQIINGLKPKY  365 (758)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHH
T ss_pred             EcCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999887653

>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=98.89  E-value=1.3e-08  Score=103.86  Aligned_cols=145  Identities=16%  Similarity=0.261  Sum_probs=97.1

Q ss_pred             HHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhccc-CCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCe
Q psy17974        399 MEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLAS-NTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKR  475 (583)
Q Consensus       399 l~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~  475 (583)
                      +..++..+.  +++|+||+|+|||++++.+++.+... ....++.++.+...+...+.+.++.-...  .  .....+++
T Consensus        33 l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--~--~~~~~~~~  108 (323)
T 1sxj_B           33 LQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQK--K--LHLPPGKH  108 (323)
T ss_dssp             HHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHHHHB--C--CCCCTTCC
T ss_pred             HHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHHHHHHHHHHhc--c--ccCCCCCc
Confidence            444555543  59999999999999999998875211 12335556655544445554443322111  1  11124567


Q ss_pred             EEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCC
Q psy17974        476 LAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSP  555 (583)
Q Consensus       476 ~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p  555 (583)
                      .|++|||++....+      ..+.|+.+++...            .++.+|.+++.+.    .+.+++.+++.++.+++|
T Consensus       109 ~viiiDe~~~l~~~------~~~~L~~~le~~~------------~~~~~il~~~~~~----~l~~~l~sr~~~i~~~~~  166 (323)
T 1sxj_B          109 KIVILDEADSMTAG------AQQALRRTMELYS------------NSTRFAFACNQSN----KIIEPLQSQCAILRYSKL  166 (323)
T ss_dssp             EEEEEESGGGSCHH------HHHTTHHHHHHTT------------TTEEEEEEESCGG----GSCHHHHTTSEEEECCCC
T ss_pred             eEEEEECcccCCHH------HHHHHHHHHhccC------------CCceEEEEeCChh----hchhHHHhhceEEeecCC
Confidence            89999999875443      3455666666421            3567888887754    688999999999999999


Q ss_pred             CHHHHHHHHHHHhc
Q psy17974        556 TEDTLKVIFKVRTS  569 (583)
Q Consensus       556 ~~~sl~~I~~~~l~  569 (583)
                      +.+++..++..++.
T Consensus       167 ~~~~~~~~l~~~~~  180 (323)
T 1sxj_B          167 SDEDVLKRLLQIIK  180 (323)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999988765

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.89  E-value=7.1e-09  Score=108.37  Aligned_cols=154  Identities=20%  Similarity=0.219  Sum_probs=100.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhccc-----CCceEEEEEeccCCChHHHHHHHHhhhhhhc---C----ccc----
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLAS-----NTWAALTINFSAQTSSARTQEILEGKLDKRT---K----TLL----  468 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~-----~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~---~----~~~----  468 (583)
                      .+.+++|+||||||||++++.+++.+...     ..+.++.++++...++..+...+...+....   +    ..+    
T Consensus        43 ~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~  122 (387)
T 2v1u_A           43 KPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLV  122 (387)
T ss_dssp             CCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHH
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHH
Confidence            45789999999999999999998876321     1567788888877776654443333321100   0    000    


Q ss_pred             --cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhcc
Q psy17974        469 --GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRH  546 (583)
Q Consensus       469 --~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~  546 (583)
                        -...+++.|+||||++......    ...+.|.++++...-+.       .-.++.+|++++.+. -...+.+++.++
T Consensus       123 ~~l~~~~~~~vlilDEi~~l~~~~----~~~~~l~~l~~~~~~~~-------~~~~~~~I~~t~~~~-~~~~l~~~l~~r  190 (387)
T 2v1u_A          123 KRLSRLRGIYIIVLDEIDFLPKRP----GGQDLLYRITRINQELG-------DRVWVSLVGITNSLG-FVENLEPRVKSS  190 (387)
T ss_dssp             HHHTTSCSEEEEEEETTTHHHHST----THHHHHHHHHHGGGCC------------CEEEEECSCST-TSSSSCHHHHTT
T ss_pred             HHHhccCCeEEEEEccHhhhcccC----CCChHHHhHhhchhhcC-------CCceEEEEEEECCCc-hHhhhCHHHHhc
Confidence              0124668899999998753321    12355555554211110       013678899888763 223679999999


Q ss_pred             c--eEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        547 F--GLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       547 f--~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      |  .++.+++++.+++..|+...+..
T Consensus       191 ~~~~~i~l~~l~~~~~~~il~~~~~~  216 (387)
T 2v1u_A          191 LGEVELVFPPYTAPQLRDILETRAEE  216 (387)
T ss_dssp             TTSEECCBCCCCHHHHHHHHHHHHHH
T ss_pred             CCCeEEeeCCCCHHHHHHHHHHHHHh
Confidence            9  68999999999999999998874

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.89  E-value=8.5e-10  Score=127.06  Aligned_cols=136  Identities=16%  Similarity=0.271  Sum_probs=82.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc-CCCCCeEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG-APLGKRLA  477 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~-p~~gk~~v  477 (583)
                      .+.|+||+||||||||++++.+++.+...      .+..++.+++...     ..+    ..+.+.+.++. ....++.|
T Consensus       200 ~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~~-----~~G----~~e~~l~~~~~~~~~~~~~i  270 (758)
T 3pxi_A          200 TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTK-----YRG----EFEDRLKKVMDEIRQAGNII  270 (758)
T ss_dssp             SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-------------------CTTHHHHHHHHHTCCCCE
T ss_pred             CCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEeccccc-----ccc----hHHHHHHHHHHHHHhcCCEE
Confidence            45699999999999999999998876211      1233444444111     000    11111111111 01134679


Q ss_pred             EEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-CCCCCChhhhccceEEEeCCCC
Q psy17974        478 VFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLTPRFVRHFGLLSLPSPT  556 (583)
Q Consensus       478 lfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-gr~~l~~Rllr~f~vi~i~~p~  556 (583)
                      +|||          |++.....|+..++.|              ++.+|+|+|++.. +...++++|.|||.+|.++.|+
T Consensus       271 LfiD----------~~~~~~~~L~~~l~~~--------------~v~~I~at~~~~~~~~~~~d~al~rRf~~i~v~~p~  326 (758)
T 3pxi_A          271 LFID----------AAIDASNILKPSLARG--------------ELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPS  326 (758)
T ss_dssp             EEEC----------C--------CCCTTSS--------------SCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCC
T ss_pred             EEEc----------CchhHHHHHHHHHhcC--------------CEEEEeCCChHHHHHHhhccHHHHhhCcEEEeCCCC
Confidence            9999          3334445555555422              5789999998752 2346899999999999999999


Q ss_pred             HHHHHHHHHHHhccccc
Q psy17974        557 EDTLKVIFKVRTSPGKQ  573 (583)
Q Consensus       557 ~~sl~~I~~~~l~~~l~  573 (583)
                      .+++..|+..+...+-.
T Consensus       327 ~~~~~~il~~~~~~~~~  343 (758)
T 3pxi_A          327 VDESIQILQGLRDRYEA  343 (758)
T ss_dssp             HHHHHHHHHHTTTTSGG
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999999988776543

>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=98.86  E-value=5.9e-10  Score=111.61  Aligned_cols=142  Identities=20%  Similarity=0.258  Sum_probs=83.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccC-CCCCeEEEEecCCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGA-PLGKRLAVFVDDVN  484 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p-~~gk~~vlfiDDln  484 (583)
                      .+++||+||||||||++++.+++.+.    ...+.++++.....      ..+.-.+..+..+.. ...++.|+||||++
T Consensus        44 ~~~vll~G~~GtGKT~la~~la~~~~----~~~~~v~~~~~~~~------~~~~~~~~~~~~~~~a~~~~~~vl~iDEid  113 (268)
T 2r62_A           44 PKGVLLVGPPGTGKTLLAKAVAGEAH----VPFFSMGGSSFIEM------FVGLGASRVRDLFETAKKQAPSIIFIDEID  113 (268)
T ss_dssp             CSCCCCBCSSCSSHHHHHHHHHHHHT----CCCCCCCSCTTTTS------CSSSCSSSSSTTHHHHHHSCSCEEEESCGG
T ss_pred             CceEEEECCCCCcHHHHHHHHHHHhC----CCEEEechHHHHHh------hcchHHHHHHHHHHHHHhcCCeEEEEeChh
Confidence            56899999999999999999998762    22333333321110      000000011111110 11235799999998


Q ss_pred             CCCccc----------CCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEE
Q psy17974        485 MPKLET----------YGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLS  551 (583)
Q Consensus       485 ~p~~d~----------yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~  551 (583)
                      ....+.          ...+...++|+.+-   +...       .-.++.+|+|+|.+.    .+++++.|  +|. .+.
T Consensus       114 ~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~---~~~~-------~~~~v~vi~ttn~~~----~ld~~l~r~~Rf~~~i~  179 (268)
T 2r62_A          114 AIGKSRAAGGVVSGNDEREQTLNQLLAEMD---GFGS-------ENAPVIVLAATNRPE----ILDPALMRPGRFDRQVL  179 (268)
T ss_dssp             GTTC----------CCCSCSSTTTTTTTTT---CSSC-------SCSCCEEEECBSCCT----TSCGGGGSSSSSCCCCB
T ss_pred             hhcccccccccCCCchhHHHHHHHHHHHhh---Cccc-------CCCCEEEEEecCCch----hcCHhHcCCCCCCeEEE
Confidence            654321          11112223333221   1100       123578999999885    68899988  774 799


Q ss_pred             eCCCCHHHHHHHHHHHhccc
Q psy17974        552 LPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       552 i~~p~~~sl~~I~~~~l~~~  571 (583)
                      ++.|+.++...|+..++...
T Consensus       180 i~~p~~~~r~~il~~~~~~~  199 (268)
T 2r62_A          180 VDKPDFNGRVEILKVHIKGV  199 (268)
T ss_dssp             CCCCCTTTHHHHHHHHTSSS
T ss_pred             ecCcCHHHHHHHHHHHHhcC
Confidence            99999999999998887643

>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=98.86  E-value=4.4e-09  Score=110.43  Aligned_cols=154  Identities=18%  Similarity=0.252  Sum_probs=92.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh----hhhhcCccccCCCCCeEEEEe
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK----LDKRTKTLLGAPLGKRLAVFV  480 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~----l~~~~~~~~~p~~gk~~vlfi  480 (583)
                      .+.++||+||||||||++++.+++.+    +..++.++++..+.+..+-...+..    +.. ..+.+  ....+.|+||
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~----~~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~-~~~~~--~~~~~~vl~l  122 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLL----DVPFTMADATTLTEAGYVGEDVENIIQKLLQK-CDYDV--QKAQRGIVYI  122 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEHHHHTTCHHHHHHHTHHHHHHHHH-TTTCH--HHHHHCEEEE
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc----CCCEEEechHHhcccccccccHHHHHHHHHHH-hhhhH--HhcCCcEEEE
Confidence            45799999999999999999999876    3457778887655433222111111    111 11111  1123569999


Q ss_pred             cCCCCCCcccCCCC--------ChHHHHHHHHHhCCeeec----------CCCeeEeecCeEEEEecCCCCC--------
Q psy17974        481 DDVNMPKLETYGAQ--------PPIELLRQFLDFGGLYDR----------DKMFWKTLQDVVLCTACAPPGG--------  534 (583)
Q Consensus       481 DDln~p~~d~yg~q--------~~lElLRq~ld~~g~yd~----------~~~~~~~i~~i~~iaa~~p~~~--------  534 (583)
                      ||++....+..+..        .+...|.+++| |.....          .+...+.-.|+.+|++++..+-        
T Consensus       123 DEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~le-g~~~~~~~~~~~~~~~~~~~~i~tsn~~~i~~g~~~~l~~~i~~~~  201 (363)
T 3hws_A          123 DQIDKISRKSDNPSITRDVSGEGVQQALLKLIE-GTVAAVPPQGGRKHPQQEFLQVDTSKILFICGGAFAGLDKVISHRV  201 (363)
T ss_dssp             ECHHHHCCCSSCC---CHHHHHHHHHHHHHHHH-CC----------------CCCCCTTSSEEEEEECCTTHHHHHHHHH
T ss_pred             eChhhhcccccccccccccchHHHHHHHHHHhc-CceeeccCccccccCCCceEEEECCCceEEecCCcHHHHHHHHHhh
Confidence            99994333221111        15777788888 443211          1111223357777777765310        


Q ss_pred             CC---------------------------------CCCChhhhccceEEE-eCCCCHHHHHHHHHH
Q psy17974        535 GR---------------------------------MPLTPRFVRHFGLLS-LPSPTEDTLKVIFKV  566 (583)
Q Consensus       535 gr---------------------------------~~l~~Rllr~f~vi~-i~~p~~~sl~~I~~~  566 (583)
                      ++                                 ..+.+.|++||.++. +++|+.+.+..|...
T Consensus       202 ~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~R~~~~~~~~pl~~~~~~~I~~~  267 (363)
T 3hws_A          202 ETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKE  267 (363)
T ss_dssp             CCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHTTCCEEEECCCCCHHHHHHHHHS
T ss_pred             hccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhcccCeeeecCCCCHHHHHHHHHH
Confidence            11                                 017899999998654 789999999999886

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.83  E-value=3.5e-08  Score=126.09  Aligned_cols=159  Identities=16%  Similarity=0.118  Sum_probs=120.8

Q ss_pred             cceeeCchhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhh
Q psy17974        384 DMMVPTIDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKR  463 (583)
Q Consensus       384 ~i~VpT~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~  463 (583)
                      .-+|.|+-|-|.-.-+-..+..+.+..+.||+|||||.+++++++.+    +..++.+|||...+...+.+++.+-+.  
T Consensus       582 ~rLViTPLTdrcy~tl~~Al~~~~gg~~~GPaGtGKTet~k~La~~l----gr~~~vfnC~~~~d~~~~g~i~~G~~~--  655 (3245)
T 3vkg_A          582 ERLVQTPLTDRCYLTLTQALESRMGGNPFGPAGTGKTETVKALGSQL----GRFVLVFCCDEGFDLQAMSRIFVGLCQ--  655 (3245)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHTTCEEEEECSTTSSHHHHHHHHHHHT----TCCEEEEECSSCCCHHHHHHHHHHHHH--
T ss_pred             CCCcCChHHHHHHHHHHHHHHhcCCCCCCCCCCCCHHHHHHHHHHHh----CCeEEEEeCCCCCCHHHHHHHHhhHhh--
Confidence            45899999999888888889999999999999999999999999988    335678899999998877666544332  


Q ss_pred             cCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHH--------HHHhCCeeecC-CCeeEeecCeEEEEecCCCCC
Q psy17974        464 TKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQ--------FLDFGGLYDRD-KMFWKTLQDVVLCTACAPPGG  534 (583)
Q Consensus       464 ~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq--------~ld~~g~yd~~-~~~~~~i~~i~~iaa~~p~~~  534 (583)
                              .|-++  .+||+|....+      ++..+-|        +.++..-+... .....-..++.+++||||...
T Consensus       656 --------~GaW~--cfDEfNrl~~~------vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~  719 (3245)
T 3vkg_A          656 --------CGAWG--CFDEFNRLEER------ILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYA  719 (3245)
T ss_dssp             --------HTCEE--EEETTTSSCHH------HHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGG
T ss_pred             --------cCcEE--EehhhhcCCHH------HHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCcc
Confidence                    23343  57999998765      3333322        22333333332 222333357999999999768


Q ss_pred             CCCCCChhhhccceEEEeCCCCHHHHHHHH
Q psy17974        535 GRMPLTPRFVRHFGLLSLPSPTEDTLKVIF  564 (583)
Q Consensus       535 gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~  564 (583)
                      ||.++|..+..+|+.+.++.|+.+.+..|.
T Consensus       720 gr~eLP~nLk~lFr~v~m~~Pd~~~i~ei~  749 (3245)
T 3vkg_A          720 GRSNLPDNLKKLFRSMAMIKPDREMIAQVM  749 (3245)
T ss_dssp             GCCCSCHHHHTTEEEEECCSCCHHHHHHHH
T ss_pred             CcccChHHHHhhcEEEEEeCCCHHHHHHHH
Confidence            999999999999999999999999988874

>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=98.82  E-value=3.4e-08  Score=103.51  Aligned_cols=164  Identities=16%  Similarity=0.101  Sum_probs=103.6

Q ss_pred             hhHHHHHHHHHhcC--C--ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcC--c
Q psy17974        393 IRFGSIMEKLLLVN--H--PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTK--T  466 (583)
Q Consensus       393 ~r~~~ll~~~l~~~--~--~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~--~  466 (583)
                      .+....+...+..+  .  +++|+||+|||||++++.+++.+.....+.++.++++...++..+...+...+.....  +
T Consensus        27 ~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~  106 (389)
T 1fnn_A           27 QQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRG  106 (389)
T ss_dssp             HHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCCCCSSC
T ss_pred             HHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHHHHHHhCccCCCCC
Confidence            33444555554432  4  7999999999999999999987732214678888888877665544433332211000  0


Q ss_pred             c-----c------cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        467 L-----L------GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       467 ~-----~------~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      .     +      -...+++.|++|||++...      +..++.|..+++..   ....     -.++.+|++++.+.- 
T Consensus       107 ~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~------~~~~~~L~~~~~~~---~~~~-----~~~~~iI~~~~~~~~-  171 (389)
T 1fnn_A          107 LSRDEFLALLVEHLRERDLYMFLVLDDAFNLA------PDILSTFIRLGQEA---DKLG-----AFRIALVIVGHNDAV-  171 (389)
T ss_dssp             CCHHHHHHHHHHHHHHTTCCEEEEEETGGGSC------HHHHHHHHHHTTCH---HHHS-----SCCEEEEEEESSTHH-
T ss_pred             CCHHHHHHHHHHHHhhcCCeEEEEEECccccc------hHHHHHHHHHHHhC---CCCC-----cCCEEEEEEECCchH-
Confidence            0     0      0012557899999998762      23455555554311   0000     026788888876521 


Q ss_pred             CCCCChhhhccce--EEEeCCCCHHHHHHHHHHHhccc
Q psy17974        536 RMPLTPRFVRHFG--LLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       536 r~~l~~Rllr~f~--vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      ...+.+++.++|.  ++.+++++.+++..++...+...
T Consensus       172 ~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~  209 (389)
T 1fnn_A          172 LNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAG  209 (389)
T ss_dssp             HHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHH
T ss_pred             HHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhh
Confidence            1147888888887  79999999999999998887653

>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=98.79  E-value=7.4e-08  Score=100.03  Aligned_cols=136  Identities=24%  Similarity=0.248  Sum_probs=87.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .+++|+||||||||++++.++..+.    ......+.+......++...+.    .         ..++.|+||||++..
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~l~----~~~~~~sg~~~~~~~~l~~~~~----~---------~~~~~v~~iDE~~~l  114 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASELQ----TNIHVTSGPVLVKQGDMAAILT----S---------LERGDVLFIDEIHRL  114 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHHT----CCEEEEETTTCCSHHHHHHHHH----H---------CCTTCEEEEETGGGC
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHhC----CCEEEEechHhcCHHHHHHHHH----H---------ccCCCEEEEcchhhc
Confidence            6899999999999999999998762    1122222222223333332221    1         012348999999875


Q ss_pred             CcccCCCCChHHHHHHHHHhCCee-----ecCCCe-eEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeCCCCHHH
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLY-----DRDKMF-WKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLPSPTEDT  559 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~y-----d~~~~~-~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~~p~~~s  559 (583)
                      ..      .+.|.|...++..+..     ...... -..+..+.++++++.++    .+++.+.++|. ++.+++++.++
T Consensus       115 ~~------~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~~~----~Ls~~l~sR~~l~~~Ld~~~~~~  184 (334)
T 1in4_A          115 NK------AVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSG----LLSSPLRSRFGIILELDFYTVKE  184 (334)
T ss_dssp             CH------HHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGG----GSCHHHHTTCSEEEECCCCCHHH
T ss_pred             CH------HHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCCcc----cCCHHHHHhcCceeeCCCCCHHH
Confidence            43      2567777777654421     000000 11245688888888875    79999999996 68999999999


Q ss_pred             HHHHHHHHhc
Q psy17974        560 LKVIFKVRTS  569 (583)
Q Consensus       560 l~~I~~~~l~  569 (583)
                      +..|.....+
T Consensus       185 l~~iL~~~~~  194 (334)
T 1in4_A          185 LKEIIKRAAS  194 (334)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988765

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=98.78  E-value=5.5e-08  Score=98.29  Aligned_cols=140  Identities=19%  Similarity=0.248  Sum_probs=85.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhhhhcCccccCCCCCeEEEEecC
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDD  482 (583)
                      ..+.++|+||||||||++++.++..+.    ...+.++.+...+.  ....+.+..-++.       +....++++|+||
T Consensus        43 ~~~GvlL~Gp~GtGKTtLakala~~~~----~~~i~i~g~~l~~~~~~~~~~~i~~vf~~-------a~~~~p~i~~~De  111 (274)
T 2x8a_A           43 TPAGVLLAGPPGCGKTLLAKAVANESG----LNFISVKGPELLNMYVGESERAVRQVFQR-------AKNSAPCVIFFDE  111 (274)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHHHTT----CEEEEEETTTTCSSTTHHHHHHHHHHHHH-------HHHTCSEEEEEET
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHcC----CCEEEEEcHHHHhhhhhHHHHHHHHHHHH-------HHhcCCCeEeeeh
Confidence            345699999999999999999988752    23444544332221  1111111111111       0122367999999


Q ss_pred             CCCCCcccC----C-CCCh-HHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEeC
Q psy17974        483 VNMPKLETY----G-AQPP-IELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSLP  553 (583)
Q Consensus       483 ln~p~~d~y----g-~q~~-lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i~  553 (583)
                      ++.......    + .... .+++. .++.|   ..       -..+.++|++|.|.    .+++.++|  +|. .|+++
T Consensus       112 id~~~~~r~~~~~~~~~~~~~~~l~-~Lsgg---~~-------~~~~i~ia~tn~p~----~LD~al~r~gRfd~~i~~~  176 (274)
T 2x8a_A          112 VDALCPRRSDRETGASVRVVNQLLT-EMDGL---EA-------RQQVFIMAATNRPD----IIDPAILRPGRLDKTLFVG  176 (274)
T ss_dssp             CTTTCC---------CTTHHHHHHH-HHHTC---CS-------TTCEEEEEEESCGG----GSCHHHHSTTSSCEEEECC
T ss_pred             hhhhhcccCCCcchHHHHHHHHHHH-hhhcc---cc-------cCCEEEEeecCChh----hCCHhhcCcccCCeEEEeC
Confidence            997543211    0 1111 12222 22322   11       12467788888886    78999998  885 79999


Q ss_pred             CCCHHHHHHHHHHHhcc
Q psy17974        554 SPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l~~  570 (583)
                      .|+.++...|+..+++.
T Consensus       177 ~P~~~~r~~il~~~~~~  193 (274)
T 2x8a_A          177 LPPPADRLAILKTITKN  193 (274)
T ss_dssp             SCCHHHHHHHHHHHTTT
T ss_pred             CcCHHHHHHHHHHHHhc
Confidence            99999999999998853

>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=98.77  E-value=7.7e-09  Score=111.67  Aligned_cols=143  Identities=19%  Similarity=0.195  Sum_probs=81.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhccc-CCceEEEEEeccCCChHHHHHHHHhh-hhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLAS-NTWAALTINFSAQTSSARTQEILEGK-LDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~i~fS~~Tt~~~lq~~ie~~-l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      ..|++|+||||||||++++.+.+.+... .+..++.++.+..  ...+.+.+... ... -...+.   .++.|+||||+
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~--~~~~~~~~~~~~~~~-~~~~~~---~~~~vL~IDEi  203 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF--LNDLVDSMKEGKLNE-FREKYR---KKVDILLIDDV  203 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHH--HHHHHHHHHTTCHHH-HHHHHT---TTCSEEEEECG
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHH--HHHHHHHHHcccHHH-HHHHhc---CCCCEEEEeCc
Confidence            3699999999999999999998765221 1345556654331  12222222211 000 000111   14558999999


Q ss_pred             CCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecC-CCCCCCCCCChhhhccc---eEEEeCCCCHHH
Q psy17974        484 NMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACA-PPGGGRMPLTPRFVRHF---GLLSLPSPTEDT  559 (583)
Q Consensus       484 n~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~-p~~~gr~~l~~Rllr~f---~vi~i~~p~~~s  559 (583)
                      +.-.......+..+..+..+.+.               +.++|.+++ ++. .-..+.+|+.++|   .++.++.|+.++
T Consensus       204 ~~l~~~~~~q~~l~~~l~~l~~~---------------~~~iIitt~~~~~-~l~~l~~~L~sR~~~g~~i~l~~p~~e~  267 (440)
T 2z4s_A          204 QFLIGKTGVQTELFHTFNELHDS---------------GKQIVICSDREPQ-KLSEFQDRLVSRFQMGLVAKLEPPDEET  267 (440)
T ss_dssp             GGGSSCHHHHHHHHHHHHHHHTT---------------TCEEEEEESSCGG-GCSSCCHHHHHHHHSSBCCBCCCCCHHH
T ss_pred             ccccCChHHHHHHHHHHHHHHHC---------------CCeEEEEECCCHH-HHHHHHHHHHhhccCCeEEEeCCCCHHH
Confidence            86443210011122233333321               123444444 443 1224889999999   589999999999


Q ss_pred             HHHHHHHHhcc
Q psy17974        560 LKVIFKVRTSP  570 (583)
Q Consensus       560 l~~I~~~~l~~  570 (583)
                      +..|+...+..
T Consensus       268 r~~iL~~~~~~  278 (440)
T 2z4s_A          268 RKSIARKMLEI  278 (440)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999888753

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=98.77  E-value=6.3e-08  Score=105.85  Aligned_cols=143  Identities=22%  Similarity=0.302  Sum_probs=86.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCC-CCCeEEEEecCCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAP-LGKRLAVFVDDVN  484 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~-~gk~~vlfiDDln  484 (583)
                      .++++|+||||||||++++.++....    ...+.++.+.....  ..    ....++.+..|.-. ...++++||||++
T Consensus        64 p~GvLL~GppGtGKTtLaraIa~~~~----~~~i~i~g~~~~~~--~~----g~~~~~v~~lfq~a~~~~p~il~IDEId  133 (499)
T 2dhr_A           64 PKGVLLVGPPGVGKTHLARAVAGEAR----VPFITASGSDFVEM--FV----GVGAARVRDLFETAKRHAPCIVFIDEID  133 (499)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHHTT----CCEEEEEGGGGTSS--CT----THHHHHHHHHTTTSSSSSSCEEEEECGG
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhC----CCEEEEehhHHHHh--hh----hhHHHHHHHHHHHHHhcCCCEEEEehHH
Confidence            35799999999999999999988752    34556665543221  00    00011111222211 2346799999997


Q ss_pred             CCCcccC----CCC-ChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEeCCC
Q psy17974        485 MPKLETY----GAQ-PPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSLPSP  555 (583)
Q Consensus       485 ~p~~d~y----g~q-~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i~~p  555 (583)
                      .......    +.+ ...+.+.+++.. .|+- .       -..+.++||+|.|.    .++++++|  +| .++.++.|
T Consensus       134 ~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~-~-------~~~viviAatn~p~----~LD~aLlr~gRfdr~i~i~~P  201 (499)
T 2dhr_A          134 AVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE-K-------DTAIVVMAATNRPD----ILDPALLRPGRFDRQIAIDAP  201 (499)
T ss_dssp             GTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCC-S-------SCCCEEEECCSCGG----GSCTTTSSTTSSCCEEECCCC
T ss_pred             HHHHhhccCcCCCcHHHHHHHHHHHHHhcccc-c-------CccEEEEEecCChh----hcCcccccccccceEEecCCC
Confidence            5433221    111 122344454432 1111 1       13577889999885    58999988  55 48999999


Q ss_pred             CHHHHHHHHHHHhcc
Q psy17974        556 TEDTLKVIFKVRTSP  570 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~  570 (583)
                      +.+....|+..+++.
T Consensus       202 d~~~R~~IL~~~~~~  216 (499)
T 2dhr_A          202 DVKGREQILRIHARG  216 (499)
T ss_dssp             CHHHHHHHHHHTTSS
T ss_pred             CHHHHHHHHHHHHhc
Confidence            999999999877653

>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=98.76  E-value=2.2e-08  Score=105.49  Aligned_cols=155  Identities=17%  Similarity=0.219  Sum_probs=88.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHH----HHHHHhhhhhhcCccccCCCCCeEEEEe
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSART----QEILEGKLDKRTKTLLGAPLGKRLAVFV  480 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~l----q~~ie~~l~~~~~~~~~p~~gk~~vlfi  480 (583)
                      ...++||+||||||||++++.+++.+    +..++.++++..+.+..+    .+.+...+... .+.+  ......|+||
T Consensus        71 ~~~~ill~Gp~GtGKT~la~~la~~l----~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~-~~~~--~~~~~~vl~i  143 (376)
T 1um8_A           71 SKSNILLIGPTGSGKTLMAQTLAKHL----DIPIAISDATSLTEAGYVGEDVENILTRLLQAS-DWNV--QKAQKGIVFI  143 (376)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEGGGCC--------CTHHHHHHHHHT-TTCH--HHHTTSEEEE
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHh----CCCEEEecchhhhhcCcCCccHHHHHHHHHhhc-cchh--hhcCCeEEEE
Confidence            35789999999999999999999876    334666777664432211    11111111111 1110  0113458999


Q ss_pred             cCCCCCCcccCCC-----C---ChHHHHHHHHHhCCee-ecC--------CCeeEeecCeEEEEecCCCC----------
Q psy17974        481 DDVNMPKLETYGA-----Q---PPIELLRQFLDFGGLY-DRD--------KMFWKTLQDVVLCTACAPPG----------  533 (583)
Q Consensus       481 DDln~p~~d~yg~-----q---~~lElLRq~ld~~g~y-d~~--------~~~~~~i~~i~~iaa~~p~~----------  533 (583)
                      ||++....+..+.     .   .+.+.|.+++|.+... ...        +.....-.++.+|+|+|...          
T Consensus       144 DEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~  223 (376)
T 1um8_A          144 DEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTT  223 (376)
T ss_dssp             ETGGGC--------------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCS
T ss_pred             cCHHHHhhhcCCCceecccchHHHHHHHHHHhhccceecccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhc
Confidence            9999765442111     0   1667788888833110 010        11112336778888876311          


Q ss_pred             ----C--C---------------------CCCCChhhhccc-eEEEeCCCCHHHHHHHHHH
Q psy17974        534 ----G--G---------------------RMPLTPRFVRHF-GLLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       534 ----~--g---------------------r~~l~~Rllr~f-~vi~i~~p~~~sl~~I~~~  566 (583)
                          |  .                     ...+.+.|.+|+ .++.+++++.+++..|...
T Consensus       224 ~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~p~l~~R~~~~i~~~~l~~~~l~~i~~~  284 (376)
T 1um8_A          224 QNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELIGRLPVLSTLDSISLEAMVDILQK  284 (376)
T ss_dssp             SCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHHTTCCEEEECCCCCHHHHHHHHHS
T ss_pred             ccccCCCchhhhccchhHHHhhcCHHHHhhcCCChHHhcCCCceeeccCCCHHHHHHHHhh
Confidence                0  0                     124678899999 6899999999999999973

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.76  E-value=6.9e-09  Score=94.47  Aligned_cols=129  Identities=9%  Similarity=0.027  Sum_probs=79.3

Q ss_pred             hhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCC
Q psy17974        392 TIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAP  471 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~  471 (583)
                      ..+....+..+...+.||||+||||||||++++.+..... ..+..++ ++++...+.....+.    ++...+      
T Consensus        10 ~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~v-~~~~~~~~~~~~~~~----~~~a~~------   77 (145)
T 3n70_A           10 INQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGR-NAQGEFV-YRELTPDNAPQLNDF----IALAQG------   77 (145)
T ss_dssp             HHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSST-TTTSCCE-EEECCTTTSSCHHHH----HHHHTT------
T ss_pred             HHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCC-ccCCCEE-EECCCCCcchhhhcH----HHHcCC------
Confidence            3445556666778899999999999999999999987642 2344566 888776554222222    222111      


Q ss_pred             CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC---CCCCCChhhhccce
Q psy17974        472 LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG---GRMPLTPRFVRHFG  548 (583)
Q Consensus       472 ~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~---gr~~l~~Rllr~f~  548 (583)
                          .++||||++....+.      .+.|.++++..            -.++.+|+|+|.+-.   ....+.+.|..+++
T Consensus        78 ----g~l~ldei~~l~~~~------q~~Ll~~l~~~------------~~~~~~I~~t~~~~~~~~~~~~~~~~L~~rl~  135 (145)
T 3n70_A           78 ----GTLVLSHPEHLTREQ------QYHLVQLQSQE------------HRPFRLIGIGDTSLVELAASNHIIAELYYCFA  135 (145)
T ss_dssp             ----SCEEEECGGGSCHHH------HHHHHHHHHSS------------SCSSCEEEEESSCHHHHHHHSCCCHHHHHHHH
T ss_pred             ----cEEEEcChHHCCHHH------HHHHHHHHhhc------------CCCEEEEEECCcCHHHHHHcCCCCHHHHHHhc
Confidence                368999998765442      23333334210            136789999987521   11245677777765


Q ss_pred             E--EEeCC
Q psy17974        549 L--LSLPS  554 (583)
Q Consensus       549 v--i~i~~  554 (583)
                      .  |.+|+
T Consensus       136 ~~~i~lPp  143 (145)
T 3n70_A          136 MTQIACLP  143 (145)
T ss_dssp             HHEEECCC
T ss_pred             CCEEeCCC
Confidence            4  55543

>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=98.75  E-value=2.5e-08  Score=100.11  Aligned_cols=140  Identities=14%  Similarity=0.176  Sum_probs=78.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC---hHHHHHHHHhhhhhhcCccccCCCCCeEEEEecC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS---SARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt---~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDD  482 (583)
                      ..++||+||||||||++++.+++.+    +..++.++.+....   .......+...++...       .+++.++||||
T Consensus        64 ~~~vLl~G~~GtGKT~la~~ia~~~----~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~-------~~~~~vl~iDE  132 (272)
T 1d2n_A           64 LVSVLLEGPPHSGKTALAAKIAEES----NFPFIKICSPDKMIGFSETAKCQAMKKIFDDAY-------KSQLSCVVVDD  132 (272)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHH----TCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHH-------TSSEEEEEECC
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHh----CCCEEEEeCHHHhcCCchHHHHHHHHHHHHHHH-------hcCCcEEEEEC
Confidence            4589999999999999999999875    33456666554221   1111112222222111       13467999999


Q ss_pred             CCCC-CcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCCh-hhhccc-eEEEeCCCCH-H
Q psy17974        483 VNMP-KLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTP-RFVRHF-GLLSLPSPTE-D  558 (583)
Q Consensus       483 ln~p-~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~-Rllr~f-~vi~i~~p~~-~  558 (583)
                      ++.. .....+....-++++.+.+.-+.....      -.++.+|+|+|.+.    .+++ ++.++| ..+.+|.++. +
T Consensus       133 id~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~------~~~~~ii~ttn~~~----~l~~~~l~~rf~~~i~~p~l~~r~  202 (272)
T 1d2n_A          133 IERLLDYVPIGPRFSNLVLQALLVLLKKAPPQ------GRKLLIIGTTSRKD----VLQEMEMLNAFSTTIHVPNIATGE  202 (272)
T ss_dssp             HHHHTTCBTTTTBCCHHHHHHHHHHTTCCCST------TCEEEEEEEESCHH----HHHHTTCTTTSSEEEECCCEEEHH
T ss_pred             hhhhhccCCCChhHHHHHHHHHHHHhcCccCC------CCCEEEEEecCChh----hcchhhhhcccceEEcCCCccHHH
Confidence            9753 211122222233444443321111111      13577899998874    2334 455665 4688888776 7


Q ss_pred             HHHHHHHH
Q psy17974        559 TLKVIFKV  566 (583)
Q Consensus       559 sl~~I~~~  566 (583)
                      .+..|...
T Consensus       203 ~i~~i~~~  210 (272)
T 1d2n_A          203 QLLEALEL  210 (272)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            77777654

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.75  E-value=3.6e-09  Score=96.21  Aligned_cols=125  Identities=14%  Similarity=0.099  Sum_probs=75.5

Q ss_pred             hhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCC
Q psy17974        392 TIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAP  471 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~  471 (583)
                      ..+....+..+...+.||||+||||||||++++.+....    . .++.++++...  ..   .....++...       
T Consensus        13 ~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~----~-~~~~~~~~~~~--~~---~~~~~~~~a~-------   75 (143)
T 3co5_A           13 IQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG----T-PWVSPARVEYL--ID---MPMELLQKAE-------   75 (143)
T ss_dssp             HHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT----S-CEECCSSTTHH--HH---CHHHHHHHTT-------
T ss_pred             HHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC----C-CeEEechhhCC--hH---hhhhHHHhCC-------
Confidence            344556666777889999999999999999999887654    1 34445554311  11   1122222211       


Q ss_pred             CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC-CCCCChhhhccceEE
Q psy17974        472 LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG-RMPLTPRFVRHFGLL  550 (583)
Q Consensus       472 ~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g-r~~l~~Rllr~f~vi  550 (583)
                         ..++||||++....+      ....|.++++.+.           -.++.+|+|+|.+-.. +..+.++|..++.++
T Consensus        76 ---~~~l~lDei~~l~~~------~q~~Ll~~l~~~~-----------~~~~~iI~~tn~~~~~~~~~~~~~L~~rl~~~  135 (143)
T 3co5_A           76 ---GGVLYVGDIAQYSRN------IQTGITFIIGKAE-----------RCRVRVIASCSYAAGSDGISCEEKLAGLFSES  135 (143)
T ss_dssp             ---TSEEEEEECTTCCHH------HHHHHHHHHHHHT-----------TTTCEEEEEEEECTTTC--CHHHHHHHHSSSE
T ss_pred             ---CCeEEEeChHHCCHH------HHHHHHHHHHhCC-----------CCCEEEEEecCCCHHHHHhCccHHHHHHhcCc
Confidence               237899999986554      2334445565442           2367899999865321 111667777777654


Q ss_pred             EeC
Q psy17974        551 SLP  553 (583)
Q Consensus       551 ~i~  553 (583)
                      .+.
T Consensus       136 ~i~  138 (143)
T 3co5_A          136 VVR  138 (143)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            433

>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=98.75  E-value=8.9e-08  Score=99.41  Aligned_cols=145  Identities=13%  Similarity=0.178  Sum_probs=95.7

Q ss_pred             HHHHHHhcCCc--eEEEccCCCcHHHHHHHHHHhhcccC-CceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCC
Q psy17974        398 IMEKLLLVNHP--VMFTGVTGVGKTVVARSILNKLLASN-TWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGK  474 (583)
Q Consensus       398 ll~~~l~~~~~--vLL~Gp~GtGKT~li~~~l~~l~~~~-~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk  474 (583)
                      .+...+..|..  ++|+||+|||||++++.+++.+.... ...+..++.+.......+.+.+..-.+  ...   |..+.
T Consensus        36 ~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~~~ir~~i~~~~~--~~~---~~~~~  110 (340)
T 1sxj_C           36 TVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFAS--TRQ---IFSKG  110 (340)
T ss_dssp             HHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHHH--BCC---SSSCS
T ss_pred             HHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccHHHHHHHHHHHHh--hcc---cCCCC
Confidence            45666777754  99999999999999999988763211 123445555443344444433322111  111   11233


Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCC
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPS  554 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~  554 (583)
                      +-|++|||++.-..+      ..+.|+.+++...            .++.++.++|.+.    .+.+.+.+++.++.+..
T Consensus       111 ~~viiiDe~~~l~~~------~~~~L~~~le~~~------------~~~~~il~~n~~~----~i~~~i~sR~~~~~~~~  168 (340)
T 1sxj_C          111 FKLIILDEADAMTNA------AQNALRRVIERYT------------KNTRFCVLANYAH----KLTPALLSQCTRFRFQP  168 (340)
T ss_dssp             CEEEEETTGGGSCHH------HHHHHHHHHHHTT------------TTEEEEEEESCGG----GSCHHHHTTSEEEECCC
T ss_pred             ceEEEEeCCCCCCHH------HHHHHHHHHhcCC------------CCeEEEEEecCcc----ccchhHHhhceeEeccC
Confidence            568899999876543      3455667776431            2456777788764    68899999999999999


Q ss_pred             CCHHHHHHHHHHHhc
Q psy17974        555 PTEDTLKVIFKVRTS  569 (583)
Q Consensus       555 p~~~sl~~I~~~~l~  569 (583)
                      ++.+++..+...+++
T Consensus       169 l~~~~~~~~l~~~~~  183 (340)
T 1sxj_C          169 LPQEAIERRIANVLV  183 (340)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999988887764

>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=98.72  E-value=1.2e-07  Score=98.89  Aligned_cols=134  Identities=19%  Similarity=0.276  Sum_probs=87.5

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCc--------------------eEEEEEeccCCChHHHHHHHHhhhhhhcCcc
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTW--------------------AALTINFSAQTSSARTQEILEGKLDKRTKTL  467 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~--------------------~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~  467 (583)
                      .++|+||+|||||++++.+++.+......                    ....++-+.....+.+.+.++. +.      
T Consensus        40 ~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~------  112 (373)
T 1jr3_A           40 AYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDN-VQ------  112 (373)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCSSCEEEETTCSCCSSCHHHHHHH-TT------
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCCceEEecccccCCHHHHHHHHHH-Hh------
Confidence            48999999999999999998876311100                    1223332222223333333221 11      


Q ss_pred             ccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc
Q psy17974        468 LGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF  547 (583)
Q Consensus       468 ~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f  547 (583)
                      ..|..+++.|++|||++....+      ..+.|..+++..            ..++.+|.+++.+.    .+.+.+.+++
T Consensus       113 ~~~~~~~~~vliiDe~~~l~~~------~~~~Ll~~le~~------------~~~~~~Il~~~~~~----~l~~~l~sr~  170 (373)
T 1jr3_A          113 YAPARGRFKVYLIDEVHMLSRH------SFNALLKTLEEP------------PEHVKFLLATTDPQ----KLPVTILSRC  170 (373)
T ss_dssp             SCCSSSSSEEEEEECGGGSCHH------HHHHHHHHHHSC------------CSSEEEEEEESCGG----GSCHHHHTTS
T ss_pred             hccccCCeEEEEEECcchhcHH------HHHHHHHHHhcC------------CCceEEEEEeCChH----hCcHHHHhhe
Confidence            2344567789999999876443      345555555531            23577888877553    5788999999


Q ss_pred             eEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        548 GLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       548 ~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .++.++.|+.+++..+...++..
T Consensus       171 ~~i~~~~l~~~~~~~~l~~~~~~  193 (373)
T 1jr3_A          171 LQFHLKALDVEQIRHQLEHILNE  193 (373)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHH
T ss_pred             eEeeCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999998887653

>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=98.65  E-value=3.7e-08  Score=97.78  Aligned_cols=142  Identities=20%  Similarity=0.279  Sum_probs=79.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC--ChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT--SSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T--t~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      .++++|+||||||||++++.++..+.    ...+.++.+...  ......+.+..-++.       +....+.++|+||+
T Consensus        49 ~~g~ll~G~~G~GKTtl~~~i~~~~~----~~~i~~~~~~~~~~~~~~~~~~i~~~~~~-------~~~~~~~i~~~Dei  117 (254)
T 1ixz_A           49 PKGVLLVGPPGVGKTHLARAVAGEAR----VPFITASGSDFVEMFVGVGAARVRDLFET-------AKRHAPCIVFIDEI  117 (254)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHTT----CCEEEEEHHHHHHSCTTHHHHHHHHHHHH-------HTTSSSEEEEEETH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhC----CCEEEeeHHHHHHHHhhHHHHHHHHHHHH-------HHhcCCeEEEehhh
Confidence            45699999999999999999988762    223444332110  000001111111111       11123578999999


Q ss_pred             CCCCcccCC----CC-ChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEeCC
Q psy17974        484 NMPKLETYG----AQ-PPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSLPS  554 (583)
Q Consensus       484 n~p~~d~yg----~q-~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i~~  554 (583)
                      +.......+    .+ ...+.+.+++.. .|. .  .     -..+.++|+++.|.    .++++++|  +| .++.++.
T Consensus       118 d~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~-~--~-----~~~~i~~a~t~~p~----~ld~~l~r~~rf~~~i~i~~  185 (254)
T 1ixz_A          118 DAVGRKRGSGVGGGNDEREQTLNQLLVEMDGF-E--K-----DTAIVVMAATNRPD----ILDPALLRPGRFDRQIAIDA  185 (254)
T ss_dssp             HHHHC---------CHHHHHHHHHHHHHHHTC-C--T-----TCCEEEEEEESCGG----GSCGGGGSTTSSCEEEECCS
T ss_pred             hhhhcccCccccccchHHHHHHHHHHHHHhCC-C--C-----CCCEEEEEccCCch----hCCHHHcCCCcCCeEEeeCC
Confidence            643222111    11 112223333211 111 0  1     12466778888875    68999998  66 4799999


Q ss_pred             CCHHHHHHHHHHHhcc
Q psy17974        555 PTEDTLKVIFKVRTSP  570 (583)
Q Consensus       555 p~~~sl~~I~~~~l~~  570 (583)
                      |+.++...|+..+.+.
T Consensus       186 p~~~~r~~il~~~~~~  201 (254)
T 1ixz_A          186 PDVKGREQILRIHARG  201 (254)
T ss_dssp             CCHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHcC
Confidence            9999999999877654

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=98.65  E-value=6e-08  Score=97.81  Aligned_cols=142  Identities=19%  Similarity=0.257  Sum_probs=81.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC--ChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT--SSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T--t~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      .++++|+||||||||++++.++..+.    ...+.++.+...  ........+..-++..       ....+.++|+||+
T Consensus        73 ~~gvll~Gp~GtGKTtl~~~i~~~~~----~~~i~~~~~~~~~~~~~~~~~~i~~~~~~~-------~~~~~~i~~iDei  141 (278)
T 1iy2_A           73 PKGVLLVGPPGVGKTHLARAVAGEAR----VPFITASGSDFVEMFVGVGAARVRDLFETA-------KRHAPCIVFIDEI  141 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHTT----CCEEEEEHHHHHHSTTTHHHHHHHHHHHHH-------HTSCSEEEEEETH
T ss_pred             CCeEEEECCCcChHHHHHHHHHHHcC----CCEEEecHHHHHHHHhhHHHHHHHHHHHHH-------HhcCCcEEehhhh
Confidence            45699999999999999999988762    233444432210  0000011111111110       1123578999999


Q ss_pred             CCCCcccCC-----CCChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEeCC
Q psy17974        484 NMPKLETYG-----AQPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSLPS  554 (583)
Q Consensus       484 n~p~~d~yg-----~q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i~~  554 (583)
                      +.......+     .....+.+.+++.. .|.- .       -..+.++|+++.|.    .++++++|  +| .++.++.
T Consensus       142 d~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~-~-------~~~~i~~a~t~~p~----~ld~~l~r~~rf~~~i~i~~  209 (278)
T 1iy2_A          142 DAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE-K-------DTAIVVMAATNRPD----ILDPALLRPGRFDRQIAIDA  209 (278)
T ss_dssp             HHHHCC--------CHHHHHHHHHHHHHHTTCC-T-------TCCEEEEEEESCTT----SSCHHHHSTTSSCCEEECCC
T ss_pred             HhhhcccccccCCcchHHHHHHHHHHHHHhCCC-C-------CCCEEEEEecCCch----hCCHhHcCCCcCCeEEEeCC
Confidence            643221111     11122334444321 1111 1       12466788888885    69999998  66 4899999


Q ss_pred             CCHHHHHHHHHHHhcc
Q psy17974        555 PTEDTLKVIFKVRTSP  570 (583)
Q Consensus       555 p~~~sl~~I~~~~l~~  570 (583)
                      |+.++...|+..+++.
T Consensus       210 p~~~~r~~il~~~~~~  225 (278)
T 1iy2_A          210 PDVKGREQILRIHARG  225 (278)
T ss_dssp             CCHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHcc
Confidence            9999999999877653

>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=98.65  E-value=1.4e-07  Score=98.33  Aligned_cols=153  Identities=18%  Similarity=0.187  Sum_probs=94.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccC--CceEEEEEeccCCChHHHHHHHHhhhhhh---cC--------cc--ccC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASN--TWAALTINFSAQTSSARTQEILEGKLDKR---TK--------TL--LGA  470 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~--~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~---~~--------~~--~~p  470 (583)
                      +.+++|+||+|||||++++.+++.+....  ...++.++++...+...+...+...+...   .+        ..  +-.
T Consensus        45 ~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~  124 (386)
T 2qby_A           45 PNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVR  124 (386)
T ss_dssp             CCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh
Confidence            56899999999999999999988763221  46677888766555444333222111100   00        00  001


Q ss_pred             CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccc--e
Q psy17974        471 PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHF--G  548 (583)
Q Consensus       471 ~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f--~  548 (583)
                      ..+++.|++|||++.....  ..+..+..|..+++..   .        -.++.+|++++.+. ....+.+++.++|  .
T Consensus       125 ~~~~~~vlilDE~~~l~~~--~~~~~l~~l~~~~~~~---~--------~~~~~~I~~~~~~~-~~~~~~~~~~~r~~~~  190 (386)
T 2qby_A          125 DYGSQVVIVLDEIDAFVKK--YNDDILYKLSRINSEV---N--------KSKISFIGITNDVK-FVDLLDPRVKSSLSEE  190 (386)
T ss_dssp             TCCSCEEEEEETHHHHHHS--SCSTHHHHHHHHHHSC---C--------C--EEEEEEESCGG-GGGGCTTHHHHTTTTE
T ss_pred             ccCCeEEEEEcChhhhhcc--CcCHHHHHHhhchhhc---C--------CCeEEEEEEECCCC-hHhhhCHHHhccCCCe
Confidence            2355889999999764321  1133444444444421   0        13577888877653 1124678888888  6


Q ss_pred             EEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        549 LLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       549 vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      .+.+++++.+++..|+...+...+
T Consensus       191 ~i~l~~l~~~~~~~il~~~~~~~~  214 (386)
T 2qby_A          191 EIIFPPYNAEELEDILTKRAQMAF  214 (386)
T ss_dssp             EEEECCCCHHHHHHHHHHHHHHHB
T ss_pred             eEEeCCCCHHHHHHHHHHHHHhhc
Confidence            899999999999999998776433

>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=98.64  E-value=3.6e-07  Score=94.83  Aligned_cols=140  Identities=17%  Similarity=0.173  Sum_probs=91.7

Q ss_pred             HHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccCC--------------------ceEEEEEec---cCCChHHHH
Q psy17974        400 EKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASNT--------------------WAALTINFS---AQTSSARTQ  453 (583)
Q Consensus       400 ~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~~--------------------~~~~~i~fS---~~Tt~~~lq  453 (583)
                      ...++.|+   .+||+||+|+|||++++.+++.+.....                    ..+..+.-.   ...+.+.+.
T Consensus        15 ~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir   94 (334)
T 1a5t_A           15 VASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVR   94 (334)
T ss_dssp             HHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHH
T ss_pred             HHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHH
Confidence            33444443   4899999999999999999887632110                    123333332   234455555


Q ss_pred             HHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        454 EILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       454 ~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      ++++ .+.      ..|..+++-|++|||++.-..+      ..+.|...+|..            ..++.+|.+++.+.
T Consensus        95 ~l~~-~~~------~~~~~~~~kvviIdead~l~~~------a~naLLk~lEep------------~~~~~~Il~t~~~~  149 (334)
T 1a5t_A           95 EVTE-KLN------EHARLGGAKVVWVTDAALLTDA------AANALLKTLEEP------------PAETWFFLATREPE  149 (334)
T ss_dssp             HHHH-HTT------SCCTTSSCEEEEESCGGGBCHH------HHHHHHHHHTSC------------CTTEEEEEEESCGG
T ss_pred             HHHH-HHh------hccccCCcEEEEECchhhcCHH------HHHHHHHHhcCC------------CCCeEEEEEeCChH
Confidence            4432 121      2344566778999999876543      233444555531            13567787777654


Q ss_pred             CCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHh
Q psy17974        534 GGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRT  568 (583)
Q Consensus       534 ~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l  568 (583)
                          .+.+.+.+|+.++.++.|+.+++..+.....
T Consensus       150 ----~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~  180 (334)
T 1a5t_A          150 ----RLLATLRSRCRLHYLAPPPEQYAVTWLSREV  180 (334)
T ss_dssp             ----GSCHHHHTTSEEEECCCCCHHHHHHHHHHHC
T ss_pred             ----hCcHHHhhcceeeeCCCCCHHHHHHHHHHhc
Confidence                6899999999999999999999998877664

>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=98.61  E-value=8.7e-08  Score=111.74  Aligned_cols=156  Identities=19%  Similarity=0.295  Sum_probs=102.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHh---hhhhhcCcccc-C-CCCCeEEEEec
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEG---KLDKRTKTLLG-A-PLGKRLAVFVD  481 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~---~l~~~~~~~~~-p-~~gk~~vlfiD  481 (583)
                      .++||+||||||||++++.+...+. ..+..++.++++..........++..   ......++.+. . ......|+|+|
T Consensus       589 ~~vLl~Gp~GtGKT~lA~~la~~~~-~~~~~~i~i~~~~~~~~~~~s~l~g~~~~~~G~~~~g~l~~~~~~~~~~vl~lD  667 (854)
T 1qvr_A          589 GSFLFLGPTGVGKTELAKTLAATLF-DTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFD  667 (854)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHHHHH-SSGGGEEEECTTTCCSSGGGGGC--------------CHHHHHHHCSSEEEEES
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhc-CCCCcEEEEechhccchhHHHHHcCCCCCCcCccccchHHHHHHhCCCeEEEEe
Confidence            3789999999999999999988763 33456788888876543221111100   00000011110 0 00123699999


Q ss_pred             CCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC--------CC--------------CCCC
Q psy17974        482 DVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG--------GG--------------RMPL  539 (583)
Q Consensus       482 Dln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~--------~g--------------r~~l  539 (583)
                      |++....+      +...|.|++|.|.+.+.. ..-....++.+|+|+|.+.        .|              +..+
T Consensus       668 Ei~~l~~~------~~~~Ll~~l~~~~~~~~~-g~~vd~~~~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f  740 (854)
T 1qvr_A          668 EIEKAHPD------VFNILLQILDDGRLTDSH-GRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHF  740 (854)
T ss_dssp             SGGGSCHH------HHHHHHHHHTTTEECCSS-SCCEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTS
T ss_pred             cccccCHH------HHHHHHHHhccCceECCC-CCEeccCCeEEEEecCcChHHHhhhcccccchHHHHHHHHHHHHhhC
Confidence            99876544      678889999988765543 3345567888999999731        01              3357


Q ss_pred             Chhhhccc-eEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        540 TPRFVRHF-GLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       540 ~~Rllr~f-~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .+.|++|+ .++.+.+|+.+++..|...++..
T Consensus       741 ~~~l~~Rl~~~i~~~pl~~edi~~i~~~~l~~  772 (854)
T 1qvr_A          741 RPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSY  772 (854)
T ss_dssp             CHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHH
T ss_pred             CHHHHHhcCeEEeCCCCCHHHHHHHHHHHHHH
Confidence            78899999 56777889999999999988764

>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=98.59  E-value=4.2e-07  Score=94.30  Aligned_cols=140  Identities=16%  Similarity=0.248  Sum_probs=82.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCC-------------------------ceEEEEEeccCCChH--HHHHHHHhhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNT-------------------------WAALTINFSAQTSSA--RTQEILEGKL  460 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~-------------------------~~~~~i~fS~~Tt~~--~lq~~ie~~l  460 (583)
                      +++|+||+|+|||++++.++..+..+..                         ...+.++.+......  .+.+.++.-.
T Consensus        38 ~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  117 (354)
T 1sxj_E           38 HLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVA  117 (354)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSSEEEECCC----CCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeecccceEEecHhhcCCcchHHHHHHHHHHH
Confidence            5999999999999999999885422111                         011222222111101  2333332211


Q ss_pred             hhhcCcc---ccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCC
Q psy17974        461 DKRTKTL---LGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRM  537 (583)
Q Consensus       461 ~~~~~~~---~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~  537 (583)
                      ....-..   +....+++-|+++||.+.-..+      ..+.|+..++.-            ..++.+|.+++.+.    
T Consensus       118 ~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~------~~~~L~~~le~~------------~~~~~~Il~t~~~~----  175 (354)
T 1sxj_E          118 QMEQVDFQDSKDGLAHRYKCVIINEANSLTKD------AQAALRRTMEKY------------SKNIRLIMVCDSMS----  175 (354)
T ss_dssp             TTTC------------CCEEEEEECTTSSCHH------HHHHHHHHHHHS------------TTTEEEEEEESCSC----
T ss_pred             HhccccccccccccCCCCeEEEEeCccccCHH------HHHHHHHHHHhh------------cCCCEEEEEeCCHH----
Confidence            1100000   0111345668999999874322      344555566531            13467787777664    


Q ss_pred             CCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        538 PLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       538 ~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      .+.+.+.+|+.++.++.|+.+++..+...+..
T Consensus       176 ~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~  207 (354)
T 1sxj_E          176 PIIAPIKSQCLLIRCPAPSDSEISTILSDVVT  207 (354)
T ss_dssp             SSCHHHHTTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhceEEecCCcCHHHHHHHHHHHHH
Confidence            58899999999999999999999999988775

>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=98.47  E-value=1e-06  Score=90.41  Aligned_cols=139  Identities=12%  Similarity=0.102  Sum_probs=93.9

Q ss_pred             HHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhc--ccCCceEEEEEecc-CCChHHHHHHHHhhhhhhcCccccCCCC
Q psy17974        399 MEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLL--ASNTWAALTINFSA-QTSSARTQEILEGKLDKRTKTLLGAPLG  473 (583)
Q Consensus       399 l~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~--~~~~~~~~~i~fS~-~Tt~~~lq~~ie~~l~~~~~~~~~p~~g  473 (583)
                      +...++.++  ..||+||+|+|||++++.+++...  ......+..++.+. .++.+++.++++ .+.      ..|..+
T Consensus         9 L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~-~~~------~~p~~~   81 (305)
T 2gno_A            9 LKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKD-FLN------YSPELY   81 (305)
T ss_dssp             HHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHH-HHT------SCCSSS
T ss_pred             HHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHH-HHh------hccccC
Confidence            445566554  689999999999999999987531  11122345555543 456666666543 222      234445


Q ss_pred             CeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeC
Q psy17974        474 KRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLP  553 (583)
Q Consensus       474 k~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~  553 (583)
                      ++-|++|||.+.-..+      ..+.|+..+|..            ..++.||.+|+.|.    .+.+.+.+|  ++.++
T Consensus        82 ~~kvviIdead~lt~~------a~naLLk~LEep------------~~~t~fIl~t~~~~----kl~~tI~SR--~~~f~  137 (305)
T 2gno_A           82 TRKYVIVHDCERMTQQ------AANAFLKALEEP------------PEYAVIVLNTRRWH----YLLPTIKSR--VFRVV  137 (305)
T ss_dssp             SSEEEEETTGGGBCHH------HHHHTHHHHHSC------------CTTEEEEEEESCGG----GSCHHHHTT--SEEEE
T ss_pred             CceEEEeccHHHhCHH------HHHHHHHHHhCC------------CCCeEEEEEECChH----hChHHHHce--eEeCC
Confidence            6678899999986554      245566667632            23567777776653    688999999  99999


Q ss_pred             CCCHHHHHHHHHHHh
Q psy17974        554 SPTEDTLKVIFKVRT  568 (583)
Q Consensus       554 ~p~~~sl~~I~~~~l  568 (583)
                      .|+.+++.......+
T Consensus       138 ~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          138 VNVPKEFRDLVKEKI  152 (305)
T ss_dssp             CCCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999998887765

>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=98.40  E-value=3e-07  Score=86.26  Aligned_cols=57  Identities=19%  Similarity=0.263  Sum_probs=36.8

Q ss_pred             eee-CchhhhHHHHHHHHH-----hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEE
Q psy17974        386 MVP-TIDTIRFGSIMEKLL-----LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTIN  442 (583)
Q Consensus       386 ~Vp-T~dt~r~~~ll~~~l-----~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~  442 (583)
                      ++| +.+.......+..++     ..+.+++|+||+|||||++++.++..+....+..+..++
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~   74 (180)
T 3ec2_A           12 YHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFD   74 (180)
T ss_dssp             CCCCSHHHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEE
T ss_pred             ccCCCHHHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEE
Confidence            444 443444444444444     457899999999999999999998876322344444443

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=98.27  E-value=4.3e-06  Score=93.73  Aligned_cols=34  Identities=18%  Similarity=0.407  Sum_probs=30.7

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+...+..+.+++|+||||||||++++.++..+
T Consensus        51 ~~l~~~i~~g~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           51 EVIKTAANQKRHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             hhccccccCCCEEEEEeCCCCCHHHHHHHHhccC
Confidence            5577788899999999999999999999999876

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.27  E-value=2.1e-06  Score=88.06  Aligned_cols=47  Identities=13%  Similarity=0.269  Sum_probs=34.1

Q ss_pred             HHHHHHhc-----CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        398 IMEKLLLV-----NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       398 ll~~~l~~-----~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      .+..++..     +.+++|+||||||||+++.+++..+....++.+..++++
T Consensus       139 ~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~  190 (308)
T 2qgz_A          139 AILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFP  190 (308)
T ss_dssp             HHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHH
T ss_pred             HHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHH
Confidence            44455554     689999999999999999999887631334566666543

>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=98.26  E-value=5e-06  Score=87.64  Aligned_cols=171  Identities=15%  Similarity=0.148  Sum_probs=93.8

Q ss_pred             hhHHHHH-HHHHhc----CCceEE--EccCCCcHHHHHHHHHHhhccc-----CCceEEEEEeccCCChHHHHHHHHhhh
Q psy17974        393 IRFGSIM-EKLLLV----NHPVMF--TGVTGVGKTVVARSILNKLLAS-----NTWAALTINFSAQTSSARTQEILEGKL  460 (583)
Q Consensus       393 ~r~~~ll-~~~l~~----~~~vLL--~Gp~GtGKT~li~~~l~~l~~~-----~~~~~~~i~fS~~Tt~~~lq~~ie~~l  460 (583)
                      .+....+ ......    +..+++  +||+|+|||++++.+++.+...     ..+.++.++++...++..+...+...+
T Consensus        32 ~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l  111 (412)
T 1w5s_A           32 EALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQT  111 (412)
T ss_dssp             HHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3344444 444433    456888  8999999999999998876321     145677788766666655554443333


Q ss_pred             hhhcC--c-----ccc------CCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEE
Q psy17974        461 DKRTK--T-----LLG------APLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCT  527 (583)
Q Consensus       461 ~~~~~--~-----~~~------p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~ia  527 (583)
                      .....  +     .+.      ...++++|++|||++......-+.+..++.|-.+++..   .....    -.++.+|+
T Consensus       112 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~---~~~~~----~~~v~lI~  184 (412)
T 1w5s_A          112 GYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEI---PSRDG----VNRIGFLL  184 (412)
T ss_dssp             TCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHS---CCTTS----CCBEEEEE
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhc---ccCCC----CceEEEEE
Confidence            21100  0     000      01256889999999864321001223343222233321   00000    13577887


Q ss_pred             ecCCCCCCCCCCC---hhhhccce-EEEeCCCCHHHHHHHHHHHhccc
Q psy17974        528 ACAPPGGGRMPLT---PRFVRHFG-LLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       528 a~~p~~~gr~~l~---~Rllr~f~-vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      +++.+.- ...+.   +++.+++. .+.+++++.+++..++...+...
T Consensus       185 ~~~~~~~-~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~  231 (412)
T 1w5s_A          185 VASDVRA-LSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELG  231 (412)
T ss_dssp             EEEETHH-HHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHH
T ss_pred             EeccccH-HHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhc
Confidence            7764320 00122   44444443 38999999999999998776543

>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=98.24  E-value=8.9e-06  Score=86.12  Aligned_cols=165  Identities=21%  Similarity=0.249  Sum_probs=103.6

Q ss_pred             hhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc-cC
Q psy17974        392 TIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL-GA  470 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~-~p  470 (583)
                      ..+....+..+...+.||+++|++||||+++++.+.... ....-.++.+||++.. .    ..+++.+-...+|.| |.
T Consensus       146 m~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lAr~ih~~s-~r~~~~fv~v~~~~~~-~----~~~~~elfg~~~g~~tga  219 (387)
T 1ny5_A          146 MKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS-DRSKEPFVALNVASIP-R----DIFEAELFGYEKGAFTGA  219 (387)
T ss_dssp             HHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS-TTTTSCEEEEETTTSC-H----HHHHHHHHCBCTTSSTTC
T ss_pred             hhHHHHHHHHhcCCCCCeEEecCCCcCHHHHHHHHHHhc-CCCCCCeEEEecCCCC-H----HHHHHHhcCCCCCCCCCc
Confidence            444555666777788999999999999999998776543 2334467788888743 2    234555544444444 21


Q ss_pred             C---C-----CCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC-----CCCC
Q psy17974        471 P---L-----GKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG-----GGRM  537 (583)
Q Consensus       471 ~---~-----gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~-----~gr~  537 (583)
                      .   .     ....++|+||++....+      ....|-++++.|.+....... ..-.|+++|+|+|.+-     .|  
T Consensus       220 ~~~~~g~~~~a~~gtlfldei~~l~~~------~q~~Ll~~l~~~~~~~~g~~~-~~~~~~rii~at~~~l~~~~~~g--  290 (387)
T 1ny5_A          220 VSSKEGFFELADGGTLFLDEIGELSLE------AQAKLLRVIESGKFYRLGGRK-EIEVNVRILAATNRNIKELVKEG--  290 (387)
T ss_dssp             CSCBCCHHHHTTTSEEEEESGGGCCHH------HHHHHHHHHHHSEECCBTCCS-BEECCCEEEEEESSCHHHHHHTT--
T ss_pred             ccccCCceeeCCCcEEEEcChhhCCHH------HHHHHHHHHhcCcEEeCCCCc-eeeccEEEEEeCCCCHHHHHHcC--
Confidence            1   1     12358999999865443      344555677766655433222 2236899999999752     23  


Q ss_pred             CCChhhhccceE--EEeCCCCH--HHHHHHHHHHhccc
Q psy17974        538 PLTPRFVRHFGL--LSLPSPTE--DTLKVIFKVRTSPG  571 (583)
Q Consensus       538 ~l~~Rllr~f~v--i~i~~p~~--~sl~~I~~~~l~~~  571 (583)
                      .+.+.|..++++  |.+|+.-+  +++..+...++..+
T Consensus       291 ~fr~dl~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~  328 (387)
T 1ny5_A          291 KFREDLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKF  328 (387)
T ss_dssp             SSCHHHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHH
T ss_pred             CccHHHHHhhcCCeecCCcchhccccHHHHHHHHHHHH
Confidence            345666666665  45555433  77877777777654

>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=98.22  E-value=9.7e-07  Score=94.76  Aligned_cols=141  Identities=14%  Similarity=0.121  Sum_probs=83.1

Q ss_pred             HHHHHHHhcCC-------ceEEEccCCCcHHHHHHHH-HHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc
Q psy17974        397 SIMEKLLLVNH-------PVMFTGVTGVGKTVVARSI-LNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL  468 (583)
Q Consensus       397 ~ll~~~l~~~~-------~vLL~Gp~GtGKT~li~~~-l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~  468 (583)
                      ..+..++..|.       ||||+|+||| ||++++.+ .+.++ .    .++..-. ..++..   +..+ .... .| +
T Consensus       223 ~aLll~L~GG~~k~rgdihVLL~G~PGt-KS~Lar~i~~~i~p-R----~~ft~g~-~ss~~g---Lt~s-~r~~-tG-~  289 (506)
T 3f8t_A          223 KMLALQLFSCVGKNSERLHVLLAGYPVV-CSEILHHVLDHLAP-R----GVYVDLR-RTELTD---LTAV-LKED-RG-W  289 (506)
T ss_dssp             HHHHHHHTTCCSSGGGCCCEEEESCHHH-HHHHHHHHHHHTCS-S----EEEEEGG-GCCHHH---HSEE-EEES-SS-E
T ss_pred             HHHHHHHcCCccccCCceeEEEECCCCh-HHHHHHHHHHHhCC-C----eEEecCC-CCCccC---ceEE-EEcC-CC-c
Confidence            33445555666       9999999999 99999999 55442 2    1111110 111112   1111 1111 23 3


Q ss_pred             cCCC-----CCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC-------C
Q psy17974        469 GAPL-----GKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG-------R  536 (583)
Q Consensus       469 ~p~~-----gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g-------r  536 (583)
                      ....     ....++|+||+|...++      ..+.|++.++.+..--.  .. ..-.++.+|||+||-+..       .
T Consensus       290 ~~~~G~l~LAdgGvl~lDEIn~~~~~------~qsaLlEaMEe~~VtI~--G~-~lparf~VIAA~NP~~~yd~~~s~~~  360 (506)
T 3f8t_A          290 ALRAGAAVLADGGILAVDHLEGAPEP------HRWALMEAMDKGTVTVD--GI-ALNARCAVLAAINPGEQWPSDPPIAR  360 (506)
T ss_dssp             EEEECHHHHTTTSEEEEECCTTCCHH------HHHHHHHHHHHSEEEET--TE-EEECCCEEEEEECCCC--CCSCGGGG
T ss_pred             ccCCCeeEEcCCCeeehHhhhhCCHH------HHHHHHHHHhCCcEEEC--CE-EcCCCeEEEEEeCcccccCCCCCccc
Confidence            2221     12458999999976544      57888899998866432  33 555789999999997511       2


Q ss_pred             CCCChhhhccceE--EEeCCCCHHH
Q psy17974        537 MPLTPRFVRHFGL--LSLPSPTEDT  559 (583)
Q Consensus       537 ~~l~~Rllr~f~v--i~i~~p~~~s  559 (583)
                      ..+++.++.||-+  +.+++|+.+.
T Consensus       361 ~~Lp~alLDRFDLi~i~~d~pd~e~  385 (506)
T 3f8t_A          361 IDLDQDFLSHFDLIAFLGVDPRPGE  385 (506)
T ss_dssp             CCSCHHHHTTCSEEEETTC------
T ss_pred             cCCChHHhhheeeEEEecCCCChhH
Confidence            3899999999954  4467776543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.22  E-value=1.8e-06  Score=82.27  Aligned_cols=46  Identities=24%  Similarity=0.368  Sum_probs=33.4

Q ss_pred             HHHHHHhcC------CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        398 IMEKLLLVN------HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       398 ll~~~l~~~------~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      .+..++...      .+++|+||+|||||++++.++..+. .....+..++++
T Consensus        40 ~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~-~~~~~~~~~~~~   91 (202)
T 2w58_A           40 FAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELA-KRNVSSLIVYVP   91 (202)
T ss_dssp             HHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHH-TTTCCEEEEEHH
T ss_pred             HHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEEhH
Confidence            444555544      7999999999999999999988763 334556666553

>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=98.21  E-value=1.7e-05  Score=85.64  Aligned_cols=75  Identities=19%  Similarity=0.270  Sum_probs=49.9

Q ss_pred             EEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC-------C--CCCCCCChhhhcc
Q psy17974        476 LAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-------G--GGRMPLTPRFVRH  546 (583)
Q Consensus       476 ~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~-------~--~gr~~l~~Rllr~  546 (583)
                      .|+||||+|+-..+      ..+.|...++..            ..++.++++ |+.       .  .+...+++.+++|
T Consensus       297 ~VliIDEa~~l~~~------a~~aLlk~lEe~------------~~~~~il~t-n~~~~~i~~~~~~~~~~~l~~~i~sR  357 (456)
T 2c9o_A          297 GVLFVDEVHMLDIE------CFTYLHRALESS------------IAPIVIFAS-NRGNCVIRGTEDITSPHGIPLDLLDR  357 (456)
T ss_dssp             CEEEEESGGGCBHH------HHHHHHHHTTST------------TCCEEEEEE-CCSEEECBTTSSCEEETTCCHHHHTT
T ss_pred             eEEEEechhhcCHH------HHHHHHHHhhcc------------CCCEEEEec-CCccccccccccccccccCChhHHhh
Confidence            37788888876543      455555555522            123323343 441       0  1234789999999


Q ss_pred             ceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        547 FGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       547 f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      |.++.+++++.+++..|......
T Consensus       358 ~~~~~~~~~~~~e~~~iL~~~~~  380 (456)
T 2c9o_A          358 VMIIRTMLYTPQEMKQIIKIRAQ  380 (456)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHH
T ss_pred             cceeeCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999987754

>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=98.16  E-value=1.7e-05  Score=83.37  Aligned_cols=168  Identities=17%  Similarity=0.169  Sum_probs=106.2

Q ss_pred             chhhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCcccc
Q psy17974        390 IDTIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLG  469 (583)
Q Consensus       390 ~dt~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~  469 (583)
                      +...+....+........+|++.|++||||+.+++.+..... ...- .+.+||++....     .+++.+-...+|.|.
T Consensus       136 ~~~~~~~~~~~~~a~~~~~vli~GesGtGKe~lAr~ih~~s~-r~~~-fv~vnc~~~~~~-----~~~~~lfg~~~g~~t  208 (368)
T 3dzd_A          136 PKILEIKRLIPKIAKSKAPVLITGESGTGKEIVARLIHRYSG-RKGA-FVDLNCASIPQE-----LAESELFGHEKGAFT  208 (368)
T ss_dssp             HHHHHHHHHHHHHHTSCSCEEEECCTTSSHHHHHHHHHHHHC-CCSC-EEEEESSSSCTT-----THHHHHHEECSCSSS
T ss_pred             hHHHHHHhhhhhhhccchhheEEeCCCchHHHHHHHHHHhcc-ccCC-cEEEEcccCChH-----HHHHHhcCccccccC
Confidence            344555666777778889999999999999999998765432 2222 778898875432     334555333444442


Q ss_pred             C-CC--------CCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC---CCC
Q psy17974        470 A-PL--------GKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG---GRM  537 (583)
Q Consensus       470 p-~~--------gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~---gr~  537 (583)
                      . ..        ....++|+||++--..+      ....|-++++.|.+....... ..-.|+++|+|+|.+-.   ...
T Consensus       209 ga~~~~~g~~~~a~~gtlfldei~~l~~~------~Q~~Ll~~l~~~~~~~~g~~~-~~~~~~rii~at~~~l~~~v~~g  281 (368)
T 3dzd_A          209 GALTRKKGKLELADQGTLFLDEVGELDQR------VQAKLLRVLETGSFTRLGGNQ-KIEVDIRVISATNKNLEEEIKKG  281 (368)
T ss_dssp             SCCCCEECHHHHTTTSEEEEETGGGSCHH------HHHHHHHHHHHSEECCBTCCC-BEECCCEEEEEESSCHHHHHHTT
T ss_pred             CcccccCChHhhcCCCeEEecChhhCCHH------HHHHHHHHHHhCCcccCCCCc-ceeeeeEEEEecCCCHHHHHHcC
Confidence            1 11        12347999999876544      345566677777666443322 22458999999986521   111


Q ss_pred             CCChhhhccceE--EEeCCCCH--HHHHHHHHHHhccc
Q psy17974        538 PLTPRFVRHFGL--LSLPSPTE--DTLKVIFKVRTSPG  571 (583)
Q Consensus       538 ~l~~Rllr~f~v--i~i~~p~~--~sl~~I~~~~l~~~  571 (583)
                      .+.+.|..+.++  |.+|+..+  +++..+...++..+
T Consensus       282 ~fr~dL~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~  319 (368)
T 3dzd_A          282 NFREDLYYRLSVFQIYLPPLRERGKDVILLAEYFLKKF  319 (368)
T ss_dssp             SSCHHHHHHHTSEEEECCCGGGSTTHHHHHHHHHHHHH
T ss_pred             CccHHHHHHhCCeEEeCCChhhchhhHHHHHHHHHHHH
Confidence            345667667765  55777666  67777777777654

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.99  E-value=8.9e-06  Score=74.34  Aligned_cols=40  Identities=18%  Similarity=0.198  Sum_probs=30.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA  445 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~  445 (583)
                      .+.++.|+||+|+|||++++.++..+. ..+...+.++.+.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~-~~g~~~~~~~~~~   74 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQAL-EAGKNAAYIDAAS   74 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHH-TTTCCEEEEETTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH-hcCCcEEEEcHHH
Confidence            688999999999999999999988763 2344566665443

>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=97.96  E-value=4e-05  Score=82.27  Aligned_cols=84  Identities=13%  Similarity=0.184  Sum_probs=53.8

Q ss_pred             eEEEEecCCCCCCccc--CCCCChH----HHHHHHHHhCCeeecCCCeeEeecCeEEEEec-----CCCCCCCCCCChhh
Q psy17974        475 RLAVFVDDVNMPKLET--YGAQPPI----ELLRQFLDFGGLYDRDKMFWKTLQDVVLCTAC-----APPGGGRMPLTPRF  543 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~--yg~q~~l----ElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~-----~p~~~gr~~l~~Rl  543 (583)
                      ..++|+||++-...+.  ++..+.-    ..|-+++|.. --..+ .--....++.||||.     +|.     .+.|.|
T Consensus       251 ~~il~~DEidki~~~~~~~~~D~s~egvq~aLL~~le~~-~~~~~-~~~~d~~~ilfI~~gaf~~~~~~-----dlipel  323 (444)
T 1g41_A          251 NGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGS-TVSTK-HGMVKTDHILFIASGAFQVARPS-----DLIPEL  323 (444)
T ss_dssp             HCEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCC-EEEET-TEEEECTTCEEEEEECCSSCCGG-----GSCHHH
T ss_pred             CCeeeHHHHHHHhhccCCCCCCchHHHHHHHHHHHhccc-ccccc-cceecCCcEEEEeccccccCChh-----hcchHH
Confidence            3489999998654432  2322222    3455667732 21111 112345678899885     332     355889


Q ss_pred             hccceE-EEeCCCCHHHHHHHHH
Q psy17974        544 VRHFGL-LSLPSPTEDTLKVIFK  565 (583)
Q Consensus       544 lr~f~v-i~i~~p~~~sl~~I~~  565 (583)
                      +.||.+ +.++..+.+++.+|..
T Consensus       324 ~~R~~i~i~l~~lt~~e~~~Il~  346 (444)
T 1g41_A          324 QGRLPIRVELTALSAADFERILT  346 (444)
T ss_dssp             HTTCCEEEECCCCCHHHHHHHHH
T ss_pred             hcccceeeeCCCCCHHHHHHHHH
Confidence            999987 8999999999999983

>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=97.93  E-value=0.00011  Score=73.60  Aligned_cols=142  Identities=13%  Similarity=0.124  Sum_probs=89.8

Q ss_pred             hhHHHHHHHHHhcC---C-ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc
Q psy17974        393 IRFGSIMEKLLLVN---H-PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL  468 (583)
Q Consensus       393 ~r~~~ll~~~l~~~---~-~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~  468 (583)
                      +.....+..+++..   + .++|+||||||||++++++++.+.   .  .-.++++.                  ....+
T Consensus        87 ~~~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~~---l--~G~vn~~~------------------~~f~l  143 (267)
T 1u0j_A           87 QYAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVP---F--YGCVNWTN------------------ENFPF  143 (267)
T ss_dssp             HHHHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSS---C--EEECCTTC------------------SSCTT
T ss_pred             HHHHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhhc---c--cceeeccc------------------ccccc
Confidence            45556677787764   2 599999999999999999998641   1  11224432                  11223


Q ss_pred             cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCee-ecCCCeeEeecCeEEEEecCCCC-C---C---CCCCC
Q psy17974        469 GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY-DRDKMFWKTLQDVVLCTACAPPG-G---G---RMPLT  540 (583)
Q Consensus       469 ~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~y-d~~~~~~~~i~~i~~iaa~~p~~-~---g---r~~l~  540 (583)
                      .+..+++ +++.||.++..       ...+.+|.+++.+..- |.+...-..+...-+|.++|..- .   |   .....
T Consensus       144 ~~~~~k~-i~l~Ee~~~~~-------d~~~~lr~i~~G~~~~id~K~k~~~~v~~tPvIitsN~~i~~~~~g~~~s~~~~  215 (267)
T 1u0j_A          144 NDCVDKM-VIWWEEGKMTA-------KVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQ  215 (267)
T ss_dssp             GGGSSCS-EEEECSCCEET-------TTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTH
T ss_pred             ccccccE-EEEeccccchh-------HHHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCCcccccccCccchhhh
Confidence            3333444 55688887743       2457799988644332 32222223677788888888621 1   1   12456


Q ss_pred             hhhhccceEEEeC--------CCCHHHHHHHHH
Q psy17974        541 PRFVRHFGLLSLP--------SPTEDTLKVIFK  565 (583)
Q Consensus       541 ~Rllr~f~vi~i~--------~p~~~sl~~I~~  565 (583)
                      +.|.+|..++.++        ..+.++....|.
T Consensus       216 ~~L~sR~~~f~F~~~~p~~~~~lt~~~~~~f~~  248 (267)
T 1u0j_A          216 QPLQDRMFKFELTRRLDHDFGKVTKQEVKDFFR  248 (267)
T ss_dssp             HHHHTTEEEEECCSCCCTTSCCCCHHHHHHHHH
T ss_pred             HHHhhhEEEEECCCcCCcccCCCCHHHHHHHHH
Confidence            7899999999998        788999988887

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.86  E-value=2.2e-05  Score=75.43  Aligned_cols=130  Identities=16%  Similarity=0.170  Sum_probs=73.4

Q ss_pred             HHHHHHHhc---CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCC
Q psy17974        397 SIMEKLLLV---NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLG  473 (583)
Q Consensus       397 ~ll~~~l~~---~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~g  473 (583)
                      ..++.+++.   +..++++||||||||+++.++++.+..  .    .+.|....+                ...+.+..+
T Consensus        46 ~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~g--~----i~~fans~s----------------~f~l~~l~~  103 (212)
T 1tue_A           46 GALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQG--A----VISFVNSTS----------------HFWLEPLTD  103 (212)
T ss_dssp             HHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTC--E----ECCCCCSSS----------------CGGGGGGTT
T ss_pred             HHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCC--C----eeeEEeccc----------------hhhhcccCC
Confidence            334455543   125999999999999999999987731  1    122311110                011223233


Q ss_pred             CeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCe-eecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEe
Q psy17974        474 KRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGL-YDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSL  552 (583)
Q Consensus       474 k~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~-yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i  552 (583)
                      .+ ++++||+..+..+     -.-+.+|.++|.... -|.+-..-..+...-+|-|+|.+-.. ...-+++.+|..++..
T Consensus       104 ~k-IiiLDEad~~~~~-----~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~-~~~~~~L~SRi~~f~F  176 (212)
T 1tue_A          104 TK-VAMLDDATTTCWT-----YFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAK-DNRWPYLESRITVFEF  176 (212)
T ss_dssp             CS-SEEEEEECHHHHH-----HHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTS-SSSCHHHHTSCEEEEC
T ss_pred             CC-EEEEECCCchhHH-----HHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCccc-ccchhhhhhhEEEEEc
Confidence            34 6789998753211     123678888885432 12222223345555677888875322 1223788889998888


Q ss_pred             CCC
Q psy17974        553 PSP  555 (583)
Q Consensus       553 ~~p  555 (583)
                      +.|
T Consensus       177 ~~~  179 (212)
T 1tue_A          177 PNA  179 (212)
T ss_dssp             CSC
T ss_pred             CCC
Confidence            844

>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=97.84  E-value=0.00018  Score=73.63  Aligned_cols=147  Identities=10%  Similarity=0.054  Sum_probs=85.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC-----CChHHHHHHHHhhhhh-------------hc
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ-----TSSARTQEILEGKLDK-------------RT  464 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~-----Tt~~~lq~~ie~~l~~-------------~~  464 (583)
                      +.. ..++++||+|+|||++++.+++...  .  ..+.+++...     .+...+...+...+..             ..
T Consensus        28 l~~-~~v~i~G~~G~GKT~L~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~~~~~  102 (357)
T 2fna_A           28 LRA-PITLVLGLRRTGKSSIIKIGINELN--L--PYIYLDLRKFEERNYISYKDFLLELQKEINKLVKRLPSLLKALKNI  102 (357)
T ss_dssp             TCS-SEEEEEESTTSSHHHHHHHHHHHHT--C--CEEEEEGGGGTTCSCCCHHHHHHHHHHHHHHHHHHCTTHHHHTTTS
T ss_pred             hcC-CcEEEECCCCCCHHHHHHHHHHhcC--C--CEEEEEchhhccccCCCHHHHHHHHHHHHHHHhhhhhHHHHHhccc
Confidence            444 6899999999999999999988762  1  2456776542     2333333332222210             00


Q ss_pred             ------------------Cccc-------cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEe
Q psy17974        465 ------------------KTLL-------GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKT  519 (583)
Q Consensus       465 ------------------~~~~-------~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~  519 (583)
                                        ...+       .....++++++|||++.....  .+...+++||.+.+..            
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~--~~~~~~~~l~~~~~~~------------  168 (357)
T 2fna_A          103 QGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKL--RGVNLLPALAYAYDNL------------  168 (357)
T ss_dssp             TTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGC--TTCCCHHHHHHHHHHC------------
T ss_pred             ceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhcc--CchhHHHHHHHHHHcC------------
Confidence                              0000       000103889999999875431  1234688898887742            


Q ss_pred             ecCeEEEEecCCCCC-C----CCCCChhhhcc-ceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        520 LQDVVLCTACAPPGG-G----RMPLTPRFVRH-FGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       520 i~~i~~iaa~~p~~~-g----r~~l~~Rllr~-f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                       .++.+|.+..+... .    .......+..+ ...+.+++.+.++...++...+.
T Consensus       169 -~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~  223 (357)
T 2fna_A          169 -KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQ  223 (357)
T ss_dssp             -TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHH
T ss_pred             -CCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHH
Confidence             24566766554310 0    01112223333 36899999999999998887654

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.74  E-value=0.00035  Score=71.40  Aligned_cols=152  Identities=14%  Similarity=0.138  Sum_probs=86.2

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC------ChHHHHHHHHhhhhh------hc--
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT------SSARTQEILEGKLDK------RT--  464 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T------t~~~lq~~ie~~l~~------~~--  464 (583)
                      +..++..+..++++||+|+|||++++.+++..    +  .+.+++....      +...+...+...+..      ..  
T Consensus        24 L~~~l~~~~~v~i~G~~G~GKT~Ll~~~~~~~----~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~   97 (350)
T 2qen_A           24 LEESLENYPLTLLLGIRRVGKSSLLRAFLNER----P--GILIDCRELYAERGHITREELIKELQSTISPFQKFQSKFKI   97 (350)
T ss_dssp             HHHHHHHCSEEEEECCTTSSHHHHHHHHHHHS----S--EEEEEHHHHHHTTTCBCHHHHHHHHHHHSCSHHHHHHHHTC
T ss_pred             HHHHHhcCCeEEEECCCcCCHHHHHHHHHHHc----C--cEEEEeecccccccCCCHHHHHHHHHHHHHHHHhHhhhcee
Confidence            34445557899999999999999999998864    2  5567765432      333433333222211      00  


Q ss_pred             -----C-------c----ccc-----CCCCCeEEEEecCCCCCCcc-cCCCCChHHHHHHHHHhCCeeecCCCeeEeecC
Q psy17974        465 -----K-------T----LLG-----APLGKRLAVFVDDVNMPKLE-TYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQD  522 (583)
Q Consensus       465 -----~-------~----~~~-----p~~gk~~vlfiDDln~p~~d-~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~  522 (583)
                           +       .    .+.     ....++++++|||++....- +-.....+++|+.+.+..             .+
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~~~-------------~~  164 (350)
T 2qen_A           98 SLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYDSL-------------PN  164 (350)
T ss_dssp             CCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHHHC-------------TT
T ss_pred             EEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHHhc-------------CC
Confidence                 0       0    000     00012789999999875430 001123578888887742             24


Q ss_pred             eEEEEecCCCCC-CC----CCCChhhh-ccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        523 VVLCTACAPPGG-GR----MPLTPRFV-RHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       523 i~~iaa~~p~~~-gr----~~l~~Rll-r~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      +.+|.+..+... .+    ......+. |....+.+++.+.++...++...+.
T Consensus       165 ~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~  217 (350)
T 2qen_A          165 LKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFR  217 (350)
T ss_dssp             EEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHH
T ss_pred             eEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHH
Confidence            566666443210 00    01122233 3345899999999999888876543

>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=97.42  E-value=0.0002  Score=73.52  Aligned_cols=102  Identities=16%  Similarity=0.179  Sum_probs=54.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe------ccC-CChHHHHHHHHhhhhhhcCccccCCCCCeEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF------SAQ-TSSARTQEILEGKLDKRTKTLLGAPLGKRLA  477 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f------S~~-Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~v  477 (583)
                      .+..++|+||||||||+++.+++...  ..  .+.++.+      +.. ...+.+.+.+...+.+           .+ +
T Consensus       122 ~gsviLI~GpPGsGKTtLAlqlA~~~--G~--~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~-----------~~-L  185 (331)
T 2vhj_A          122 ASGMVIVTGKGNSGKTPLVHALGEAL--GG--KDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ-----------HR-V  185 (331)
T ss_dssp             ESEEEEEECSCSSSHHHHHHHHHHHH--HT--TSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH-----------CS-E
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhC--CC--CEEEEEecchhhhhhhhcCHHHHHHHHHHHHhh-----------CC-E
Confidence            34567999999999999999988752  11  2223333      111 2233332223333332           12 7


Q ss_pred             EEecCCCCCCcccCC-------CCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC
Q psy17974        478 VFVDDVNMPKLETYG-------AQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG  533 (583)
Q Consensus       478 lfiDDln~p~~d~yg-------~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~  533 (583)
                      ++||++........+       .+...++|+.+...-           .-.++.++++.||..
T Consensus       186 LVIDsI~aL~~~~~~~s~~G~v~~~lrqlL~~L~~~~-----------k~~gvtVIlttnp~s  237 (331)
T 2vhj_A          186 IVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMA-----------ASRGCVVIASLNPTS  237 (331)
T ss_dssp             EEEECCTTTC-----------CCHHHHHHHHHHHHHH-----------HHHTCEEEEECCCSS
T ss_pred             EEEecccccccccccccccchHHHHHHHHHHHHHHHH-----------hhCCCEEEEEeCCcc
Confidence            899999976443333       122345555554311           012567788888654

>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=96.86  E-value=0.002  Score=69.43  Aligned_cols=26  Identities=31%  Similarity=0.604  Sum_probs=22.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      +.++++.|++|||||+++..++..+.
T Consensus        45 ~~~~li~G~aGTGKT~ll~~~~~~l~   70 (459)
T 3upu_A           45 KHHVTINGPAGTGATTLTKFIIEALI   70 (459)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            44999999999999999999887763

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.85  E-value=0.0011  Score=62.47  Aligned_cols=94  Identities=15%  Similarity=0.122  Sum_probs=47.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh--HHHHHHHHhhhh----hhcCccccCCCCCeEEEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS--ARTQEILEGKLD----KRTKTLLGAPLGKRLAVF  479 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~--~~lq~~ie~~l~----~~~~~~~~p~~gk~~vlf  479 (583)
                      ++-++++||+|+|||+++..++.+.. ..+..+..+.+...+..  ..+..-+.....    ......+....++.-+++
T Consensus         3 g~i~vi~G~~gsGKTT~ll~~~~~~~-~~g~~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~dvvi   81 (184)
T 2orw_A            3 GKLTVITGPMYSGKTTELLSFVEIYK-LGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKYIEEDTRGVF   81 (184)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHH-HTTCEEEEEEEC-----CCCEECC----CEECEEESSGGGGGGGCCTTEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEeeccccccCcccEEecCCCceeeEEECCHHHHHHHhcCCCCEEE
Confidence            45678999999999999877666542 22344444444322110  000000000000    000011111113456899


Q ss_pred             ecCCCCCCcccCCCCChHHHHHHHHHh
Q psy17974        480 VDDVNMPKLETYGAQPPIELLRQFLDF  506 (583)
Q Consensus       480 iDDln~p~~d~yg~q~~lElLRq~ld~  506 (583)
                      |||++.-.+      ..++.|+.+.+.
T Consensus        82 IDE~Q~~~~------~~~~~l~~l~~~  102 (184)
T 2orw_A           82 IDEVQFFNP------SLFEVVKDLLDR  102 (184)
T ss_dssp             ECCGGGSCT------THHHHHHHHHHT
T ss_pred             EECcccCCH------HHHHHHHHHHHC
Confidence            999987533      367888888874

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=96.68  E-value=0.004  Score=59.46  Aligned_cols=22  Identities=32%  Similarity=0.511  Sum_probs=18.1

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      -.|++|+||||||+.+...+..
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~   28 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMAN   28 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4689999999999998776543

>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=96.48  E-value=0.0059  Score=59.39  Aligned_cols=94  Identities=15%  Similarity=0.084  Sum_probs=51.7

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcC--------ccc---c--C
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTK--------TLL---G--A  470 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~--------~~~---~--p  470 (583)
                      ..|.=++++||+|+|||+++..++.+.. ..+..+..+++...+. . . ..+-+++.-...        ..+   .  .
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~~-~~g~kVli~~~~~d~r-~-~-~~i~srlG~~~~~~~~~~~~~i~~~i~~~~   85 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRLE-YADVKYLVFKPKIDTR-S-I-RNIQSRTGTSLPSVEVESAPEILNYIMSNS   85 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEEEECCCGG-G-C-SSCCCCCCCSSCCEEESSTHHHHHHHHSTT
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHHH-hcCCEEEEEEeccCch-H-H-HHHHHhcCCCccccccCCHHHHHHHHHHHh
Confidence            4466789999999999999888877663 2344555565544221 0 0 001111100000        000   0  0


Q ss_pred             CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhC
Q psy17974        471 PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFG  507 (583)
Q Consensus       471 ~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~  507 (583)
                      ..++.-+|+|||++.-..+      .++.++.+.+.|
T Consensus        86 ~~~~~dvViIDEaQ~l~~~------~ve~l~~L~~~g  116 (223)
T 2b8t_A           86 FNDETKVIGIDEVQFFDDR------ICEVANILAENG  116 (223)
T ss_dssp             SCTTCCEEEECSGGGSCTH------HHHHHHHHHHTT
T ss_pred             hCCCCCEEEEecCccCcHH------HHHHHHHHHhCC
Confidence            1234558999999864332      678888887753

>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=96.45  E-value=0.013  Score=60.27  Aligned_cols=136  Identities=10%  Similarity=0.016  Sum_probs=82.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNM  485 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~  485 (583)
                      .+..|++||+|.||+..++.+++.+...+......+.+.+..+...+.+.    +..      .|-.+.+-|++|||.++
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~----~~~------~plf~~~kvvii~~~~~   87 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDPNTDWNAIFSL----CQA------MSLFASRQTLLLLLPEN   87 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCTTCCHHHHHHH----HHH------HHHCCSCEEEEEECCSS
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecCCCCHHHHHHH----hcC------cCCccCCeEEEEECCCC
Confidence            35678899999999999998887652221111122344443343333222    111      12123445788999987


Q ss_pred             -CCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC--CCCCCCChhhhccceEEEeCCCCHHHHHH
Q psy17974        486 -PKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG--GGRMPLTPRFVRHFGLLSLPSPTEDTLKV  562 (583)
Q Consensus       486 -p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~--~gr~~l~~Rllr~f~vi~i~~p~~~sl~~  562 (583)
                       ...+      ..+.|..+++.-            ..++.+|-+++.+.  ..+..+.+.+.+++.++.+..++.+++..
T Consensus        88 kl~~~------~~~aLl~~le~p------------~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~  149 (343)
T 1jr3_D           88 GPNAA------INEQLLTLTGLL------------HDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPR  149 (343)
T ss_dssp             CCCTT------HHHHHHHHHTTC------------BTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHH
T ss_pred             CCChH------HHHHHHHHHhcC------------CCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHH
Confidence             5433      445555666521            13455555544322  33556788889999999999999999887


Q ss_pred             HHHHHhc
Q psy17974        563 IFKVRTS  569 (583)
Q Consensus       563 I~~~~l~  569 (583)
                      .....++
T Consensus       150 ~l~~~~~  156 (343)
T 1jr3_D          150 WVAARAK  156 (343)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.42  E-value=0.0085  Score=74.62  Aligned_cols=49  Identities=14%  Similarity=0.122  Sum_probs=36.4

Q ss_pred             HHHHHh-----cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC
Q psy17974        399 MEKLLL-----VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS  448 (583)
Q Consensus       399 l~~~l~-----~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt  448 (583)
                      ++.++.     .+..++|+||||||||+++.+++.+.. ..+..+.++.+.....
T Consensus      1415 LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~-~~G~~v~Fi~~e~~~~ 1468 (2050)
T 3cmu_A         1415 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ-REGKTCAFIDAEHALD 1468 (2050)
T ss_dssp             HHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEECTTSCCC
T ss_pred             HHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEEEcccccC
Confidence            555555     678999999999999999999877653 3355677776655433

>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=96.40  E-value=0.0016  Score=61.63  Aligned_cols=25  Identities=20%  Similarity=0.662  Sum_probs=22.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+|++|+||+|+|||++++.++...
T Consensus         1 ~RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            1 SRPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            3799999999999999999998875

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.13  E-value=0.0029  Score=59.88  Aligned_cols=28  Identities=29%  Similarity=0.434  Sum_probs=24.0

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+..++|+||+|||||++++.++..+
T Consensus        22 ~~~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           22 SNAMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4567899999999999999999999876

>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=95.98  E-value=0.0037  Score=57.51  Aligned_cols=25  Identities=20%  Similarity=0.434  Sum_probs=22.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..++|+|+||||||++++.+.+.+
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4568999999999999999999876

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.89  E-value=0.0039  Score=59.21  Aligned_cols=29  Identities=24%  Similarity=0.511  Sum_probs=25.1

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+..+..++|+||+|||||++++.++..+
T Consensus         8 ~~~~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A            8 HMARIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             -CCCCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             ccccCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            35578899999999999999999998876

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.84  E-value=0.0046  Score=57.31  Aligned_cols=25  Identities=24%  Similarity=0.385  Sum_probs=22.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++.++|+||+|||||++++.+++.+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999998876

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.84  E-value=0.0045  Score=57.63  Aligned_cols=26  Identities=19%  Similarity=0.540  Sum_probs=23.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|+.+.|+||+|+|||++++.++..+
T Consensus         4 ~g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            46789999999999999999988764

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.81  E-value=0.0047  Score=58.56  Aligned_cols=27  Identities=22%  Similarity=0.541  Sum_probs=21.9

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..|+.+.|+||+|+|||++++.++...
T Consensus         2 ~~g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            2 AGPRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             ---CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            357899999999999999999887754

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.77  E-value=0.043  Score=53.36  Aligned_cols=137  Identities=16%  Similarity=0.147  Sum_probs=76.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCc--cc-----c-----C-CCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKT--LL-----G-----A-PLG  473 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~--~~-----~-----p-~~g  473 (583)
                      .++++.|++|+|||+++-+++..+. ..++.+..+...++..+.... .+. .++.....  .+     .     . -..
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~-~~G~~V~v~d~D~q~~~~~~a-l~~-gl~~~~~~~~~~~~~~~~e~~l~~~L~~   83 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQL-RQGVRVMAGVVETHGRAETEA-LLN-GLPQQPLLRTEYRGMTLEEMDLDALLKA   83 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHH-HTTCCEEEEECCCTTCHHHHH-HHT-TSCBCCCEEEEETTEEEEECCHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHH-HCCCCEEEEEeCCCCChhHHH-Hhc-CccccCcceeecCCcccccccHHHHHhc
Confidence            4799999999999999888877663 346677777776665544322 222 12210000  00     0     0 012


Q ss_pred             CeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCC-------------C-CCCCCC
Q psy17974        474 KRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPP-------------G-GGRMPL  539 (583)
Q Consensus       474 k~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~-------------~-~gr~~l  539 (583)
                      ++-++.|||+-.-..+...+.--.+.+-..++.|               +.+++|.|-.             | .-+..+
T Consensus        84 ~pdlvIVDElG~~~~~~~r~~~~~qDV~~~l~sg---------------idVitT~Nlqh~esl~d~v~~itg~~v~e~v  148 (228)
T 2r8r_A           84 APSLVLVDELAHTNAPGSRHTKRWQDIQELLAAG---------------IDVYTTVNVQHLESLNDQVRGITGVQVRETL  148 (228)
T ss_dssp             CCSEEEESCTTCBCCTTCSSSBHHHHHHHHHHTT---------------CEEEEEEEGGGBGGGHHHHHHHHSCCCCSCB
T ss_pred             CCCEEEEeCCCCCCcccchhHHHHHHHHHHHcCC---------------CCEEEEccccccccHHHHHHHHcCCCcCCcC
Confidence            3457889998753333333333445554444433               2233333311             1 235678


Q ss_pred             Chhhhccce-EEEeCCCCHHHHHH
Q psy17974        540 TPRFVRHFG-LLSLPSPTEDTLKV  562 (583)
Q Consensus       540 ~~Rllr~f~-vi~i~~p~~~sl~~  562 (583)
                      +.+++.... |..+|-|.++ |.+
T Consensus       149 pd~~~~~a~~v~lvD~~p~~-l~~  171 (228)
T 2r8r_A          149 PDWVLQEAFDLVLIDLPPRE-LLE  171 (228)
T ss_dssp             CHHHHHTCSEEEEBCCCHHH-HHH
T ss_pred             ccHHHhhCCeEEEecCCHHH-HHH
Confidence            999999884 6777766555 444

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.71  E-value=0.0062  Score=55.71  Aligned_cols=25  Identities=24%  Similarity=0.610  Sum_probs=22.5

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+.|+||+|||||++++.+...+
T Consensus         4 ~~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5679999999999999999988865

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.65  E-value=0.01  Score=64.78  Aligned_cols=35  Identities=17%  Similarity=0.177  Sum_probs=30.1

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ..+...+..|..++++||+||||||+++.++.-+.
T Consensus       251 ~~l~~~v~~g~~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          251 AYLWLAIEHKFSAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             HHHHHHHHTTCCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             HHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            45667788999999999999999999999887663

>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=95.64  E-value=0.0038  Score=58.18  Aligned_cols=27  Identities=26%  Similarity=0.442  Sum_probs=23.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|..+.|+||+||||||+++.++..
T Consensus         6 i~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            6 DLGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             CCTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            345678999999999999999988775

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.62  E-value=0.0082  Score=55.92  Aligned_cols=29  Identities=24%  Similarity=0.334  Sum_probs=25.0

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +...+..+.|+|++|||||++++.+.+.+
T Consensus         5 ~m~~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            5 KLKKTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             HHTTSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cCcCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            34566789999999999999999998876

>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=95.59  E-value=0.0062  Score=55.38  Aligned_cols=23  Identities=22%  Similarity=0.284  Sum_probs=20.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|+|+||+|||||++++.+.+.+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998876

>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=95.56  E-value=0.0077  Score=55.66  Aligned_cols=26  Identities=31%  Similarity=0.577  Sum_probs=23.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+..++|+|++|||||++++.+...+
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998876

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.55  E-value=0.0098  Score=55.04  Aligned_cols=33  Identities=27%  Similarity=0.317  Sum_probs=25.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEE
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTI  441 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i  441 (583)
                      .++|+|++|||||++++.+.+.+. ..++.+..+
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~-~~g~~~~~~   35 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD-NQGINNKII   35 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH-TTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-hcCceEEEE
Confidence            479999999999999999988773 223334444

>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=95.54  E-value=0.0092  Score=54.01  Aligned_cols=22  Identities=27%  Similarity=0.555  Sum_probs=19.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -++|+||||||||++++.+ ..+
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            5789999999999999988 654

>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=95.54  E-value=0.01  Score=65.75  Aligned_cols=36  Identities=19%  Similarity=0.188  Sum_probs=27.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTI  441 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i  441 (583)
                      .+..+++.||||||||+++..++..+. ..+..+...
T Consensus       203 ~~~~~~I~G~pGTGKTt~i~~l~~~l~-~~g~~Vl~~  238 (574)
T 3e1s_A          203 GHRLVVLTGGPGTGKSTTTKAVADLAE-SLGLEVGLC  238 (574)
T ss_dssp             TCSEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEE
T ss_pred             hCCEEEEEcCCCCCHHHHHHHHHHHHH-hcCCeEEEe
Confidence            467899999999999999999887663 234444433

>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=95.50  E-value=0.0074  Score=55.87  Aligned_cols=25  Identities=40%  Similarity=0.640  Sum_probs=22.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..++|+|++|||||++++.+...+
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5678999999999999999998876

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.46  E-value=0.0072  Score=55.40  Aligned_cols=21  Identities=29%  Similarity=0.514  Sum_probs=19.3

Q ss_pred             ceEEEccCCCcHHHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      -++++|+||||||++++.+.+
T Consensus         4 ~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHh
Confidence            478999999999999999887

>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=95.44  E-value=0.11  Score=57.32  Aligned_cols=77  Identities=14%  Similarity=0.139  Sum_probs=51.3

Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeC
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLP  553 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~  553 (583)
                      +++++|||++.-.... + ..+.+.|.++...|.=           -++.+|.|+..|+.  ..++..+...|. .|.+.
T Consensus       344 ~ivvVIDE~~~L~~~~-~-~~~~~~L~~Iar~GRa-----------~GIhLIlaTQRPs~--d~I~~~Iran~~~RI~lr  408 (574)
T 2iut_A          344 TIVVVVDEFADMMMIV-G-KKVEELIARIAQKARA-----------AGIHLILATQRPSV--DVITGLIKANIPTRIAFQ  408 (574)
T ss_dssp             EEEEEESCCTTHHHHT-C-HHHHHHHHHHHHHCTT-----------TTEEEEEEESCCCT--TTSCHHHHHTCCEEEEEC
T ss_pred             cEEEEEeCHHHHhhhh-h-HHHHHHHHHHHHHHhh-----------CCeEEEEEecCccc--ccccHHHHhhhccEEEEE
Confidence            5799999998432211 1 2356778888776632           25778877777652  257777877776 47777


Q ss_pred             CCCHHHHHHHHHH
Q psy17974        554 SPTEDTLKVIFKV  566 (583)
Q Consensus       554 ~p~~~sl~~I~~~  566 (583)
                      -.+..+...|+..
T Consensus       409 v~s~~Dsr~ILd~  421 (574)
T 2iut_A          409 VSSKIDSRTILDQ  421 (574)
T ss_dssp             CSCHHHHHHHHSS
T ss_pred             cCCHHHHHHhcCc
Confidence            7888887777753

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.38  E-value=0.016  Score=60.33  Aligned_cols=34  Identities=21%  Similarity=0.543  Sum_probs=30.5

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++..+..|..+.++||+|+||||+++.++...
T Consensus       166 ~~l~~~i~~G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          166 SFLRRAVQLERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             HHHHHHHHTTCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             HHHHHHHhcCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            5567888999999999999999999999998765

>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=95.35  E-value=0.0073  Score=57.62  Aligned_cols=27  Identities=22%  Similarity=0.409  Sum_probs=23.8

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..|.-+.|+||+|+|||++++.++..+
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            457789999999999999999998865

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.34  E-value=0.0094  Score=57.41  Aligned_cols=31  Identities=26%  Similarity=0.473  Sum_probs=23.7

Q ss_pred             HHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        400 EKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       400 ~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.-+..|..+.|+||+|+|||++++.++...
T Consensus        17 sl~i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           17 RGSMNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             -----CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             ceecCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3446678999999999999999999888754

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.33  E-value=0.0086  Score=56.32  Aligned_cols=27  Identities=26%  Similarity=0.437  Sum_probs=23.6

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..|..+.|+||+|||||++++.+...+
T Consensus         4 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            4 EKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            457789999999999999999888765

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.33  E-value=0.0095  Score=54.82  Aligned_cols=24  Identities=33%  Similarity=0.704  Sum_probs=21.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.++|+||||||||++++.++..+
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            369999999999999999998876

>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=95.33  E-value=0.0092  Score=56.90  Aligned_cols=26  Identities=19%  Similarity=0.511  Sum_probs=23.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|+.+.|+||+|+|||++++.++...
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            57889999999999999999998765

>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=95.29  E-value=0.0069  Score=56.30  Aligned_cols=25  Identities=24%  Similarity=0.430  Sum_probs=22.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..++|+|+||||||++++.+...+
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4568999999999999999998876

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=95.23  E-value=0.02  Score=54.25  Aligned_cols=48  Identities=17%  Similarity=0.041  Sum_probs=33.3

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHH
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      ..|.-++|+||+|+|||+++..++. . .  ...++.+......++..+...
T Consensus        18 ~~G~~~~i~G~~GsGKTtl~~~l~~-~-~--~~~v~~i~~~~~~~~~~~~~~   65 (220)
T 2cvh_A           18 APGVLTQVYGPYASGKTTLALQTGL-L-S--GKKVAYVDTEGGFSPERLVQM   65 (220)
T ss_dssp             CTTSEEEEECSTTSSHHHHHHHHHH-H-H--CSEEEEEESSCCCCHHHHHHH
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHH-H-c--CCcEEEEECCCCCCHHHHHHH
Confidence            3567889999999999999999887 2 1  334555655444455555543

>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=95.22  E-value=0.01  Score=56.03  Aligned_cols=32  Identities=25%  Similarity=0.314  Sum_probs=26.4

Q ss_pred             HHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        400 EKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       400 ~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ......+.-+.|+||+|||||++++.++..+.
T Consensus        19 ~~~~~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           19 RLLDQKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             HHHTSCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HhcCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34445677899999999999999999988763

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.16  E-value=0.011  Score=55.78  Aligned_cols=26  Identities=31%  Similarity=0.547  Sum_probs=23.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-+.|+||+|||||++++.+...+
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            46789999999999999999988765

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.14  E-value=0.0083  Score=55.54  Aligned_cols=26  Identities=35%  Similarity=0.580  Sum_probs=22.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|..+.|+|++|||||++++.+.+.+
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35578999999999999999998765

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.12  E-value=0.011  Score=55.57  Aligned_cols=27  Identities=22%  Similarity=0.420  Sum_probs=23.2

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..|.-+.|+||+||||||+++.++..+
T Consensus         5 ~~g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            5 NKANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            457788999999999999999887754

>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=95.12  E-value=0.012  Score=54.90  Aligned_cols=25  Identities=32%  Similarity=0.485  Sum_probs=22.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .+..++|+|++|||||++++.+.+.
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3567999999999999999998886

>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=95.09  E-value=0.031  Score=53.76  Aligned_cols=27  Identities=15%  Similarity=0.156  Sum_probs=23.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+.|+||+|+|||++++.++..
T Consensus        21 i~~G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           21 IETGSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            445778999999999999999999874

>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=95.05  E-value=0.011  Score=54.31  Aligned_cols=25  Identities=36%  Similarity=0.659  Sum_probs=21.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+.|+||+|||||++++.+...+
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4578999999999999999887754

>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=95.03  E-value=0.016  Score=59.72  Aligned_cols=35  Identities=29%  Similarity=0.391  Sum_probs=30.3

Q ss_pred             HHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        396 GSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       396 ~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ...++..+..|..+.++||+|||||++++.++.-+
T Consensus       161 l~~l~~~i~~g~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          161 ISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             HHHHHHHHHHTCCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             HhhhhhhccCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34567778899999999999999999999988765

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.01  E-value=0.012  Score=55.45  Aligned_cols=24  Identities=29%  Similarity=0.526  Sum_probs=21.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-|+|+|++|||||++++.+...+
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            469999999999999999988865

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=94.98  E-value=0.013  Score=53.42  Aligned_cols=24  Identities=25%  Similarity=0.443  Sum_probs=22.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++.|+|++|||||++++.+.+.+
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999998876

>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=94.96  E-value=0.014  Score=55.94  Aligned_cols=26  Identities=19%  Similarity=0.367  Sum_probs=23.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+..++|+|+||||||++++.+++.+
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            35678999999999999999998876

>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=94.96  E-value=0.013  Score=54.71  Aligned_cols=23  Identities=39%  Similarity=0.778  Sum_probs=20.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.|+||+|+|||++++.++..+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999887654

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=94.95  E-value=0.01  Score=59.90  Aligned_cols=24  Identities=25%  Similarity=0.484  Sum_probs=21.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-++|+||||||||++++.++..+
T Consensus        34 ~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           34 TAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999999998865

>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=94.92  E-value=0.016  Score=53.68  Aligned_cols=24  Identities=25%  Similarity=0.577  Sum_probs=21.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..|+|+|+||||||++++.+.+.+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            458999999999999999998876

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.91  E-value=0.014  Score=54.50  Aligned_cols=26  Identities=19%  Similarity=0.328  Sum_probs=23.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-|.|+|++|||||++++.+.+.+
T Consensus        11 ~~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           11 KCKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             HSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999999998876

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=94.86  E-value=0.013  Score=57.72  Aligned_cols=23  Identities=30%  Similarity=0.241  Sum_probs=21.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++++||+|||||++++.++..+
T Consensus         3 li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHhcC
Confidence            47899999999999999999876

>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=94.85  E-value=0.015  Score=56.81  Aligned_cols=27  Identities=22%  Similarity=0.279  Sum_probs=22.9

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+.-+.|+||+||||||+++.+++.+
T Consensus        25 ~~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           25 SKLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             -CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            345679999999999999999998765

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.83  E-value=0.015  Score=55.67  Aligned_cols=26  Identities=27%  Similarity=0.281  Sum_probs=22.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ....++|+||+|||||++++.+++.+
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34679999999999999999998876

>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=94.82  E-value=0.015  Score=56.22  Aligned_cols=30  Identities=13%  Similarity=0.296  Sum_probs=23.8

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .....|..+.|+||+|+|||++++.++...
T Consensus        11 ~~~~~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           11 HHMAQGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             ----CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             ccCCCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            345678899999999999999999988765

>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=94.79  E-value=0.021  Score=59.45  Aligned_cols=30  Identities=30%  Similarity=0.354  Sum_probs=25.0

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .....+..++++||+||||||+++.++..+
T Consensus       118 l~~~~~g~i~I~GptGSGKTTlL~~l~g~~  147 (356)
T 3jvv_A          118 VSDVPRGLVLVTGPTGSGKSTTLAAMLDYL  147 (356)
T ss_dssp             HHHCSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHhCCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            345556689999999999999999988765

>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=94.78  E-value=0.016  Score=55.08  Aligned_cols=29  Identities=28%  Similarity=0.497  Sum_probs=23.5

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -+..|.-+-|+||+|+|||++++.++.-+
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            46678899999999999999999887754

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.78  E-value=0.019  Score=53.30  Aligned_cols=26  Identities=35%  Similarity=0.498  Sum_probs=22.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+..+.|+|++|||||++++.+...+
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35678999999999999999998876

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.76  E-value=0.014  Score=54.97  Aligned_cols=26  Identities=23%  Similarity=0.373  Sum_probs=22.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      +.-|.|+|++|||||++++.+.+.+.
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~   29 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIE   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            45689999999999999999988773

>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=94.76  E-value=0.078  Score=58.22  Aligned_cols=128  Identities=13%  Similarity=0.132  Sum_probs=70.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHH----hhcccCCc-eEEEEEeccCC--ChHHHHHHHHhhhhhhcC-----cc-------
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN----KLLASNTW-AALTINFSAQT--SSARTQEILEGKLDKRTK-----TL-------  467 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~----~l~~~~~~-~~~~i~fS~~T--t~~~lq~~ie~~l~~~~~-----~~-------  467 (583)
                      .-|.++|+.|+|||++++.+.+    ..  ...+ ..+.++.|...  +...+++.|-..+.....     ..       
T Consensus       153 ~vv~I~G~gGvGKTtLA~~v~~~~~~~~--~~~F~~~~wv~vs~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~~~  230 (549)
T 2a5y_B          153 FFLFLHGRAGSGKSVIASQALSKSDQLI--GINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVV  230 (549)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHCSSTB--TTTBSEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCCCTTCCHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHhhhHHH--hccCCcEEEEEECCCCCCCHHHHHHHHHHHHhcCcccccccccccccHHH
Confidence            4578999999999999999986    23  2223 23445666543  345555444444432110     00       


Q ss_pred             ----cc-CCCCC-eEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCCh
Q psy17974        468 ----LG-APLGK-RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTP  541 (583)
Q Consensus       468 ----~~-p~~gk-~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~  541 (583)
                          +. --.++ ++++++||+.-..          . + .|...              .+..+|.|+....     +..
T Consensus       231 l~~~l~~~L~~~kr~LlVLDdv~~~~----------~-~-~~~~~--------------~gs~ilvTTR~~~-----v~~  279 (549)
T 2a5y_B          231 LKRMICNALIDRPNTLFVFDDVVQEE----------T-I-RWAQE--------------LRLRCLVTTRDVE-----ISN  279 (549)
T ss_dssp             HHHHHHHHHTTSTTEEEEEEEECCHH----------H-H-HHHHH--------------TTCEEEEEESBGG-----GGG
T ss_pred             HHHHHHHHHcCCCcEEEEEECCCCch----------h-h-ccccc--------------CCCEEEEEcCCHH-----HHH
Confidence                00 01354 8899999986521          1 1 22211              2445666654321     111


Q ss_pred             hhhccceEEEeCCCCHHHHHHHHHHH
Q psy17974        542 RFVRHFGLLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       542 Rllr~f~vi~i~~p~~~sl~~I~~~~  567 (583)
                      ..-..-.++.++..+.++-..+|...
T Consensus       280 ~~~~~~~~~~l~~L~~~ea~~Lf~~~  305 (549)
T 2a5y_B          280 AASQTCEFIEVTSLEIDECYDFLEAY  305 (549)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHT
T ss_pred             HcCCCCeEEECCCCCHHHHHHHHHHH
Confidence            11001146888888888888887776

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=94.74  E-value=0.016  Score=53.68  Aligned_cols=25  Identities=28%  Similarity=0.349  Sum_probs=21.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|+|+|+||||||++++.+.+.+
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            3468999999999999999988765

>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=94.72  E-value=0.017  Score=54.36  Aligned_cols=24  Identities=33%  Similarity=0.469  Sum_probs=21.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++|+|+||||||++++.+.+.+
T Consensus        21 ~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           21 MRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999999998876

>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=94.72  E-value=0.018  Score=52.45  Aligned_cols=24  Identities=33%  Similarity=0.686  Sum_probs=21.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.++|+|++|||||++++.+.+.+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998876

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=94.71  E-value=0.016  Score=55.07  Aligned_cols=23  Identities=30%  Similarity=0.602  Sum_probs=20.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++|+||||||||++++.+++.+
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            47899999999999999988866

>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=94.69  E-value=0.016  Score=55.11  Aligned_cols=23  Identities=26%  Similarity=0.535  Sum_probs=20.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++|+||||||||++++.+++.+
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            48899999999999999988865

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.67  E-value=0.017  Score=55.65  Aligned_cols=26  Identities=23%  Similarity=0.326  Sum_probs=22.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ....++|+|++|||||++++.+++.+
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            34679999999999999999998866

>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=94.66  E-value=0.021  Score=54.07  Aligned_cols=92  Identities=10%  Similarity=0.068  Sum_probs=49.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhc--Cc------cccCCCCCeEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRT--KT------LLGAPLGKRLA  477 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~--~~------~~~p~~gk~~v  477 (583)
                      |+=.+++||.|+|||+.+-..+.+.. ..+..+..+.++..+....  ..+.+++.-..  ..      .+....++.-+
T Consensus         8 g~i~v~~G~mgsGKTT~ll~~a~r~~-~~g~kV~v~k~~~d~r~~~--~~i~s~~g~~~~a~~~~~~~~i~~~~~~~~dv   84 (191)
T 1xx6_A            8 GWVEVIVGPMYSGKSEELIRRIRRAK-IAKQKIQVFKPEIDNRYSK--EDVVSHMGEKEQAVAIKNSREILKYFEEDTEV   84 (191)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEEEC---------CEEECTTSCEEECEEESSSTHHHHHCCTTCSE
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEEeccCccchH--HHHHhhcCCceeeEeeCCHHHHHHHHhccCCE
Confidence            45678999999999998887777652 3455666666554332110  01111110000  00      00001123458


Q ss_pred             EEecCCCCCCcccCCCCChHHHHHHHHHh
Q psy17974        478 VFVDDVNMPKLETYGAQPPIELLRQFLDF  506 (583)
Q Consensus       478 lfiDDln~p~~d~yg~q~~lElLRq~ld~  506 (583)
                      |+|||.+.-.++      .+++|+.+.+.
T Consensus        85 ViIDEaqfl~~~------~v~~l~~l~~~  107 (191)
T 1xx6_A           85 IAIDEVQFFDDE------IVEIVNKIAES  107 (191)
T ss_dssp             EEECSGGGSCTH------HHHHHHHHHHT
T ss_pred             EEEECCCCCCHH------HHHHHHHHHhC
Confidence            999998875443      48899988775

>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=94.65  E-value=0.013  Score=54.64  Aligned_cols=24  Identities=29%  Similarity=0.552  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-+.|+||+|+|||++++.++...
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~~   26 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQL   26 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCcHHHHHHHHhccc
Confidence            457899999999999999998643

>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=94.61  E-value=0.025  Score=54.17  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=20.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++|.|||||||+|.++.+++.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999999998876

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=94.59  E-value=0.034  Score=62.43  Aligned_cols=32  Identities=22%  Similarity=0.242  Sum_probs=24.1

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +...+..+...|+.||||||||+++-.++..+
T Consensus       198 V~~al~~~~~~lI~GPPGTGKT~ti~~~I~~l  229 (646)
T 4b3f_X          198 VLFALSQKELAIIHGPPGTGKTTTVVEIILQA  229 (646)
T ss_dssp             HHHHHHCSSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHhcCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            44455555678999999999999877766554

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=94.58  E-value=0.015  Score=57.91  Aligned_cols=28  Identities=25%  Similarity=0.358  Sum_probs=24.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.++||+|||||++++.++..+
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            6778899999999999999999887755

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=94.58  E-value=0.01  Score=54.69  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=19.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l  427 (583)
                      .|.-+.|+||+|||||++++.++
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            46678999999999999999643

>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=94.57  E-value=0.019  Score=53.85  Aligned_cols=26  Identities=23%  Similarity=0.441  Sum_probs=23.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+..+.|+|++|||||++++.+.+.+
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            46679999999999999999998865

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=94.55  E-value=0.037  Score=52.67  Aligned_cols=28  Identities=21%  Similarity=0.218  Sum_probs=23.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+|||++++.++...
T Consensus        22 i~~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           22 IETQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4467789999999999999999997643

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.52  E-value=0.019  Score=54.15  Aligned_cols=26  Identities=19%  Similarity=0.417  Sum_probs=23.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-+.|+|++|||||++++.+.+.+
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35678999999999999999998876

>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=94.52  E-value=0.054  Score=52.74  Aligned_cols=31  Identities=35%  Similarity=0.445  Sum_probs=24.0

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+++ +.+++++||+|+|||.++..++...
T Consensus       102 i~~~~~-~~~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A          102 LERWLV-DKRGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             HHHHTT-TSEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             HHHHHh-CCCEEEEeCCCCCHHHHHHHHHHHc
Confidence            344444 4569999999999999988777754

>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=94.50  E-value=0.034  Score=54.32  Aligned_cols=25  Identities=20%  Similarity=0.349  Sum_probs=21.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..++|+||||||||++++.+.+.+
T Consensus        29 ~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           29 DGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3458999999999999999998865

>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=94.49  E-value=0.02  Score=54.13  Aligned_cols=27  Identities=22%  Similarity=0.416  Sum_probs=23.6

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+..+.|+|++|||||++++.+.+.+
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            7 RRGALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            346679999999999999999998876

>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=94.48  E-value=0.02  Score=54.73  Aligned_cols=25  Identities=20%  Similarity=0.453  Sum_probs=21.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+.|+||+||||||+++.+...+
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4568999999999999999888765

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=94.46  E-value=0.02  Score=53.46  Aligned_cols=23  Identities=30%  Similarity=0.564  Sum_probs=21.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.|+|++||||||+++.+.+.+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            47899999999999999998876

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=94.45  E-value=0.02  Score=54.54  Aligned_cols=28  Identities=25%  Similarity=0.362  Sum_probs=23.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-++|+||+|+|||++++.++...
T Consensus        20 i~~G~~~~i~G~~GsGKTtl~~~l~~~~   47 (235)
T 2w0m_A           20 IPQGFFIALTGEPGTGKTIFSLHFIAKG   47 (235)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3457789999999999999999988654

>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=94.44  E-value=0.02  Score=52.88  Aligned_cols=24  Identities=25%  Similarity=0.401  Sum_probs=21.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+.|+|++|||||++++.+.+.+
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999999988866

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=94.43  E-value=0.016  Score=53.36  Aligned_cols=25  Identities=32%  Similarity=0.490  Sum_probs=18.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..++|+|++|||||++++.+.+.+
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4568999999999999999998876

>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=94.40  E-value=0.048  Score=67.18  Aligned_cols=40  Identities=15%  Similarity=0.142  Sum_probs=28.5

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA  445 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~  445 (583)
                      .|+++|++||||||||+++++++.+-. ..+-..++|.+-.
T Consensus      1081 ~g~~~l~~G~~g~GKT~la~~~~~~~~-~~g~~~~fi~~~~ 1120 (1706)
T 3cmw_A         1081 MGRIVEIYGPESSGKTTLTLQVIAAAQ-REGKTCAFIDAEH 1120 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEECTTS
T ss_pred             CCCEEEEEcCCCCChHHHHHHHHHHhh-hcCCceeEEEccc
Confidence            356699999999999999999987532 1233455666533

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.35  E-value=0.024  Score=54.26  Aligned_cols=25  Identities=24%  Similarity=0.444  Sum_probs=22.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..++|+|+||||||++++.+.+.+
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            4578999999999999999998876

>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=94.35  E-value=0.029  Score=51.72  Aligned_cols=26  Identities=35%  Similarity=0.510  Sum_probs=22.5

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|..+.|+|++|||||++++.+...+
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            35678999999999999999888765

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=94.35  E-value=0.054  Score=55.34  Aligned_cols=54  Identities=17%  Similarity=0.166  Sum_probs=35.2

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccC-----CceEEEEEeccCCChHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASN-----TWAALTINFSAQTSSARTQEIL  456 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~-----~~~~~~i~fS~~Tt~~~lq~~i  456 (583)
                      +..|.-++++||||+|||+++.+++.......     +..++++.+-...++..+....
T Consensus       104 l~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~  162 (324)
T 2z43_A          104 IETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMA  162 (324)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHH
Confidence            34567899999999999999999887542221     2345555544333466555443

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=94.34  E-value=0.028  Score=54.32  Aligned_cols=25  Identities=20%  Similarity=0.397  Sum_probs=21.5

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+-++|.|||||||+|.++.+++.+
T Consensus        29 ~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           29 AKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             CEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3457889999999999999998876

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=94.29  E-value=0.037  Score=51.51  Aligned_cols=38  Identities=18%  Similarity=0.280  Sum_probs=27.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA  445 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~  445 (583)
                      .-+.++|++|+|||++++.++..+. ...+.+..+....
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~l~-~~g~~v~~i~~~~   44 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPALC-ARGIRPGLIKHTH   44 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEEECC
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcc-ccCCceeEEeeCC
Confidence            4578999999999999999988763 3344555555543

>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=94.23  E-value=0.058  Score=51.92  Aligned_cols=93  Identities=11%  Similarity=0.065  Sum_probs=48.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhc--------CccccCCCCCeEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRT--------KTLLGAPLGKRLA  477 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~--------~~~~~p~~gk~~v  477 (583)
                      |+=.+++||.|+|||+.+-..+.+.. ..+..+..+.+...+....  ..+.+++.-..        ...+.-..++.-+
T Consensus        28 G~l~vitG~MgsGKTT~lL~~a~r~~-~~g~kVli~k~~~d~R~ge--~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~dv  104 (214)
T 2j9r_A           28 GWIEVICGSMFSGKSEELIRRVRRTQ-FAKQHAIVFKPCIDNRYSE--EDVVSHNGLKVKAVPVSASKDIFKHITEEMDV  104 (214)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEEECC-------------------CCEEECSSGGGGGGGCCSSCCE
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEEeccCCcchH--HHHHhhcCCeeEEeecCCHHHHHHHHhcCCCE
Confidence            44457899999999998777766552 3455666666655432211  11222221000        0111111223458


Q ss_pred             EEecCCCCCCcccCCCCChHHHHHHHHHhC
Q psy17974        478 VFVDDVNMPKLETYGAQPPIELLRQFLDFG  507 (583)
Q Consensus       478 lfiDDln~p~~d~yg~q~~lElLRq~ld~~  507 (583)
                      |+|||++.-..+      .+++|+.+.+.|
T Consensus       105 ViIDEaQF~~~~------~V~~l~~l~~~~  128 (214)
T 2j9r_A          105 IAIDEVQFFDGD------IVEVVQVLANRG  128 (214)
T ss_dssp             EEECCGGGSCTT------HHHHHHHHHHTT
T ss_pred             EEEECcccCCHH------HHHHHHHHhhCC
Confidence            999999985544      468999887753

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=94.21  E-value=0.024  Score=53.23  Aligned_cols=24  Identities=17%  Similarity=0.358  Sum_probs=21.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+.|+|++|||||++++.+++.+
T Consensus        16 ~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           16 SVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            358999999999999999998865

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.20  E-value=0.028  Score=54.16  Aligned_cols=49  Identities=16%  Similarity=0.274  Sum_probs=32.0

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQE  454 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~  454 (583)
                      +..|.-++++||||+|||+++.+++..... .+..++.+.  ...++.++.+
T Consensus        20 l~~G~~~~i~G~~GsGKTtl~~~~~~~~~~-~~~~v~~~~--~e~~~~~~~~   68 (247)
T 2dr3_A           20 IPERNVVLLSGGPGTGKTIFSQQFLWNGLK-MGEPGIYVA--LEEHPVQVRQ   68 (247)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHHHHHHH-TTCCEEEEE--SSSCHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHHh-cCCeEEEEE--ccCCHHHHHH
Confidence            456788999999999999998888765422 233444443  3344444443

>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=94.19  E-value=0.025  Score=54.71  Aligned_cols=26  Identities=19%  Similarity=0.307  Sum_probs=23.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+..++|+|++|||||++++.+.+.+
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34679999999999999999998876

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=94.15  E-value=0.015  Score=57.13  Aligned_cols=24  Identities=25%  Similarity=0.501  Sum_probs=21.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++|+|+||||||++++.+...+
T Consensus        33 ~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           33 IAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             EEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            358999999999999999998876

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=94.14  E-value=0.027  Score=51.09  Aligned_cols=23  Identities=22%  Similarity=0.356  Sum_probs=20.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.|+|++|||||++++.+.+.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999988866

>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=94.08  E-value=0.04  Score=51.09  Aligned_cols=37  Identities=16%  Similarity=0.247  Sum_probs=28.1

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA  445 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~  445 (583)
                      -+.++|++|||||+++..++..+. ..++.+..+....
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~l~-~~g~~v~~ik~~~   42 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAAAV-REGWRVGTVKHHG   42 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEECCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhH-hcCCeeeEEEeCC
Confidence            468999999999999999998773 3455666665433

>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=94.06  E-value=0.025  Score=53.84  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=20.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++|+|+||||||++++.+.+.+
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            47999999999999999998866

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.06  E-value=0.029  Score=55.42  Aligned_cols=25  Identities=28%  Similarity=0.545  Sum_probs=23.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+.|+|++|||||++++.++..+
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            8899999999999999999998866

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=94.06  E-value=0.034  Score=59.82  Aligned_cols=37  Identities=22%  Similarity=0.457  Sum_probs=27.2

Q ss_pred             hhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        393 IRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       393 ~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +|....+..+. .|+.++|+||+|+|||++++.++...
T Consensus       139 ir~ID~L~pi~-kGq~~~i~G~sGvGKTtL~~~l~~~~  175 (473)
T 1sky_E          139 IKVVDLLAPYI-KGGKIGLFGGAGVGKTVLIQELIHNI  175 (473)
T ss_dssp             CHHHHHHSCEE-TTCEEEEECCSSSCHHHHHHHHHHHH
T ss_pred             chHHHHHhhhc-cCCEEEEECCCCCCccHHHHHHHhhh
Confidence            44444443333 36789999999999999999887754

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.05  E-value=0.028  Score=52.01  Aligned_cols=33  Identities=24%  Similarity=0.400  Sum_probs=24.5

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEE
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTI  441 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i  441 (583)
                      .+.|+|++|||||++++.+.+.+. ..++.++..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~-~~g~~~i~~   34 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK-QKGYFVSLY   34 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEE
Confidence            478999999999999999988762 224444433

>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=94.02  E-value=0.023  Score=59.49  Aligned_cols=28  Identities=25%  Similarity=0.358  Sum_probs=24.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|..++++||+|||||++++.++..+
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            5677889999999999999999988765

>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=94.00  E-value=0.025  Score=55.86  Aligned_cols=25  Identities=28%  Similarity=0.568  Sum_probs=21.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..-++|+|+||||||++++.+...+
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3468999999999999999998865

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=93.96  E-value=0.15  Score=60.07  Aligned_cols=51  Identities=25%  Similarity=0.330  Sum_probs=32.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh--hcccCCceEEEEEeccCCChHHHHHHH
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK--LLASNTWAALTINFSAQTSSARTQEIL  456 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~--l~~~~~~~~~~i~fS~~Tt~~~lq~~i  456 (583)
                      .+-|.++|+.|+|||++++.+.+.  ...........++.+...+...+...+
T Consensus       150 ~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~L  202 (1221)
T 1vt4_I          150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML  202 (1221)
T ss_dssp             SCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHH
T ss_pred             CeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHH
Confidence            356899999999999999988753  111111234566777665655544433

>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=93.94  E-value=0.024  Score=51.92  Aligned_cols=28  Identities=29%  Similarity=0.392  Sum_probs=24.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||.|+|||++++.++..+
T Consensus        30 i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           30 TEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            3567789999999999999999998866

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=93.90  E-value=0.047  Score=57.28  Aligned_cols=33  Identities=12%  Similarity=0.195  Sum_probs=25.6

Q ss_pred             HHHHHH--hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        398 IMEKLL--LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       398 ll~~~l--~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++.++  ..|+.++++||+|+|||++++.+++..
T Consensus       164 aID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i  198 (422)
T 3ice_A          164 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI  198 (422)
T ss_dssp             HHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             eeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHH
Confidence            344443  357899999999999999999877643

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=93.90  E-value=0.05  Score=57.84  Aligned_cols=28  Identities=29%  Similarity=0.316  Sum_probs=23.8

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ..+.-++++||+||||||+++.++..+.
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            3455789999999999999999988763

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=93.90  E-value=0.024  Score=53.83  Aligned_cols=26  Identities=23%  Similarity=0.441  Sum_probs=22.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|.-+-|+||+||||||+++.+...+
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45678899999999999999887765

>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=93.90  E-value=0.021  Score=53.96  Aligned_cols=23  Identities=22%  Similarity=0.471  Sum_probs=20.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -+.++|++||||||+++.+...+
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            36899999999999999998876

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=93.87  E-value=0.049  Score=52.41  Aligned_cols=50  Identities=20%  Similarity=0.217  Sum_probs=31.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEIL  456 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~i  456 (583)
                      .|.-++++|+||+|||+++.+++.+.....+..+..  +|...++.++.+.+
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~--~s~E~~~~~~~~~~   78 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVF--VTLEERARDLRREM   78 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEE--EESSSCHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcee--ecccCCHHHHHHHH
Confidence            467799999999999999988764321111223333  45556666655443

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=93.83  E-value=0.031  Score=53.73  Aligned_cols=23  Identities=22%  Similarity=0.393  Sum_probs=20.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++|+|++|||||++++.+.+.+
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            47899999999999999998876

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=93.83  E-value=0.082  Score=58.20  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=20.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .+-|.++||+|+|||+++..+++.
T Consensus       147 ~~~v~I~G~~GiGKTtLa~~~~~~  170 (591)
T 1z6t_A          147 PGWVTIHGMAGCGKSVLAAEAVRD  170 (591)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CceEEEEcCCCCCHHHHHHHHHhc
Confidence            457899999999999999988753

>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=93.81  E-value=0.031  Score=53.18  Aligned_cols=28  Identities=21%  Similarity=0.340  Sum_probs=24.3

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+..+.|+|++|||||++++.+...+
T Consensus        22 ~~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           22 NQRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4567788999999999999999988766

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=93.79  E-value=0.04  Score=55.27  Aligned_cols=29  Identities=21%  Similarity=0.184  Sum_probs=25.2

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -+..|.-+.|+||||+|||++++.++..+
T Consensus        31 ~l~~G~~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           31 GARGGEVIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             SBCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            35678889999999999999999987765

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=93.75  E-value=0.031  Score=56.94  Aligned_cols=32  Identities=22%  Similarity=0.321  Sum_probs=26.6

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..-+..|.-+.|+||+|+|||++++.++.-+
T Consensus       119 vsl~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          119 WLKGIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             HHHTCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             ceEEecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            34456778899999999999999999887654

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=93.73  E-value=0.018  Score=55.50  Aligned_cols=28  Identities=29%  Similarity=0.407  Sum_probs=18.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHH-Hhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSIL-NKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l-~~l  430 (583)
                      +..|.-+.|+||+|||||++++.++ ..+
T Consensus        24 v~~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           24 KSVGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EECCCEEEEECSCC----CHHHHHHC---
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4457788999999999999999888 543

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=93.72  E-value=0.028  Score=55.27  Aligned_cols=29  Identities=17%  Similarity=0.429  Sum_probs=24.7

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +...+..+-|+||+|||||++++.+++.+
T Consensus        23 m~~~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           23 MTAIAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             CTTTSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cCCCCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            33556789999999999999999998766

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.69  E-value=0.041  Score=51.91  Aligned_cols=25  Identities=36%  Similarity=0.506  Sum_probs=21.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |..+.|+||+|+|||++++.++..+
T Consensus         1 G~~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhc
Confidence            4568999999999999999887654

>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=93.67  E-value=0.14  Score=53.29  Aligned_cols=39  Identities=18%  Similarity=0.100  Sum_probs=28.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      .|.-++++||||+|||+++.+++.... ..+..+.++...
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~-~~g~~vlyi~~E  111 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQ-KAGGTCAFIDAE  111 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHH-HCCCeEEEEECC
Confidence            567799999999999999998876542 223345555443

>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=93.57  E-value=0.027  Score=53.67  Aligned_cols=26  Identities=31%  Similarity=0.438  Sum_probs=22.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++.|+++||||+|||+++..+++..
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            36789999999999999999998764

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.55  E-value=0.053  Score=55.60  Aligned_cols=24  Identities=29%  Similarity=0.468  Sum_probs=21.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++|+||+|||||++++.+++.+
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            368999999999999999999876

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=93.49  E-value=0.048  Score=52.19  Aligned_cols=32  Identities=25%  Similarity=0.241  Sum_probs=25.7

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .+++. +..|.-+.|+||+|+|||++++.++.-
T Consensus        14 ~~l~~-i~~Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           14 HYVDA-IDTNTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             HHHHH-HHHCSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             HHHHh-ccCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34444 478889999999999999999987653

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=93.48  E-value=0.039  Score=49.25  Aligned_cols=23  Identities=17%  Similarity=0.257  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            47899999999999999999874

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.45  E-value=0.04  Score=48.90  Aligned_cols=22  Identities=32%  Similarity=0.525  Sum_probs=20.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998864

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=93.38  E-value=0.04  Score=49.20  Aligned_cols=23  Identities=17%  Similarity=0.379  Sum_probs=20.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            4 IKLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            36899999999999999999864

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=93.36  E-value=0.042  Score=48.82  Aligned_cols=23  Identities=26%  Similarity=0.431  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999998864

>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=93.34  E-value=0.041  Score=51.67  Aligned_cols=22  Identities=36%  Similarity=0.523  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.|+|++|||||++++.+.. +
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~   24 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-L   24 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-T
T ss_pred             EEEEECCCCcCHHHHHHHHHH-C
Confidence            588999999999999998887 5

>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=93.33  E-value=0.03  Score=52.93  Aligned_cols=25  Identities=32%  Similarity=0.514  Sum_probs=21.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.-+.++|++|||||++++.+...+
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            4568899999999999999887754

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.30  E-value=0.038  Score=52.19  Aligned_cols=26  Identities=27%  Similarity=0.349  Sum_probs=21.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-+-|+||+||||||+++.+...+
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34568899999999999999887755

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=93.30  E-value=0.061  Score=55.80  Aligned_cols=32  Identities=22%  Similarity=0.430  Sum_probs=25.2

Q ss_pred             HHHHHhcCCc--eEEEccCCCcHHHHHHHHHHhh
Q psy17974        399 MEKLLLVNHP--VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       399 l~~~l~~~~~--vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +...+..|..  ++|+||+|+|||++++.++..+
T Consensus        15 l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A           15 LDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             HHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            3444556655  9999999999999999887765

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=93.28  E-value=0.038  Score=57.96  Aligned_cols=28  Identities=25%  Similarity=0.344  Sum_probs=24.7

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+..++|+||+|||||++++.++...
T Consensus       166 i~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          166 IPKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            5567889999999999999999988764

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=93.25  E-value=0.031  Score=54.53  Aligned_cols=28  Identities=21%  Similarity=0.145  Sum_probs=23.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||+||||||+++.++.-+
T Consensus        28 i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           28 IKEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4467889999999999999999876544

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=93.25  E-value=0.043  Score=48.56  Aligned_cols=22  Identities=23%  Similarity=0.564  Sum_probs=20.1

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            6899999999999999999864

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=93.23  E-value=0.035  Score=57.27  Aligned_cols=24  Identities=21%  Similarity=0.461  Sum_probs=22.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.++|+||+|||||+++..+++.+
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHC
Confidence            468999999999999999999876

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=93.20  E-value=0.044  Score=48.99  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            47899999999999999999875

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=93.17  E-value=0.045  Score=48.64  Aligned_cols=23  Identities=30%  Similarity=0.611  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999998864

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=93.17  E-value=0.033  Score=54.45  Aligned_cols=28  Identities=21%  Similarity=0.391  Sum_probs=23.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+||||||+++.++.-+
T Consensus        28 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           28 IPEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568889999999999999999887644

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=93.14  E-value=0.045  Score=49.47  Aligned_cols=23  Identities=26%  Similarity=0.470  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            36899999999999999999864

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=93.12  E-value=0.12  Score=53.39  Aligned_cols=51  Identities=14%  Similarity=0.044  Sum_probs=33.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhccc-----CCceEEEEEeccCCChHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLAS-----NTWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~-----~~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      .|.-++++||||+|||+++.+++.....+     ....++++......++..+...
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~  176 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDI  176 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHH
Confidence            45678999999999999999988753111     1334555554433346655544

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=93.10  E-value=0.047  Score=48.82  Aligned_cols=23  Identities=22%  Similarity=0.501  Sum_probs=20.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            36899999999999999998864

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=93.08  E-value=0.1  Score=49.18  Aligned_cols=35  Identities=20%  Similarity=0.279  Sum_probs=26.0

Q ss_pred             HHHHHHHHh----cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        396 GSIMEKLLL----VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       396 ~~ll~~~l~----~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+.+.+.+    .+.-+.|+||+|||||++++.+...+
T Consensus         8 ~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            8 DFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             HHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            345555554    23458999999999999999887765

>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=93.06  E-value=0.081  Score=51.29  Aligned_cols=35  Identities=23%  Similarity=0.490  Sum_probs=27.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTI  441 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i  441 (583)
                      .|.-+.+.||+|||||++++.+...+. . .+.++..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~-~-~~~~~~~   59 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLV-K-DYDVIMT   59 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHT-T-TSCEEEE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHh-c-CCCceee
Confidence            466789999999999999999998874 2 4445443

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.05  E-value=0.044  Score=54.71  Aligned_cols=23  Identities=22%  Similarity=0.590  Sum_probs=20.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++.|+||+|+||||+++.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999999987654

>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=93.05  E-value=0.045  Score=51.57  Aligned_cols=21  Identities=38%  Similarity=0.446  Sum_probs=18.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .+.|+||+|||||++++.+..
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998865

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=92.99  E-value=0.034  Score=53.79  Aligned_cols=28  Identities=18%  Similarity=0.107  Sum_probs=23.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        27 i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           27 VKKGEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EETTCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567889999999999999999876543

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.98  E-value=0.037  Score=49.54  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            47899999999999999999863

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=92.98  E-value=0.051  Score=49.18  Aligned_cols=23  Identities=35%  Similarity=0.530  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         9 ~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            9 LKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            47899999999999999998864

>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=92.97  E-value=0.071  Score=51.53  Aligned_cols=26  Identities=31%  Similarity=0.466  Sum_probs=20.9

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHH
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l  427 (583)
                      .+..|+.++++||+|||||+++...+
T Consensus        72 ~i~~g~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           72 AISQNSVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             HHHHCSEEEEECCTTSSHHHHHHHHH
T ss_pred             HHhcCCEEEEEeCCCCCcHHhHHHHH
Confidence            34568899999999999998766543

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=92.96  E-value=0.052  Score=50.65  Aligned_cols=23  Identities=26%  Similarity=0.450  Sum_probs=20.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|.++|++|+|||++++.+...
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            36899999999999999998874

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=92.96  E-value=0.051  Score=50.57  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+.|+|++|+|||++++.++...
T Consensus        30 ~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           30 FKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            368999999999999999988753

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=92.94  E-value=0.052  Score=48.58  Aligned_cols=23  Identities=26%  Similarity=0.296  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            47899999999999999999864

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=92.93  E-value=0.053  Score=48.30  Aligned_cols=23  Identities=22%  Similarity=0.411  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            36899999999999999999864

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=92.91  E-value=0.04  Score=53.06  Aligned_cols=28  Identities=32%  Similarity=0.506  Sum_probs=23.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        32 i~~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           32 IEKGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             EETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568889999999999999999877644

>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=92.88  E-value=0.058  Score=52.68  Aligned_cols=26  Identities=31%  Similarity=0.438  Sum_probs=22.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+..+.+.||+|||||++++.+...+
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34578999999999999999998876

>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=92.84  E-value=0.052  Score=54.35  Aligned_cols=22  Identities=32%  Similarity=0.539  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      -++|+|+||||||++++.+...
T Consensus         4 ~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            4 IILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4799999999999999998874

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.81  E-value=0.058  Score=50.91  Aligned_cols=25  Identities=16%  Similarity=0.287  Sum_probs=21.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ...|+++|++|+|||++++.+....
T Consensus        12 ~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           12 QPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3579999999999999999998753

>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=92.80  E-value=0.048  Score=50.86  Aligned_cols=24  Identities=29%  Similarity=0.268  Sum_probs=20.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|.|+|++|||||++++.+.+.
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC
Confidence            345899999999999999988763

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=92.80  E-value=0.055  Score=48.67  Aligned_cols=23  Identities=39%  Similarity=0.479  Sum_probs=20.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCccHHHHHHHHhcC
Confidence            36899999999999999988753

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=92.80  E-value=0.051  Score=50.62  Aligned_cols=25  Identities=20%  Similarity=0.470  Sum_probs=22.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+.||++|++|+|||+++..++..
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            4789999999999999999998874

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=92.79  E-value=0.059  Score=48.01  Aligned_cols=22  Identities=18%  Similarity=0.376  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999998764

>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=92.78  E-value=0.12  Score=52.32  Aligned_cols=41  Identities=17%  Similarity=0.173  Sum_probs=29.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA  445 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~  445 (583)
                      .+.-++++||+|+|||+++..++..+....+..+..+....
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~  144 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDT  144 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCc
Confidence            46688999999999999999988766322344555555443

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=92.76  E-value=0.064  Score=49.44  Aligned_cols=24  Identities=17%  Similarity=0.328  Sum_probs=21.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus        48 ~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           48 QPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            357999999999999999998874

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=92.73  E-value=0.059  Score=48.07  Aligned_cols=23  Identities=17%  Similarity=0.375  Sum_probs=20.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=92.72  E-value=0.096  Score=53.40  Aligned_cols=40  Identities=28%  Similarity=0.415  Sum_probs=31.5

Q ss_pred             chhhhHHHHHHHHHhc----------------CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        390 IDTIRFGSIMEKLLLV----------------NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       390 ~dt~r~~~ll~~~l~~----------------~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|.+....+..++..                |+.|++.|++|+|||+++..++..
T Consensus       112 ~~ts~~~~~l~~~l~~~~~~~~~~H~~~v~~~g~~vl~~G~sG~GKSt~a~~l~~~  167 (314)
T 1ko7_A          112 IATTQLMSRLTTFLEHELARTTSLHGVLVDVYGVGVLITGDSGIGKSETALELIKR  167 (314)
T ss_dssp             SCHHHHHHHHHHHHHHHTCEEEEEESEEEEETTEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CchhHHHHHHHHHHHHhhccceeeeEEEEEECCEEEEEEeCCCCCHHHHHHHHHhc
Confidence            3355555556666665                889999999999999999999874

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.72  E-value=0.057  Score=48.83  Aligned_cols=25  Identities=24%  Similarity=0.227  Sum_probs=21.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ....|+++|++|+|||++++.+...
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999998764

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=92.71  E-value=0.058  Score=48.69  Aligned_cols=23  Identities=17%  Similarity=0.378  Sum_probs=20.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|.++|++|+|||++++.+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999998763

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=92.69  E-value=0.041  Score=53.41  Aligned_cols=28  Identities=29%  Similarity=0.419  Sum_probs=24.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        31 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           31 IERGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4568889999999999999999887654

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=92.66  E-value=0.046  Score=54.35  Aligned_cols=28  Identities=14%  Similarity=0.310  Sum_probs=24.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-++|+||+|+|||+++..++..+
T Consensus        27 l~~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           27 MVAGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             ccCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            5578899999999999999999987654

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=92.61  E-value=0.14  Score=52.01  Aligned_cols=50  Identities=12%  Similarity=0.027  Sum_probs=34.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..|.-+++.|+||+|||+++.+++...... +..  .+-||...++.++..-
T Consensus        65 l~~G~l~li~G~pG~GKTtl~l~ia~~~a~~-g~~--vl~~slE~s~~~l~~R  114 (315)
T 3bh0_A           65 YKRRNFVLIAARPSMGKTAFALKQAKNMSDN-DDV--VNLHSLEMGKKENIKR  114 (315)
T ss_dssp             BCTTCEEEEECCTTSSHHHHHHHHHHHHHTT-TCE--EEEEESSSCHHHHHHH
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHHHc-CCe--EEEEECCCCHHHHHHH
Confidence            4457789999999999999999887654222 223  3446666777665543

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=92.60  E-value=0.061  Score=49.15  Aligned_cols=23  Identities=30%  Similarity=0.330  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999999864

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=92.60  E-value=0.044  Score=54.37  Aligned_cols=28  Identities=21%  Similarity=0.369  Sum_probs=23.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        43 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           43 IPSGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            4568899999999999999999887643

>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=92.58  E-value=0.096  Score=54.43  Aligned_cols=44  Identities=18%  Similarity=0.053  Sum_probs=30.2

Q ss_pred             HHHHHh-----cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        399 MEKLLL-----VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       399 l~~~l~-----~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      ++.++.     .|.-++|+||||||||+++.+++..... ....++++..
T Consensus        49 LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~-~gg~VlyId~   97 (356)
T 3hr8_A           49 IDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQK-MGGVAAFIDA   97 (356)
T ss_dssp             HHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHH-TTCCEEEEES
T ss_pred             HHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHh-cCCeEEEEec
Confidence            455555     3567899999999999999998876532 2233444443

>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=92.57  E-value=0.055  Score=55.20  Aligned_cols=24  Identities=33%  Similarity=0.426  Sum_probs=21.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++++||+|||||+++..+++.+
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhC
Confidence            457899999999999999999876

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=92.57  E-value=0.044  Score=53.93  Aligned_cols=28  Identities=18%  Similarity=0.290  Sum_probs=23.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        32 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           32 IKQGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568889999999999999999876643

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=92.57  E-value=0.052  Score=49.98  Aligned_cols=22  Identities=32%  Similarity=0.587  Sum_probs=19.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..|.++|++|+|||++++.++.
T Consensus         3 ~kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            3 MKLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999998876

>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=92.56  E-value=0.14  Score=52.89  Aligned_cols=39  Identities=21%  Similarity=0.121  Sum_probs=28.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      .|.-++++||||+|||+++.+++.... ..+..+.++...
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~-~~g~~vlyi~~E   98 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQ-AAGGIAAFIDAE   98 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEECC
Confidence            567899999999999999998876542 223345555543

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=92.56  E-value=0.071  Score=48.62  Aligned_cols=23  Identities=22%  Similarity=0.492  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            47899999999999999999864

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=92.55  E-value=0.052  Score=53.44  Aligned_cols=27  Identities=15%  Similarity=0.304  Sum_probs=23.3

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+.|+||+|+||||+++.++.-
T Consensus        26 i~~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           26 VPKGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            456788999999999999999988763

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=92.55  E-value=0.061  Score=48.58  Aligned_cols=23  Identities=26%  Similarity=0.541  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            47899999999999999999874

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=92.53  E-value=0.044  Score=54.18  Aligned_cols=28  Identities=21%  Similarity=0.306  Sum_probs=23.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        30 i~~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           30 VNKGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4567889999999999999999886543

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=92.53  E-value=0.062  Score=48.44  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.52  E-value=0.064  Score=48.49  Aligned_cols=23  Identities=17%  Similarity=0.268  Sum_probs=20.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            36899999999999999998753

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=92.50  E-value=0.053  Score=53.94  Aligned_cols=27  Identities=15%  Similarity=0.316  Sum_probs=23.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+.|+||+|+||||+++.++.-
T Consensus        43 i~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           43 VHPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            456788999999999999999988763

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=92.47  E-value=0.066  Score=47.95  Aligned_cols=21  Identities=38%  Similarity=0.608  Sum_probs=19.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .|+++|++|+|||++++.+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999998864

>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=92.46  E-value=0.065  Score=54.58  Aligned_cols=23  Identities=30%  Similarity=0.449  Sum_probs=20.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++++||+|||||+++..+++.+
T Consensus        12 ~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           12 AIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCccCHHHHHHHHHHhC
Confidence            47889999999999999999876

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=92.45  E-value=0.056  Score=49.33  Aligned_cols=25  Identities=16%  Similarity=0.339  Sum_probs=21.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .+..|.++|++|+|||++++.+...
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3557899999999999999998764

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=92.45  E-value=0.047  Score=54.22  Aligned_cols=28  Identities=21%  Similarity=0.222  Sum_probs=23.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||+|+||||+++.++.-+
T Consensus        29 i~~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           29 ARAGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567788999999999999999876543

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=92.44  E-value=0.1  Score=50.00  Aligned_cols=39  Identities=15%  Similarity=0.131  Sum_probs=29.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      .|.-+.+.|++|+|||+.++.+.+.+. ..++.++.....
T Consensus         5 ~g~~i~~eG~~gsGKsT~~~~l~~~l~-~~~~~v~~~~~p   43 (213)
T 4edh_A            5 TGLFVTLEGPEGAGKSTNRDYLAERLR-ERGIEVQLTREP   43 (213)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH-TTTCCEEEEESS
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHHH-HcCCCcccccCC
Confidence            466788999999999999999988773 345666555554

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=92.44  E-value=0.11  Score=49.23  Aligned_cols=24  Identities=29%  Similarity=0.580  Sum_probs=21.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+.++|++|+|||+++..++...
T Consensus        39 ~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           39 VAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998875

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=92.43  E-value=0.067  Score=48.21  Aligned_cols=23  Identities=26%  Similarity=0.446  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            47999999999999999999864

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=92.43  E-value=0.067  Score=47.88  Aligned_cols=24  Identities=21%  Similarity=0.411  Sum_probs=21.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            457999999999999999998764

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=92.39  E-value=0.064  Score=49.44  Aligned_cols=24  Identities=25%  Similarity=0.480  Sum_probs=21.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.++..
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999998764

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=92.38  E-value=0.064  Score=49.77  Aligned_cols=25  Identities=28%  Similarity=0.445  Sum_probs=22.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ....|+++|++|+|||++++.+...
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3468999999999999999998864

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.37  E-value=0.064  Score=49.19  Aligned_cols=23  Identities=30%  Similarity=0.599  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            47999999999999999998864

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=92.35  E-value=0.042  Score=53.85  Aligned_cols=27  Identities=22%  Similarity=0.283  Sum_probs=23.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+.|+||+|+||||+++.++.-
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           25 AQPNSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            456788999999999999999987654

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=92.34  E-value=0.049  Score=53.29  Aligned_cols=28  Identities=25%  Similarity=0.353  Sum_probs=23.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        29 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           29 VPRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4467889999999999999999887643

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=92.34  E-value=0.064  Score=47.87  Aligned_cols=22  Identities=36%  Similarity=0.552  Sum_probs=19.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..|+++|++|+|||++++.+..
T Consensus         3 ~ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            3 YKVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             CEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHcC
Confidence            4689999999999999998764

>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=92.32  E-value=0.1  Score=52.91  Aligned_cols=25  Identities=32%  Similarity=0.449  Sum_probs=21.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.-+.++||+||||||+++.++.-+
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH
Confidence            5678999999999999999887655

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=92.31  E-value=0.048  Score=54.62  Aligned_cols=27  Identities=19%  Similarity=0.249  Sum_probs=23.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|+||+|+||||+++.++.-
T Consensus        31 i~~Ge~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           31 IKRGEVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcC
Confidence            456788999999999999999987653

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=92.31  E-value=0.07  Score=48.64  Aligned_cols=23  Identities=22%  Similarity=0.524  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999864

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=92.29  E-value=0.15  Score=56.85  Aligned_cols=25  Identities=32%  Similarity=0.506  Sum_probs=21.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+++.||||||||+++..++..+
T Consensus       195 ~~~~li~GppGTGKT~~~~~~i~~l  219 (624)
T 2gk6_A          195 RPLSLIQGPPGTGKTVTSATIVYHL  219 (624)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHHH
Confidence            5678999999999999988877655

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=92.28  E-value=0.071  Score=48.30  Aligned_cols=23  Identities=17%  Similarity=0.393  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=92.27  E-value=0.071  Score=55.00  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=21.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-|.++||+|||||++++.++..+
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            358999999999999999999876

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=92.25  E-value=0.05  Score=53.61  Aligned_cols=28  Identities=14%  Similarity=0.269  Sum_probs=23.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        23 i~~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           23 VRAGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4567889999999999999999876543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=92.25  E-value=0.074  Score=48.86  Aligned_cols=23  Identities=17%  Similarity=0.340  Sum_probs=20.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         8 ~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            8 YKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999875

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=92.24  E-value=0.051  Score=54.21  Aligned_cols=28  Identities=29%  Similarity=0.369  Sum_probs=23.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        42 i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           42 LYPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            5568889999999999999999876643

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=92.22  E-value=0.066  Score=48.93  Aligned_cols=22  Identities=27%  Similarity=0.585  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            5899999999999999998864

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=92.21  E-value=0.051  Score=54.10  Aligned_cols=28  Identities=25%  Similarity=0.387  Sum_probs=23.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||+|+||||+++.++.-+
T Consensus        34 i~~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           34 IASGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EETTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4568889999999999999999886543

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=92.20  E-value=0.073  Score=48.72  Aligned_cols=23  Identities=17%  Similarity=0.378  Sum_probs=20.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|.++|++|+|||++++.+...
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36899999999999999998863

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=92.19  E-value=0.073  Score=49.08  Aligned_cols=23  Identities=30%  Similarity=0.479  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            37899999999999999998874

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=92.18  E-value=0.072  Score=48.52  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            47899999999999999999864

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=92.18  E-value=0.15  Score=52.69  Aligned_cols=28  Identities=21%  Similarity=0.218  Sum_probs=24.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|||||++++.++...
T Consensus       128 i~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          128 IETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4467789999999999999999988764

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=92.17  E-value=0.075  Score=48.27  Aligned_cols=23  Identities=30%  Similarity=0.611  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            47999999999999999998864

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=92.15  E-value=0.072  Score=48.98  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -.+|+||+|+|||++++++.--+
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHH
Confidence            56899999999999999886644

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=92.14  E-value=0.076  Score=48.05  Aligned_cols=23  Identities=35%  Similarity=0.507  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            47899999999999999998864

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=92.14  E-value=0.054  Score=53.87  Aligned_cols=28  Identities=21%  Similarity=0.252  Sum_probs=23.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||+|+||||+++.++.-+
T Consensus        47 i~~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           47 IREGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            4567889999999999999999876543

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=92.13  E-value=0.076  Score=48.77  Aligned_cols=23  Identities=22%  Similarity=0.508  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            47899999999999999999864

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=92.12  E-value=0.059  Score=54.67  Aligned_cols=26  Identities=31%  Similarity=0.459  Sum_probs=22.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|.-+.|+||+|+||||+++.++..+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45678999999999999999887765

>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=92.06  E-value=0.064  Score=56.92  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=21.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..-|+|+|+||||||++++.++..+
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhc
Confidence            3567899999999999999988765

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=92.03  E-value=0.17  Score=51.28  Aligned_cols=26  Identities=27%  Similarity=0.299  Sum_probs=22.4

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|.-++++||||+|||+++.+++..
T Consensus        96 ~~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           96 ESQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34667899999999999999998764

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=92.01  E-value=0.055  Score=53.42  Aligned_cols=28  Identities=21%  Similarity=0.267  Sum_probs=23.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        28 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           28 LNKGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EETTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4567889999999999999999887644

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=92.00  E-value=0.057  Score=53.43  Aligned_cols=28  Identities=25%  Similarity=0.280  Sum_probs=23.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        38 i~~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           38 IEEGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567889999999999999999876543

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=91.98  E-value=0.072  Score=51.90  Aligned_cols=29  Identities=24%  Similarity=0.296  Sum_probs=22.7

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -+..+.-+-|+||+||||||+++.+...+
T Consensus        21 ~i~~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           21 QSMRPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             --CCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34556668999999999999999887654

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=91.97  E-value=0.072  Score=49.38  Aligned_cols=37  Identities=14%  Similarity=0.170  Sum_probs=25.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      +-+.++||+|||||++++.++.-+. +..+..-.+.+.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~-~~g~~~G~I~~d   39 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILR-ERGLRVAVVKRH   39 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHH-HTTCCEEEEEC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhh-hcCCceEEEEEc
Confidence            3578999999999999999888663 333333344443

>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=91.96  E-value=0.086  Score=49.30  Aligned_cols=23  Identities=35%  Similarity=0.476  Sum_probs=20.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.|.|++|||||++++.+...+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            57899999999999999988866

>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=91.94  E-value=0.085  Score=51.61  Aligned_cols=23  Identities=30%  Similarity=0.382  Sum_probs=20.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -|.|+|++|||||++++.+...+
T Consensus        24 iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           24 LIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999888766

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=91.92  E-value=0.079  Score=49.19  Aligned_cols=23  Identities=30%  Similarity=0.611  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            47899999999999999998864

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=91.92  E-value=0.059  Score=53.57  Aligned_cols=27  Identities=19%  Similarity=0.313  Sum_probs=23.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+.|+||+|+||||+++.++.-
T Consensus        30 i~~Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           30 INEGECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            456788999999999999999987653

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=91.90  E-value=0.084  Score=48.38  Aligned_cols=23  Identities=17%  Similarity=0.303  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999874

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=91.89  E-value=0.076  Score=47.95  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999988753

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=91.88  E-value=0.059  Score=54.07  Aligned_cols=28  Identities=18%  Similarity=0.260  Sum_probs=23.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||+|+||||+++.++.-+
T Consensus        44 i~~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           44 IAKGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4567889999999999999999876543

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=91.87  E-value=0.097  Score=47.44  Aligned_cols=24  Identities=25%  Similarity=0.174  Sum_probs=21.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            467999999999999999998864

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=91.87  E-value=0.082  Score=48.03  Aligned_cols=23  Identities=26%  Similarity=0.254  Sum_probs=20.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999998864

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=91.86  E-value=0.084  Score=48.55  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            37899999999999999998864

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=91.85  E-value=0.21  Score=52.65  Aligned_cols=26  Identities=12%  Similarity=0.124  Sum_probs=22.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +..|.-+.|+||+|||||+++..++-
T Consensus       175 I~~Gei~~I~G~sGsGKTTLl~~la~  200 (400)
T 3lda_A          175 VETGSITELFGEFRTGKSQLCHTLAV  200 (400)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCCcEEEEEcCCCCChHHHHHHHHH
Confidence            44567899999999999999998753

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=91.83  E-value=0.036  Score=52.02  Aligned_cols=25  Identities=24%  Similarity=0.360  Sum_probs=21.1

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..+..|.|+|++|+|||++++.++.
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhC
Confidence            3456799999999999999987754

>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=91.82  E-value=0.077  Score=50.44  Aligned_cols=23  Identities=35%  Similarity=0.458  Sum_probs=19.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHH
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +.-+.|+|++|||||++++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999998865

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=91.80  E-value=0.086  Score=48.48  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            47999999999999999998864

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=91.79  E-value=0.056  Score=49.18  Aligned_cols=24  Identities=21%  Similarity=0.386  Sum_probs=20.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ....|+++|++|+|||++++.+..
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            456899999999999999988764

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=91.75  E-value=0.17  Score=47.76  Aligned_cols=25  Identities=24%  Similarity=0.481  Sum_probs=22.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -..+.++|++|+|||++++.++..+
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999998875

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=91.70  E-value=0.087  Score=48.73  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            47999999999999999999864

>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=91.70  E-value=0.22  Score=51.74  Aligned_cols=38  Identities=16%  Similarity=0.155  Sum_probs=28.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      .+.-++++||||+|||+++.+++.... ..+..+.++..
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~-~~g~~vlyid~   99 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQ-REGKTCAFIDA   99 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEES
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEeC
Confidence            567899999999999999999876542 22334555554

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=91.68  E-value=0.095  Score=48.36  Aligned_cols=23  Identities=22%  Similarity=0.252  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            47999999999999999988874

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=91.67  E-value=0.12  Score=54.72  Aligned_cols=35  Identities=20%  Similarity=0.244  Sum_probs=26.9

Q ss_pred             HHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        395 FGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       395 ~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ....++.....+..+-|+||+|+||||+++.++.-
T Consensus        58 i~~~L~~~~~~~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           58 ISDALKEIDSSVLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             HHHHHHHHHHCCEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             hhhhhhhcccCCeEEEEECCCCCcHHHHHHHHhCC
Confidence            33445555555558999999999999999988764

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=91.65  E-value=0.092  Score=48.46  Aligned_cols=23  Identities=22%  Similarity=0.314  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhcC
Confidence            47899999999999999999875

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=91.61  E-value=0.092  Score=47.71  Aligned_cols=23  Identities=17%  Similarity=0.354  Sum_probs=20.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            47899999999999999999853

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=91.60  E-value=0.075  Score=55.29  Aligned_cols=27  Identities=26%  Similarity=0.389  Sum_probs=23.0

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|+||+||||||+++.++.-
T Consensus        27 i~~Ge~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           27 LDPGEILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             EcCCCEEEEECCCCchHHHHHHHHhcC
Confidence            446778899999999999999988753

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=91.59  E-value=0.11  Score=56.03  Aligned_cols=32  Identities=19%  Similarity=0.252  Sum_probs=26.9

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++.-+..|.-+.|+||+|||||++++.++.-.
T Consensus       131 vsl~i~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          131 IRMSNFEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             HHHHSSSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CceEeCCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            45557788999999999999999999887643

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=91.59  E-value=0.13  Score=47.27  Aligned_cols=25  Identities=24%  Similarity=0.410  Sum_probs=21.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ....|+++|++|+|||++++.+...
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999998853

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=91.58  E-value=0.095  Score=48.09  Aligned_cols=23  Identities=22%  Similarity=0.449  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            47999999999999999999874

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=91.58  E-value=0.098  Score=48.26  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCcHHHHHHHHHhC
Confidence            47999999999999999998864

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=91.55  E-value=0.096  Score=48.26  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=21.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.++..
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcC
Confidence            457999999999999999999864

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=91.55  E-value=0.096  Score=48.18  Aligned_cols=23  Identities=22%  Similarity=0.472  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            36899999999999999999874

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=91.48  E-value=0.098  Score=48.25  Aligned_cols=23  Identities=30%  Similarity=0.469  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            37899999999999999998864

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=91.48  E-value=0.17  Score=53.08  Aligned_cols=34  Identities=18%  Similarity=0.260  Sum_probs=26.3

Q ss_pred             HHHHHHH--hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        397 SIMEKLL--LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       397 ~ll~~~l--~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++.++  ..|+..+++|++|+|||+++..+++..
T Consensus       164 raID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i  199 (427)
T 3l0o_A          164 RLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGI  199 (427)
T ss_dssp             HHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHH
T ss_pred             hhhhhcccccCCceEEEecCCCCChhHHHHHHHHHH
Confidence            3345553  347899999999999999998887643

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=91.47  E-value=0.093  Score=48.79  Aligned_cols=23  Identities=22%  Similarity=0.333  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999998864

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=91.46  E-value=0.098  Score=48.66  Aligned_cols=23  Identities=39%  Similarity=0.570  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            9 LKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            47899999999999999999874

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=91.46  E-value=0.1  Score=48.39  Aligned_cols=24  Identities=25%  Similarity=0.494  Sum_probs=20.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999998863

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=91.44  E-value=0.094  Score=51.30  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=20.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-+-|+||+|+||||+++.++.-+
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            567899999999999999887643

>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=91.40  E-value=0.13  Score=52.28  Aligned_cols=36  Identities=19%  Similarity=0.325  Sum_probs=25.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTIN  442 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~  442 (583)
                      +.-++++||+|+|||+++..++..+. +.+..+..+.
T Consensus       104 ~~vi~ivG~~GsGKTTl~~~LA~~l~-~~g~kV~lv~  139 (306)
T 1vma_A          104 PFVIMVVGVNGTGKTTSCGKLAKMFV-DEGKSVVLAA  139 (306)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             CeEEEEEcCCCChHHHHHHHHHHHHH-hcCCEEEEEc
Confidence            45679999999999999999887663 2333444443

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=91.39  E-value=0.097  Score=48.84  Aligned_cols=23  Identities=22%  Similarity=0.469  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999998864

>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=91.39  E-value=0.21  Score=53.33  Aligned_cols=39  Identities=13%  Similarity=0.227  Sum_probs=29.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ  446 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~  446 (583)
                      .-++++|++|+|||+++..++..+. ..+..+..+.+-..
T Consensus       101 ~vIlivG~~G~GKTTt~~kLA~~l~-~~G~kVllv~~D~~  139 (443)
T 3dm5_A          101 TILLMVGIQGSGKTTTVAKLARYFQ-KRGYKVGVVCSDTW  139 (443)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEEECCCS
T ss_pred             eEEEEECcCCCCHHHHHHHHHHHHH-HCCCeEEEEeCCCc
Confidence            4679999999999999999987763 34566666655443

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=91.38  E-value=0.1  Score=48.57  Aligned_cols=24  Identities=17%  Similarity=0.315  Sum_probs=21.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.++..
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            358999999999999999998864

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=91.38  E-value=0.098  Score=48.22  Aligned_cols=24  Identities=25%  Similarity=0.416  Sum_probs=21.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.++..
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            347999999999999999999864

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=91.36  E-value=0.082  Score=47.90  Aligned_cols=23  Identities=17%  Similarity=0.186  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            36899999999999999998874

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=91.31  E-value=0.084  Score=54.84  Aligned_cols=27  Identities=30%  Similarity=0.341  Sum_probs=23.2

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|+||+||||||+++.++.-
T Consensus        38 i~~Ge~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           38 IREGEMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            456788999999999999999988753

>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=91.31  E-value=0.16  Score=51.47  Aligned_cols=27  Identities=26%  Similarity=0.350  Sum_probs=22.3

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+.-+-|+||+||||||+++.+...+
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            445568899999999999999887755

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=91.30  E-value=0.057  Score=54.92  Aligned_cols=28  Identities=18%  Similarity=0.456  Sum_probs=24.0

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||+|+|||++++.++.-+
T Consensus        77 i~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           77 VMPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             ECTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            4578899999999999999999877643

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=91.29  E-value=0.18  Score=63.10  Aligned_cols=44  Identities=16%  Similarity=0.108  Sum_probs=33.7

Q ss_pred             HHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ  446 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~  446 (583)
                      .+..+.+++++||||||||+++.+++.+-. +.+..+.++++...
T Consensus      1077 gi~~g~~vll~G~~GtGKT~la~~~~~ea~-k~Ge~~~Fit~ee~ 1120 (2050)
T 3cmu_A         1077 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQ-REGKTCAFIDAEHA 1120 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEECTTSC
T ss_pred             CcCCCcEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEEcccc
Confidence            455789999999999999999999876542 33566777766553

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=91.28  E-value=0.077  Score=48.54  Aligned_cols=25  Identities=16%  Similarity=0.355  Sum_probs=21.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ....|+++|++|+|||++++.+...
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999998753

>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=91.28  E-value=0.32  Score=57.90  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=19.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +-|.|+|+.|+|||++++.+++.
T Consensus       148 ~~v~i~G~gG~GKTtLa~~~~~~  170 (1249)
T 3sfz_A          148 GWVTIYGMAGCGKSVLAAEAVRD  170 (1249)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTCC
T ss_pred             CEEEEEeCCCCCHHHHHHHHhcC
Confidence            45789999999999999988764

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=91.26  E-value=0.074  Score=53.67  Aligned_cols=28  Identities=29%  Similarity=0.419  Sum_probs=23.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+.|+||.|+|||++++.++.-+
T Consensus        61 i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           61 IERGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4467889999999999999999887644

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=91.23  E-value=0.11  Score=48.04  Aligned_cols=23  Identities=22%  Similarity=0.280  Sum_probs=21.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            47999999999999999999874

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=91.22  E-value=0.074  Score=52.86  Aligned_cols=27  Identities=33%  Similarity=0.475  Sum_probs=23.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +. |.-+.|+||+|+||||+++.++.-+
T Consensus        28 i~-Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           28 VN-GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EC-SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EC-CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            56 7889999999999999999876543

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=91.20  E-value=0.17  Score=52.38  Aligned_cols=38  Identities=24%  Similarity=0.342  Sum_probs=26.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ  446 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~  446 (583)
                      .|.++|+||+|||+++.+++..+. ..+..+..+....+
T Consensus        81 ~I~i~G~~G~GKSTl~~~L~~~l~-~~g~kV~vi~~Dp~  118 (355)
T 3p32_A           81 RVGITGVPGVGKSTAIEALGMHLI-ERGHRVAVLAVDPS  118 (355)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEEEEC--
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-hCCCceEEEecCCC
Confidence            689999999999999999987653 23445555555443

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=91.20  E-value=0.12  Score=49.99  Aligned_cols=26  Identities=23%  Similarity=0.369  Sum_probs=22.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+..+.|+|++|||||++++.+...+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            35678999999999999999988766

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=91.19  E-value=0.077  Score=56.45  Aligned_cols=32  Identities=22%  Similarity=0.468  Sum_probs=25.6

Q ss_pred             HHHHHHhcCCc--eEEEccCCCcHHHHHHHHHHh
Q psy17974        398 IMEKLLLVNHP--VMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       398 ll~~~l~~~~~--vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      -++.-+..|..  +.|+||+|+||||+++.++..
T Consensus        32 ~vsl~i~~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           32 LVNKSVSQGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             HHHHSCC-CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             CCceEecCCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            34556777887  999999999999999988753

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=91.19  E-value=0.089  Score=48.07  Aligned_cols=24  Identities=25%  Similarity=0.448  Sum_probs=21.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            357999999999999999998864

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=91.18  E-value=0.15  Score=47.98  Aligned_cols=24  Identities=33%  Similarity=0.439  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+.|+|++|||||++++.+.+.+
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            357899999999999999888754

>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=91.17  E-value=0.12  Score=57.68  Aligned_cols=26  Identities=27%  Similarity=0.429  Sum_probs=22.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+..+++.||||||||+++..++..+
T Consensus       163 ~~~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          163 TRRISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             TBSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             cCCCEEEEeCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998887655

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=91.16  E-value=0.11  Score=48.68  Aligned_cols=24  Identities=29%  Similarity=0.548  Sum_probs=21.0

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999864

>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=91.15  E-value=0.19  Score=51.47  Aligned_cols=26  Identities=35%  Similarity=0.482  Sum_probs=22.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-+.|+||+|+||||+++.++..+
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35678999999999999999887755

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=91.15  E-value=0.14  Score=48.26  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        26 ~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           26 IKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            47999999999999999998864

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=91.14  E-value=0.091  Score=54.74  Aligned_cols=27  Identities=19%  Similarity=0.261  Sum_probs=22.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|+||+||||||+++.++.-
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           26 IKDGEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCEEEEECCCCchHHHHHHHHhcC
Confidence            346778899999999999999988753

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=91.14  E-value=0.091  Score=54.66  Aligned_cols=27  Identities=22%  Similarity=0.218  Sum_probs=22.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|+||+||||||+++.++.-
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           26 VKDGEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             EcCCCEEEEEcCCCchHHHHHHHHHCC
Confidence            446778899999999999999988753

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=91.10  E-value=0.092  Score=55.05  Aligned_cols=27  Identities=30%  Similarity=0.460  Sum_probs=23.0

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|+||+||||||+++.++.-
T Consensus        26 i~~Ge~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           26 IHEGEFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCEEEEEcCCCchHHHHHHHHHcC
Confidence            446778899999999999999988753

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=91.07  E-value=0.11  Score=48.41  Aligned_cols=24  Identities=29%  Similarity=0.403  Sum_probs=21.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.++..
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhC
Confidence            357999999999999999999874

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=91.05  E-value=0.1  Score=50.30  Aligned_cols=23  Identities=35%  Similarity=0.631  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+|+|++|+|||++++.++..
T Consensus        30 ~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           30 LRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHcCC
Confidence            47899999999999999999864

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=91.01  E-value=0.23  Score=52.92  Aligned_cols=50  Identities=16%  Similarity=0.085  Sum_probs=34.3

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQE  454 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~  454 (583)
                      +..|.-++++|+||+|||+++.+++.......+..+.  -||...++.++..
T Consensus       197 l~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl--~~slE~~~~~l~~  246 (444)
T 2q6t_A          197 LGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVG--IYSLEMPAAQLTL  246 (444)
T ss_dssp             CCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEE--EEESSSCHHHHHH
T ss_pred             cCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEE--EEECCCCHHHHHH
Confidence            4456778999999999999999887755322233343  3566667666553

>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=91.00  E-value=0.12  Score=52.13  Aligned_cols=23  Identities=35%  Similarity=0.616  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -|.++||+|||||++++.+...+
T Consensus        33 ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           33 FIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36799999999999999887765

>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=90.96  E-value=0.095  Score=53.39  Aligned_cols=27  Identities=30%  Similarity=0.341  Sum_probs=22.1

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..|.-+-|+||+||||||+++.+..-+
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhc
Confidence            345568899999999999999887655

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=90.93  E-value=0.094  Score=54.54  Aligned_cols=26  Identities=31%  Similarity=0.459  Sum_probs=22.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-+.|+||+|+||||+++.++..+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            45678999999999999999887765

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=90.92  E-value=0.11  Score=47.67  Aligned_cols=24  Identities=17%  Similarity=0.459  Sum_probs=20.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus        16 ~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           16 EVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            347999999999999999988753

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=90.92  E-value=0.12  Score=48.18  Aligned_cols=24  Identities=21%  Similarity=0.441  Sum_probs=21.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.++..
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            458999999999999999998864

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=90.91  E-value=0.12  Score=48.72  Aligned_cols=23  Identities=30%  Similarity=0.557  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            47899999999999999998864

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=90.90  E-value=0.11  Score=48.48  Aligned_cols=23  Identities=17%  Similarity=0.475  Sum_probs=20.1

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           26 FKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHC-
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            47999999999999999998753

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=90.90  E-value=0.099  Score=54.67  Aligned_cols=27  Identities=26%  Similarity=0.338  Sum_probs=22.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|.||+||||||+++.++.-
T Consensus        34 i~~Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           34 IKDGEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcC
Confidence            446778899999999999999988753

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=90.87  E-value=0.098  Score=54.69  Aligned_cols=27  Identities=26%  Similarity=0.335  Sum_probs=23.0

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|+||+||||||+++.++.-
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           26 VKDGEFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             EcCCCEEEEECCCCcHHHHHHHHHHcC
Confidence            446778899999999999999988753

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=90.86  E-value=0.13  Score=47.89  Aligned_cols=22  Identities=32%  Similarity=0.489  Sum_probs=19.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..|+++|++|+|||++++.+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3689999999999999999875

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=90.86  E-value=0.097  Score=55.08  Aligned_cols=26  Identities=27%  Similarity=0.399  Sum_probs=23.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +..|.-+-|+||+|||||++++.++.
T Consensus        44 i~~Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           44 ISPGQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhC
Confidence            55688999999999999999998875

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=90.85  E-value=0.19  Score=47.57  Aligned_cols=93  Identities=12%  Similarity=0.112  Sum_probs=46.7

Q ss_pred             cCCceEEEccCCCcHH-HHHHHHHHhhcccCCceEEEEEeccCCCh-----HHHHHHHHhhhhhhcCccccCCCCCeEEE
Q psy17974        405 VNHPVMFTGVTGVGKT-VVARSILNKLLASNTWAALTINFSAQTSS-----ARTQEILEGKLDKRTKTLLGAPLGKRLAV  478 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT-~li~~~l~~l~~~~~~~~~~i~fS~~Tt~-----~~lq~~ie~~l~~~~~~~~~p~~gk~~vl  478 (583)
                      .++=.+++||.|+||| .+++.+-+..  ..+..+..+.-.-.+..     +.+...++..........+. ....--+|
T Consensus        19 ~g~l~fiyG~MgsGKTt~Ll~~i~n~~--~~~~kvl~~kp~~D~R~~~~i~S~~g~~~~A~~~~~~~d~~~-~~~~~DvI   95 (195)
T 1w4r_A           19 RGQIQVILGPMFSGKSTELMRRVRRFQ--IAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQ-EALGVAVI   95 (195)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHHH--HTTCCEEEEEETTCCCGGGSCCHHHHHHSEEEEESSGGGGHH-HHHTCSEE
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHH--HcCCeEEEEccccCccchhhhhhccCCcccceecCCHHHHHH-hccCCCEE
Confidence            3567799999999999 5666544332  22344555543222221     11110000000000000000 00112389


Q ss_pred             EecCCCCCCcccCCCCChHHHHHHHHHhC
Q psy17974        479 FVDDVNMPKLETYGAQPPIELLRQFLDFG  507 (583)
Q Consensus       479 fiDDln~p~~d~yg~q~~lElLRq~ld~~  507 (583)
                      +|||+..- ++      ..|+++.+.+.|
T Consensus        96 lIDEaQFf-k~------~ve~~~~L~~~g  117 (195)
T 1w4r_A           96 GIDEGQFF-PD------IVEFCEAMANAG  117 (195)
T ss_dssp             EESSGGGC-TT------HHHHHHHHHHTT
T ss_pred             EEEchhhh-HH------HHHHHHHHHHCC
Confidence            99999987 43      689999888754

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=90.85  E-value=0.079  Score=54.90  Aligned_cols=27  Identities=26%  Similarity=0.277  Sum_probs=22.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|+||+||||||+++.++.-
T Consensus        23 i~~Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           23 VESGEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             ECTTCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             EcCCCEEEEECCCCccHHHHHHHHHcC
Confidence            446778899999999999999988753

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=90.80  E-value=0.19  Score=52.44  Aligned_cols=26  Identities=23%  Similarity=0.304  Sum_probs=23.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.+++++||+|+|||++++.++..+
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~~~   59 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLLRE   59 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999887655

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=90.77  E-value=0.1  Score=54.15  Aligned_cols=25  Identities=20%  Similarity=0.322  Sum_probs=22.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+.|+||+||||||+++.++.-+
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            7789999999999999999888755

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=90.74  E-value=0.13  Score=48.54  Aligned_cols=24  Identities=17%  Similarity=0.302  Sum_probs=21.5

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999874

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=90.69  E-value=0.074  Score=48.45  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=10.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            9 FKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEECCCCC------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46999999999999999988753

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=90.66  E-value=0.13  Score=47.05  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=19.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHhh
Confidence            47899999999999999655544

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=90.65  E-value=0.14  Score=49.73  Aligned_cols=41  Identities=17%  Similarity=0.229  Sum_probs=26.6

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhhccc---CCceEEEEEec
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKLLAS---NTWAALTINFS  444 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~---~~~~~~~i~fS  444 (583)
                      ..|.-+.+.||+|+|||++++.+.+.+...   .++.+....+.
T Consensus        23 ~~g~~I~~eG~~GsGKsT~~~~l~~~l~~~~~~~g~~v~~~rep   66 (227)
T 3v9p_A           23 ARGKFITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVVVTREP   66 (227)
T ss_dssp             CCCCEEEEECCC---CHHHHHHHHHHHHHHHGGGTCCEEEEESS
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHhhccccceeeeeecCC
Confidence            357788999999999999999998877321   04455544443

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=90.61  E-value=0.15  Score=54.62  Aligned_cols=49  Identities=18%  Similarity=0.197  Sum_probs=33.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQ  453 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq  453 (583)
                      +..|.-+++.|+||+|||+++.+++.......+..+.  -||...++.++.
T Consensus       200 l~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl--~~s~E~s~~~l~  248 (454)
T 2r6a_A          200 FQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVA--IFSLEMSAQQLV  248 (454)
T ss_dssp             BCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEE--EEESSSCHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEE--EEECCCCHHHHH
Confidence            5567789999999999999999987765322233343  345555655544

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=90.60  E-value=0.13  Score=47.77  Aligned_cols=25  Identities=24%  Similarity=0.250  Sum_probs=20.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ....|+++|++|+|||++++.++..
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            3458999999999999999988753

>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=90.57  E-value=0.16  Score=54.12  Aligned_cols=38  Identities=21%  Similarity=0.251  Sum_probs=28.0

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      +.-++++||+|+|||+++..++..+. ..+..+..+...
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA~~l~-~~G~kVllv~~D  134 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLAYFYK-KRGYKVGLVAAD  134 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHHHHHH-HTTCCEEEEEEC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEecC
Confidence            34679999999999999999887663 345555555543

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=90.56  E-value=0.16  Score=48.01  Aligned_cols=25  Identities=20%  Similarity=0.458  Sum_probs=21.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+.|+|++|||||++++.+...+
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            3568999999999999999888865

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=90.54  E-value=0.13  Score=47.45  Aligned_cols=23  Identities=30%  Similarity=0.313  Sum_probs=20.8

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            37899999999999999999874

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=90.51  E-value=0.22  Score=49.17  Aligned_cols=37  Identities=22%  Similarity=0.405  Sum_probs=28.0

Q ss_pred             hhHHHHHHHHHhcC---CceEEEccCCCcHHHHHHHHHHh
Q psy17974        393 IRFGSIMEKLLLVN---HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       393 ~r~~~ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .+...++..+...+   ..|+++|++|+|||++++.++..
T Consensus        23 ~~l~~~~~~~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           23 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhcCCCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            34445666666543   37899999999999999999864

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=90.51  E-value=0.13  Score=48.16  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=21.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            358999999999999999998864

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=90.50  E-value=0.47  Score=45.66  Aligned_cols=94  Identities=13%  Similarity=0.104  Sum_probs=48.8

Q ss_pred             hcCCceEEEccCCCcHHH-HHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhh--------cCccccCCCCC
Q psy17974        404 LVNHPVMFTGVTGVGKTV-VARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKR--------TKTLLGAPLGK  474 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~-li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~--------~~~~~~p~~gk  474 (583)
                      ..|.=.+++||-|+|||+ +++. +.+.. ..+..+..+++.-.+...  ...+-++..-.        ....+.--.++
T Consensus        26 ~~G~I~vitG~M~sGKTT~Llr~-~~r~~-~~g~kvli~kp~~D~R~~--~~~I~Sr~G~~~~a~~v~~~~di~~~i~~~  101 (219)
T 3e2i_A           26 HSGWIECITGSMFSGKSEELIRR-LRRGI-YAKQKVVVFKPAIDDRYH--KEKVVSHNGNAIEAINISKASEIMTHDLTN  101 (219)
T ss_dssp             -CCEEEEEEECTTSCHHHHHHHH-HHHHH-HTTCCEEEEEEC-------------CBTTBCCEEEEESSGGGGGGSCCTT
T ss_pred             CCceEEEEECCCCCCHHHHHHHH-HHHHH-HcCCceEEEEeccCCcch--hhhHHHhcCCceeeEEeCCHHHHHHHHhcC
Confidence            456667999999999999 4554 44332 234555556554433221  11222222110        01111111234


Q ss_pred             eEEEEecCCCCCCcccCCCCChHHHHHHHHHhC
Q psy17974        475 RLAVFVDDVNMPKLETYGAQPPIELLRQFLDFG  507 (583)
Q Consensus       475 ~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~  507 (583)
                      .-+|+|||...-..+      .++.++.+.+.|
T Consensus       102 ~dvV~IDEaQFf~~~------~v~~l~~la~~g  128 (219)
T 3e2i_A          102 VDVIGIDEVQFFDDE------IVSIVEKLSADG  128 (219)
T ss_dssp             CSEEEECCGGGSCTH------HHHHHHHHHHTT
T ss_pred             CCEEEEechhcCCHH------HHHHHHHHHHCC
Confidence            558999999886554      678888888643

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=90.48  E-value=0.14  Score=46.04  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=19.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -.+++||.|+|||+++.++.-.+
T Consensus        25 ~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           25 INLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            35899999999999999876544

>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=90.48  E-value=0.13  Score=54.24  Aligned_cols=24  Identities=29%  Similarity=0.587  Sum_probs=21.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+.++||+|||||+++..++..+
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHHC
Confidence            357899999999999999998876

>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=90.46  E-value=0.33  Score=59.90  Aligned_cols=26  Identities=19%  Similarity=0.275  Sum_probs=23.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|.-++|.||||+|||+++.+++...
T Consensus       731 ~G~lVlI~G~PG~GKTtLal~lA~~a  756 (1706)
T 3cmw_A          731 MGRIVEIYGPESSGKTTLTLQVIAAA  756 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCcHHHHHHHHHHH
Confidence            56789999999999999999987765

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=90.45  E-value=0.11  Score=48.45  Aligned_cols=21  Identities=38%  Similarity=0.600  Sum_probs=19.0

Q ss_pred             CceEEEccCCCcHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l  427 (583)
                      ..|+++|++|+|||++++.+.
T Consensus        24 ~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           24 FKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHTC
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            478999999999999999875

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=90.40  E-value=0.12  Score=48.29  Aligned_cols=23  Identities=22%  Similarity=0.458  Sum_probs=20.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHH
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ...|+++|++|+|||++++.+..
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            34799999999999999998864

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=90.37  E-value=0.3  Score=56.17  Aligned_cols=25  Identities=32%  Similarity=0.506  Sum_probs=21.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+++.||||||||+++..++..+
T Consensus       371 ~~~~lI~GppGTGKT~ti~~~i~~l  395 (800)
T 2wjy_A          371 RPLSLIQGPPGTGKTVTSATIVYHL  395 (800)
T ss_dssp             SSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            4578999999999999988877655

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=90.36  E-value=0.12  Score=47.93  Aligned_cols=23  Identities=17%  Similarity=0.366  Sum_probs=20.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHH
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ...|+++|++|+|||++++.+..
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            35799999999999999998864

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=90.35  E-value=0.12  Score=50.99  Aligned_cols=23  Identities=26%  Similarity=0.407  Sum_probs=20.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|.|+|++|+|||++++.+...
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999998764

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=90.32  E-value=0.3  Score=46.76  Aligned_cols=37  Identities=16%  Similarity=0.235  Sum_probs=27.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCc-eEEEEEe
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTW-AALTINF  443 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~-~~~~i~f  443 (583)
                      |.-+.+.|++|+|||+.++.+.+.+. ..++ .+.....
T Consensus         3 g~~i~~eG~~gsGKsT~~~~l~~~l~-~~~~~~v~~~re   40 (213)
T 4tmk_A            3 SKYIVIEGLEGAGKTTARNVVVETLE-QLGIRDMVFTRE   40 (213)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHH-HTTCCCEEEEES
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-HcCCCcceeeeC
Confidence            56788999999999999999988774 3344 3443333

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=90.29  E-value=0.13  Score=47.52  Aligned_cols=22  Identities=32%  Similarity=0.518  Sum_probs=19.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..|+++|++|+|||++++.+..
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~   48 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTD   48 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            4699999999999999998864

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=90.27  E-value=0.2  Score=51.70  Aligned_cols=24  Identities=25%  Similarity=0.322  Sum_probs=21.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-|.|+|+||+|||++++.++..+
T Consensus        75 ~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           75 FRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHh
Confidence            467899999999999999998754

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=90.25  E-value=0.49  Score=44.71  Aligned_cols=27  Identities=26%  Similarity=0.443  Sum_probs=20.4

Q ss_pred             hcCCceEEEccCCCcHHHH-HHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVV-ARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~l-i~~~l~~l  430 (583)
                      ..++++++++|+|+|||.. +-.++..+
T Consensus        49 ~~~~~~lv~~pTGsGKT~~~~~~~l~~l   76 (224)
T 1qde_A           49 IEGHDVLAQAQSGTGKTGTFSIAALQRI   76 (224)
T ss_dssp             HTTCCEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hcCCCEEEECCCCCcHHHHHHHHHHHHH
Confidence            3578999999999999986 33445443

>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=90.23  E-value=0.61  Score=45.32  Aligned_cols=91  Identities=9%  Similarity=0.039  Sum_probs=49.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcC--ccccCC-----CCCeEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTK--TLLGAP-----LGKRLA  477 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~--~~~~p~-----~gk~~v  477 (583)
                      .|+=.+++||.|+|||+-+-..+.+. ...+..+..+.+...+...  . .+-+++.-...  .+....     .++.-+
T Consensus        18 ~g~l~v~~G~MgsGKTT~lL~~~~r~-~~~g~kvli~kp~~D~Ryg--~-~i~sr~G~~~~a~~i~~~~di~~~~~~~dv   93 (234)
T 2orv_A           18 RGQIQVILGPMFSGKSTELMRRVRRF-QIAQYKCLVIKYAKDTRYS--S-SFCTHDRNTMEALPACLLRDVAQEALGVAV   93 (234)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH-HTTTCCEEEEEETTCCCC--------------CEEEEESSGGGGHHHHTTCSE
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHH-HHCCCeEEEEeecCCccch--H-HHHhhcCCeeEEEecCCHHHHHHHhccCCE
Confidence            35666889999999997655555443 2345667777776655432  1 12222211000  000000     023448


Q ss_pred             EEecCCCCCCcccCCCCChHHHHHHHHHh
Q psy17974        478 VFVDDVNMPKLETYGAQPPIELLRQFLDF  506 (583)
Q Consensus       478 lfiDDln~p~~d~yg~q~~lElLRq~ld~  506 (583)
                      |+|||++... +      +.++++.+.+.
T Consensus        94 ViIDEaQF~~-~------v~el~~~l~~~  115 (234)
T 2orv_A           94 IGIDEGQFFP-D------IVEFCEAMANA  115 (234)
T ss_dssp             EEESSGGGCT-T------HHHHHHHHHHT
T ss_pred             EEEEchhhhh-h------HHHHHHHHHhC
Confidence            9999999874 1      78888777664

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=90.22  E-value=0.17  Score=52.52  Aligned_cols=26  Identities=27%  Similarity=0.512  Sum_probs=22.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|.-+.|+||+|+||||+++.++...
T Consensus       214 ~G~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          214 TGRISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CCCEEEEECCCCccHHHHHHHHhccc
Confidence            57889999999999999999888644

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=90.20  E-value=0.13  Score=47.70  Aligned_cols=24  Identities=17%  Similarity=0.511  Sum_probs=20.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999976654

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=90.16  E-value=0.14  Score=48.40  Aligned_cols=23  Identities=26%  Similarity=0.345  Sum_probs=20.1

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC-
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            47999999999999999998753

>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=90.16  E-value=0.14  Score=55.33  Aligned_cols=26  Identities=27%  Similarity=0.530  Sum_probs=22.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|.-+.|+||+|+||||+++.++..+
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            35568999999999999999887655

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=90.11  E-value=0.15  Score=47.52  Aligned_cols=24  Identities=17%  Similarity=0.245  Sum_probs=21.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457999999999999999998864

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=90.09  E-value=0.11  Score=57.24  Aligned_cols=29  Identities=34%  Similarity=0.657  Sum_probs=25.3

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      +..|..+.|+|++||||||+++.++..+.
T Consensus       366 ~~~G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          366 ERQGFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             GGSCEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             cccceEEEEECCCCChHHHHHHHHHHhhc
Confidence            55678899999999999999999988763

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=90.08  E-value=0.12  Score=49.31  Aligned_cols=23  Identities=17%  Similarity=0.429  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        30 ~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           30 KTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999998764

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=90.03  E-value=0.082  Score=54.86  Aligned_cols=27  Identities=26%  Similarity=0.282  Sum_probs=22.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|+||+||||||+++.++.-
T Consensus        28 i~~Ge~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           28 IENGERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            446778899999999999999988753

>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=90.03  E-value=0.14  Score=51.07  Aligned_cols=21  Identities=38%  Similarity=0.631  Sum_probs=18.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .|.|+|++|||||++++.+..
T Consensus        77 iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           77 VLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998873

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=90.01  E-value=0.16  Score=47.44  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=20.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus        30 ~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           30 FKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhhC
Confidence            47999999999999999998764

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=89.99  E-value=0.15  Score=46.94  Aligned_cols=24  Identities=21%  Similarity=0.382  Sum_probs=20.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.++..
T Consensus        17 ~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           17 KLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            357899999999999999988753

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=89.98  E-value=0.26  Score=48.03  Aligned_cols=32  Identities=19%  Similarity=0.367  Sum_probs=25.8

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCce
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWA  437 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~  437 (583)
                      .+.-+.+.|++|+|||+.++.+...+. ...+.
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l~~~l~-~~~~~   57 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVVVETLQ-QNGID   57 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHHHHHHH-HTTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-hcCCC
Confidence            467789999999999999999988773 33454

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=89.90  E-value=0.12  Score=47.49  Aligned_cols=24  Identities=21%  Similarity=0.343  Sum_probs=21.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPS   44 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999988754

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=89.88  E-value=0.15  Score=47.67  Aligned_cols=24  Identities=25%  Similarity=0.239  Sum_probs=21.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            458999999999999999988864

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=89.84  E-value=0.13  Score=56.30  Aligned_cols=24  Identities=25%  Similarity=0.548  Sum_probs=21.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSI  426 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~  426 (583)
                      +..|.-++|+||+|||||++++.+
T Consensus        36 i~~Ge~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           36 LPIGRSTLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHH
T ss_pred             CCCCeEEEEEcCCCCCHHHHHHHH
Confidence            457889999999999999999985

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=89.79  E-value=0.088  Score=48.34  Aligned_cols=24  Identities=21%  Similarity=0.282  Sum_probs=20.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ....|+++|++|+|||++++.+..
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~   44 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHL   44 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHc
Confidence            456899999999999999998754

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=89.78  E-value=0.14  Score=51.67  Aligned_cols=22  Identities=27%  Similarity=0.567  Sum_probs=19.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..|.|+||+|+|||++++.++.
T Consensus        19 ~~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           19 FTLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            4669999999999999998764

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=89.72  E-value=0.17  Score=47.31  Aligned_cols=23  Identities=22%  Similarity=0.193  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus        10 ~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A           10 IKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999998864

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=89.72  E-value=0.17  Score=51.69  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=19.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -+-|.||+||||||+++.+..-+
T Consensus        94 iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           94 IIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999876654

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=89.69  E-value=0.14  Score=52.86  Aligned_cols=30  Identities=20%  Similarity=0.170  Sum_probs=26.0

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-+..|.-+.|+||+|+|||++++.++...
T Consensus        66 l~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           66 LTCGIGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             SCEETTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             eeecCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            445678899999999999999999988865

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=89.65  E-value=0.15  Score=53.20  Aligned_cols=27  Identities=19%  Similarity=0.255  Sum_probs=23.0

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|+||+|+||||+++.+..-
T Consensus        51 i~~Gei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           51 VPAGQIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EcCCCEEEEEcCCCchHHHHHHHHhcC
Confidence            456788999999999999999987653

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=89.60  E-value=0.19  Score=51.72  Aligned_cols=27  Identities=33%  Similarity=0.325  Sum_probs=22.9

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+.-+-|+||||+|||++++.++..+
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            456678999999999999999987654

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=89.53  E-value=0.18  Score=47.88  Aligned_cols=23  Identities=22%  Similarity=0.453  Sum_probs=20.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        14 ~ki~v~G~~~vGKSsli~~l~~~   36 (223)
T 3cpj_B           14 FKIVLIGDSGVGKSNLLSRFTKN   36 (223)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            47899999999999999998864

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=89.51  E-value=0.18  Score=50.98  Aligned_cols=25  Identities=20%  Similarity=0.356  Sum_probs=22.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-+.|+||+|+|||++++.++ ..
T Consensus       164 ~G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          164 EGFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             cCcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            36788999999999999999988 54

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=89.50  E-value=0.34  Score=49.47  Aligned_cols=23  Identities=9%  Similarity=0.166  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -+++.||||+|||+++-+++.+.
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~   52 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSY   52 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999988876654

>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=89.49  E-value=1.2  Score=42.12  Aligned_cols=40  Identities=15%  Similarity=0.119  Sum_probs=30.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ  446 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~  446 (583)
                      +-.|++.+++|.|||+.+-.++-..- ..++.+..+.|-..
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~-g~G~rV~~vQF~Kg   67 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAV-GHGKNVGVVQFIKG   67 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHH-HTTCCEEEEESSCC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEEeeCC
Confidence            56899999999999999987754331 34778888888663

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=89.49  E-value=0.5  Score=47.72  Aligned_cols=30  Identities=23%  Similarity=0.202  Sum_probs=23.4

Q ss_pred             HHHHHHhcCCceEEEccCCCcHHHHHHHHH
Q psy17974        398 IMEKLLLVNHPVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       398 ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l  427 (583)
                      .+..+++.++++++.+|+|+|||..+-..+
T Consensus        36 ~i~~~~~~~~~~l~~~~TGsGKT~~~~~~~   65 (367)
T 1hv8_A           36 VIPLFLNDEYNIVAQARTGSGKTASFAIPL   65 (367)
T ss_dssp             HHHHHHHTCSEEEEECCSSSSHHHHHHHHH
T ss_pred             HHHHHhCCCCCEEEECCCCChHHHHHHHHH
Confidence            456666667899999999999998755433

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=89.49  E-value=0.16  Score=49.52  Aligned_cols=24  Identities=38%  Similarity=0.635  Sum_probs=21.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+|+|++|+|||++++.++..
T Consensus        22 ~~~I~lvG~~g~GKStl~n~l~~~   45 (260)
T 2xtp_A           22 ELRIILVGKTGTGKSAAGNSILRK   45 (260)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHTS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCC
Confidence            357999999999999999999863

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=89.32  E-value=0.18  Score=49.65  Aligned_cols=23  Identities=22%  Similarity=0.377  Sum_probs=20.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|.|+|+||+|||++++.+...
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            36899999999999999998764

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=89.30  E-value=0.2  Score=47.39  Aligned_cols=24  Identities=17%  Similarity=0.317  Sum_probs=21.5

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.+...
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            458999999999999999998874

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=89.29  E-value=0.19  Score=47.91  Aligned_cols=22  Identities=32%  Similarity=0.489  Sum_probs=19.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..|+|+|++|+|||++++.+..
T Consensus        38 ~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           38 YRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            3689999999999999998874

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=89.21  E-value=0.38  Score=46.65  Aligned_cols=37  Identities=24%  Similarity=0.402  Sum_probs=28.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ  446 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~  446 (583)
                      -++++|.+|+|||+++.+++..+.  .+..+..+..-.+
T Consensus        16 i~~~~GkgGvGKTTl~~~La~~l~--~g~~v~vvd~D~~   52 (262)
T 1yrb_A           16 IVVFVGTAGSGKTTLTGEFGRYLE--DNYKVAYVNLDTG   52 (262)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT--TTSCEEEEECCSS
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHH--CCCeEEEEeCCCC
Confidence            568899999999999999987764  3555666665544

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=89.21  E-value=0.18  Score=53.83  Aligned_cols=37  Identities=19%  Similarity=0.323  Sum_probs=27.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      ..++++|++|+|||+++.+++..+. ..++.+..+...
T Consensus       100 ~vI~ivG~~GvGKTTla~~La~~l~-~~G~kVllv~~D  136 (432)
T 2v3c_C          100 NVILLVGIQGSGKTTTAAKLARYIQ-KRGLKPALIAAD  136 (432)
T ss_dssp             CCEEEECCSSSSTTHHHHHHHHHHH-HHHCCEEEECCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEecc
Confidence            4789999999999999999887663 224455555444

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=89.18  E-value=0.19  Score=54.89  Aligned_cols=24  Identities=21%  Similarity=0.461  Sum_probs=21.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-|+|+|.||+|||++++.+++.+
T Consensus        36 ~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           36 TVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            358999999999999999998765

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=89.11  E-value=0.26  Score=45.98  Aligned_cols=29  Identities=31%  Similarity=0.291  Sum_probs=22.0

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +..++ .+++++++||+|+|||.++-..+.
T Consensus        42 i~~~~-~~~~~li~~~tGsGKT~~~~~~~~   70 (216)
T 3b6e_A           42 AQPAL-EGKNIIICLPTGSGKTRVAVYIAK   70 (216)
T ss_dssp             HHHHH-TTCCEEEECSCHHHHHHHHHHHHH
T ss_pred             HHHHh-cCCCEEEEcCCCCCHHHHHHHHHH
Confidence            33344 478999999999999998765544

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=89.08  E-value=0.29  Score=56.32  Aligned_cols=25  Identities=32%  Similarity=0.506  Sum_probs=20.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..+++.||||||||+++..++..+
T Consensus       375 ~~~~lI~GppGTGKT~~i~~~i~~l  399 (802)
T 2xzl_A          375 RPLSLIQGPPGTGKTVTSATIVYHL  399 (802)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHH
Confidence            5568999999999999887766544

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=89.03  E-value=0.27  Score=50.50  Aligned_cols=26  Identities=23%  Similarity=0.230  Sum_probs=22.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+..+.++|++|+|||+++++++..+
T Consensus        55 ~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           55 NTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45678999999999999999987654

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=89.02  E-value=0.25  Score=50.42  Aligned_cols=38  Identities=24%  Similarity=0.251  Sum_probs=27.5

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      .++-++++||+|+|||+++.+++..+. ..+..+..+..
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~-~~g~kVllid~  141 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYA-ELGYKVLIAAA  141 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHH-HTTCCEEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEeC
Confidence            345789999999999999999887663 33444554444

>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=89.01  E-value=0.25  Score=53.11  Aligned_cols=25  Identities=20%  Similarity=0.424  Sum_probs=22.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ...|+|+|.||||||++++.+.+.+
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l   63 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYL   63 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4478999999999999999998765

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=89.01  E-value=0.22  Score=47.78  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=20.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+|+|.+|+|||++++.++..
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            5899999999999999998864

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=88.95  E-value=0.2  Score=48.51  Aligned_cols=24  Identities=17%  Similarity=0.324  Sum_probs=21.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-+.+.|++|||||++++.+.+.+
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHc
Confidence            458899999999999999998876

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=88.92  E-value=0.18  Score=53.80  Aligned_cols=30  Identities=17%  Similarity=0.118  Sum_probs=25.6

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-+..|.-+.|+||+|||||++++.++...
T Consensus       152 l~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          152 LTVGRGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             SCCBTTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEecCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            445678899999999999999999888765

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=88.89  E-value=0.42  Score=49.22  Aligned_cols=51  Identities=16%  Similarity=0.141  Sum_probs=35.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEIL  456 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~i  456 (583)
                      +..|.=++|.|+||+|||+++.+++..... .+..+  +-||...++.++..-+
T Consensus        43 l~~G~LiiIaG~pG~GKTt~al~ia~~~a~-~g~~V--l~fSlEms~~ql~~Rl   93 (338)
T 4a1f_A           43 FNKGSLVIIGARPSMGKTSLMMNMVLSALN-DDRGV--AVFSLEMSAEQLALRA   93 (338)
T ss_dssp             BCTTCEEEEEECTTSCHHHHHHHHHHHHHH-TTCEE--EEEESSSCHHHHHHHH
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHHH-cCCeE--EEEeCCCCHHHHHHHH
Confidence            445677999999999999999998776522 23333  3467777777765433

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=88.86  E-value=0.21  Score=49.24  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=20.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|.|+|++|+|||++++.+...
T Consensus         6 ~kI~lvG~~nvGKTsL~n~l~g~   28 (258)
T 3a1s_A            6 VKVALAGCPNVGKTSLFNALTGT   28 (258)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHCC
Confidence            36899999999999999998763

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=88.82  E-value=0.1  Score=53.02  Aligned_cols=25  Identities=28%  Similarity=0.557  Sum_probs=21.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|.-+.|+||+|+||||+++.++..
T Consensus       172 ~G~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          172 QDKTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             TTSEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CCCEEEEECCCCCCHHHHHHHhccc
Confidence            4789999999999999999987653

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=88.69  E-value=0.23  Score=50.13  Aligned_cols=26  Identities=27%  Similarity=0.418  Sum_probs=22.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+.-+.|+||+|+|||++++.++...
T Consensus       168 ~geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          168 KGKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             cCCeEEEECCCCCcHHHHHHHhcccc
Confidence            47788999999999999999887643

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=88.69  E-value=0.48  Score=44.67  Aligned_cols=39  Identities=18%  Similarity=0.245  Sum_probs=28.8

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS  448 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt  448 (583)
                      +.+.|+.||||||.++.+.+.+. ..++.++...+-..|.
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~-~~g~~v~~treP~~t~   41 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLE-KRGKKVILKREPGGTE   41 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEESSCSSH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEECCCCCc
Confidence            45789999999999998888773 4456676666654443

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=88.65  E-value=0.19  Score=49.73  Aligned_cols=22  Identities=27%  Similarity=0.567  Sum_probs=19.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .+|+++|++|+|||++++.++.
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~   30 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFL   30 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            4799999999999999998653

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=88.61  E-value=0.094  Score=48.64  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=5.1

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus        21 ~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           21 CKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEC-----------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            47899999999999999988764

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=88.47  E-value=0.23  Score=49.47  Aligned_cols=23  Identities=22%  Similarity=0.286  Sum_probs=20.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|.|+|+||+|||++++.+...
T Consensus         4 ~kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            4 TEIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHCC
Confidence            46899999999999999998763

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=88.41  E-value=0.27  Score=47.30  Aligned_cols=27  Identities=22%  Similarity=0.370  Sum_probs=24.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .|.-+.+.|++|+|||+.++.+.+.+.
T Consensus         4 ~g~~i~~eG~~g~GKst~~~~l~~~l~   30 (216)
T 3tmk_A            4 RGKLILIEGLDRTGKTTQCNILYKKLQ   30 (216)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            477889999999999999999999884

>1knx_A Probable HPR(Ser) kinase/phosphatase; HPR kinase, HPR kinase/phosphatase, HPRK/P, P-loop, walker A BOX, catabolite repression; 2.50A {Mycoplasma pneumoniae} SCOP: c.98.2.1 c.91.1.2

Probab=88.37  E-value=0.19  Score=51.09  Aligned_cols=23  Identities=35%  Similarity=0.621  Sum_probs=21.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHH
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      |..||+.|++|+|||+++..++.
T Consensus       147 g~gvli~G~sG~GKStlal~l~~  169 (312)
T 1knx_A          147 GVGVLLTGRSGIGKSECALDLIN  169 (312)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            77899999999999999988876

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=88.35  E-value=0.25  Score=54.65  Aligned_cols=30  Identities=20%  Similarity=0.255  Sum_probs=25.6

Q ss_pred             HHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        401 KLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       401 ~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-+..|.-+-|+||+|+||||+++.++.-.
T Consensus       364 l~i~~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          364 FSIPQGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            336678999999999999999999887654

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=88.35  E-value=0.48  Score=44.01  Aligned_cols=28  Identities=29%  Similarity=0.339  Sum_probs=20.6

Q ss_pred             HhcCCceEEEccCCCcHHHHH-HHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVA-RSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li-~~~l~~l  430 (583)
                      +..++++++++|+|+|||... ..++..+
T Consensus        35 ~~~~~~~li~~~TGsGKT~~~~~~~~~~l   63 (207)
T 2gxq_A           35 ALEGKDLIGQARTGTGKTLAFALPIAERL   63 (207)
T ss_dssp             HHTTCCEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             HcCCCCEEEECCCCChHHHHHHHHHHHHH
Confidence            345789999999999999863 3344443

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=88.33  E-value=0.13  Score=48.59  Aligned_cols=22  Identities=27%  Similarity=0.474  Sum_probs=19.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..|+++|++|+|||++++.++.
T Consensus        16 ~ki~v~G~~~~GKSsli~~~~~   37 (221)
T 3gj0_A           16 FKLVLVGDGGTGKTTFVKRHLT   37 (221)
T ss_dssp             EEEEEEECTTSSHHHHHTTBHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4789999999999999998554

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=88.26  E-value=0.14  Score=51.43  Aligned_cols=24  Identities=21%  Similarity=0.353  Sum_probs=17.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .-|.|.||+|||||++++.+...+
T Consensus         6 ~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            6 PIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             CEEEEESCC---CCTHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            347899999999999999888765

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=88.24  E-value=0.12  Score=50.71  Aligned_cols=27  Identities=11%  Similarity=0.110  Sum_probs=22.6

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+.-|.+.|++|||||++++.+.+.+
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHhc
Confidence            445678999999999999999888766

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=88.19  E-value=0.29  Score=51.73  Aligned_cols=26  Identities=27%  Similarity=0.434  Sum_probs=22.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ...|++++|+||+|||++++.++..+
T Consensus        52 ~~~h~~i~G~tGsGKs~~~~~li~~~   77 (437)
T 1e9r_A           52 EPRHLLVNGATGTGKSVLLRELAYTG   77 (437)
T ss_dssp             GGGCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CcceEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999998877654

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=88.14  E-value=0.13  Score=48.57  Aligned_cols=24  Identities=21%  Similarity=0.448  Sum_probs=21.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...|+++|++|+|||++++.++..
T Consensus        29 ~~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           29 QPEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             SCEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            457999999999999999998764

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=88.09  E-value=0.21  Score=50.84  Aligned_cols=21  Identities=48%  Similarity=0.790  Sum_probs=19.1

Q ss_pred             eEEEccCCCcHHHHHHHHHHh
Q psy17974        409 VMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ++|+|+.|+||||+++.++..
T Consensus         7 ~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            7 TLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEEecCCCCHHHHHHHHHhh
Confidence            589999999999999999864

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=88.03  E-value=0.3  Score=53.12  Aligned_cols=25  Identities=20%  Similarity=0.343  Sum_probs=21.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .+.|+|+.|+||||||++++.++..
T Consensus       166 ~~pHlLIaG~TGSGKSt~L~~li~s  190 (512)
T 2ius_A          166 KMPHLLVAGTTGSGASVGVNAMILS  190 (512)
T ss_dssp             GSCSEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHH
Confidence            3689999999999999999988653

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=88.02  E-value=0.39  Score=48.42  Aligned_cols=41  Identities=20%  Similarity=0.221  Sum_probs=29.0

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT  447 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T  447 (583)
                      +.-+.++|++|+|||+++.+++..+. ..+..+..+....+-
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~-~~g~~v~l~~~D~~r  138 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYK-KKGFKVGLVGADVYR  138 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHH-HTTCCEEEEECCCSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEecCCCC
Confidence            44678899999999999999887663 334455556555443

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=87.95  E-value=0.34  Score=55.49  Aligned_cols=32  Identities=31%  Similarity=0.361  Sum_probs=25.2

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .-+...+..+..++++||+|||||+++..++.
T Consensus       100 ~~i~~~l~~~~~vii~gpTGSGKTtllp~ll~  131 (773)
T 2xau_A          100 DEFLKLYQNNQIMVFVGETGSGKTTQIPQFVL  131 (773)
T ss_dssp             HHHHHHHHHCSEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhCCCeEEEECCCCCCHHHHHHHHHH
Confidence            33455577788999999999999997776644

>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A*

Probab=87.89  E-value=0.36  Score=53.63  Aligned_cols=41  Identities=17%  Similarity=0.315  Sum_probs=26.5

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhccc---CCceEEEEEecc
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLAS---NTWAALTINFSA  445 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~---~~~~~~~i~fS~  445 (583)
                      .+.|+++.|+||||||+++-..+..+-..   ....+..++|+.
T Consensus        21 ~~~~~lV~a~aGsGKT~~l~~ri~~l~~~~~~~~~~iL~ltft~   64 (647)
T 3lfu_A           21 PRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTN   64 (647)
T ss_dssp             CSSCEEEEECTTSCHHHHHHHHHHHHHHTSCCCGGGEEEEESSH
T ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHHHhCCCChhhEEEEeccH
Confidence            46899999999999999876543322111   123455666654

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=87.86  E-value=0.21  Score=52.95  Aligned_cols=22  Identities=27%  Similarity=0.570  Sum_probs=19.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|.|+||+|+|||++++.++..
T Consensus        33 ~I~lvG~sGaGKSTLln~L~g~   54 (418)
T 2qag_C           33 TLMVVGESGLGKSTLINSLFLT   54 (418)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4599999999999999998764

>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=87.79  E-value=0.27  Score=45.89  Aligned_cols=21  Identities=24%  Similarity=0.447  Sum_probs=19.1

Q ss_pred             eEEEccCCCcHHHHHHHHHHh
Q psy17974        409 VMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +|++|++|||||+++..++..
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            689999999999999998864

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=87.70  E-value=0.33  Score=52.88  Aligned_cols=28  Identities=25%  Similarity=0.507  Sum_probs=24.3

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-++|.||+|+|||++++.++...
T Consensus       278 i~~G~i~~i~G~~GsGKSTLl~~l~g~~  305 (525)
T 1tf7_A          278 FFKDSIILATGATGTGKTLLVSRFVENA  305 (525)
T ss_dssp             EESSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4567889999999999999999987655

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=87.60  E-value=0.27  Score=51.13  Aligned_cols=20  Identities=25%  Similarity=0.405  Sum_probs=17.8

Q ss_pred             ceEEEccCCCcHHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l  427 (583)
                      -++|+||+|+|||+++.++.
T Consensus        25 ~~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           25 ITVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            56799999999999998875

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=87.49  E-value=0.27  Score=49.51  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=20.1

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|.++|+||+|||++++.++..
T Consensus        10 ~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A           10 FIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            6899999999999999999864

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=87.48  E-value=0.46  Score=50.71  Aligned_cols=49  Identities=12%  Similarity=0.044  Sum_probs=34.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQE  454 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~  454 (583)
                      +..|.-+++.|+||+|||+++.+++...... +..+  +-||...++.++..
T Consensus       194 l~~G~liiIaG~pG~GKTtlal~ia~~~a~~-g~~v--l~fSlEms~~ql~~  242 (444)
T 3bgw_A          194 YKRRNFVLIAARPSMGKTAFALKQAKNMSDN-DDVV--NLHSLEMGKKENIK  242 (444)
T ss_dssp             BCSSCEEEEEECSSSSHHHHHHHHHHHHHHT-TCEE--EEECSSSCTTHHHH
T ss_pred             CCCCcEEEEEeCCCCChHHHHHHHHHHHHHc-CCEE--EEEECCCCHHHHHH
Confidence            4456789999999999999999887654222 3333  44666666665543

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=87.45  E-value=0.28  Score=47.72  Aligned_cols=24  Identities=29%  Similarity=0.437  Sum_probs=20.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..+-|.||||||||+.++.+.+.+
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999988876

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	583
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.3
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.28
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.25
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.22
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.21
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.21
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.18
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.14
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.13
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.12
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.12
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.11
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.11
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.03
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.01
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.0
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.0
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	98.9
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.9
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.68
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.66
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.65
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	98.63
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.61
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.55
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.51
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.36
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.1
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	97.94
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	97.93
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.85
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.67
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.3
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.25
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.22
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.18
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	97.06
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.98
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.92
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.83
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.75
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.73
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.7
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.69
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.68
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.62
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.6
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.6
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.59
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.51
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.44
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.42
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.39
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.36
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.36
d1tuea_	205	Replication protein E1 helicase domain {Human papi	96.34
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.23
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.2
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.2
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.19
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.04
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.01
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	95.98
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	95.98
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.92
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.9
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.86
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.84
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.79
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.74
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.69
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.64
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.62
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.58
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.55
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.52
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.51
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	95.5
d1okkd2	207	GTPase domain of the signal recognition particle r	95.46
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	95.46
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.43
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.19
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.18
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.16
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.14
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.12
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.89
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	94.77
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	94.59
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.58
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.57
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.45
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.43
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.37
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.3
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.26
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.19
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.1
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	94.06
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.96
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	93.84
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.83
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.81
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.8
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.78
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.74
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.72
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.54
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.46
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	93.45
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.43
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.43
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.36
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.36
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.27
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.26
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.24
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	93.24
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.23
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.22
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	93.21
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.21
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	93.19
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.19
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.18
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.17
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.16
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.14
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	93.11
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	93.11
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	93.1
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.05
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.02
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.0
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	92.99
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.98
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.98
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.98
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.9
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	92.9
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.89
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.89
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	92.87
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	92.83
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.81
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.8
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.78
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	92.73
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	92.73
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	92.71
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.7
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.7
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	92.67
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	92.63
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	92.63
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.61
d2awna2	232	Maltose transport protein MalK, N-terminal domain	92.59
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	92.51
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.44
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	92.39
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	92.37
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.34
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.34
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	92.32
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	92.26
d1g2912	240	Maltose transport protein MalK, N-terminal domain	92.2
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.19
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	92.18
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.14
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	92.11
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	92.08
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.05
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.04
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.94
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	91.91
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	91.89
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	91.82
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	91.78
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.76
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	91.64
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.59
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	91.43
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	91.41
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	91.34
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	91.31
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	91.24
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	91.21
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	91.19
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	91.13
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	90.85
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	90.68
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	90.56
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.55
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	90.19
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	90.11
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	90.04
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	89.94
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	89.85
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	89.67
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	89.51
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	89.46
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	89.43
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	89.42
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	89.42
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	89.37
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.35
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	89.29
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	89.26
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	89.25
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.16
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	88.96
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	87.9
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	87.87
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	87.66
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	87.52
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	87.48
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.37
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	87.2
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	86.95
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	86.66
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	86.49
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	86.35
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	86.27
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	86.01
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	85.4
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	85.02
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	84.95
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	84.35
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	83.81
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	83.59
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	83.22
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	83.1
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	82.99
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	82.42
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	82.37
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	82.14
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	82.07
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	81.58
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	81.38
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	81.26
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	80.54

>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=99.30  E-value=8.4e-12  Score=122.86  Aligned_cols=140  Identities=21%  Similarity=0.329  Sum_probs=94.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC------hHHHHHHHHhhhhhhcCccccCCCCCeEEE
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS------SARTQEILEGKLDKRTKTLLGAPLGKRLAV  478 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt------~~~lq~~ie~~l~~~~~~~~~p~~gk~~vl  478 (583)
                      ..+.+||+||||||||++++++++.+    +...+.++++.-.+      ...++++++.-           ....++|+
T Consensus        44 ~~~~iLL~GppGtGKT~la~~iA~~~----~~~~~~i~~~~l~~~~~g~~~~~l~~~f~~A-----------~~~~P~il  108 (256)
T d1lv7a_          44 IPKGVLMVGPPGTGKTLLAKAIAGEA----KVPFFTISGSDFVEMFVGVGASRVRDMFEQA-----------KKAAPCII  108 (256)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH----TCCEEEECSCSSTTSCCCCCHHHHHHHHHHH-----------HTTCSEEE
T ss_pred             CCCeEEeeCCCCCCccHHHHHHHHHc----CCCEEEEEhHHhhhcchhHHHHHHHHHHHHH-----------HHcCCEEE
Confidence            35679999999999999999999987    45567777765432      33444443211           12457899


Q ss_pred             EecCCCCCCccc----CCCCCh-HHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eE
Q psy17974        479 FVDDVNMPKLET----YGAQPP-IELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GL  549 (583)
Q Consensus       479 fiDDln~p~~d~----yg~q~~-lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~v  549 (583)
                      ||||++.-..+.    .+..+. ...+.+++.. .|..+        -.++.+|||+|.|.    .+++.++|  +| ..
T Consensus       109 ~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~--------~~~v~vIatTn~~~----~ld~al~R~gRfd~~  176 (256)
T d1lv7a_         109 FIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG--------NEGIIVIAATNRPD----VLDPALLRPGRFDRQ  176 (256)
T ss_dssp             EETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS--------SSCEEEEEEESCTT----TSCGGGGSTTSSCEE
T ss_pred             EEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC--------CCCEEEEEeCCCcc----cCCHhHcCCCCCCEE
Confidence            999998532221    111122 1222333221 11111        13688999999886    79999998  79 69


Q ss_pred             EEeCCCCHHHHHHHHHHHhccc
Q psy17974        550 LSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       550 i~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      |.++.|+.++...|+..++...
T Consensus       177 i~i~~P~~~~R~~il~~~l~~~  198 (256)
T d1lv7a_         177 VVVGLPDVRGREQILKVHMRRV  198 (256)
T ss_dssp             EECCCCCHHHHHHHHHHHHTTS
T ss_pred             EECCCcCHHHHHHHHHHhccCC
Confidence            9999999999999999888654

>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=99.28  E-value=5.5e-12  Score=123.58  Aligned_cols=141  Identities=21%  Similarity=0.298  Sum_probs=89.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC--hHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS--SARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt--~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      .+++||+||||||||++++++++.+    ++.++.++.+...+  .....+.+..-+++       .....++|+||||+
T Consensus        42 ~~giLl~GppGtGKT~la~aia~~~----~~~~~~i~~~~l~~~~~g~~~~~l~~~f~~-------a~~~~p~Ii~iDei  110 (247)
T d1ixza_          42 PKGVLLVGPPGVGKTHLARAVAGEA----RVPFITASGSDFVEMFVGVGAARVRDLFET-------AKRHAPCIVFIDEI  110 (247)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEHHHHHHSCTTHHHHHHHHHHHH-------HTTSSSEEEEEETH
T ss_pred             CceEEEecCCCCChhHHHHHHHHHc----CCCEEEEEhHHhhhccccHHHHHHHHHHHH-------HHHcCCEEEEEECh
Confidence            3579999999999999999999976    45566676544211  00111111111221       12345789999999


Q ss_pred             CCCCccc----CCCCC-hHHHHHH---HHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEe
Q psy17974        484 NMPKLET----YGAQP-PIELLRQ---FLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSL  552 (583)
Q Consensus       484 n~p~~d~----yg~q~-~lElLRq---~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i  552 (583)
                      +....+.    .+... ...++.+   .+|  |+..        -.++.+|||+|.|.    .+++.++|  +|. .|++
T Consensus       111 d~l~~~r~~~~~~~~~~~~~~~~~ll~~~d--~~~~--------~~~vivi~tTn~~~----~ld~al~R~~Rf~~~i~~  176 (247)
T d1ixza_         111 DAVGRKRGSGVGGGNDEREQTLNQLLVEMD--GFEK--------DTAIVVMAATNRPD----ILDPALLRPGRFDRQIAI  176 (247)
T ss_dssp             HHHHC---------CHHHHHHHHHHHHHHH--TCCT--------TCCEEEEEEESCGG----GSCGGGGSTTSSCEEEEC
T ss_pred             hhhCccCCCCCCCCcHHHHHHHHHHHHHhh--CCCC--------CCCEEEEEeCCCcc----ccCHhHcCCCCCcEEEEE
Confidence            8532221    11111 1112222   333  2211        13578899999886    79999997  785 9999


Q ss_pred             CCCCHHHHHHHHHHHhccc
Q psy17974        553 PSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       553 ~~p~~~sl~~I~~~~l~~~  571 (583)
                      +.|+.++...|+..++...
T Consensus       177 ~~P~~~eR~~il~~~l~~~  195 (247)
T d1ixza_         177 DAPDVKGREQILRIHARGK  195 (247)
T ss_dssp             CSCCHHHHHHHHHHHHTTS
T ss_pred             CCcCHHHHHHHHHHHhccc
Confidence            9999999999999998654

>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=99.25  E-value=2.8e-12  Score=126.75  Aligned_cols=155  Identities=12%  Similarity=0.206  Sum_probs=101.6

Q ss_pred             HHHHHHHHHh-cCCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCC----hHHHHHHHHhhhhhh
Q psy17974        395 FGSIMEKLLL-VNHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTS----SARTQEILEGKLDKR  463 (583)
Q Consensus       395 ~~~ll~~~l~-~~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt----~~~lq~~ie~~l~~~  463 (583)
                      ...+++.+.. .+.|++|+||||+|||+++..+++.+...      .+..+..++.++-..    ...+++.+..-++..
T Consensus        27 i~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~r~~~i~~~~  106 (268)
T d1r6bx2          27 LERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQL  106 (268)
T ss_dssp             HHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHHHHHHHHHHh
Confidence            3455666654 44689999999999999999998764211      234455555444322    233443333223221


Q ss_pred             cCccccCCCCCeEEEEecCCCCCCccc---CCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-CCCCC
Q psy17974        464 TKTLLGAPLGKRLAVFVDDVNMPKLET---YGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPL  539 (583)
Q Consensus       464 ~~~~~~p~~gk~~vlfiDDln~p~~d~---yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-gr~~l  539 (583)
                      .       ...+.|+||||+|..-...   .|+..+-.+|+.+++.|              ++++||||+|..- -...-
T Consensus       107 ~-------~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg--------------~i~vIgatT~eey~~~~e~  165 (268)
T d1r6bx2         107 E-------QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG--------------KIRVIGSTTYQEFSNIFEK  165 (268)
T ss_dssp             S-------SSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC--------------CCEEEEEECHHHHHCCCCC
T ss_pred             h-------ccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCC--------------CCeEEEeCCHHHHHHHHhh
Confidence            1       2346799999999864321   12223567787766644              6899999998652 33466


Q ss_pred             ChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        540 TPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       540 ~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      ++.|.|+|.+|.+++|+.++...|...+...
T Consensus       166 d~al~rrF~~I~V~Eps~e~t~~IL~~~~~~  196 (268)
T d1r6bx2         166 DRALARRFQKIDITEPSIEETVQIINGLKPK  196 (268)
T ss_dssp             TTSSGGGEEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             cHHHHhhhcccccCCCCHHHHHHHHHHhhHH
Confidence            8999999999999999999999999876543

>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=99.22  E-value=1.2e-11  Score=116.15  Aligned_cols=148  Identities=18%  Similarity=0.255  Sum_probs=99.0

Q ss_pred             HHHHHHHHh-cCCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccC----CChHHHHHHHHhhhhhhc
Q psy17974        396 GSIMEKLLL-VNHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQ----TSSARTQEILEGKLDKRT  464 (583)
Q Consensus       396 ~~ll~~~l~-~~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~----Tt~~~lq~~ie~~l~~~~  464 (583)
                      ..+++.+.. .+.|++|+||||+|||+++..++..+...      .+..++.++.++-    ....++++-+..-++...
T Consensus        32 ~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~E~rl~~il~e~~  111 (195)
T d1jbka_          32 RRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLNDLA  111 (195)
T ss_dssp             HHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHHHHHHHHHHHHHh
Confidence            344555554 45699999999999999999988754211      2345666655442    223345544443333211


Q ss_pred             CccccCCCCCeEEEEecCCCCCCcc--cCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-CCCCCCh
Q psy17974        465 KTLLGAPLGKRLAVFVDDVNMPKLE--TYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-GRMPLTP  541 (583)
Q Consensus       465 ~~~~~p~~gk~~vlfiDDln~p~~d--~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-gr~~l~~  541 (583)
                      +      ...+.|+||||+|.--..  ..|+..+-.+|+-.++.|              ++++||||+|..- -...-++
T Consensus       112 ~------~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg--------------~l~~IgatT~eey~~~~e~d~  171 (195)
T d1jbka_         112 K------QEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--------------ELHCVGATTLDEYRQYIEKDA  171 (195)
T ss_dssp             H------STTTEEEEEETGGGGTT------CCCCHHHHHHHHHTT--------------SCCEEEEECHHHHHHHTTTCH
T ss_pred             c------CCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCC--------------CceEEecCCHHHHHHHHHcCH
Confidence            0      122579999999985321  245556889999999865              5789999988652 2245689


Q ss_pred             hhhccceEEEeCCCCHHHHHHH
Q psy17974        542 RFVRHFGLLSLPSPTEDTLKVI  563 (583)
Q Consensus       542 Rllr~f~vi~i~~p~~~sl~~I  563 (583)
                      .|.|+|..|.+++|+.++-..|
T Consensus       172 aL~rrF~~I~V~Ep~~e~t~~I  193 (195)
T d1jbka_         172 ALERRFQKVFVAEPSVEDTIAI  193 (195)
T ss_dssp             HHHTTEEEEECCCCCHHHHHTT
T ss_pred             HHHhcCCEeecCCCCHHHHHHH
Confidence            9999999999999999886655

>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=99.21  E-value=4.9e-11  Score=114.30  Aligned_cols=169  Identities=15%  Similarity=0.231  Sum_probs=113.5

Q ss_pred             eeccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhccc-CCceEEEE
Q psy17974        365 TPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLAS-NTWAALTI  441 (583)
Q Consensus       365 ~~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~i  441 (583)
                      .||.++..+-      .+.+++... +.   ...+..+++.+.  ++||+||||||||++++.+++++... ..+.+..+
T Consensus         3 ~pw~eKyrP~------~~~d~ig~~-~~---~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~   72 (224)
T d1sxjb2           3 LPWVEKYRPQ------VLSDIVGNK-ET---IDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLEL   72 (224)
T ss_dssp             CCHHHHTCCS------SGGGCCSCT-HH---HHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEE
T ss_pred             CchHhHhCCC------CHHHhcCCH-HH---HHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccc
Confidence            4788876442      234444443 22   233556666664  79999999999999999998876321 12456677


Q ss_pred             EeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeec
Q psy17974        442 NFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQ  521 (583)
Q Consensus       442 ~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~  521 (583)
                      +.+.......+...+......    ......+++-++++||++....+      ....|+..++..            ..
T Consensus        73 n~~~~~~~~~i~~~~~~~~~~----~~~~~~~~~kviiiDe~d~~~~~------~~~~ll~~~e~~------------~~  130 (224)
T d1sxjb2          73 NASDDRGIDVVRNQIKHFAQK----KLHLPPGKHKIVILDEADSMTAG------AQQALRRTMELY------------SN  130 (224)
T ss_dssp             CTTSCCSHHHHHTHHHHHHHB----CCCCCTTCCEEEEEESGGGSCHH------HHHTTHHHHHHT------------TT
T ss_pred             cccccCCceehhhHHHHHHHh----hccCCCcceEEEEEecccccchh------HHHHHhhhcccc------------cc
Confidence            777766655554443333322    22334456678999999976554      234455566533            23


Q ss_pred             CeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        522 DVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       522 ~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      +..++.++++..    .+.+.+.++|.++.+++|+.+++..+...++.
T Consensus       131 ~~~~i~~~~~~~----~i~~~l~sr~~~i~~~~~~~~~i~~~l~~i~~  174 (224)
T d1sxjb2         131 STRFAFACNQSN----KIIEPLQSQCAILRYSKLSDEDVLKRLLQIIK  174 (224)
T ss_dssp             TEEEEEEESCGG----GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ceeeeeccCchh----hhhhHHHHHHHHhhhcccchhhhHHHHHHHHH
Confidence            567778887764    68999999999999999999999999988875

>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=99.21  E-value=2.5e-11  Score=119.56  Aligned_cols=145  Identities=20%  Similarity=0.289  Sum_probs=92.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC--hHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS--SARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt--~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      .+.+||+||||||||++++++++..    +..+..++.+...+  .......+...+..       +...+++|+|+||+
T Consensus        38 ~~giLL~GppGtGKT~l~~ala~~~----~~~~~~i~~~~l~~~~~g~~~~~l~~~f~~-------A~~~~p~il~iDei  106 (258)
T d1e32a2          38 PRGILLYGPPGTGKTLIARAVANET----GAFFFLINGPEIMSKLAGESESNLRKAFEE-------AEKNAPAIIFIDEL  106 (258)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHT----TCEEEEECHHHHTTSCTTHHHHHHHHHHHH-------HHHTCSEEEEESSG
T ss_pred             CceeEEecCCCCCchHHHHHHHHHh----CCeEEEEEchhhcccccccHHHHHHHHHHH-------HHhcCCeEEEehhh
Confidence            4689999999999999999999976    34555665543221  11111222222221       11235789999999


Q ss_pred             CCCCcccC-C-CCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cc-eEEEeCCCCHH
Q psy17974        484 NMPKLETY-G-AQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HF-GLLSLPSPTED  558 (583)
Q Consensus       484 n~p~~d~y-g-~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f-~vi~i~~p~~~  558 (583)
                      +.-....- + ......++.+++..-   +..    ..-.++.+|||+|.|.    .+++.++|  || ..|+++.|+.+
T Consensus       107 d~l~~~r~~~~~~~~~~~~~~~~~~~---~~~----~~~~~vlvi~tTn~~~----~ld~al~r~gRfd~~i~~~~P~~~  175 (258)
T d1e32a2         107 DAIAPKREKTHGEVERRIVSQLLTLM---DGL----KQRAHVIVMAATNRPN----SIDPALRRFGRFDREVDIGIPDAT  175 (258)
T ss_dssp             GGTCCHHHHCCCTTHHHHHHHHHHHH---HTC----CCSSCEEEEEEESCGG----GSCGGGTSTTSSCEEEECCCCCHH
T ss_pred             hhhccCCCCCCCchHHHHHHHhcccc---ccc----cccCCccEEEeCCCcc----ccchhhhhcccccceeECCCCCHH
Confidence            97543321 1 112222333332211   100    1123588999999886    79999998  79 58999999999


Q ss_pred             HHHHHHHHHhcccc
Q psy17974        559 TLKVIFKVRTSPGK  572 (583)
Q Consensus       559 sl~~I~~~~l~~~l  572 (583)
                      +...|+..+++..-
T Consensus       176 ~R~~il~~~l~~~~  189 (258)
T d1e32a2         176 GRLEILQIHTKNMK  189 (258)
T ss_dssp             HHHHHHHHTTTTSC
T ss_pred             HHHHHhhhhccCcc
Confidence            99999999887553

>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=99.18  E-value=5.1e-11  Score=117.76  Aligned_cols=144  Identities=22%  Similarity=0.296  Sum_probs=90.0

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccC--CChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQ--TSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~--Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      .+.+||+||||||||++++++++.+    +...+.++++..  .........+..-+.+       +....++|+||||+
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~----~~~~~~~~~~~l~~~~~~~~~~~l~~~f~~-------A~~~~p~il~idei  109 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANEC----QANFISIKGPELLTMWFGESEANVREIFDK-------ARQAAPCVLFFDEL  109 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHT----TCEEEEECHHHHHTSCTTTHHHHHHHHHHH-------HHHTCSEEEEESSG
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHh----CCcEEEEEHHHhhhccccchHHHHHHHHHH-------HHhcCCcceeHHhh
Confidence            4679999999999999999999987    344555544331  1111222222222221       11234799999999


Q ss_pred             CCCCccc--CCCCChHH---HHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc--cce-EEEeCCC
Q psy17974        484 NMPKLET--YGAQPPIE---LLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR--HFG-LLSLPSP  555 (583)
Q Consensus       484 n~p~~d~--yg~q~~lE---lLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr--~f~-vi~i~~p  555 (583)
                      +....+.  ...+..-+   ++.+++.   +.+.    ...-.++.+|||+|.|.    .+++.++|  +|. +|.++.|
T Consensus       110 d~l~~~~~~~~~~~~~~~~~~~~~ll~---~l~~----~~~~~~v~vi~ttn~~~----~ld~al~r~gRf~~~i~~~~p  178 (265)
T d1r7ra3         110 DSIAKARGGNIGDGGGAADRVINQILT---EMDG----MSTKKNVFIIGATNRPD----IIDPAILRPGRLDQLIYIPLP  178 (265)
T ss_dssp             GGTCCHHHHCCCTTHHHHHHHHHHHHH---TCC----------CCEEEECCBSCT----TTSCGGGSSTTSEEEEECCCC
T ss_pred             hhccccCCCcCCCCcHHHHHHHHHHHH---HhhC----cCCCCCEEEEEeCCCch----hCCHHHhCCCCccEEEEecch
Confidence            8644321  11222211   3333332   1110    01123578999999886    79999987  785 8999999


Q ss_pred             CHHHHHHHHHHHhccc
Q psy17974        556 TEDTLKVIFKVRTSPG  571 (583)
Q Consensus       556 ~~~sl~~I~~~~l~~~  571 (583)
                      +.++...|+..+++.+
T Consensus       179 ~~~~R~~il~~~l~~~  194 (265)
T d1r7ra3         179 DEKSRVAILKANLRKS  194 (265)
T ss_dssp             CCHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhccC
Confidence            9999999999888754

>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=99.14  E-value=7.2e-11  Score=113.50  Aligned_cols=168  Identities=13%  Similarity=0.210  Sum_probs=105.8

Q ss_pred             eeccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHhcC--CceEEEccCCCcHHHHHHHHHHhhccc-CCceEEEE
Q psy17974        365 TPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVN--HPVMFTGVTGVGKTVVARSILNKLLAS-NTWAALTI  441 (583)
Q Consensus       365 ~~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~~--~~vLL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~i  441 (583)
                      .||.+++.+-      .+.+++... +.+   .-+..+++.+  .++||+||||||||++++.+++.+... ..+..+.+
T Consensus        12 ~~w~~ky~P~------~~~diig~~-~~~---~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~   81 (231)
T d1iqpa2          12 KPWVEKYRPQ------RLDDIVGQE-HIV---KRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLEL   81 (231)
T ss_dssp             SCHHHHTCCC------STTTCCSCH-HHH---HHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEE
T ss_pred             chHHHHhCCC------CHHHccCcH-HHH---HHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEE
Confidence            4687776432      244555442 222   2355566665  479999999999999999999876211 12345555


Q ss_pred             EeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeec
Q psy17974        442 NFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQ  521 (583)
Q Consensus       442 ~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~  521 (583)
                      +.|.......+...+.....   ...  ....++.|+++||++....+      ....|+.+++.+.            .
T Consensus        82 n~s~~~~~~~~~~~~~~~~~---~~~--~~~~~~~iilide~d~~~~~------~~~~ll~~l~~~~------------~  138 (231)
T d1iqpa2          82 NASDERGINVIREKVKEFAR---TKP--IGGASFKIIFLDEADALTQD------AQQALRRTMEMFS------------S  138 (231)
T ss_dssp             ETTCHHHHHTTHHHHHHHHH---SCC--GGGCSCEEEEEETGGGSCHH------HHHHHHHHHHHTT------------T
T ss_pred             ecCcccchhHHHHHHHHHHh---hhh--ccCCCceEEeehhhhhcchh------HHHHHhhhcccCC------------c
Confidence            55432222222222111111   111  11345678999999765443      3455667776432            3


Q ss_pred             CeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        522 DVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       522 ~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      ++.+++++|.+.    .+.+.+.++|.++.++.|+.+.+..+...++.
T Consensus       139 ~~~~i~~~n~~~----~i~~~l~sR~~~i~~~~~~~~~~~~~l~~~~~  182 (231)
T d1iqpa2         139 NVRFILSCNYSS----KIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAE  182 (231)
T ss_dssp             TEEEEEEESCGG----GSCHHHHHTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ceEEEeccCChh----hchHhHhCccccccccccchhhHHHHHHHHHH
Confidence            567888888765    68899999999999999999999999888775

>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=99.13  E-value=3.1e-10  Score=109.39  Aligned_cols=149  Identities=22%  Similarity=0.204  Sum_probs=97.6

Q ss_pred             HHHHHHHHHhcC---CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCC
Q psy17974        395 FGSIMEKLLLVN---HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAP  471 (583)
Q Consensus       395 ~~~ll~~~l~~~---~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~  471 (583)
                      ...+++.....+   .++||+||||||||++++.+++.+    ++....++-+...+...+...+    ..         
T Consensus        21 l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~----~~~~~~~~~~~~~~~~~~~~~~----~~---------   83 (238)
T d1in4a2          21 LSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL----QTNIHVTSGPVLVKQGDMAAIL----TS---------   83 (238)
T ss_dssp             HHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH----TCCEEEEETTTCCSHHHHHHHH----HH---------
T ss_pred             HHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc----CCCcccccCcccccHHHHHHHH----Hh---------
Confidence            334444444333   479999999999999999999987    2344555555555554444332    11         


Q ss_pred             CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCC--Cee----EeecCeEEEEecCCCCCCCCCCChhhhc
Q psy17974        472 LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDK--MFW----KTLQDVVLCTACAPPGGGRMPLTPRFVR  545 (583)
Q Consensus       472 ~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~--~~~----~~i~~i~~iaa~~p~~~gr~~l~~Rllr  545 (583)
                      .+++.++|+||++.....      .-+.++..++.+.-.....  ...    ....++.+|+||+.+.    .+++.+.+
T Consensus        84 ~~~~~~~~ide~~~~~~~------~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~----~~~~~~~~  153 (238)
T d1in4a2          84 LERGDVLFIDEIHRLNKA------VEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSG----LLSSPLRS  153 (238)
T ss_dssp             CCTTCEEEEETGGGCCHH------HHHHHHHHHHTSCCCC---------------CCCEEEEEESCGG----GSCHHHHT
T ss_pred             hccCCchHHHHHHHhhhH------HHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCc----ccccccee
Confidence            123458899999875432      4567788777653321110  001    1235788999998875    57888888


Q ss_pred             cce-EEEeCCCCHHHHHHHHHHHhcc
Q psy17974        546 HFG-LLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       546 ~f~-vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      +|. ++.++.|+.+++..+...+...
T Consensus       154 r~~~~~~~~~~~~~~~~~~l~~~~~~  179 (238)
T d1in4a2         154 RFGIILELDFYTVKELKEIIKRAASL  179 (238)
T ss_dssp             TCSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             eeeEEEEecCCCHHHHHHHHHHhhhh
Confidence            886 6799999999999999887653

>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=99.12  E-value=8.9e-11  Score=118.54  Aligned_cols=155  Identities=12%  Similarity=0.123  Sum_probs=95.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhh---hhcCccccCCCCCeEEEEec
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLD---KRTKTLLGAPLGKRLAVFVD  481 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~---~~~~~~~~p~~gk~~vlfiD  481 (583)
                      ...++||+||||||||.+++++++.+.    ...+.++.|..+.+..+.+..++...   ...++... ...+++|+|+|
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~~~----~~~~~i~~s~~~~~~~~~~~~~~~~~~~f~~a~~~~~-~~~~~~IIf~D  122 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKLAN----APFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAID-AVEQNGIVFID  122 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHT----CCEEEEEGGGGSSCCSGGGSTTHHHHHHHHTTTTCHH-HHHHHCEEEEE
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhccc----cchhcccccccccceeEeeeccccccccchhhhcccc-cccCCceEEeh
Confidence            357999999999999999999999872    34667777776544332222222211   11111100 01236899999


Q ss_pred             CCCCCCcccCCCCC------hHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce-EEEeCC
Q psy17974        482 DVNMPKLETYGAQP------PIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG-LLSLPS  554 (583)
Q Consensus       482 Dln~p~~d~yg~q~------~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~-vi~i~~  554 (583)
                      |++-..+...+.-.      ++.-|.+++|.....+.  ..-+...++.|+|+-+....-...+.|+|.++|. ++.++.
T Consensus       123 EIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~--~~~i~~s~ilfi~~ga~~~~~~~~~~p~l~~R~~~~i~~~~  200 (309)
T d1ofha_         123 EIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTK--HGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIRVELTA  200 (309)
T ss_dssp             CGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEET--TEEEECTTCEEEEEECCSSSCGGGSCHHHHHTCCEEEECCC
T ss_pred             hhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecC--CeEEEccceeEEeccchhhcCcccchhhhhhhhheeeeccC
Confidence            99987765544322      22223345664444332  2233456777887633222222468899999996 699999


Q ss_pred             CCHHHHHHHHHH
Q psy17974        555 PTEDTLKVIFKV  566 (583)
Q Consensus       555 p~~~sl~~I~~~  566 (583)
                      |+.+++..|...
T Consensus       201 ~~~~~~~~Il~~  212 (309)
T d1ofha_         201 LSAADFERILTE  212 (309)
T ss_dssp             CCHHHHHHHHHS
T ss_pred             CCHHHHHHHHHH
Confidence            999999998654

>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=99.12  E-value=5.6e-10  Score=108.21  Aligned_cols=140  Identities=20%  Similarity=0.234  Sum_probs=89.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhc-------CccccCCCCCeEEEE
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRT-------KTLLGAPLGKRLAVF  479 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~-------~~~~~p~~gk~~vlf  479 (583)
                      .++||+||||||||++++.+++.+    ++.+..++.+...+...+...+........       .....+..++..+++
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~  128 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQEL----GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVII  128 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHT----TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH----HhhhhccccccchhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEE
Confidence            479999999999999999999976    455667777766555444332222221110       011223467788999


Q ss_pred             ecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHH
Q psy17974        480 VDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDT  559 (583)
Q Consensus       480 iDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~s  559 (583)
                      +||++....+   .|..+..+..+....              ...++.+++...   ....+.+.|++.++.++.|+.++
T Consensus       129 ide~~~~~~~---~~~~~~~~~~~~~~~--------------~~~ii~i~~~~~---~~~~~~l~~~~~~i~f~~~~~~~  188 (253)
T d1sxja2         129 MDEVDGMSGG---DRGGVGQLAQFCRKT--------------STPLILICNERN---LPKMRPFDRVCLDIQFRRPDANS  188 (253)
T ss_dssp             ECSGGGCCTT---STTHHHHHHHHHHHC--------------SSCEEEEESCTT---SSTTGGGTTTSEEEECCCCCHHH
T ss_pred             eeeccccccc---hhhhhHHHhhhhccc--------------cccccccccccc---ccccccccceeeeeeccccchhH
Confidence            9998875543   344444443333211              122444444322   13445688899999999999999


Q ss_pred             HHHHHHHHhcc
Q psy17974        560 LKVIFKVRTSP  570 (583)
Q Consensus       560 l~~I~~~~l~~  570 (583)
                      +..+...++..
T Consensus       189 i~~~l~~i~~~  199 (253)
T d1sxja2         189 IKSRLMTIAIR  199 (253)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988864

>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=99.11  E-value=2.5e-11  Score=126.01  Aligned_cols=162  Identities=16%  Similarity=0.243  Sum_probs=91.7

Q ss_pred             HHHHHHHHHhc-CCceEEEccCCCcHHHHHHHHHHhhccc------CCceEEEEEeccCCChHHHHHHHHhhhhhhcCcc
Q psy17974        395 FGSIMEKLLLV-NHPVMFTGVTGVGKTVVARSILNKLLAS------NTWAALTINFSAQTSSARTQEILEGKLDKRTKTL  467 (583)
Q Consensus       395 ~~~ll~~~l~~-~~~vLL~Gp~GtGKT~li~~~l~~l~~~------~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~  467 (583)
                      ...+++.|... +.|++|+||||+|||+++..++..+...      .+..+..+..++-.......+-.+.++..--...
T Consensus        31 i~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~e~r~~~i~~~~  110 (387)
T d1qvra2          31 IRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAVIQEV  110 (387)
T ss_dssp             HHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhHHHHHHHHHHHh
Confidence            34566666644 4579999999999999999887654211      1345556655543322221111222221100000


Q ss_pred             ccCCCCCeEEEEecCCCCCCcc--cCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhc
Q psy17974        468 LGAPLGKRLAVFVDDVNMPKLE--TYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVR  545 (583)
Q Consensus       468 ~~p~~gk~~vlfiDDln~p~~d--~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr  545 (583)
                        .....++|+||||+|.--.-  .-|+..+-.+|+..+..|              ++++|||++|..--+..=++.|.|
T Consensus       111 --~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg--------------~~~~I~~tT~~ey~~~e~d~al~r  174 (387)
T d1qvra2         111 --VQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--------------ELRLIGATTLDEYREIEKDPALER  174 (387)
T ss_dssp             --HTTCSSEEEEECCC-------------------HHHHHTT--------------CCCEEEEECHHHHHHHTTCTTTCS
T ss_pred             --ccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC--------------CcceeeecCHHHHHHhcccHHHHH
Confidence              01122678999999985321  124456678999999866              578999999865322344789999


Q ss_pred             cceEEEeCCCCHHHHHHHHHHHhcccc
Q psy17974        546 HFGLLSLPSPTEDTLKVIFKVRTSPGK  572 (583)
Q Consensus       546 ~f~vi~i~~p~~~sl~~I~~~~l~~~l  572 (583)
                      +|.+|.+++|+.++-..|...+...+-
T Consensus       175 rF~~v~v~ep~~~~~~~il~~~~~~~e  201 (387)
T d1qvra2         175 RFQPVYVDEPTVEETISILRGLKEKYE  201 (387)
T ss_dssp             CCCCEEECCCCHHHHHHHHHHHHHHHH
T ss_pred             hcccccCCCCcHHHHHHHHHHHHHHHH
Confidence            999999999999999999888766553

>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=99.11  E-value=4.8e-10  Score=107.18  Aligned_cols=169  Identities=12%  Similarity=0.151  Sum_probs=107.4

Q ss_pred             eeccccCCccccCCCCCCccceeeCchhhhHHHHHHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhcccC-CceEEEE
Q psy17974        365 TPWTTITPIFTYDPTMPFFDMMVPTIDTIRFGSIMEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLASN-TWAALTI  441 (583)
Q Consensus       365 ~~W~~~~~~~~~~~~~~~~~i~VpT~dt~r~~~ll~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~~-~~~~~~i  441 (583)
                      .||.++..+-      .+.+++.+. +.   ...+..+++.+.  ++||+||||||||++++.+++++.... ...+...
T Consensus         2 ~pw~ekyrP~------~~~divg~~-~~---~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~   71 (227)
T d1sxjc2           2 LPWVEKYRPE------TLDEVYGQN-EV---ITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLEL   71 (227)
T ss_dssp             CCHHHHTCCS------SGGGCCSCH-HH---HHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEE
T ss_pred             CchhhhhCCC------CHHHccCcH-HH---HHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEe
Confidence            4788876442      234444432 22   233566677665  699999999999999999998763221 1223344


Q ss_pred             EeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeec
Q psy17974        442 NFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQ  521 (583)
Q Consensus       442 ~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~  521 (583)
                      +.+.....+............     .....+++.+++|||++....+      ....|+..++...            .
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~kiiiiDe~d~~~~~------~~~~Ll~~le~~~------------~  128 (227)
T d1sxjc2          72 NASDDRGIDVVRNQIKDFAST-----RQIFSKGFKLIILDEADAMTNA------AQNALRRVIERYT------------K  128 (227)
T ss_dssp             CTTSCCSHHHHHTHHHHHHHB-----CCSSSCSCEEEEETTGGGSCHH------HHHHHHHHHHHTT------------T
T ss_pred             cccccCCeeeeecchhhcccc-----ccccCCCeEEEEEeccccchhh------HHHHHHHHhhhcc------------c
Confidence            444444433333222222111     1122344568899999876544      2445666666331            3


Q ss_pred             CeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        522 DVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       522 ~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      ++.++.+++.+.    .+.+.+.+++..+.+.+|+.+++..+...++..
T Consensus       129 ~~~~~~~~~~~~----~i~~~i~sr~~~i~~~~~~~~~i~~~l~~I~~~  173 (227)
T d1sxjc2         129 NTRFCVLANYAH----KLTPALLSQCTRFRFQPLPQEAIERRIANVLVH  173 (227)
T ss_dssp             TEEEEEEESCGG----GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHT
T ss_pred             ceeeccccCcHH----HhHHHHHHHHhhhcccccccccccccccccccc
Confidence            566777777765    789999999999999999999999999888753

>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=1.3e-09  Score=105.42  Aligned_cols=76  Identities=14%  Similarity=0.282  Sum_probs=58.4

Q ss_pred             CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEE
Q psy17974        472 LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLS  551 (583)
Q Consensus       472 ~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~  551 (583)
                      .++..+++|||++....+      ....|+..++..            ..++.||++|+.+.    .+.+.+.+||..|+
T Consensus       129 ~~~~~iiiide~d~l~~~------~~~~l~~~~e~~------------~~~~~~Il~tn~~~----~i~~~l~sR~~~i~  186 (252)
T d1sxje2         129 AHRYKCVIINEANSLTKD------AQAALRRTMEKY------------SKNIRLIMVCDSMS----PIIAPIKSQCLLIR  186 (252)
T ss_dssp             --CCEEEEEECTTSSCHH------HHHHHHHHHHHS------------TTTEEEEEEESCSC----SSCHHHHTTSEEEE
T ss_pred             CCCceEEEeccccccccc------cchhhhcccccc------------cccccceeeecccc----chhhhhhcchheee
Confidence            345668899999876444      345677777743            23577889998875    68899999999999


Q ss_pred             eCCCCHHHHHHHHHHHhc
Q psy17974        552 LPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       552 i~~p~~~sl~~I~~~~l~  569 (583)
                      ++.|+.+++..+...++.
T Consensus       187 ~~~~~~~~~~~~l~~i~~  204 (252)
T d1sxje2         187 CPAPSDSEISTILSDVVT  204 (252)
T ss_dssp             CCCCCHHHHHHHHHHHHH
T ss_pred             ecccchhhHHHHHHHHHH
Confidence            999999999999988765

>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=99.01  E-value=3.6e-09  Score=101.80  Aligned_cols=139  Identities=19%  Similarity=0.132  Sum_probs=88.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .++||+||||||||++++.+++.+    .+....++-+...........+...            .+...|+|+||++-.
T Consensus        36 ~~~Ll~GPpG~GKTtla~~la~~~----~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~i~~iDe~~~~   99 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAHVIAHEL----GVNLRVTSGPAIEKPGDLAAILANS------------LEEGDILFIDEIHRL   99 (239)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH----TCCEEEEETTTCCSHHHHHHHHHTT------------CCTTCEEEEETGGGC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh----CCCeEeccCCccccchhhHHHHHhh------------ccCCCeeeeeccccc
Confidence            589999999999999999999877    3344445444444433322222111            122358899999865


Q ss_pred             CcccCCCCChHHHHHHHHHhCCee--ecCC---C-eeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEeCCCCHHHH
Q psy17974        487 KLETYGAQPPIELLRQFLDFGGLY--DRDK---M-FWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSLPSPTEDTL  560 (583)
Q Consensus       487 ~~d~yg~q~~lElLRq~ld~~g~y--d~~~---~-~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i~~p~~~sl  560 (583)
                      ..+      .-+.++..++.+-.-  ....   . ......++.++++|+.+.   ....+-+.|+...+.+..|+.+.+
T Consensus       100 ~~~------~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~---~~~~~~l~~~~~~~~~~~~~~~~~  170 (239)
T d1ixsb2         100 SRQ------AEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPG---LITAPLLSRFGIVEHLEYYTPEEL  170 (239)
T ss_dssp             CHH------HHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCS---SCSCGGGGGCSEEEECCCCCHHHH
T ss_pred             chh------HHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCcc---cccchhhcccceeeEeeccChhhh
Confidence            443      346677777643111  0010   1 112335678888888765   234455555667899999999999


Q ss_pred             HHHHHHHhcc
Q psy17974        561 KVIFKVRTSP  570 (583)
Q Consensus       561 ~~I~~~~l~~  570 (583)
                      ..|...+...
T Consensus       171 ~~i~~~~~~~  180 (239)
T d1ixsb2         171 AQGVMRDARL  180 (239)
T ss_dssp             HHHHHHHHGG
T ss_pred             hHHHHHHHHH
Confidence            9999887764

>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=99.00  E-value=3.5e-09  Score=102.38  Aligned_cols=142  Identities=18%  Similarity=0.259  Sum_probs=98.0

Q ss_pred             HHHHHhcCC---ceEEEccCCCcHHHHHHHHHHhhcccCC--------------------ceEEEEEeccCCChHHHHHH
Q psy17974        399 MEKLLLVNH---PVMFTGVTGVGKTVVARSILNKLLASNT--------------------WAALTINFSAQTSSARTQEI  455 (583)
Q Consensus       399 l~~~l~~~~---~vLL~Gp~GtGKT~li~~~l~~l~~~~~--------------------~~~~~i~fS~~Tt~~~lq~~  455 (583)
                      +..++++++   .+||+||||+|||++++.+++.+.....                    ..+..++-+..+..+.+.+.
T Consensus        24 L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~i~~ir~~  103 (239)
T d1njfa_          24 LANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDL  103 (239)
T ss_dssp             HHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEEEEETTCSSSHHHHHHH
T ss_pred             HHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeEEEecchhcCCHHHHHHH
Confidence            455555553   3899999999999999998877632110                    12344554445555554443


Q ss_pred             HHhhhhhhcCccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCC
Q psy17974        456 LEGKLDKRTKTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGG  535 (583)
Q Consensus       456 ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~g  535 (583)
                      ++.       ..+.|..+++-|++|||++.-..+      ....|+..+|..            -.++.||++|+.+.  
T Consensus       104 ~~~-------~~~~~~~~~~kviiIde~d~l~~~------~q~~Llk~lE~~------------~~~~~~il~tn~~~--  156 (239)
T d1njfa_         104 LDN-------VQYAPARGRFKVYLIDEVHMLSRH------SFNALLKTLEEP------------PEHVKFLLATTDPQ--  156 (239)
T ss_dssp             HHS-------CCCSCSSSSSEEEEEETGGGSCHH------HHHHHHHHHHSC------------CTTEEEEEEESCGG--
T ss_pred             HHH-------HHhccccCCCEEEEEECcccCCHH------HHHHHHHHHhcC------------CCCeEEEEEcCCcc--
Confidence            221       123455666678999999875443      345577777732            13567888888765  


Q ss_pred             CCCCChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        536 RMPLTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       536 r~~l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                        .+.+.+.++|.++.++.|+.+++..+...+.+
T Consensus       157 --~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~  188 (239)
T d1njfa_         157 --KLPVTILSRCLQFHLKALDVEQIRHQLEHILN  188 (239)
T ss_dssp             --GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             --ccChhHhhhhcccccccCcHHHhhhHHHHHHh
Confidence              68899999999999999999999998887765

>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=99.00  E-value=1.5e-09  Score=103.85  Aligned_cols=151  Identities=13%  Similarity=0.160  Sum_probs=96.1

Q ss_pred             HHHHHHhcCC--ceEEEccCCCcHHHHHHHHHHhhccc--CCceEEEEEeccCCChHHHHHHHHhhhhhhcC--cc---c
Q psy17974        398 IMEKLLLVNH--PVMFTGVTGVGKTVVARSILNKLLAS--NTWAALTINFSAQTSSARTQEILEGKLDKRTK--TL---L  468 (583)
Q Consensus       398 ll~~~l~~~~--~vLL~Gp~GtGKT~li~~~l~~l~~~--~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~--~~---~  468 (583)
                      .++.+++.+.  +++|+||||||||++++.+++++...  .......++.+.......+...+.........  ..   .
T Consensus        23 ~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (237)
T d1sxjd2          23 VLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLE  102 (237)
T ss_dssp             HHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHHSCCCCCCTTHHH
T ss_pred             HHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHhhhhhhhhhHHHHh
Confidence            3556666664  59999999999999999998875211  12345566666655544444333332211100  00   0


Q ss_pred             cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccce
Q psy17974        469 GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFG  548 (583)
Q Consensus       469 ~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~  548 (583)
                      ....++.-|++|||++....+      ....++.+++...            .+..++.+++...    .+.+++.++|.
T Consensus       103 ~~~~~~~~viiiDe~d~l~~~------~~~~l~~~~~~~~------------~~~~~i~~~~~~~----~~~~~l~sr~~  160 (237)
T d1sxjd2         103 NYPCPPYKIIILDEADSMTAD------AQSALRRTMETYS------------GVTRFCLICNYVT----RIIDPLASQCS  160 (237)
T ss_dssp             HSCCCSCEEEEETTGGGSCHH------HHHHHHHHHHHTT------------TTEEEEEEESCGG----GSCHHHHHHSE
T ss_pred             hccccCceEEEEecccccCHH------HHHHHhhcccccc------------ccccccccccccc----cccccccchhh
Confidence            112344558999999876544      2334455554321            2345666666544    67889999999


Q ss_pred             EEEeCCCCHHHHHHHHHHHhcc
Q psy17974        549 LLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       549 vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      ++.+++|+.+++..+...++..
T Consensus       161 ~i~f~~~~~~~~~~~L~~i~~~  182 (237)
T d1sxjd2         161 KFRFKALDASNAIDRLRFISEQ  182 (237)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHT
T ss_pred             hhccccccccccchhhhhhhhh
Confidence            9999999999999999888764

>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=98.90  E-value=1.8e-09  Score=109.64  Aligned_cols=144  Identities=20%  Similarity=0.279  Sum_probs=90.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccC---C-------------------c-----eEEEEEeccCCChHHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASN---T-------------------W-----AALTINFSAQTSSARTQEILE  457 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~---~-------------------~-----~~~~i~fS~~Tt~~~lq~~ie  457 (583)
                      .+++|||+||||||||++++.+..-|+.-.   .                   .     ..-....+..++...+.+.+.
T Consensus        27 ~~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~d  106 (333)
T d1g8pa_          27 GIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALD  106 (333)
T ss_dssp             GGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEEC
T ss_pred             CCCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCccccccchhhccccCcccccCceeeccCCCCcccccCcch
Confidence            568999999999999999998876441000   0                   0     001123344455555432111


Q ss_pred             hh-hhhhcCccccCC---CCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeee-cCCCeeEeecCeEEEEecCCC
Q psy17974        458 GK-LDKRTKTLLGAP---LGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYD-RDKMFWKTLQDVVLCTACAPP  532 (583)
Q Consensus       458 ~~-l~~~~~~~~~p~---~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd-~~~~~~~~i~~i~~iaa~~p~  532 (583)
                      .. .....+..+.|-   .....|+|+||+|...++      ..+.|++.+|.|-..- +.........++.++||+||.
T Consensus       107 ~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~~~~------~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~  180 (333)
T d1g8pa_         107 IERAISKGEKAFEPGLLARANRGYLYIDECNLLEDH------IVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPE  180 (333)
T ss_dssp             HHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHH------HHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSC
T ss_pred             hhhccccCcceeeccccccccccEeecccHHHHHHH------HHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCcc
Confidence            11 111111122110   112469999999986654      6899999999875542 233455566789999999997


Q ss_pred             CCCCCCCChhhhccceE-EEeCCCCH
Q psy17974        533 GGGRMPLTPRFVRHFGL-LSLPSPTE  557 (583)
Q Consensus       533 ~~gr~~l~~Rllr~f~v-i~i~~p~~  557 (583)
                      .+   .+++.++.||.+ +.+++|..
T Consensus       181 ~~---~l~~~llDRf~~~i~v~~~~~  203 (333)
T d1g8pa_         181 EG---DLRPQLLDRFGLSVEVLSPRD  203 (333)
T ss_dssp             SC---CCCHHHHTTCSEEEECCCCCS
T ss_pred             cc---ccccchhhhhcceeeccCcch
Confidence            53   599999999974 78888854

>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=98.90  E-value=1.6e-09  Score=105.69  Aligned_cols=138  Identities=15%  Similarity=0.186  Sum_probs=74.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCC---ChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQT---SSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVN  484 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~T---t~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln  484 (583)
                      .|||+||||||||++++++++.+    ++.++.++.+...   +.....+.+..-++.-.       ...++|+||||++
T Consensus        42 ~vLL~GppGtGKT~la~alA~~~----~~~~~~i~~~~~~~g~~~~~~~~~i~~if~~A~-------~~~p~il~iDEid  110 (246)
T d1d2na_          42 SVLLEGPPHSGKTALAAKIAEES----NFPFIKICSPDKMIGFSETAKCQAMKKIFDDAY-------KSQLSCVVVDDIE  110 (246)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH----TCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHH-------TSSEEEEEECCHH
T ss_pred             EEEEECcCCCCHHHHHHHHhhcc----cccccccccccccccccccchhhhhhhhhhhhh-------hcccceeehhhhh
Confidence            58999999999999999999876    3456667655422   11121222222222211       2357899999997


Q ss_pred             CCCc-ccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCCh-hhhccce-EEEeCCCC-HHHH
Q psy17974        485 MPKL-ETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTP-RFVRHFG-LLSLPSPT-EDTL  560 (583)
Q Consensus       485 ~p~~-d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~-Rllr~f~-vi~i~~p~-~~sl  560 (583)
                      .... ..-|....-..+.+++..-......      -.++.+|||+|.|.    .+++ ++.++|. .|++|.++ .+.+
T Consensus       111 ~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~------~~~v~vi~tTn~~~----~ld~~~~~~rF~~~i~~P~~~~r~~i  180 (246)
T d1d2na_         111 RLLDYVPIGPRFSNLVLQALLVLLKKAPPQ------GRKLLIIGTTSRKD----VLQEMEMLNAFSTTIHVPNIATGEQL  180 (246)
T ss_dssp             HHTTCBTTTTBCCHHHHHHHHHHTTCCCST------TCEEEEEEEESCHH----HHHHTTCTTTSSEEEECCCEEEHHHH
T ss_pred             hHhhhcccccchhHHHHHHHHHHhcCCCcc------ccceeeeeccCChh----hccchhhcCccceEEecCCchhHHHH
Confidence            5221 1112222223333333211111100      13578899999764    3332 3556664 57886653 4555


Q ss_pred             HHHHHH
Q psy17974        561 KVIFKV  566 (583)
Q Consensus       561 ~~I~~~  566 (583)
                      ..++..
T Consensus       181 l~~l~~  186 (246)
T d1d2na_         181 LEALEL  186 (246)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            555543

>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=98.68  E-value=7.3e-09  Score=104.44  Aligned_cols=155  Identities=17%  Similarity=0.255  Sum_probs=106.0

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh---hhhhcCcccc-C-CCCCeEEEEecCC
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK---LDKRTKTLLG-A-PLGKRLAVFVDDV  483 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~---l~~~~~~~~~-p-~~gk~~vlfiDDl  483 (583)
                      +|++||+|+|||.+++.+++.+. ......+.+++|..+....+.+++.+.   .....++.+. . ......|+++||+
T Consensus        56 ~lf~Gp~G~GKt~lak~la~~l~-~~~~~~~~~~~~~~~~~~~~~~L~g~~~gyvG~~~~~~l~~~~~~~p~~Vvl~DEi  134 (315)
T d1qvra3          56 FLFLGPTGVGKTELAKTLAATLF-DTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEI  134 (315)
T ss_dssp             EEEBSCSSSSHHHHHHHHHHHHH-SSGGGEEEECTTTCCSSGGGGGC--------------CHHHHHHHCSSEEEEESSG
T ss_pred             EEEECCCcchHHHHHHHHHHHhc-CCCcceEEEeccccccchhhhhhcCCCCCCcCcccCChHHHHHHhCCCcEEEEehH
Confidence            58899999999999999998873 234467788888887755543333221   1111111111 0 0123579999999


Q ss_pred             CCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC----------------------CCCCCCh
Q psy17974        484 NMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG----------------------GRMPLTP  541 (583)
Q Consensus       484 n~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~----------------------gr~~l~~  541 (583)
                      +-+.++      +..+|-|++|.| .+.......+...++.+|+|+|-...                      ....+.|
T Consensus       135 eK~~~~------v~~~ll~~l~~g-~~~~~~gr~v~~~~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~p  207 (315)
T d1qvra3         135 EKAHPD------VFNILLQILDDG-RLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRP  207 (315)
T ss_dssp             GGSCHH------HHHHHHHHHTTT-EECCSSSCCEECTTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCH
T ss_pred             hhcCHH------HHHHHHHHhccC-ceeCCCCcEecCcceEEEEecccChHHHhhhcccccchhhhhHHHHHHHHhhcCH
Confidence            987665      788999999976 44434455677899999999885321                      1256899


Q ss_pred             hhhccce-EEEeCCCCHHHHHHHHHHHhccc
Q psy17974        542 RFVRHFG-LLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       542 Rllr~f~-vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      .|+.|+. ++.+.+.+.+++..|....+...
T Consensus       208 EflnRid~Ii~F~~L~~~~~~~I~~~~l~~l  238 (315)
T d1qvra3         208 EFLNRLDEIVVFRPLTKEQIRQIVEIQLSYL  238 (315)
T ss_dssp             HHHHTCSBCCBCCCCCHHHHHHHHHHHHHHH
T ss_pred             HHHhcCCeeeeccchhhhhhHHHHHHHHHHH
Confidence            9999997 66789999999999988776543

>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=98.66  E-value=1.5e-07  Score=88.83  Aligned_cols=131  Identities=18%  Similarity=0.181  Sum_probs=86.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccC--------------------CceEEEEEeccC---CChHHHHHHHHhhhhhhc
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASN--------------------TWAALTINFSAQ---TSSARTQEILEGKLDKRT  464 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~--------------------~~~~~~i~fS~~---Tt~~~lq~~ie~~l~~~~  464 (583)
                      .+||+||+|+|||++++.+++.+....                    ......+..+..   ...+++.++++ .+    
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~ir~l~~-~~----  100 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTE-KL----  100 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHH-HT----
T ss_pred             EEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcccccccchhhHHhh-hh----
Confidence            499999999999999999988652110                    011122221111   12223332221 11    


Q ss_pred             CccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhh
Q psy17974        465 KTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFV  544 (583)
Q Consensus       465 ~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rll  544 (583)
                        .+.|..+++-|++|||++.-..+      ....|+..+|..            -.++.||.+++.+.    .+.+.+.
T Consensus       101 --~~~~~~~~~kviIide~d~l~~~------a~n~Llk~lEep------------~~~~~fIl~t~~~~----~ll~tI~  156 (207)
T d1a5ta2         101 --NEHARLGGAKVVWVTDAALLTDA------AANALLKTLEEP------------PAETWFFLATREPE----RLLATLR  156 (207)
T ss_dssp             --TSCCTTSSCEEEEESCGGGBCHH------HHHHHHHHHTSC------------CTTEEEEEEESCGG----GSCHHHH
T ss_pred             --hhccccCccceEEechhhhhhhh------hhHHHHHHHHhh------------cccceeeeeecChh----hhhhhhc
Confidence              22345566678899999886654      456677777732            24677888888765    6999999


Q ss_pred             ccceEEEeCCCCHHHHHHHHHHH
Q psy17974        545 RHFGLLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       545 r~f~vi~i~~p~~~sl~~I~~~~  567 (583)
                      +|+.++.++.|+.+++..+....
T Consensus       157 SRc~~i~~~~~~~~~~~~~L~~~  179 (207)
T d1a5ta2         157 SRCRLHYLAPPPEQYAVTWLSRE  179 (207)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHH
T ss_pred             ceeEEEecCCCCHHHHHHHHHHc
Confidence            99999999999999998887654

>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=98.65  E-value=7.7e-08  Score=96.78  Aligned_cols=153  Identities=20%  Similarity=0.263  Sum_probs=105.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhh---hhhhcCcccc-C-CCCCeEEEEecC
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGK---LDKRTKTLLG-A-PLGKRLAVFVDD  482 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~---l~~~~~~~~~-p-~~gk~~vlfiDD  482 (583)
                      .+||+||||+|||.+++.+++.+.    ...+.+++|..+++..+.+++...   .....++... . ......|+++||
T Consensus        54 ~~lf~Gp~GvGKT~lak~la~~l~----~~~i~~d~s~~~~~~~~~~l~g~~~gy~g~~~~~~l~~~~~~~~~~vvl~De  129 (315)
T d1r6bx3          54 SFLFAGPTGVGKTEVTVQLSKALG----IELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDE  129 (315)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT----CEEEEEEGGGCSSSSCCSSSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEET
T ss_pred             EEEEECCCcchhHHHHHHHHhhcc----CCeeEeccccccchhhhhhhcccCCCccccccCChhhHHHHhCccchhhhcc
Confidence            579999999999999999998873    357888988876543322111110   0000011000 0 012356999999


Q ss_pred             CCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCC-------C--------------CCCCCh
Q psy17974        483 VNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGG-------G--------------RMPLTP  541 (583)
Q Consensus       483 ln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~-------g--------------r~~l~~  541 (583)
                      +.-+.++      +...|-|++|.|-+.|.. +.-....++.+|+|+|-...       +              +..+.|
T Consensus       130 ieKa~~~------V~~~lLqild~G~ltd~~-Gr~vdf~n~iiI~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~p  202 (315)
T d1r6bx3         130 IEKAHPD------VFNILLQVMDNGTLTDNN-GRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTP  202 (315)
T ss_dssp             GGGSCHH------HHHHHHHHHHHSEEEETT-TEEEECTTEEEEEEECSSCC-----------------CHHHHHHHSCH
T ss_pred             cccccch------HhhhhHHhhccceecCCC-CCccCccceEEEeccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCH
Confidence            9987776      678888999988877764 45567889999999885321       0              123778


Q ss_pred             hhhccce-EEEeCCCCHHHHHHHHHHHhccc
Q psy17974        542 RFVRHFG-LLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       542 Rllr~f~-vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                      .|+.|+. ++...+.+.+.+..|....+...
T Consensus       203 EflnRid~ii~f~~l~~~~~~~I~~~~l~~~  233 (315)
T d1r6bx3         203 EFRNRLDNIIWFDHLSTDVIHQVVDKFIVEL  233 (315)
T ss_dssp             HHHTTCSEEEECCCCCHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhhhcccchhhhHHHHHHHHHHHHH
Confidence            8889996 78888899999999988777544

>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=98.63  E-value=3.7e-09  Score=106.36  Aligned_cols=145  Identities=14%  Similarity=0.085  Sum_probs=76.4

Q ss_pred             cCCceE-EEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCC
Q psy17974        405 VNHPVM-FTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDV  483 (583)
Q Consensus       405 ~~~~vL-L~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDl  483 (583)
                      ..++++ ++||||||||+++++++.++.  .+...+.++.+.-.+.      ..+..+++-+.+|... .+++|+|||||
T Consensus       121 ~~~g~~l~~G~pG~GKT~la~ala~~~~--~~~~~~~~~~~~~~~~------~~G~~e~~~~~~f~~a-~~~~ilf~DEi  191 (321)
T d1w44a_         121 YASGMVIVTGKGNSGKTPLVHALGEALG--GKDKYATVRFGEPLSG------YNTDFNVFVDDIARAM-LQHRVIVIDSL  191 (321)
T ss_dssp             EESEEEEEECSSSSCHHHHHHHHHHHHH--TTSCCEEEEBSCSSTT------CBCCHHHHHHHHHHHH-HHCSEEEEECC
T ss_pred             cCCceEEEECCCCccHHHHHHHHHHHhc--CCCCeEEEEhhHhhhc------ccchHHHHHHHHHHHH-hhccEEEeehh
Confidence            345554 589999999999999999863  2234455666554421      0001111111111100 02469999999


Q ss_pred             CCCCcccCCC--CCh-HHHHHHHH-HhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCCh---hhhccceEEEeCCCC
Q psy17974        484 NMPKLETYGA--QPP-IELLRQFL-DFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTP---RFVRHFGLLSLPSPT  556 (583)
Q Consensus       484 n~p~~d~yg~--q~~-lElLRq~l-d~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~---Rllr~f~vi~i~~p~  556 (583)
                      |......-+.  ... -..+.|++ +..|+-.        .+++.+|||+||.. -...+++   |.-|.+..+.+++|+
T Consensus       192 d~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~--------~~~v~viaatN~~~-~~~~i~~~~~r~~Rf~~~v~v~~pd  262 (321)
T d1w44a_         192 KNVIGAAGGNTTSGGISRGAFDLLSDIGAMAA--------SRGCVVIASLNPTS-NDDKIVELVKEASRSNSTSLVISTD  262 (321)
T ss_dssp             TTTC-----------CCHHHHHHHHHHHHHHH--------HHTCEEEEECCCCC-CCHHHHHHHHHHHHHSCSEEEEECS
T ss_pred             hhhccccccCCCCCcchhhhhhhhhhcccccc--------CCCeEEEEeCCCcc-cccchhhhhhccCcccceeecCCCC
Confidence            9865433111  111 12334443 2223322        35789999999642 0012333   335566779999998


Q ss_pred             HHHHHHHHHHH
Q psy17974        557 EDTLKVIFKVR  567 (583)
Q Consensus       557 ~~sl~~I~~~~  567 (583)
                      .+.-..|+..+
T Consensus       263 ~~~r~~il~~~  273 (321)
T d1w44a_         263 VDGEWQVLTRT  273 (321)
T ss_dssp             STTEEEEEEEC
T ss_pred             hHHHHHHHHHh
Confidence            87755554433

>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=98.61  E-value=4.5e-08  Score=92.98  Aligned_cols=165  Identities=15%  Similarity=0.167  Sum_probs=87.7

Q ss_pred             CCCCCCccceeeCchhhhHHHHHHHHHhc----CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHH
Q psy17974        377 DPTMPFFDMMVPTIDTIRFGSIMEKLLLV----NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSART  452 (583)
Q Consensus       377 ~~~~~~~~i~VpT~dt~r~~~ll~~~l~~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~l  452 (583)
                      +|...|.+-+| ...-.-...+++.+++.    ..|++|+||+|||||.+++++.++.. .....+++++.+      .+
T Consensus         4 n~~~tFdnF~v-g~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~-~~~~~~~~~~~~------~~   75 (213)
T d1l8qa2           4 NPKYTLENFIV-GEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAK-KRGYRVIYSSAD------DF   75 (213)
T ss_dssp             CTTCCSSSCCC-CTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHH-HTTCCEEEEEHH------HH
T ss_pred             CCCCChhhccC-CCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhc-cCccceEEechH------HH
Confidence            34444444333 33333333334444442    25699999999999999999988764 334455555322      22


Q ss_pred             HHHHHhhhhhhc----CccccCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEe
Q psy17974        453 QEILEGKLDKRT----KTLLGAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTA  528 (583)
Q Consensus       453 q~~ie~~l~~~~----~~~~~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa  528 (583)
                      ...+...+....    ...+.    .--+++|||++.-..++........++....+.|+              -.++++
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~----~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~--------------~iiits  137 (213)
T d1l8qa2          76 AQAMVEHLKKGTINEFRNMYK----SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEK--------------QIILAS  137 (213)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHH----TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTC--------------EEEEEE
T ss_pred             HHHHHHHHHccchhhHHHHHh----hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccc--------------eEEEec
Confidence            111111111000    00010    12278999998754332111224455555555442              234455


Q ss_pred             cCCCCCCCCCCChhhhccc---eEEEeCCCCHHHHHHHHHHHhc
Q psy17974        529 CAPPGGGRMPLTPRFVRHF---GLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       529 ~~p~~~gr~~l~~Rllr~f---~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      ..+|..- ..+.+|+.+|+   .++.++ |+.++...|......
T Consensus       138 ~~~p~~l-~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~  179 (213)
T d1l8qa2         138 DRHPQKL-DGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKLK  179 (213)
T ss_dssp             SSCGGGC-TTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHHH
T ss_pred             CCcchhc-cccchHHHHHhhCceEEEEC-CCcHHHHHHHHHHHH
Confidence            5555421 23567886666   578886 777888888777664

>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=98.55  E-value=2.5e-07  Score=89.77  Aligned_cols=169  Identities=18%  Similarity=0.170  Sum_probs=106.1

Q ss_pred             hhhHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc-cC
Q psy17974        392 TIRFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL-GA  470 (583)
Q Consensus       392 t~r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~-~p  470 (583)
                      ..+...-++.+...+.||+|.||+|||||.+++.+.... .......+.++++..+.. .....    +-...++.+ ++
T Consensus         9 ~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s-~~~~~~~~~~~~~~~~~~-~~~~~----lfg~~~~~~~~~   82 (247)
T d1ny5a2           9 MKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS-DRSKEPFVALNVASIPRD-IFEAE----LFGYEKGAFTGA   82 (247)
T ss_dssp             HHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS-TTTTSCEEEEETTTSCHH-HHHHH----HHCBCTTSSTTC
T ss_pred             HHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc-CCcccccccchhhhhhhc-ccHHH----hcCcccCCcCCc
Confidence            445556677788889999999999999999999886643 233445667777765433 32222    221122222 11


Q ss_pred             CC--------CCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCC---CCCCCC
Q psy17974        471 PL--------GKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPG---GGRMPL  539 (583)
Q Consensus       471 ~~--------gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~---~gr~~l  539 (583)
                      ..        .+..++|+||++....+      ..+.|-++++.+.++...... ..-.++++|+|++.+-   .....+
T Consensus        83 ~~~~~g~l~~a~gGtL~l~~i~~L~~~------~Q~~L~~~l~~~~~~~~~~~~-~~~~~~RlI~~s~~~l~~l~~~~~f  155 (247)
T d1ny5a2          83 VSSKEGFFELADGGTLFLDEIGELSLE------AQAKLLRVIESGKFYRLGGRK-EIEVNVRILAATNRNIKELVKEGKF  155 (247)
T ss_dssp             CSCBCCHHHHTTTSEEEEESGGGCCHH------HHHHHHHHHHHSEECCBTCCS-BEECCCEEEEEESSCHHHHHHTTSS
T ss_pred             ccccCCHHHccCCCEEEEeChHhCCHH------HHHHHHHHHHhCCEEECCCCC-ceecCeEEEEecCCCHHHHHHcCCC
Confidence            11        12247899999876554      245566777767666543222 2234788999887652   122357


Q ss_pred             Chhhhccce--EEEeCCCC--HHHHHHHHHHHhccccc
Q psy17974        540 TPRFVRHFG--LLSLPSPT--EDTLKVIFKVRTSPGKQ  573 (583)
Q Consensus       540 ~~Rllr~f~--vi~i~~p~--~~sl~~I~~~~l~~~l~  573 (583)
                      .++|..+++  .|.+|+..  .+++..|+..++..+-.
T Consensus       156 ~~~L~~~l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~  193 (247)
T d1ny5a2         156 REDLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSR  193 (247)
T ss_dssp             CHHHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHhhcCeeeecCCChhhchhhHhhhhhhhhhhhhh
Confidence            888888876  45666653  47888888888876543

>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=98.51  E-value=3e-07  Score=88.45  Aligned_cols=161  Identities=14%  Similarity=0.041  Sum_probs=93.2

Q ss_pred             HHHHHHHHHhc----CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhc---Ccc
Q psy17974        395 FGSIMEKLLLV----NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRT---KTL  467 (583)
Q Consensus       395 ~~~ll~~~l~~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~---~~~  467 (583)
                      ...++..++..    ..+++|+||||||||++++.+++.+.......++.+++........+-..+........   +..
T Consensus        28 l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (276)
T d1fnna2          28 LDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLS  107 (276)
T ss_dssp             HHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCCCCSSCCC
T ss_pred             HHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhhHHhhhhhhhhhccc
Confidence            34555555543    25899999999999999999999885555666777777666665554433322221100   000


Q ss_pred             ----c------cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCC
Q psy17974        468 ----L------GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRM  537 (583)
Q Consensus       468 ----~------~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~  537 (583)
                          .      ........+.++|+++.....      ....+..+.+   ....     ..-..+.+|++++++. -..
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~------~~~~~~~~~~---~~~~-----~~~~~~~~i~~~~~~~-~~~  172 (276)
T d1fnna2         108 RDEFLALLVEHLRERDLYMFLVLDDAFNLAPD------ILSTFIRLGQ---EADK-----LGAFRIALVIVGHNDA-VLN  172 (276)
T ss_dssp             HHHHHHHHHHHHHHTTCCEEEEEETGGGSCHH------HHHHHHHHTT---CHHH-----HSSCCEEEEEEESSTH-HHH
T ss_pred             hhHHHHHHHHHHhhcccccccchhHHHHhhhh------hhhhHHHHHh---cccc-----ccccceEEeecCCchh-hhh
Confidence                0      011233455667776543222      1222222221   1110     0112456777776542 122


Q ss_pred             CCChhhhccc--eEEEeCCCCHHHHHHHHHHHhcc
Q psy17974        538 PLTPRFVRHF--GLLSLPSPTEDTLKVIFKVRTSP  570 (583)
Q Consensus       538 ~l~~Rllr~f--~vi~i~~p~~~sl~~I~~~~l~~  570 (583)
                      .+.+++.+++  ..|.++.|+.+++..|+...++.
T Consensus       173 ~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~  207 (276)
T d1fnna2         173 NLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKA  207 (276)
T ss_dssp             TSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHH
T ss_pred             hcchhhhhhhcchhccccchhHHHHHHHHHHHHHH
Confidence            4778887766  46899999999999999887764

>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=98.36  E-value=2.4e-07  Score=89.75  Aligned_cols=155  Identities=14%  Similarity=0.061  Sum_probs=87.3

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcc-----cCCceEEEEEeccCCChHHHHHHHHhhhhhhcCc--c--------c---cC
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLA-----SNTWAALTINFSAQTSSARTQEILEGKLDKRTKT--L--------L---GA  470 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~-----~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~--~--------~---~p  470 (583)
                      ++++||||||||++++.+++.+..     .....+..++++...+....-......+......  .        +   ..
T Consensus        49 l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  128 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLY  128 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHH
Confidence            467899999999999999987631     1135666778777666554333322222211100  0        0   01


Q ss_pred             CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHh-CCeeecCCCeeEeecCeEEEEecCCCCC--CCCCCChhhhccc
Q psy17974        471 PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDF-GGLYDRDKMFWKTLQDVVLCTACAPPGG--GRMPLTPRFVRHF  547 (583)
Q Consensus       471 ~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~-~g~yd~~~~~~~~i~~i~~iaa~~p~~~--gr~~l~~Rllr~f  547 (583)
                      ..+...++++|+++......-........+.++.+. .....        .....+|+.++.+..  -.....+++.++|
T Consensus       129 ~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~--------~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~  200 (287)
T d1w5sa2         129 VENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDG--------VNRIGFLLVASDVRALSYMREKIPQVESQI  200 (287)
T ss_dssp             HHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTS--------CCBEEEEEEEEETHHHHHHHHHCHHHHTTC
T ss_pred             hccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhc--------ccceeEEeecccHHHHHHHHhhccchhccc
Confidence            134466778898886533222222333444444442 12211        234456665554421  1112345665554


Q ss_pred             -eEEEeCCCCHHHHHHHHHHHhccc
Q psy17974        548 -GLLSLPSPTEDTLKVIFKVRTSPG  571 (583)
Q Consensus       548 -~vi~i~~p~~~sl~~I~~~~l~~~  571 (583)
                       ..+.++.++.+++..|....++.-
T Consensus       201 ~~~i~f~~y~~~el~~Il~~r~~~~  225 (287)
T d1w5sa2         201 GFKLHLPAYKSRELYTILEQRAELG  225 (287)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHH
T ss_pred             ceeeeccCCcHHHHHHHHhhhHHHh
Confidence             689999999999999999887643

>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=98.10  E-value=1e-05  Score=75.33  Aligned_cols=131  Identities=13%  Similarity=0.074  Sum_probs=84.5

Q ss_pred             HHHHHHhc--CCceEEEccCCCcHHHHHHHHHHhhccc--CCceEEEEEeccC-CChHHHHHHHHhhhhhhcCccccCCC
Q psy17974        398 IMEKLLLV--NHPVMFTGVTGVGKTVVARSILNKLLAS--NTWAALTINFSAQ-TSSARTQEILEGKLDKRTKTLLGAPL  472 (583)
Q Consensus       398 ll~~~l~~--~~~vLL~Gp~GtGKT~li~~~l~~l~~~--~~~~~~~i~fS~~-Tt~~~lq~~ie~~l~~~~~~~~~p~~  472 (583)
                      +++.+++.  +.++|++||+|||||+++..+.+.+...  ....+..+.-... -..+++.+++ ..+.      +.|..
T Consensus         5 ~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~-~~~~------~~~~~   77 (198)
T d2gnoa2           5 TLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIK-DFLN------YSPEL   77 (198)
T ss_dssp             HHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHH-HHHT------SCCSS
T ss_pred             HHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHH-HHHh------hCccc
Confidence            45666664  4589999999999999999887754211  1123444543322 2445555532 2332      23445


Q ss_pred             CCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhccceEEEe
Q psy17974        473 GKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRHFGLLSL  552 (583)
Q Consensus       473 gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~f~vi~i  552 (583)
                      |++=|++|||++.-..+      ....|+-.+|.     +       ..++.|+.+|+.+.    .+.+-+.+|+.++.+
T Consensus        78 ~~~KviIId~ad~l~~~------aqNaLLK~LEE-----P-------p~~t~fiLit~~~~----~ll~TI~SRC~~i~~  135 (198)
T d2gnoa2          78 YTRKYVIVHDCERMTQQ------AANAFLKALEE-----P-------PEYAVIVLNTRRWH----YLLPTIKSRVFRVVV  135 (198)
T ss_dssp             SSSEEEEETTGGGBCHH------HHHHTHHHHHS-----C-------CTTEEEEEEESCGG----GSCHHHHTTSEEEEC
T ss_pred             CCCEEEEEeCccccchh------hhhHHHHHHhC-----C-------CCCceeeeccCChh----hCHHHHhcceEEEeC
Confidence            56668899999876554      23344445552     1       24677888888775    699999999999999


Q ss_pred             CCCCH
Q psy17974        553 PSPTE  557 (583)
Q Consensus       553 ~~p~~  557 (583)
                      +.|++
T Consensus       136 ~~p~~  140 (198)
T d2gnoa2         136 NVPKE  140 (198)
T ss_dssp             CCCHH
T ss_pred             CCchH
Confidence            98864

>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=97.94  E-value=2.1e-05  Score=80.09  Aligned_cols=155  Identities=17%  Similarity=0.196  Sum_probs=84.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhh---hcCccccCCCCCeEEEEecC
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDK---RTKTLLGAPLGKRLAVFVDD  482 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~---~~~~~~~p~~gk~~vlfiDD  482 (583)
                      ..++|++||||||||-+++.+++.+    ....+.+..|..|.+..+..-.++.+.+   ...+..  ......|+++||
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~~----~~~~ir~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v--~~~~~~iv~lDE  141 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKHL----DIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNV--QKAQKGIVFIDE  141 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEGGGCC--------CTHHHHHHHHHTTTCH--HHHTTSEEEEET
T ss_pred             CcceeeeCCCCccHHHHHHHHHhhc----ccceeehhhhhcccchhhHhhhccchhhhhhhchhHH--HHhhcccchhhh
Confidence            4679999999999999999998865    2347778888888754443222211111   000000  011245889999


Q ss_pred             CCCCCccc--------CCCCChHHHHHHHHHhCCeeecC---------CCeeEeecCeEEEEecCCC-------------
Q psy17974        483 VNMPKLET--------YGAQPPIELLRQFLDFGGLYDRD---------KMFWKTLQDVVLCTACAPP-------------  532 (583)
Q Consensus       483 ln~p~~d~--------yg~q~~lElLRq~ld~~g~yd~~---------~~~~~~i~~i~~iaa~~p~-------------  532 (583)
                      +.-..+..        .....+...|-|++|.+...-+.         +.....-.++.++++-.-.             
T Consensus       142 ieK~~~~s~~~~~~~d~a~~~V~~~lLqild~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~  221 (364)
T d1um8a_         142 IDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQN  221 (364)
T ss_dssp             GGGC--------------CHHHHHHHHHHHHCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSC
T ss_pred             hhhhccccccccccccccchHHHHhhhhhhcCceeccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccc
Confidence            87633211        12223677888999954322111         1111222334333321110             


Q ss_pred             CCC------------------------CCCCChhhhccce-EEEeCCCCHHHHHHHHHH
Q psy17974        533 GGG------------------------RMPLTPRFVRHFG-LLSLPSPTEDTLKVIFKV  566 (583)
Q Consensus       533 ~~g------------------------r~~l~~Rllr~f~-vi~i~~p~~~sl~~I~~~  566 (583)
                      +.|                        +..+.|-|+.|+. ++.+.+.+.+++.+|...
T Consensus       222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEf~gRi~~iv~f~~L~~~~l~~Il~~  280 (364)
T d1um8a_         222 VLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELIGRLPVLSTLDSISLEAMVDILQK  280 (364)
T ss_dssp             CCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHHTTCCEEEECCCCCHHHHHHHHHS
T ss_pred             cccccccccchhhhhhhhccccHHHHhhhhhHHHHHHHhcchhhHhhhhHHHHHHHHHH
Confidence            000                        1236788999996 688999999999999864

>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=97.93  E-value=4.1e-06  Score=85.38  Aligned_cols=36  Identities=28%  Similarity=0.367  Sum_probs=28.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA  445 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~  445 (583)
                      ++.++|+||||||||++++++++.+    +..++.+|.|.
T Consensus       154 ~~~~~~~g~~~~gk~~~~~~~~~~~----~~~~i~in~s~  189 (362)
T d1svma_         154 KRYWLFKGPIDSGKTTLAAALLELC----GGKALNVNLPL  189 (362)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH----CCEEECCSSCT
T ss_pred             cCeEEEECCCCCCHHHHHHHHHHHc----CCCEEEEECcc
Confidence            3469999999999999999999987    34455555544

>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=97.85  E-value=3.9e-05  Score=68.39  Aligned_cols=25  Identities=36%  Similarity=0.482  Sum_probs=22.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ++|+|+||||||||++++.++..+.
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~   26 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHH
Confidence            6899999999999999999988773

>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=97.67  E-value=0.00035  Score=66.18  Aligned_cols=146  Identities=11%  Similarity=0.074  Sum_probs=80.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCC-----hHHHHHHHHhhhh----h------hcCc---
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTS-----SARTQEILEGKLD----K------RTKT---  466 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt-----~~~lq~~ie~~l~----~------~~~~---  466 (583)
                      .++.++++||+|+|||++++.+++.+.    .....+++.....     ...+...+.....    .      ....   
T Consensus        28 ~~~~i~i~G~~G~GKTsLl~~~~~~~~----~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (283)
T d2fnaa2          28 RAPITLVLGLRRTGKSSIIKIGINELN----LPYIYLDLRKFEERNYISYKDFLLELQKEINKLVKRLPSLLKALKNIQG  103 (283)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHT----CCEEEEEGGGGTTCSCCCHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTT
T ss_pred             cCCEEEEEcCCCCcHHHHHHHHHHHCC----CCeEEEEeccccccccccHHHHHHHHHHHhhhhhhhhHHHHHHHHhhhc
Confidence            567899999999999999999988762    2233444433221     2222222221111    0      0000   


Q ss_pred             --------c-------c----------cCCCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeec
Q psy17974        467 --------L-------L----------GAPLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQ  521 (583)
Q Consensus       467 --------~-------~----------~p~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~  521 (583)
                              .       .          ....++++++++||++....  .........||.+.+...             
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~--~~~~~~~~~l~~~~~~~~-------------  168 (283)
T d2fnaa2         104 IVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVK--LRGVNLLPALAYAYDNLK-------------  168 (283)
T ss_dssp             EEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGG--CTTCCCHHHHHHHHHHCT-------------
T ss_pred             ccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcc--cchHHHHHHHHHHHHhhh-------------
Confidence                    0       0          01246788899999865432  234456677777765432             


Q ss_pred             CeEEEEecCCCC-----CCCCC-CChhhhccceEEEeCCCCHHHHHHHHHHHhc
Q psy17974        522 DVVLCTACAPPG-----GGRMP-LTPRFVRHFGLLSLPSPTEDTLKVIFKVRTS  569 (583)
Q Consensus       522 ~i~~iaa~~p~~-----~gr~~-l~~Rllr~f~vi~i~~p~~~sl~~I~~~~l~  569 (583)
                      ++..+.+....+     ..... -.+-+-|.+..+.+++.+.++...++...+.
T Consensus       169 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~  222 (283)
T d2fnaa2         169 RIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQ  222 (283)
T ss_dssp             TEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHH
T ss_pred             hhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhh
Confidence            122232221110     11111 1223455667899999999999888877654

>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=97.30  E-value=9e-05  Score=70.80  Aligned_cols=23  Identities=26%  Similarity=0.510  Sum_probs=21.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+||+||||||||++++.++..+
T Consensus        34 ~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          34 AFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             EEEEECCTTSCTHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>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=97.25  E-value=7.2e-05  Score=65.13  Aligned_cols=25  Identities=24%  Similarity=0.610  Sum_probs=23.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++++|+|||||||||+++.+++.+
T Consensus         2 ~k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           2 KRNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5799999999999999999999987

>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=97.22  E-value=0.0036  Score=60.40  Aligned_cols=130  Identities=14%  Similarity=0.093  Sum_probs=75.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcc--cCCc-eEEEEEeccCCChHHHHHHHHhhhhhhcCcc-ccC------------
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLA--SNTW-AALTINFSAQTSSARTQEILEGKLDKRTKTL-LGA------------  470 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~--~~~~-~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~-~~p------------  470 (583)
                      .-|.|+|..|+|||++|+.+++....  ...+ ..+.++.|...+...+...+...+....... -.+            
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLK  124 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHHHHHhcchhhcCCccchhhhhHHHH
Confidence            45789999999999999999875311  1112 2445666666665555554444332211100 000            


Q ss_pred             -------CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCeeecCCCeeEeecCeEEEEecCCCCCCCCCCChhh
Q psy17974        471 -------PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLYDRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRF  543 (583)
Q Consensus       471 -------~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~yd~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rl  543 (583)
                             -.++++++.+||+.-+           +.++.+...               ...++.|+...     .+....
T Consensus       125 ~~~~~~~L~~kr~LlVLDDv~~~-----------~~~~~~~~~---------------~srilvTTR~~-----~v~~~~  173 (277)
T d2a5yb3         125 RMICNALIDRPNTLFVFDDVVQE-----------ETIRWAQEL---------------RLRCLVTTRDV-----EISNAA  173 (277)
T ss_dssp             HHHHHHHTTSTTEEEEEEEECCH-----------HHHHHHHHT---------------TCEEEEEESBG-----GGGGGC
T ss_pred             HHHHHHHhccCCeeEecchhhHH-----------hhhhhhccc---------------CceEEEEeehH-----HHHHhc
Confidence                   1457899999998632           233333222               12455555433     233333


Q ss_pred             hccceEEEeCCCCHHHHHHHHHHH
Q psy17974        544 VRHFGLLSLPSPTEDTLKVIFKVR  567 (583)
Q Consensus       544 lr~f~vi~i~~p~~~sl~~I~~~~  567 (583)
                      .....++.+...+.++-..+|...
T Consensus       174 ~~~~~~~~l~~L~~~ea~~Lf~~~  197 (277)
T d2a5yb3         174 SQTCEFIEVTSLEIDECYDFLEAY  197 (277)
T ss_dssp             CSCEEEEECCCCCHHHHHHHHHHT
T ss_pred             CCCCceEECCCCCHHHHHHHHHHH
Confidence            334457889999999888888654

>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=97.18  E-value=0.00014  Score=65.69  Aligned_cols=63  Identities=24%  Similarity=0.281  Sum_probs=40.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccCCCCCeEEEEecCCCCC
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGAPLGKRLAVFVDDVNMP  486 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p~~gk~~vlfiDDln~p  486 (583)
                      .=|+++|+||||||++++.++...    +  ...++.....+...+.+.++..+..          |+  -+++|..|.-
T Consensus        15 ~liil~G~pGsGKST~a~~l~~~~----~--~~~i~~D~~~~~~~~~~~~~~~l~~----------g~--~vIiD~t~~~   76 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLVSA----G--YVHVNRDTLGSWQRCVSSCQAALRQ----------GK--RVVIDNTNPD   76 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTGGG----T--CEEEEHHHHCSHHHHHHHHHHHHHT----------TC--CEEEESCCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhc----C--CEEEchHHHHHHHHHHHHHHHHHHC----------CC--CceeeCcCCC
Confidence            357999999999999999887754    2  3345555445555555555555543          12  2457887764


Q ss_pred             C
Q psy17974        487 K  487 (583)
Q Consensus       487 ~  487 (583)
                      .
T Consensus        77 ~   77 (172)
T d1yj5a2          77 V   77 (172)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.06  E-value=0.00019  Score=74.57  Aligned_cols=40  Identities=25%  Similarity=0.353  Sum_probs=32.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCCh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSS  449 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~  449 (583)
                      ++||||+||||||||.+++.+++.+    +..++....+..|.+
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l----~VPFv~~daT~fTea   88 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLA----NAPFIKVEATKFTEV   88 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEGGGGC--
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHh----CCCEEEeecceeeec
Confidence            5799999999999999999999876    456777777777754

>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=96.98  E-value=0.00023  Score=62.79  Aligned_cols=24  Identities=33%  Similarity=0.642  Sum_probs=21.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++|+|||||||||+++.+++.+
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999999999876

>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=96.92  E-value=0.00016  Score=64.28  Aligned_cols=24  Identities=21%  Similarity=0.339  Sum_probs=22.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.|+++|||||||||+++.+++.+
T Consensus         8 K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            679999999999999999999876

>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=96.83  E-value=0.00053  Score=68.22  Aligned_cols=38  Identities=26%  Similarity=0.333  Sum_probs=33.6

Q ss_pred             hHHHHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        394 RFGSIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       394 r~~~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ....++..++..++++|++||+|||||+++++++...+
T Consensus       154 ~~~~~l~~~v~~~~nili~G~tgSGKTT~l~al~~~i~  191 (323)
T d1g6oa_         154 QAISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFIP  191 (323)
T ss_dssp             HHHHHHHHHHHHTCCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             HHHHHHHHHHHhCCCEEEEeeccccchHHHHHHhhhcc
Confidence            44567888999999999999999999999999998763

>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=96.75  E-value=0.00032  Score=61.55  Aligned_cols=23  Identities=30%  Similarity=0.567  Sum_probs=21.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -++|+|||||||||+++.+++.+
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            47999999999999999999876

>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=96.73  E-value=0.00031  Score=62.04  Aligned_cols=27  Identities=26%  Similarity=0.417  Sum_probs=23.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .|.-|+|+|+|||||||+++.+++.+.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~   31 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLN   31 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456689999999999999999998773

>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=96.70  E-value=0.00039  Score=61.43  Aligned_cols=25  Identities=36%  Similarity=0.561  Sum_probs=22.4

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.+++|+|||||||||+++.+.+.+
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            3469999999999999999998876

>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=96.69  E-value=0.00039  Score=60.23  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=20.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      =|+++||||||||++++.++...
T Consensus         4 lIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            47899999999999999987753

>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=96.68  E-value=0.00039  Score=61.49  Aligned_cols=26  Identities=23%  Similarity=0.429  Sum_probs=22.9

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|+-++|+||||||||++++.+.+.+
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            46778999999999999999988765

>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=96.62  E-value=0.00066  Score=60.12  Aligned_cols=24  Identities=33%  Similarity=0.704  Sum_probs=22.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++++|+|+||||||++++.+++.+
T Consensus         1 k~I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999999987

>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=96.60  E-value=0.00071  Score=60.27  Aligned_cols=25  Identities=32%  Similarity=0.666  Sum_probs=23.1

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++++|+|+||||||++++.+++.+
T Consensus         2 ~~~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           2 TEPIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CCCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999987

>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=96.60  E-value=0.00046  Score=61.35  Aligned_cols=24  Identities=38%  Similarity=0.685  Sum_probs=21.5

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .|+|+||+|||||++++.++..+.
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~   25 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCC
Confidence            589999999999999999988663

>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=96.59  E-value=0.00063  Score=59.64  Aligned_cols=34  Identities=21%  Similarity=0.339  Sum_probs=26.3

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      +.++|++||||||+++.+++.+. ..++.+..+..
T Consensus         5 i~itG~~GSGKTTL~~~L~~~l~-~~g~~v~v~~~   38 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIPALC-ARGIRPGLIKH   38 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEEE
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH-HCCCeEEEecc
Confidence            57999999999999999998873 34555554444

>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=96.51  E-value=0.00064  Score=59.81  Aligned_cols=26  Identities=19%  Similarity=0.418  Sum_probs=23.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++-|+|+||||||||++++.+.+.+
T Consensus         2 ~~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           2 TTRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            35678999999999999999999987

>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=96.44  E-value=0.00093  Score=60.59  Aligned_cols=22  Identities=27%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |+++|||||||||+++.+++.+
T Consensus         9 I~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           9 VFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6889999999999999998876

>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=96.42  E-value=0.00076  Score=61.18  Aligned_cols=24  Identities=21%  Similarity=0.677  Sum_probs=22.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +||+|+||+|+|||++++.+++..
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            699999999999999999998875

>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=96.39  E-value=0.0007  Score=59.60  Aligned_cols=25  Identities=36%  Similarity=0.659  Sum_probs=21.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++-++|+||||||||++++.+.+.+
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3457889999999999999998876

>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=96.36  E-value=0.0012  Score=59.63  Aligned_cols=25  Identities=20%  Similarity=0.341  Sum_probs=22.5

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |..++|.|||||||||.++.+++.+
T Consensus         3 ~~riil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHh
Confidence            5678999999999999999998876

>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=96.36  E-value=0.001  Score=58.83  Aligned_cols=37  Identities=30%  Similarity=0.442  Sum_probs=27.3

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      ++-|++.|+|||||||+++.+.+.+. ...+.+..+.+
T Consensus         1 ~kiI~i~G~~GsGKsT~~~~L~~~l~-~~~~~~~~~~~   37 (190)
T d1khta_           1 NKVVVVTGVPGVGSTTSSQLAMDNLR-KEGVNYKMVSF   37 (190)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH-TTTCCCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH-HcCCCeEEEec
Confidence            35689999999999999999988773 33444444433

>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=96.34  E-value=0.0022  Score=58.89  Aligned_cols=133  Identities=16%  Similarity=0.185  Sum_probs=75.1

Q ss_pred             hhhHHHHHHHHHhc---CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccc
Q psy17974        392 TIRFGSIMEKLLLV---NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLL  468 (583)
Q Consensus       392 t~r~~~ll~~~l~~---~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~  468 (583)
                      .+.....+..++++   +.-++++|||+||||+++.++++-+.   +.   .+++..                .+..-.+
T Consensus        36 ~~~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~---G~---vis~~N----------------~~s~F~L   93 (205)
T d1tuea_          36 FITFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ---GA---VISFVN----------------STSHFWL   93 (205)
T ss_dssp             HHHHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT---CE---ECCCCC----------------SSSCGGG
T ss_pred             HHHHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhC---CE---EEeccC----------------CCCCccc
Confidence            34444555556654   24679999999999999999888762   21   123221                1122334


Q ss_pred             cCCCCCeEEEEecCCCCCCcccCCCCChH-HHHHHHHHhCCee-ecCCCeeEeecCeEEEEecCCCCCCCCCCChhhhcc
Q psy17974        469 GAPLGKRLAVFVDDVNMPKLETYGAQPPI-ELLRQFLDFGGLY-DRDKMFWKTLQDVVLCTACAPPGGGRMPLTPRFVRH  546 (583)
Q Consensus       469 ~p~~gk~~vlfiDDln~p~~d~yg~q~~l-ElLRq~ld~~g~y-d~~~~~~~~i~~i~~iaa~~p~~~gr~~l~~Rllr~  546 (583)
                      .|-.++++ +.+||...+.-+      -. ..+|.+++....= |.+-..-..+...-++.|+|..- +...-..-|.||
T Consensus        94 q~l~~~kv-~l~dD~t~~~~~------~~d~~lK~ll~G~~vsvd~KhK~~vqi~~pPliITsN~~~-~~~d~~~~L~sR  165 (205)
T d1tuea_          94 EPLTDTKV-AMLDDATTTCWT------YFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHP-AKDNRWPYLESR  165 (205)
T ss_dssp             GGGTTCSS-EEEEEECHHHHH------HHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCT-TSSSSCHHHHTS
T ss_pred             ccccCCeE-EEEeccccchHH------HHHHHHHhccCCCeeeeecccCCcccccCCCEEEEcCCCC-Cccccchhhhhe
Confidence            55556665 456886543211      23 3589999854332 33333333444445566666532 223445678889


Q ss_pred             ceEEEeCC
Q psy17974        547 FGLLSLPS  554 (583)
Q Consensus       547 f~vi~i~~  554 (583)
                      ..++..+.
T Consensus       166 i~~f~F~~  173 (205)
T d1tuea_         166 ITVFEFPN  173 (205)
T ss_dssp             CEEEECCS
T ss_pred             EEEEECCC
Confidence            88888873

>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=96.23  E-value=0.0011  Score=60.31  Aligned_cols=24  Identities=25%  Similarity=0.684  Sum_probs=22.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +||.|+||+|+|||++++.+++..
T Consensus         1 rpIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           1 RPVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            589999999999999999998875

>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=96.20  E-value=0.0014  Score=58.37  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=21.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++|.|||||||||+++.+++.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999999988876

>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=96.20  E-value=0.0018  Score=58.82  Aligned_cols=28  Identities=25%  Similarity=0.368  Sum_probs=24.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++.++-|+|.||||||||++++.+++.+
T Consensus         5 ~~~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           5 LKKSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             HHTSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4556778999999999999999998865

>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=96.19  E-value=0.00061  Score=61.27  Aligned_cols=23  Identities=39%  Similarity=0.618  Sum_probs=20.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -|+|+|+|||||||+++.++..+
T Consensus        21 vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          21 TVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            56799999999999999998876

>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=96.04  E-value=0.0019  Score=57.91  Aligned_cols=23  Identities=30%  Similarity=0.572  Sum_probs=21.1

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++|.|||||||||+++.+++.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999999876

>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=96.01  E-value=0.002  Score=56.83  Aligned_cols=23  Identities=26%  Similarity=0.618  Sum_probs=21.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++|+|+||||||++++.+++.+
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh
Confidence            57889999999999999999887

>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=95.98  E-value=0.0022  Score=58.18  Aligned_cols=22  Identities=23%  Similarity=0.534  Sum_probs=20.3

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |+++|.||||||++++.+.+.+
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999998876

>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=95.98  E-value=0.0016  Score=58.70  Aligned_cols=24  Identities=29%  Similarity=0.357  Sum_probs=21.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++|.|||||||||+++.+.+.+
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            368999999999999999888876

>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=95.92  E-value=0.0019  Score=58.21  Aligned_cols=25  Identities=20%  Similarity=0.541  Sum_probs=22.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++++|+||+|+|||++++.+++..
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhC
Confidence            5799999999999999999998764

>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=95.90  E-value=0.0018  Score=57.95  Aligned_cols=23  Identities=35%  Similarity=0.508  Sum_probs=21.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +++|.|||||||||+++.+++.+
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            58899999999999999998876

>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=95.86  E-value=0.0028  Score=57.40  Aligned_cols=22  Identities=18%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++|+||||||||++++.+++.+
T Consensus        11 I~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_          11 IFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6889999999999999998876

>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=95.84  E-value=0.0028  Score=57.55  Aligned_cols=24  Identities=25%  Similarity=0.394  Sum_probs=21.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++|+||||||||++++.++..+
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999999876

>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=95.79  E-value=0.0027  Score=56.57  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=20.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .++|.|||||||||.++.+++.+
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            57899999999999999998876

>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=95.74  E-value=0.0033  Score=56.64  Aligned_cols=22  Identities=32%  Similarity=0.466  Sum_probs=20.4

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |+|.|||||||||.++.+++.+
T Consensus         4 I~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           4 VFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999998876

>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=95.69  E-value=0.0027  Score=56.98  Aligned_cols=25  Identities=28%  Similarity=0.594  Sum_probs=22.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |+-|+|+||+|+|||++++.+++..
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            6778999999999999999988865

>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=95.64  E-value=0.0026  Score=56.90  Aligned_cols=24  Identities=21%  Similarity=0.411  Sum_probs=21.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++|.||||||||++++.++..+
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            358899999999999999998876

>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=95.62  E-value=0.0042  Score=54.96  Aligned_cols=33  Identities=30%  Similarity=0.381  Sum_probs=24.9

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEE
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTIN  442 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~  442 (583)
                      ++++|++||||||+++.+...+. ...+.+..+.
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~-~~~~~~~~~~   36 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILD-NQGINNKIIN   36 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHH-TTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEEE
Confidence            57899999999999999988873 3345454443

>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=95.58  E-value=0.0041  Score=57.79  Aligned_cols=34  Identities=21%  Similarity=0.348  Sum_probs=24.5

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      ++|+||+|+|||+++-.++..+. ..+..+..++.
T Consensus        14 i~lvGptGvGKTTTiAKLAa~~~-~~~~kV~lit~   47 (213)
T d1vmaa2          14 IMVVGVNGTGKTTSCGKLAKMFV-DEGKSVVLAAA   47 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-HCCCceEEEee
Confidence            68899999999999887776553 33445555544

>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=95.55  E-value=0.014  Score=53.80  Aligned_cols=35  Identities=20%  Similarity=0.218  Sum_probs=25.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      -++|+||+|+|||+++..++..+. ..+..+..++.
T Consensus        12 vi~lvGp~GvGKTTTiaKLA~~~~-~~g~kV~lit~   46 (207)
T d1ls1a2          12 LWFLVGLQGSGKTTTAAKLALYYK-GKGRRPLLVAA   46 (207)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHHHH-HTTCCEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEec
Confidence            468899999999999888877663 33455555544

>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=95.52  E-value=0.0045  Score=56.52  Aligned_cols=23  Identities=30%  Similarity=0.642  Sum_probs=20.2

Q ss_pred             ceEEE-ccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFT-GVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~-Gp~GtGKT~li~~~l~~l  430 (583)
                      ||+.+ |||||||||.++.+++++
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            56555 999999999999999987

>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=95.51  E-value=0.0043  Score=54.55  Aligned_cols=34  Identities=18%  Similarity=0.306  Sum_probs=26.9

Q ss_pred             EEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        410 MFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       410 LL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      -++|++||||||++..+++.+. ..++.+..+-..
T Consensus         5 ~I~G~~gSGKTTli~~l~~~L~-~~g~~v~vik~d   38 (165)
T d1xjca_           5 QVVGYKHSGKTTLMEKWVAAAV-REGWRVGTVKHH   38 (165)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEECC
T ss_pred             EEEeCCCCCHHHHHHHHHHHHH-hCCCeEEEEEec
Confidence            4999999999999999999884 445666666443

>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=95.50  E-value=0.026  Score=53.92  Aligned_cols=140  Identities=14%  Similarity=0.122  Sum_probs=77.5

Q ss_pred             HHHHHHHHHhc----CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHHHhhhhhhcCccccC
Q psy17974        395 FGSIMEKLLLV----NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEILEGKLDKRTKTLLGA  470 (583)
Q Consensus       395 ~~~ll~~~l~~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~ie~~l~~~~~~~~~p  470 (583)
                      ....+..++..    ..-+.|+||++||||+++..+..-+.   .+.    .++...                ...-+.+
T Consensus        89 f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg---~~~----~~~~~~----------------~~f~l~~  145 (267)
T d1u0ja_          89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVP---FYG----CVNWTN----------------ENFPFND  145 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSS---CEE----ECCTTC----------------SSCTTGG
T ss_pred             HHHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHhc---chh----hccccC----------------CCccccc
Confidence            33445555543    24568999999999999998888662   221    111110                1122334


Q ss_pred             CCCCeEEEEecCCCCCCcccCCCCChHHHHHHHHHhCCee-ecCCCeeEeecC-eEEEEecCC-CC--CC---CCCCChh
Q psy17974        471 PLGKRLAVFVDDVNMPKLETYGAQPPIELLRQFLDFGGLY-DRDKMFWKTLQD-VVLCTACAP-PG--GG---RMPLTPR  542 (583)
Q Consensus       471 ~~gk~~vlfiDDln~p~~d~yg~q~~lElLRq~ld~~g~y-d~~~~~~~~i~~-i~~iaa~~p-~~--~g---r~~l~~R  542 (583)
                      -.|+++++ +||.+.+..       ..|.+|++++....- +.+......+.. ..+|-++|. |.  +|   ..+-+..
T Consensus       146 l~~k~~~~-~~e~~~~~~-------~~~~~K~l~gGd~i~v~~K~k~~~~~~~~p~li~s~n~i~~~~~~~~~~~~~~~~  217 (267)
T d1u0ja_         146 CVDKMVIW-WEEGKMTAK-------VVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQP  217 (267)
T ss_dssp             GSSCSEEE-ECSCCEETT-------THHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHH
T ss_pred             cCCCEEEE-EeCCCcccc-------HHHHHHHhcCCCceEeecccCCCcEeeCCeEEEEeCCCcccccCCCccccccchH
Confidence            45667654 699665322       357889999854433 222223334443 455555554 32  11   1233567


Q ss_pred             hhccceEEEeCCC--------CHHHHHHHHH
Q psy17974        543 FVRHFGLLSLPSP--------TEDTLKVIFK  565 (583)
Q Consensus       543 llr~f~vi~i~~p--------~~~sl~~I~~  565 (583)
                      |.||+.++.++.+        ..+++..+|.
T Consensus       218 l~~R~~~~~F~~~~p~~~~~i~~~e~k~f~~  248 (267)
T d1u0ja_         218 LQDRMFKFELTRRLDHDFGKVTKQEVKDFFR  248 (267)
T ss_dssp             HHTTEEEEECCSCCCTTSCCCCHHHHHHHHH
T ss_pred             hhhhEEEEECCCcCCCccCCCCHHHHHHHHH
Confidence            8889988887653        5566666664

>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=95.46  E-value=0.007  Score=55.86  Aligned_cols=37  Identities=22%  Similarity=0.173  Sum_probs=26.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      ++-++|+||+|+|||+++-.++..+. ..+..+..++.
T Consensus         6 ~~vi~lvGptGvGKTTTiaKLA~~~~-~~g~kV~lit~   42 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIAKLGRYYQ-NLGKKVMFCAG   42 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHH-TTTCCEEEECC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEEe
Confidence            45679999999999999887776653 33445555544

>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=95.46  E-value=0.0049  Score=52.27  Aligned_cols=25  Identities=16%  Similarity=0.149  Sum_probs=19.7

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..+..+|.+|+|+|||..+-.++..
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~   31 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAA   31 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHT
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            3467799999999999987665554

>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=95.43  E-value=0.0065  Score=56.23  Aligned_cols=33  Identities=27%  Similarity=0.476  Sum_probs=25.7

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      |++.||+|+||||+++++++.+.  ....+..+|.
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~--~~~~~~ivn~   35 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLE--DNYKVAYVNL   35 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT--TTSCEEEEEC
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHh--hCCeEEEEec
Confidence            68999999999999999987663  3344556664

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

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: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.19  E-value=0.015  Score=53.92  Aligned_cols=55  Identities=20%  Similarity=0.277  Sum_probs=36.7

Q ss_pred             HHHHHh----cCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHHHHH
Q psy17974        399 MEKLLL----VNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQEIL  456 (583)
Q Consensus       399 l~~~l~----~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq~~i  456 (583)
                      ++.++.    .|.-++++||||||||+++.+++.+.. .....+..+  +...++..+.+..
T Consensus        15 LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~-~~~~~~~~i--s~e~~~~~~~~~~   73 (242)
T d1tf7a2          15 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENAC-ANKERAILF--AYEESRAQLLRNA   73 (242)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHH-TTTCCEEEE--ESSSCHHHHHHHH
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHH-Hhcccccee--eccCCHHHHHHHH
Confidence            455555    567899999999999999999987753 223334443  4455565554443

>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=95.18  E-value=0.0063  Score=56.33  Aligned_cols=33  Identities=21%  Similarity=0.396  Sum_probs=24.5

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEE
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTIN  442 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~  442 (583)
                      ++|+||+|+|||+++-.++..+. ..+..+..++
T Consensus        12 i~lvGptGvGKTTTiAKLA~~~~-~~g~kV~lit   44 (211)
T d2qy9a2          12 ILMVGVNGVGKTTTIGKLARQFE-QQGKSVMLAA   44 (211)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH-TTTCCEEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEe
Confidence            67899999999999888877663 3444555453

>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=95.16  E-value=0.0068  Score=56.12  Aligned_cols=35  Identities=20%  Similarity=0.304  Sum_probs=21.4

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      ++|+||+|+|||+++-.++..+. ..+..+..++.-
T Consensus        15 i~lvGptGvGKTTTiAKLA~~~~-~~g~kV~lit~D   49 (211)
T d1j8yf2          15 IMLVGVQGTGKATTAGKLAYFYK-KKGFKVGLVGAD   49 (211)
T ss_dssp             EEEECSCCC----HHHHHHHHHH-HTTCCEEEEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-HCCCceEEEEee
Confidence            78899999999999887776653 334455555543

>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=95.14  E-value=0.0053  Score=56.53  Aligned_cols=26  Identities=15%  Similarity=0.337  Sum_probs=23.0

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +|+-++|+||+|+|||++++.++...
T Consensus         1 ~G~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           1 QGTLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhhC
Confidence            36778999999999999999998865

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.12  E-value=0.0053  Score=52.69  Aligned_cols=22  Identities=18%  Similarity=0.376  Sum_probs=19.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|+||+|||++++.+...
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999998764

>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=94.89  E-value=0.0088  Score=54.74  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=19.3

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |-+.|||||||||.++.++..+
T Consensus         6 IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            3456999999999999999987

>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=94.77  E-value=0.0098  Score=52.87  Aligned_cols=37  Identities=22%  Similarity=0.352  Sum_probs=25.6

Q ss_pred             hHHHHHHHHHh--cCCce--EEEccCCCcHHHHHHHHHHhh
Q psy17974        394 RFGSIMEKLLL--VNHPV--MFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       394 r~~~ll~~~l~--~~~~v--LL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |..++.....+  .+.|+  -++||+|||||++++.+...+
T Consensus         6 ~~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_           6 RIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             HHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34444444433  34453  489999999999999998766

>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=94.59  E-value=0.0076  Score=55.56  Aligned_cols=26  Identities=23%  Similarity=0.424  Sum_probs=22.3

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|.-+.|+|.||+|||++++.+.+.+
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34468999999999999999998766

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {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: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.58  E-value=0.0083  Score=54.51  Aligned_cols=23  Identities=30%  Similarity=0.561  Sum_probs=21.0

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ++|+++|++|+|||++++.++..
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            57999999999999999999874

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.57  E-value=0.018  Score=52.80  Aligned_cols=31  Identities=16%  Similarity=0.215  Sum_probs=24.8

Q ss_pred             HHHHHh----cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        399 MEKLLL----VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       399 l~~~l~----~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ++.++.    .|.-++|+||||||||+++.+++.+
T Consensus        23 LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          23 LDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             HHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             HHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            445555    4578999999999999999988754

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.45  E-value=0.027  Score=52.07  Aligned_cols=56  Identities=21%  Similarity=0.180  Sum_probs=36.2

Q ss_pred             HHHHHhc----CCceEEEccCCCcHHHHHHHHHHhhccc-----CCceEEEEEeccCCChHHHHH
Q psy17974        399 MEKLLLV----NHPVMFTGVTGVGKTVVARSILNKLLAS-----NTWAALTINFSAQTSSARTQE  454 (583)
Q Consensus       399 l~~~l~~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~-----~~~~~~~i~fS~~Tt~~~lq~  454 (583)
                      ++.++..    |.-+++.||||||||+++.+++.+....     ..-..+.+.+.....+..+..
T Consensus        25 LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (254)
T d1pzna2          25 LDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIRE   89 (254)
T ss_dssp             HHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHHH
T ss_pred             HHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHHHH
Confidence            4555554    5678999999999999999988654211     123455566655555544443

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=94.43  E-value=0.0095  Score=51.34  Aligned_cols=23  Identities=22%  Similarity=0.416  Sum_probs=20.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|+||+|||++++.+...
T Consensus         6 ~kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           6 MRILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999998774

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {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: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.37  E-value=0.0087  Score=53.47  Aligned_cols=26  Identities=15%  Similarity=0.143  Sum_probs=22.4

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|.-+++.||||+|||+++.+++.+.
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            46788999999999999999887653

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=94.30  E-value=0.014  Score=51.17  Aligned_cols=26  Identities=23%  Similarity=0.371  Sum_probs=22.1

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .....|+++|.+|+|||++++.+...
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcC
Confidence            44468999999999999999988753

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {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: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.26  E-value=0.011  Score=50.39  Aligned_cols=22  Identities=27%  Similarity=0.542  Sum_probs=19.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .++|+|+||+|||++++.+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998764

>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=94.19  E-value=0.02  Score=58.00  Aligned_cols=33  Identities=27%  Similarity=0.383  Sum_probs=26.1

Q ss_pred             HHHHHhc-CCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        399 MEKLLLV-NHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       399 l~~~l~~-~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ++.++.. +--||++||+|||||+++.++++.+.
T Consensus       150 l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~  183 (401)
T d1p9ra_         150 FRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELN  183 (401)
T ss_dssp             HHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             HHHHHhhhhceEEEEcCCCCCccHHHHHHhhhhc
Confidence            4455544 44689999999999999999998873

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {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: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.10  E-value=0.012  Score=51.77  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4899999999999999998864

>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=94.06  E-value=0.0077  Score=50.32  Aligned_cols=28  Identities=25%  Similarity=0.220  Sum_probs=21.5

Q ss_pred             HHhcCCceEEEccCCCcHHHHHH-HHHHh
Q psy17974        402 LLLVNHPVMFTGVTGVGKTVVAR-SILNK  429 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~li~-~~l~~  429 (583)
                      +++.|++++|++|||+|||..+- .++..
T Consensus         3 ~l~~~~~~il~~~tGsGKT~~~~~~~~~~   31 (140)
T d1yksa1           3 MLKKGMTTVLDFHPGAGKTRRFLPQILAE   31 (140)
T ss_dssp             TTSTTCEEEECCCTTSSTTTTHHHHHHHH
T ss_pred             HHHcCCcEEEEcCCCCChhHHHHHHHHHH
Confidence            56789999999999999996543 34443

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {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: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.96  E-value=0.014  Score=50.90  Aligned_cols=22  Identities=18%  Similarity=0.301  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+|+|++|+|||++++.+...
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998863

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G 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: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=93.84  E-value=0.011  Score=51.01  Aligned_cols=24  Identities=17%  Similarity=0.380  Sum_probs=20.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      |..|.++|+||+|||++++++...
T Consensus         1 ~~kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           1 GMKVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999998753

>d1f6ba_ c.37.1.8 (A:) SAR1 {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: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=93.83  E-value=0.012  Score=51.52  Aligned_cols=23  Identities=22%  Similarity=0.458  Sum_probs=19.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHH
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ...|+|+|++|+|||++++.+..
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            34789999999999999998755

>d1kaoa_ c.37.1.8 (A:) Rap2a {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: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.81  E-value=0.015  Score=50.83  Aligned_cols=22  Identities=27%  Similarity=0.484  Sum_probs=20.1

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999999874

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=93.80  E-value=0.014  Score=50.78  Aligned_cols=21  Identities=19%  Similarity=0.450  Sum_probs=19.1

Q ss_pred             ceEEEccCCCcHHHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .|+++|++|+|||++++.+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            689999999999999998765

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {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: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.78  E-value=0.015  Score=50.76  Aligned_cols=22  Identities=27%  Similarity=0.468  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+|+|++|+|||++++.++..
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999999864

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {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: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.74  E-value=0.016  Score=50.82  Aligned_cols=22  Identities=32%  Similarity=0.520  Sum_probs=20.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+|+|++|+|||++++.+...
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998874

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {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: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.72  E-value=0.015  Score=52.35  Aligned_cols=23  Identities=17%  Similarity=0.332  Sum_probs=20.6

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      -.|+|+|+||+|||+|++.+...
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999864

>d3raba_ c.37.1.8 (A:) Rab3a {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: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.54  E-value=0.018  Score=50.53  Aligned_cols=22  Identities=23%  Similarity=0.350  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3899999999999999998864

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {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: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.46  E-value=0.018  Score=50.15  Aligned_cols=22  Identities=23%  Similarity=0.564  Sum_probs=20.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999999874

>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=93.45  E-value=0.035  Score=48.65  Aligned_cols=46  Identities=28%  Similarity=0.449  Sum_probs=31.9

Q ss_pred             eeeCch-hhhHHHHHHHHH-h----cCCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        386 MVPTID-TIRFGSIMEKLL-L----VNHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       386 ~VpT~d-t~r~~~ll~~~l-~----~~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      ++|..+ |.+...-+...+ +    .|--|+|.|+=|+|||++++.+++.+.
T Consensus         7 ~l~~e~~t~~lg~~la~~l~~~~~~~g~ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_           7 YIPDEFSMLRFGKKFAEILLKLHTEKAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             EECSHHHHHHHHHHHHHHHHHHCCSSCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             eCCCHHHHHHHHHHHHHHHHhccCCCCeEEEEecCCCccHHHHHHHHHhhcc
Confidence            455543 555544444444 2    222388999999999999999999884

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {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: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.43  E-value=0.019  Score=50.39  Aligned_cols=23  Identities=22%  Similarity=0.419  Sum_probs=20.5

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+|+|++|+|||++++.+...
T Consensus         6 ~Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           6 YRLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            36999999999999999998864

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {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: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.43  E-value=0.019  Score=50.20  Aligned_cols=22  Identities=27%  Similarity=0.311  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+|+|.+|+|||++++.++..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998864

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {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: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.36  E-value=0.019  Score=50.59  Aligned_cols=22  Identities=23%  Similarity=0.475  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998864

>d1r2qa_ c.37.1.8 (A:) Rab5a {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: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.36  E-value=0.02  Score=50.11  Aligned_cols=22  Identities=18%  Similarity=0.394  Sum_probs=20.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999999864

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

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: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=93.27  E-value=0.042  Score=52.86  Aligned_cols=21  Identities=29%  Similarity=0.439  Sum_probs=17.5

Q ss_pred             cCCceEEEccCCCcHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARS  425 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~  425 (583)
                      .+.|+++.|+||||||+++-+
T Consensus        23 ~~g~~lV~g~aGSGKTt~l~~   43 (318)
T d1pjra1          23 TEGPLLIMAGAGSGKTRVLTH   43 (318)
T ss_dssp             CSSCEEEEECTTSCHHHHHHH
T ss_pred             CCCCEEEEecCCccHHHHHHH
Confidence            456999999999999986643

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {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: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.26  E-value=0.021  Score=50.09  Aligned_cols=22  Identities=32%  Similarity=0.584  Sum_probs=20.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998864

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal 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: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.24  E-value=0.032  Score=51.86  Aligned_cols=29  Identities=24%  Similarity=0.402  Sum_probs=23.7

Q ss_pred             HHHHhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        400 EKLLLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       400 ~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..++ .|+-..|+|++|+|||+++++++..
T Consensus        90 ~~~l-~~kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          90 KEYL-KGKISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHH-SSSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HHHh-cCCeEEEECCCCCCHHHHHHhhcch
Confidence            3344 4788899999999999999988764

>d1nn5a_ c.37.1.1 (A:) Thymidylate 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: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.24  E-value=0.035  Score=50.81  Aligned_cols=39  Identities=21%  Similarity=0.372  Sum_probs=27.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA  445 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~  445 (583)
                      |.=+.+.|+.|+||||.++.+.+.+. ..++.++.+.+-.
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L~-~~g~~v~~~~~p~   41 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEALC-AAGHRAELLRFPE   41 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEEESSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEeCCC
Confidence            33355669999999999999988773 3456666665543

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {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: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.23  E-value=0.022  Score=49.43  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999999864

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=93.22  E-value=0.07  Score=48.53  Aligned_cols=26  Identities=31%  Similarity=0.386  Sum_probs=22.6

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|.-++|.||||+|||+++.+++.+.
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            46788999999999999999998654

>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=93.21  E-value=0.025  Score=56.50  Aligned_cols=29  Identities=24%  Similarity=0.352  Sum_probs=21.8

Q ss_pred             HHHHhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        400 EKLLLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       400 ~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...+ .+.-++|.||||||||+++..++..
T Consensus       158 ~~al-~~~~~vI~G~pGTGKTt~i~~~l~~  186 (359)
T d1w36d1         158 AVAL-TRRISVISGGPGTGKTTTVAKLLAA  186 (359)
T ss_dssp             HHHH-TBSEEEEECCTTSTHHHHHHHHHHH
T ss_pred             HHHH-cCCeEEEEcCCCCCceehHHHHHHH
Confidence            3444 4568899999999999998765443

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=93.21  E-value=0.02  Score=50.46  Aligned_cols=22  Identities=27%  Similarity=0.585  Sum_probs=19.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|.|+|+||+|||++++++..+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998753

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {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: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=93.19  E-value=0.015  Score=54.85  Aligned_cols=28  Identities=18%  Similarity=0.290  Sum_probs=24.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|..+-++||+||||||+++.++.-+
T Consensus        26 i~~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          26 IKQGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            5578899999999999999999887654

>d1wmsa_ c.37.1.8 (A:) Rab9a {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: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.19  E-value=0.023  Score=49.88  Aligned_cols=22  Identities=27%  Similarity=0.493  Sum_probs=19.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999988864

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {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: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.18  E-value=0.027  Score=49.91  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=19.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4899999999999999998863

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {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: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.17  E-value=0.02  Score=50.05  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998864

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

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: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=93.16  E-value=0.02  Score=52.14  Aligned_cols=25  Identities=24%  Similarity=0.507  Sum_probs=21.2

Q ss_pred             hcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        404 LVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       404 ~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..|.-++++|+||+|||+++.+++.
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            3567889999999999999987654

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {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: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.14  E-value=0.023  Score=50.06  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998764

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {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: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.11  E-value=0.02  Score=52.86  Aligned_cols=31  Identities=23%  Similarity=0.158  Sum_probs=24.6

Q ss_pred             HHHHHh----cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        399 MEKLLL----VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       399 l~~~l~----~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ++.++.    .|.-++++||||||||+++.+++.+
T Consensus        26 LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          26 FDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             HHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            444544    4567899999999999999999864

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=93.11  E-value=0.021  Score=51.08  Aligned_cols=25  Identities=32%  Similarity=0.514  Sum_probs=22.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+.||++|++|+|||+++..++..
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc
Confidence            4789999999999999999887763

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [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: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=93.10  E-value=0.02  Score=54.73  Aligned_cols=19  Identities=32%  Similarity=0.429  Sum_probs=16.6

Q ss_pred             CCceEEEccCCCcHHHHHH
Q psy17974        406 NHPVMFTGVTGVGKTVVAR  424 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~  424 (583)
                      ..|+++.|+||||||+++-
T Consensus        14 ~~~~lI~g~aGTGKTt~l~   32 (306)
T d1uaaa1          14 TGPCLVLAGAGSGKTRVIT   32 (306)
T ss_dssp             SSEEEECCCTTSCHHHHHH
T ss_pred             CCCEEEEeeCCccHHHHHH
Confidence            5789999999999998653

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=93.05  E-value=0.023  Score=49.36  Aligned_cols=22  Identities=23%  Similarity=0.312  Sum_probs=19.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999988764

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {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: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=93.02  E-value=0.018  Score=52.64  Aligned_cols=28  Identities=32%  Similarity=0.506  Sum_probs=24.3

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||.|+|||++++.++.-+
T Consensus        24 i~~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          24 IEKGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             EETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhccc
Confidence            4568889999999999999999887755

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

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: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.00  E-value=0.016  Score=54.99  Aligned_cols=28  Identities=25%  Similarity=0.386  Sum_probs=23.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|..+-|+||+||||||+++.++.-+
T Consensus        38 i~~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          38 IPAGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             ECTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhccc
Confidence            5578899999999999999999876543

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {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: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.00  E-value=0.023  Score=49.24  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=19.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|.+|+|||++++.+...
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998863

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=92.99  E-value=0.019  Score=51.38  Aligned_cols=25  Identities=36%  Similarity=0.615  Sum_probs=22.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+.||++||+|+|||+++-.++..
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            4789999999999999999888763

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {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: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.98  E-value=0.024  Score=49.67  Aligned_cols=22  Identities=36%  Similarity=0.582  Sum_probs=19.5

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4799999999999999998763

>d1vg8a_ c.37.1.8 (A:) Rab7 {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: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.98  E-value=0.024  Score=50.22  Aligned_cols=22  Identities=41%  Similarity=0.625  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|.+|||||++++.+...
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999998864

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=92.98  E-value=0.017  Score=51.08  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=19.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..|+++|++|+|||++++.+..
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3789999999999999987654

>d1ek0a_ c.37.1.8 (A:) Ypt51 {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: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.90  E-value=0.025  Score=49.39  Aligned_cols=22  Identities=18%  Similarity=0.430  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5799999999999999998864

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {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: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=92.90  E-value=0.025  Score=49.50  Aligned_cols=21  Identities=24%  Similarity=0.515  Sum_probs=18.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      -|.++|++|+|||++++.++.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999999875

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {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: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.89  E-value=0.026  Score=49.34  Aligned_cols=22  Identities=36%  Similarity=0.531  Sum_probs=20.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998874

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {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: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.89  E-value=0.025  Score=49.20  Aligned_cols=23  Identities=17%  Similarity=0.354  Sum_probs=20.3

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            46899999999999999998764

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {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: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.87  E-value=0.018  Score=54.59  Aligned_cols=28  Identities=29%  Similarity=0.341  Sum_probs=24.2

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-++||+||||||+++.++.-+
T Consensus        37 i~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          37 LRPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            5578899999999999999999877644

>d1gsia_ c.37.1.1 (A:) Thymidylate 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: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=92.83  E-value=0.04  Score=49.52  Aligned_cols=36  Identities=19%  Similarity=0.394  Sum_probs=27.8

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEecc
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSA  445 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~  445 (583)
                      |.+.|+.||||||+++.+.+.+. ..++.++.+.+..
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~-~~g~~v~~~~~P~   38 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFR-AAGRSVATLAFPR   38 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEESSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-HCCCCEEEEecCC
Confidence            56789999999999999988773 4466676666643

>d1c1ya_ c.37.1.8 (A:) Rap1A {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: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.81  E-value=0.027  Score=49.05  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=20.1

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|.+|+|||++++.+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999998874

>d1mh1a_ c.37.1.8 (A:) Rac {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: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.80  E-value=0.026  Score=50.04  Aligned_cols=22  Identities=27%  Similarity=0.298  Sum_probs=20.1

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|.+|+|||++++.++..
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999999874

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {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: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.78  E-value=0.027  Score=48.98  Aligned_cols=22  Identities=23%  Similarity=0.543  Sum_probs=19.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4799999999999999998864

>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=92.73  E-value=0.029  Score=51.02  Aligned_cols=21  Identities=33%  Similarity=0.406  Sum_probs=18.6

Q ss_pred             EEEccCCCcHHHHHHHHHHhh
Q psy17974        410 MFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       410 LL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -+.||+||||||+++.+...+
T Consensus         6 gI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           6 GVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             EEECSTTSSHHHHHHHHHHHT
T ss_pred             EEECCCCCCHHHHHHHHHHHh
Confidence            367999999999999998876

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {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: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.73  E-value=0.026  Score=49.44  Aligned_cols=22  Identities=23%  Similarity=0.516  Sum_probs=19.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998763

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=92.71  E-value=0.025  Score=50.21  Aligned_cols=25  Identities=28%  Similarity=0.523  Sum_probs=22.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+.||++|++|+|||+++-.++..
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc
Confidence            4789999999999999999887764

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {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: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.70  E-value=0.029  Score=48.90  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|.+|+|||++++.+...
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998864

>d1kmqa_ c.37.1.8 (A:) RhoA {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: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.70  E-value=0.028  Score=49.51  Aligned_cols=23  Identities=17%  Similarity=0.196  Sum_probs=20.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +.|+++|++|+|||++++.+...
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            45899999999999999998874

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=92.67  E-value=0.028  Score=49.17  Aligned_cols=22  Identities=27%  Similarity=0.548  Sum_probs=19.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998763

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {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: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.63  E-value=0.029  Score=49.48  Aligned_cols=22  Identities=23%  Similarity=0.498  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998864

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

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: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=92.63  E-value=0.023  Score=53.09  Aligned_cols=26  Identities=23%  Similarity=0.234  Sum_probs=21.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +..|.-+-|+||+||||||+++.+..
T Consensus        28 i~~Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          28 IKEGEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             EcCCCEEEEECCCCCCcchhhHhccC
Confidence            45678899999999999999985544

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=92.61  E-value=0.026  Score=49.41  Aligned_cols=22  Identities=18%  Similarity=0.469  Sum_probs=19.4

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..|+++|++|+|||++++.+..
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3689999999999999998865

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-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: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.59  E-value=0.025  Score=52.94  Aligned_cols=27  Identities=30%  Similarity=0.460  Sum_probs=22.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +..|.-+-|+||+||||||+++.+..-
T Consensus        23 i~~Gei~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          23 IHEGEFVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcC
Confidence            346778999999999999999977653

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding 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: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.51  E-value=0.024  Score=54.57  Aligned_cols=28  Identities=36%  Similarity=0.438  Sum_probs=23.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||+|||||++++.++.-+
T Consensus        59 i~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          59 IEKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            3456777899999999999999988755

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=92.44  E-value=0.034  Score=48.73  Aligned_cols=23  Identities=17%  Similarity=0.322  Sum_probs=20.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.+...
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            47999999999999999987653

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {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: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.39  E-value=0.033  Score=48.73  Aligned_cols=22  Identities=27%  Similarity=0.516  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+|+|++|+|||++++.++..
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4799999999999999998874

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=92.37  E-value=0.047  Score=51.56  Aligned_cols=35  Identities=23%  Similarity=0.395  Sum_probs=26.3

Q ss_pred             HHHHHHHHHhc---CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        395 FGSIMEKLLLV---NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       395 ~~~ll~~~l~~---~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ...++..+-+.   ..+|+|+|.||+|||++++.++.+
T Consensus        18 l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          18 LLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            33444444443   358999999999999999999864

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase 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: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=92.34  E-value=0.055  Score=52.09  Aligned_cols=34  Identities=12%  Similarity=0.187  Sum_probs=27.5

Q ss_pred             HHHHHHH--hcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        397 SIMEKLL--LVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       397 ~ll~~~l--~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++.++  ..|+.+++.|++|+|||+++..+++..
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            3566664  357899999999999999999888754

>d2gjsa1 c.37.1.8 (A:91-258) Rad {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: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.34  E-value=0.031  Score=48.88  Aligned_cols=22  Identities=36%  Similarity=0.560  Sum_probs=19.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.+...
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            4789999999999999988653

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=92.32  E-value=0.031  Score=49.98  Aligned_cols=21  Identities=29%  Similarity=0.570  Sum_probs=19.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .|.|+|+||+|||++++++..
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHhcC
Confidence            489999999999999999974

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

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: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=92.26  E-value=0.021  Score=53.88  Aligned_cols=28  Identities=21%  Similarity=0.273  Sum_probs=23.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-++||+||||||+++.++.-+
T Consensus        25 i~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          25 AQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4567889999999999999999876543

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

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: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=92.20  E-value=0.029  Score=52.71  Aligned_cols=28  Identities=25%  Similarity=0.290  Sum_probs=23.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||+|||||++++.+..-+
T Consensus        26 i~~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          26 VKDGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            4567889999999999999999876543

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {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: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.19  E-value=0.035  Score=49.18  Aligned_cols=22  Identities=18%  Similarity=0.336  Sum_probs=20.0

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+|+|++|+|||++++.++..
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4799999999999999999875

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-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: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=92.18  E-value=0.058  Score=51.27  Aligned_cols=51  Identities=14%  Similarity=0.080  Sum_probs=33.5

Q ss_pred             HHHHHh-c----CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChH
Q psy17974        399 MEKLLL-V----NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA  450 (583)
Q Consensus       399 l~~~l~-~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~  450 (583)
                      ++.++. .    |+=+.++||||||||+++-.++..... .+..++++..-...++.
T Consensus        42 lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~-~g~~~vyidtE~~~~~~   97 (263)
T d1u94a1          42 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR-EGKTCAFIDAEHALDPI   97 (263)
T ss_dssp             HHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEESSCCCCHH
T ss_pred             HHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHc-CCCEEEEEccccccCHH
Confidence            566665 3    467899999999999999887765532 23445555444334433

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {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: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.14  E-value=0.034  Score=49.42  Aligned_cols=22  Identities=32%  Similarity=0.356  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|.+|+|||++++.++..
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            5899999999999999998864

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {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: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=92.11  E-value=0.028  Score=52.82  Aligned_cols=26  Identities=19%  Similarity=0.291  Sum_probs=22.4

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +..|.-+-|+||+|||||++++.+..
T Consensus        28 i~~Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          28 VPAGQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             ECSSCEEEEEESTTSSHHHHHHHHTT
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcC
Confidence            45678899999999999999987755

>d4tmka_ c.37.1.1 (A:) Thymidylate 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: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=92.08  E-value=0.06  Score=48.75  Aligned_cols=37  Identities=16%  Similarity=0.287  Sum_probs=26.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEe
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINF  443 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~f  443 (583)
                      |+=+.+.|+.||||||.++.+.+.+. ..++..+.+.+
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L~-~~g~~~~~~~~   38 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETLE-QLGIRDMVFTR   38 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHH-HTTCCCEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH-hCCCCeEEEec
Confidence            45577889999999999999888773 33444444443

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {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: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.05  E-value=0.037  Score=49.61  Aligned_cols=22  Identities=23%  Similarity=0.492  Sum_probs=19.8

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4899999999999999998864

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {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: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.04  E-value=0.033  Score=48.99  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|.|+|.+|+|||++++.++..
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998863

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {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: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.94  E-value=0.038  Score=48.46  Aligned_cols=22  Identities=32%  Similarity=0.496  Sum_probs=19.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+|+|++|+|||++++.+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999988753

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

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: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=91.91  E-value=0.033  Score=52.23  Aligned_cols=28  Identities=25%  Similarity=0.293  Sum_probs=23.1

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||+||||||+++.+..-+
T Consensus        29 v~~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          29 IKDGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            4467788999999999999999776543

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {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: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=91.89  E-value=0.051  Score=48.51  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=17.5

Q ss_pred             CCceEEEccCCCcHHHHHHHHH
Q psy17974        406 NHPVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l  427 (583)
                      ++++|+++|+|+|||.++-.++
T Consensus        23 ~~n~lv~~pTGsGKT~i~~~~~   44 (200)
T d1wp9a1          23 ETNCLIVLPTGLGKTLIAMMIA   44 (200)
T ss_dssp             GSCEEEECCTTSCHHHHHHHHH
T ss_pred             cCCeEEEeCCCCcHHHHHHHHH
Confidence            5689999999999998654443

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

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: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=91.82  E-value=0.053  Score=51.15  Aligned_cols=48  Identities=17%  Similarity=0.041  Sum_probs=31.7

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSART  452 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~l  452 (583)
                      +..|.=+++.|+||+|||+++.+++.......+..+..  ||...++..+
T Consensus        32 ~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~--~s~E~~~~~~   79 (277)
T d1cr2a_          32 ARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGL--AMLEESVEET   79 (277)
T ss_dssp             BCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEE--EESSSCHHHH
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeE--eeeccchhhH
Confidence            44577889999999999999998876432123444443  4545555443

>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=91.78  E-value=0.052  Score=53.29  Aligned_cols=35  Identities=17%  Similarity=0.316  Sum_probs=25.3

Q ss_pred             HHHHHHHhc-C--CceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        397 SIMEKLLLV-N--HPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       397 ~ll~~~l~~-~--~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      .++..+... +  .-|=++||||+|||+++..+...+.
T Consensus        42 ~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~   79 (327)
T d2p67a1          42 QLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLI   79 (327)
T ss_dssp             HHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            445555432 2  2467899999999999999987663

>d2ngra_ c.37.1.8 (A:) CDC42 {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: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.76  E-value=0.041  Score=49.06  Aligned_cols=22  Identities=27%  Similarity=0.298  Sum_probs=19.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+|+|++|+|||++++.+...
T Consensus         5 KvvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998864

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

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: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=91.64  E-value=0.029  Score=52.35  Aligned_cols=28  Identities=25%  Similarity=0.245  Sum_probs=23.2

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||+||||||+++.+..-+
T Consensus        23 i~~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          23 VESGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             ECTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            3457789999999999999999887643

>d1i2ma_ c.37.1.8 (A:) Ran {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: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.59  E-value=0.023  Score=49.83  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=18.7

Q ss_pred             CceEEEccCCCcHHHHHHHHHHh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ..|+++|++|+|||++++.++..
T Consensus         4 ~Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           4 FKLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35899999999999999987653

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {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: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.43  E-value=0.028  Score=49.36  Aligned_cols=22  Identities=32%  Similarity=0.486  Sum_probs=9.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|.+|||||++++.++..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988753

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

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 multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=91.41  E-value=0.021  Score=54.26  Aligned_cols=28  Identities=25%  Similarity=0.371  Sum_probs=23.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-++||+||||||+++.++.-+
T Consensus        41 i~~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          41 IEKGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            5578899999999999999998776533

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

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: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=91.34  E-value=0.057  Score=52.94  Aligned_cols=50  Identities=28%  Similarity=0.383  Sum_probs=31.0

Q ss_pred             HHHHHHHHhc-CC--ceEEEccCCCcHHHHHHHHHHhhcc-cCCceEEEEEecc
Q psy17974        396 GSIMEKLLLV-NH--PVMFTGVTGVGKTVVARSILNKLLA-SNTWAALTINFSA  445 (583)
Q Consensus       396 ~~ll~~~l~~-~~--~vLL~Gp~GtGKT~li~~~l~~l~~-~~~~~~~~i~fS~  445 (583)
                      ..+++.+... ++  -+=+.||||+|||+++..+...+.. ..+..++.+.-|+
T Consensus        38 ~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss   91 (323)
T d2qm8a1          38 RDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSS   91 (323)
T ss_dssp             HHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGG
T ss_pred             HHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeeccccc
Confidence            3445554433 33  3678999999999999999876521 2234444444443

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon 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: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=91.31  E-value=0.026  Score=53.10  Aligned_cols=26  Identities=27%  Similarity=0.319  Sum_probs=22.7

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +..|.-+-|+||+||||||+++.+..
T Consensus        28 i~~Ge~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          28 IENGERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHT
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHHc
Confidence            45678899999999999999998765

>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=91.24  E-value=0.039  Score=49.25  Aligned_cols=27  Identities=26%  Similarity=0.305  Sum_probs=22.3

Q ss_pred             hcCCc--eEEEccCCCcHHHHHHHHHHhh
Q psy17974        404 LVNHP--VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       404 ~~~~~--vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ++.+|  |.+.|+.||||||+++.+.+.+
T Consensus         5 ~~~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           5 EGTQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            34566  5788999999999999888766

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-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: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=91.21  E-value=0.045  Score=47.75  Aligned_cols=21  Identities=24%  Similarity=0.439  Sum_probs=19.3

Q ss_pred             ceEEEccCCCcHHHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .|.|+|.||+|||++++++.+
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999999985

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {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: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.19  E-value=0.064  Score=48.26  Aligned_cols=31  Identities=23%  Similarity=0.439  Sum_probs=21.9

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHH-HHHHhh
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVAR-SILNKL  430 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~-~~l~~l  430 (583)
                      +..+. .|+++++++|+|+|||.++. .++..+
T Consensus        34 i~~l~-~~~~~il~apTGsGKT~~a~l~i~~~~   65 (202)
T d2p6ra3          34 VEKVF-SGKNLLLAMPTAAGKTLLAEMAMVREA   65 (202)
T ss_dssp             HHHHT-TCSCEEEECSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHH-cCCCEEEEcCCCCchhHHHHHHHHHHh
Confidence            34434 57899999999999998753 334443

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {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: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.13  E-value=0.05  Score=50.97  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=19.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      -+-|.||+|||||++++.+..-+
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            45689999999999999887644

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {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: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.85  E-value=0.13  Score=45.08  Aligned_cols=22  Identities=14%  Similarity=0.326  Sum_probs=19.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+|+|..|+|||++++.+...
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            5899999999999999988654

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {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: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=90.68  E-value=0.043  Score=48.35  Aligned_cols=24  Identities=38%  Similarity=0.505  Sum_probs=20.8

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      +-.|.++|.+|+|||+++++++..
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            346899999999999999998863

>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=90.56  E-value=0.074  Score=51.10  Aligned_cols=25  Identities=36%  Similarity=0.695  Sum_probs=19.7

Q ss_pred             CCceE--EEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVM--FTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vL--L~Gp~GtGKT~li~~~l~~l  430 (583)
                      +.|++  |.|++||||||++..+...+
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHH
Confidence            44765  57999999999998776654

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {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: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.55  E-value=0.059  Score=47.80  Aligned_cols=19  Identities=16%  Similarity=0.447  Sum_probs=17.7

Q ss_pred             ceEEEccCCCcHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSI  426 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~  426 (583)
                      .|+|+|.+|+|||++++.+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999987

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {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: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.19  E-value=0.072  Score=47.00  Aligned_cols=22  Identities=18%  Similarity=0.223  Sum_probs=20.2

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|++|+|||++++.++..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            6899999999999999999875

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {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: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=90.11  E-value=0.089  Score=52.89  Aligned_cols=36  Identities=22%  Similarity=0.342  Sum_probs=25.9

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEE
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTIN  442 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~  442 (583)
                      .+|++++|+||+|||.+++.++..+- ..+..++.+.
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~-~~g~~~iiiD   85 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGL-LRGDRMVIVD   85 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHH-HTTCEEEEEE
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHH-hCCCCEEEEe
Confidence            46999999999999999988776542 2234444443

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

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: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=90.04  E-value=0.054  Score=51.36  Aligned_cols=26  Identities=23%  Similarity=0.302  Sum_probs=22.5

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +..|.-+-|+||+|||||++++.++.
T Consensus        25 i~~GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          25 ARAGDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHc
Confidence            44678899999999999999998765

>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=89.94  E-value=0.079  Score=46.98  Aligned_cols=23  Identities=39%  Similarity=0.710  Sum_probs=17.0

Q ss_pred             CceE--EEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVM--FTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vL--L~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|++  ++|++|||||++++.+ .++
T Consensus         2 ~p~IIgitG~~gSGKstva~~l-~~~   26 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALL-RSW   26 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHH-HHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHH-HHC
Confidence            3444  5699999999998865 443

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {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: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=89.85  E-value=0.45  Score=45.08  Aligned_cols=26  Identities=31%  Similarity=0.478  Sum_probs=23.2

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|+.+++.|++|+|||+++..++++.
T Consensus        67 kGQr~~If~~~g~GKt~l~~~i~~~~   92 (276)
T d2jdid3          67 KGGKIGLFGGAGVGKTVLIMELINNV   92 (276)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEeeCCCCCCHHHHHHHHHHHH
Confidence            57889999999999999999998764

>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=89.67  E-value=0.24  Score=45.87  Aligned_cols=42  Identities=21%  Similarity=0.103  Sum_probs=31.0

Q ss_pred             eeeCchhhhHHHHHHHHHhcCC--ceEEEccCCCcHHHHHHHHH
Q psy17974        386 MVPTIDTIRFGSIMEKLLLVNH--PVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       386 ~VpT~dt~r~~~ll~~~l~~~~--~vLL~Gp~GtGKT~li~~~l  427 (583)
                      +..|.|-.+...-+..-+..++  +.||+|.+|||||.++-..+
T Consensus        54 ~~lt~~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~   97 (233)
T d2eyqa3          54 FETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAA   97 (233)
T ss_dssp             SCCCHHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHH
Confidence            5677777766655666666666  56999999999999765443

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {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: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=89.51  E-value=0.064  Score=47.07  Aligned_cols=21  Identities=19%  Similarity=0.322  Sum_probs=18.7

Q ss_pred             ceEEEccCCCcHHHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .|-|+|.||+|||++++.+..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999998764

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=89.46  E-value=0.039  Score=51.43  Aligned_cols=24  Identities=29%  Similarity=0.601  Sum_probs=20.2

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      ++-.+|+|++|+|||+++++++..
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC-
T ss_pred             cceEEEECCCCccHHHHHHhhccH
Confidence            566789999999999999988764

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [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: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=89.42  E-value=0.071  Score=49.92  Aligned_cols=28  Identities=25%  Similarity=0.353  Sum_probs=23.8

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||.|+||||+++.+..-+
T Consensus        29 i~~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          29 VPRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4567889999999999999999887644

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=89.42  E-value=0.066  Score=47.14  Aligned_cols=21  Identities=24%  Similarity=0.388  Sum_probs=18.4

Q ss_pred             ceEEEccCCCcHHHHHHHHHH
Q psy17974        408 PVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .|-|+|+||+|||++++.+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999998754

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {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: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=89.37  E-value=0.049  Score=47.48  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=19.2

Q ss_pred             CceEEEccCCCcHHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ..|.|+|+||+|||+|++++..
T Consensus        17 ~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          17 IEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4699999999999999987754

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase 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: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.35  E-value=0.035  Score=47.61  Aligned_cols=22  Identities=27%  Similarity=0.545  Sum_probs=19.5

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|.|+|.||+|||++++.+..+
T Consensus         2 kI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998754

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=89.29  E-value=0.084  Score=48.36  Aligned_cols=24  Identities=17%  Similarity=0.414  Sum_probs=20.5

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHH
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ....|+|+|++|+|||++++.+..
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhc
Confidence            345799999999999999998754

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {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: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=89.26  E-value=0.095  Score=49.09  Aligned_cols=25  Identities=16%  Similarity=0.284  Sum_probs=21.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |.-++|+|+||+|||+++-+++..+
T Consensus        29 g~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          29 GTVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            6788999999999999998876543

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {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: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=89.25  E-value=0.059  Score=50.18  Aligned_cols=26  Identities=15%  Similarity=0.324  Sum_probs=22.9

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      +..|.-+-|+||.|+|||++++.+..
T Consensus        22 I~~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          22 VRAGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EETTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            45788899999999999999998765

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {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: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.16  E-value=0.096  Score=46.11  Aligned_cols=22  Identities=14%  Similarity=0.264  Sum_probs=19.6

Q ss_pred             ceEEEccCCCcHHHHHHHHHHh
Q psy17974        408 PVMFTGVTGVGKTVVARSILNK  429 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~  429 (583)
                      .|+++|.+|+|||++++.+...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999988654

>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=88.96  E-value=0.18  Score=46.72  Aligned_cols=23  Identities=22%  Similarity=0.210  Sum_probs=19.7

Q ss_pred             CCceEEEccCCCcHHHHHHHHHH
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      ++.++|+||.++|||++++++.-
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHH
Confidence            46689999999999999997743

>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=87.90  E-value=0.094  Score=48.97  Aligned_cols=28  Identities=25%  Similarity=0.280  Sum_probs=23.0

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+=|+||.|+|||++++.++.-+
T Consensus        25 v~~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          25 IEEGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3456778899999999999999887644

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {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: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=87.87  E-value=0.035  Score=48.71  Aligned_cols=22  Identities=23%  Similarity=0.477  Sum_probs=18.6

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+|+||.|+|||+++.++.--+
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            3788999999999999886544

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

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: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=87.66  E-value=0.11  Score=49.00  Aligned_cols=28  Identities=21%  Similarity=0.306  Sum_probs=23.6

Q ss_pred             HhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        403 LLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +..|.-+-|+||.|+|||++++.+..-+
T Consensus        27 v~~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          27 VNKGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            4567788999999999999999887644

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {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: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=87.48  E-value=0.31  Score=46.17  Aligned_cols=54  Identities=17%  Similarity=0.091  Sum_probs=33.0

Q ss_pred             HHHHHh-c----CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChHHHH
Q psy17974        399 MEKLLL-V----NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSARTQ  453 (583)
Q Consensus       399 l~~~l~-~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~~lq  453 (583)
                      ++.++. .    |+=+.+.||+|||||+++-.++...+ ..+..+++|.-=...+++.++
T Consensus        48 lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q-~~g~~~vyIDtE~~~~~e~a~  106 (269)
T d1mo6a1          48 LDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ-AAGGVAAFIDAEHALDPDYAK  106 (269)
T ss_dssp             HHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHH-HTTCEEEEEESSCCCCHHHHH
T ss_pred             HHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHh-cCCCEEEEEECCccCCHHHHH
Confidence            555554 3    45679999999999999877765442 223345555433333444433

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon 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: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=87.20  E-value=0.16  Score=46.68  Aligned_cols=27  Identities=30%  Similarity=0.334  Sum_probs=20.7

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHH
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVAR  424 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~  424 (583)
                      ..+..++ .|+++++++|+|+|||...-
T Consensus        50 ~~i~~~l-~g~~~~i~apTGsGKT~~~~   76 (237)
T d1gkub1          50 MWAKRIL-RKESFAATAPTGVGKTSFGL   76 (237)
T ss_dssp             HHHHHHH-TTCCEECCCCBTSCSHHHHH
T ss_pred             HHHHHHH-CCCCEEEEecCCChHHHHHH
Confidence            3444444 68899999999999997644

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-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: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=86.95  E-value=0.18  Score=46.35  Aligned_cols=22  Identities=45%  Similarity=0.730  Sum_probs=19.5

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .+++|.-|+||||+++.+++..
T Consensus         6 ~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEeeCCCCCHHHHHHHHHhcC
Confidence            3889999999999999999863

>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=86.66  E-value=0.25  Score=44.44  Aligned_cols=33  Identities=33%  Similarity=0.411  Sum_probs=25.4

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      ..++.+++ +.+.++++|+|+|||.++-.++..+
T Consensus        77 eav~~~~~-~~~~ll~~~tG~GKT~~a~~~~~~~  109 (206)
T d2fz4a1          77 KALERWLV-DKRGCIVLPTGSGKTHVAMAAINEL  109 (206)
T ss_dssp             HHHHHHTT-TSEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             HHHHHHHh-CCCcEEEeCCCCCceehHHhHHHHh
Confidence            34555665 4567899999999999988888766

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

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: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=86.49  E-value=0.12  Score=49.73  Aligned_cols=35  Identities=20%  Similarity=0.281  Sum_probs=21.8

Q ss_pred             eEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEec
Q psy17974        409 VMFTGVTGVGKTVVARSILNKLLASNTWAALTINFS  444 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS  444 (583)
                      |-++|++|||||++++.+.+.+. .++..+..+...
T Consensus         7 IgIaG~SGSGKTTva~~l~~i~~-~~~v~~~iI~~D   41 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFDQIFR-REGVKAVSIEGD   41 (288)
T ss_dssp             EEEESCC---CCTHHHHHHHHHH-HHTCCEEEEEGG
T ss_pred             EEEECCCCCcHHHHHHHHHHHHh-hcCCCeEEEeCC
Confidence            35899999999999998877662 334444555443

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

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: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=86.35  E-value=0.29  Score=46.30  Aligned_cols=51  Identities=16%  Similarity=0.068  Sum_probs=33.2

Q ss_pred             HHHHHh-c----CCceEEEccCCCcHHHHHHHHHHhhcccCCceEEEEEeccCCChH
Q psy17974        399 MEKLLL-V----NHPVMFTGVTGVGKTVVARSILNKLLASNTWAALTINFSAQTSSA  450 (583)
Q Consensus       399 l~~~l~-~----~~~vLL~Gp~GtGKT~li~~~l~~l~~~~~~~~~~i~fS~~Tt~~  450 (583)
                      ++.++. .    |+=+.+.||+|||||+++..++...+. .+..++++.-=...+++
T Consensus        45 lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk-~g~~v~yiDtE~~~~~~  100 (268)
T d1xp8a1          45 LDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQK-AGGTCAFIDAEHALDPV  100 (268)
T ss_dssp             HHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHH-TTCCEEEEESSCCCCHH
T ss_pred             HHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHh-CCCEEEEEECCccCCHH
Confidence            566665 3    456799999999999999888766532 33445555433333443

>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=86.27  E-value=0.38  Score=45.38  Aligned_cols=42  Identities=24%  Similarity=0.266  Sum_probs=29.4

Q ss_pred             eeeCchhhhHHHHHHHHHhcCC--ceEEEccCCCcHHHHHHHHH
Q psy17974        386 MVPTIDTIRFGSIMEKLLLVNH--PVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       386 ~VpT~dt~r~~~ll~~~l~~~~--~vLL~Gp~GtGKT~li~~~l  427 (583)
                      +-.|.+-.+...-+..-+..++  +-||.|.+|||||..+-..+
T Consensus        82 FeLT~~Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~  125 (264)
T d1gm5a3          82 FKLTNAQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAI  125 (264)
T ss_dssp             SCCCHHHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHH
T ss_pred             ccCCchHHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHH
Confidence            3467776665555555555555  55999999999999776443

>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=86.01  E-value=0.19  Score=48.70  Aligned_cols=36  Identities=22%  Similarity=0.202  Sum_probs=23.6

Q ss_pred             EEEccCCCcHHHHHHHHHHhhccc-CCceEEEEEecc
Q psy17974        410 MFTGVTGVGKTVVARSILNKLLAS-NTWAALTINFSA  445 (583)
Q Consensus       410 LL~Gp~GtGKT~li~~~l~~l~~~-~~~~~~~i~fS~  445 (583)
                      -++|++|||||++++.+...+... ....+..++.-.
T Consensus        84 GIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~  120 (308)
T d1sq5a_          84 SIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDG  120 (308)
T ss_dssp             EEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGG
T ss_pred             EEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeee
Confidence            478999999999999887665211 123444554433

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine 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: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.40  E-value=0.11  Score=47.34  Aligned_cols=24  Identities=13%  Similarity=0.207  Sum_probs=20.9

Q ss_pred             CceEEEccCCCcHHHHHHHHHHhh
Q psy17974        407 HPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      +-+.+.|+.||||||+++.+.+.+
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999888766

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine 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: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.02  E-value=0.23  Score=45.42  Aligned_cols=24  Identities=17%  Similarity=0.284  Sum_probs=20.9

Q ss_pred             ceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        408 PVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       408 ~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      =+.+.|+-||||||+++.+.+.+.
T Consensus         4 ~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHh
Confidence            367899999999999999988773

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {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: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.95  E-value=0.31  Score=48.80  Aligned_cols=31  Identities=23%  Similarity=0.277  Sum_probs=24.8

Q ss_pred             HHHHHHhcCCceEEEccCCCcHHHHHHHHHH
Q psy17974        398 IMEKLLLVNHPVMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       398 ll~~~l~~~~~vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .++.+-....+|.++|.||+|||+++++++.
T Consensus        48 ~l~~~~~~~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          48 ALKEIDSSVLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             HHHHHHHCCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             HHHhcccCCcEEEEECCCCCCHHHHHHHHhC
Confidence            3444444567899999999999999999875

>d1e69a_ c.37.1.12 (A:) Smc head 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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=84.35  E-value=0.16  Score=48.15  Aligned_cols=20  Identities=25%  Similarity=0.363  Sum_probs=17.3

Q ss_pred             eEEEccCCCcHHHHHHHHHH
Q psy17974        409 VMFTGVTGVGKTVVARSILN  428 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~  428 (583)
                      .+|+||.|||||+++.++.-
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~   46 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKW   46 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            48999999999999988743

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

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: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=83.81  E-value=0.14  Score=48.53  Aligned_cols=20  Identities=20%  Similarity=0.253  Sum_probs=17.7

Q ss_pred             HHhcCCceEEEccCCCcHHH
Q psy17974        402 LLLVNHPVMFTGVTGVGKTV  421 (583)
Q Consensus       402 ~l~~~~~vLL~Gp~GtGKT~  421 (583)
                      ++..|+.+++.+|+|+|||.
T Consensus         5 ~~~~~~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2           5 IFRKKRLTIMDLHPGAGKTK   24 (305)
T ss_dssp             SSSTTCEEEECCCTTSSTTT
T ss_pred             HhhcCCcEEEEECCCCCHHH
Confidence            45678999999999999995

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {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: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=83.59  E-value=0.19  Score=45.13  Aligned_cols=20  Identities=30%  Similarity=0.308  Sum_probs=17.3

Q ss_pred             HhcCCceEEEccCCCcHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVV  422 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~l  422 (583)
                      +..|++|+++.|+|||||..
T Consensus        35 ~l~G~dvii~a~TGSGKTla   54 (209)
T d1q0ua_          35 ALRGESMVGQSQTGTGKTHA   54 (209)
T ss_dssp             HHHTCCEEEECCSSHHHHHH
T ss_pred             HHCCCCeEeeccccccccee
Confidence            34689999999999999983

>d1tmka_ c.37.1.1 (A:) Thymidylate 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: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.22  E-value=0.57  Score=42.27  Aligned_cols=26  Identities=23%  Similarity=0.410  Sum_probs=22.6

Q ss_pred             CCceEEEccCCCcHHHHHHHHHHhhc
Q psy17974        406 NHPVMFTGVTGVGKTVVARSILNKLL  431 (583)
Q Consensus       406 ~~~vLL~Gp~GtGKT~li~~~l~~l~  431 (583)
                      |+=+-+.|+-||||||.++.+.+.+.
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            55678999999999999999988873

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase 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: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=83.10  E-value=0.2  Score=44.74  Aligned_cols=25  Identities=20%  Similarity=0.351  Sum_probs=19.9

Q ss_pred             HHHHHhcCCceEEEccCCCcHHHHHH
Q psy17974        399 MEKLLLVNHPVMFTGVTGVGKTVVAR  424 (583)
Q Consensus       399 l~~~l~~~~~vLL~Gp~GtGKT~li~  424 (583)
                      +...+ .|++++++-|+|+|||....
T Consensus        34 i~~~l-~g~~vlv~apTGsGKT~~~~   58 (206)
T d1oywa2          34 IDTVL-SGRDCLVVMPTGGGKSLCYQ   58 (206)
T ss_dssp             HHHHH-TTCCEEEECSCHHHHHHHHH
T ss_pred             HHHHH-cCCCEEEEcCCCCCCcchhh
Confidence            34444 57899999999999998764

>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=82.99  E-value=0.3  Score=44.86  Aligned_cols=21  Identities=29%  Similarity=0.366  Sum_probs=18.4

Q ss_pred             CceEEEccCCCcHHHHHHHHH
Q psy17974        407 HPVMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       407 ~~vLL~Gp~GtGKT~li~~~l  427 (583)
                      +-++|+||..+|||++++++.
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhH
Confidence            357999999999999999764

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA 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: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=82.42  E-value=0.35  Score=43.53  Aligned_cols=21  Identities=43%  Similarity=0.623  Sum_probs=16.6

Q ss_pred             eEEEccCCCcHHHHHHHHHHhh
Q psy17974        409 VMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      |-|+|++|||||+.++.+ ..+
T Consensus         6 IgitG~igSGKStv~~~l-~~~   26 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAF-ADL   26 (208)
T ss_dssp             EEEECCTTSCHHHHHHHH-HHT
T ss_pred             EEEECCCcCCHHHHHHHH-HHC
Confidence            348999999999998754 444

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {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: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=82.37  E-value=0.31  Score=43.67  Aligned_cols=18  Identities=44%  Similarity=0.551  Sum_probs=15.0

Q ss_pred             eEEEccCCCcHHHHHHHH
Q psy17974        409 VMFTGVTGVGKTVVARSI  426 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~  426 (583)
                      |=|+|++|||||++++.+
T Consensus         5 IgITG~igSGKStv~~~l   22 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEECSTTSCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            347999999999988754

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}

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: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=82.07  E-value=1.1  Score=40.03  Aligned_cols=30  Identities=20%  Similarity=0.159  Sum_probs=23.0

Q ss_pred             HHHHHHHhcCCceEEEccCCCcHHHHHHHH
Q psy17974        397 SIMEKLLLVNHPVMFTGVTGVGKTVVARSI  426 (583)
Q Consensus       397 ~ll~~~l~~~~~vLL~Gp~GtGKT~li~~~  426 (583)
                      ..+..++..+.++++..|+|+|||...-..
T Consensus        33 ~~ip~~l~g~~d~iv~a~TGsGKT~~~~l~   62 (208)
T d1hv8a1          33 KVIPLFLNDEYNIVAQARTGSGKTASFAIP   62 (208)
T ss_dssp             HHHHHHHHTCSEEEEECCSSSSHHHHHHHH
T ss_pred             HHHHHHHcCCCCeeeechhcccccceeecc
Confidence            345566666679999999999999966543

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {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: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=81.58  E-value=0.43  Score=42.30  Aligned_cols=35  Identities=26%  Similarity=0.341  Sum_probs=26.9

Q ss_pred             CceEEEcc-CCCcHHHHHHHHHHhhcccCCceEEEEE
Q psy17974        407 HPVMFTGV-TGVGKTVVARSILNKLLASNTWAALTIN  442 (583)
Q Consensus       407 ~~vLL~Gp-~GtGKT~li~~~l~~l~~~~~~~~~~i~  442 (583)
                      +.++++|- +|+|||++.-+++..+. ..++.+..+-
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa-~~G~rVl~id   37 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAK-AAGYRTAGYK   37 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHH-HTTCCEEEEC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHH-HCCCeEEEEC
Confidence            46789998 59999999999988873 4466666553

>d1w1wa_ c.37.1.12 (A:) Smc head domain {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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.38  E-value=0.31  Score=47.97  Aligned_cols=19  Identities=26%  Similarity=0.398  Sum_probs=16.8

Q ss_pred             eEEEccCCCcHHHHHHHHH
Q psy17974        409 VMFTGVTGVGKTVVARSIL  427 (583)
Q Consensus       409 vLL~Gp~GtGKT~li~~~l  427 (583)
                      .+++||.|+|||+++.++.
T Consensus        28 ~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            3789999999999999874

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {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: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.26  E-value=0.38  Score=43.31  Aligned_cols=20  Identities=30%  Similarity=0.526  Sum_probs=17.5

Q ss_pred             HhcCCceEEEccCCCcHHHH
Q psy17974        403 LLVNHPVMFTGVTGVGKTVV  422 (583)
Q Consensus       403 l~~~~~vLL~Gp~GtGKT~l  422 (583)
                      +..|+++++..|+|||||..
T Consensus        35 il~g~dvl~~A~TGsGKTla   54 (207)
T d1t6na_          35 AILGMDVLCQAKSGMGKTAV   54 (207)
T ss_dssp             HHTTCCEEEECCTTSCHHHH
T ss_pred             HHcCCCeEEEeccccccccc
Confidence            44689999999999999984

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

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: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=80.54  E-value=2.2  Score=40.13  Aligned_cols=26  Identities=23%  Similarity=0.250  Sum_probs=22.1

Q ss_pred             cCCceEEEccCCCcHHHHHHHHHHhh
Q psy17974        405 VNHPVMFTGVTGVGKTVVARSILNKL  430 (583)
Q Consensus       405 ~~~~vLL~Gp~GtGKT~li~~~l~~l  430 (583)
                      .|+.+++.|++|+|||+++..+....
T Consensus        66 ~GQr~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          66 RGQRELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHTC
T ss_pred             CCceEeeccCCCCChHHHHHHHHhhh
Confidence            57889999999999999998765543