Citrus Sinensis ID: 018574

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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----
Protein Sequence
MAAATAMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNVF
Secondary Structure (PSIPRED)
cHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHcccccccHHHHHHHHHHHccccEEEEcccccHHHHHHHHHHHHccccccccEEEEEEcccHHHHHHHHHHHHHHHcccccEEEEEEccccHHHHHHHHcccccEEEcccHHHHHHccccccccccccEEEEEccccccccccHHHHHHHHHHcccccEEEEEEccccHHHHHHHHHHccccEEEEEEccccccccEEEEEEEEcccccHHHHHHHHHHHccccEEEEEEcccccHHHHHHHHHHcccEEEEEccccccHHHHHHHHHHHcccccEEEEHHHHccccccccccEEEEcccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccEEEccccccccccHHHccccHHHHHHHHHcccccccccHHHHHHHHHccccEEEEccccHHHHHHHHHHHHHHcccccccccEEEEcccHHHHHHHHHHHHHHcccccccEEEEcccccHHHHHHHHHHccEEEEEcHHHHHHHHcccccccccccEEEEccHHHHHccccHHHHHHHHHccccccEEEEEEccccHHHHHHHHHHccccEEEEcccccccccccEEEEEEEccHHHHHHHHHHHHHcccccEEEEEEcccccHHHHHHHHHHccccEEEEcccccHHHHHHHHHHHHcccccEEEEEHHHHccccccccEEEEEEccccccc
Coil and Loop (DISEMBL)
MAAATAMRrrgggggmdddkMVFETTEGVeaitsfdamgiKDDLLRGIYQygfekpsaiqqravmpiikgrDVIAqaqsgtgktSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFiniqahacvggksvgedIRKLehgvhvvsgtpgrvcdmIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTkfmtdpvkILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTekmrgynftvssmhgdmpqkerDAIMgefrsgttrvLITTDVWARGLDVQQAILFFFLFLFCNVF
Flexible Loop (DISEMBL)
maaatamrrrgggggmdddkMVFETTEGVEaitsfdamgiKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAqsgtgktsmIALTVCQTVDTSSREVQALIlsptrelatQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEhgvhvvsgtpgrvcdmikrkTLRTRAIKLlvldesdemlSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMttkfmtdpVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNftvssmhgdmpQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNVF
Low Complexity Region (SEG)
maaatamrrrgggggmdddKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAIlffflflfCNVF
Disordered region (IsUnstruct)
***********************ETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS*************IMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV*
Disordered Region (DISOPRED)
**************************EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNVF
Disordered Region (DISEMBL)
*************GGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNVF
Disordered Region (DISPRO)
**************GMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNVF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAATAMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNVF
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	354	2.2.26 [Sep-21-2011]
Q5VNM3	404	DEAD-box ATP-dependent RN	yes	no	0.963	0.844	0.865	1e-177
Q10I26	404	DEAD-box ATP-dependent RN	yes	no	0.963	0.844	0.860	1e-177
Q94A52	408	DEAD-box ATP-dependent RN	yes	no	0.954	0.828	0.860	1e-174
P41380	391	Eukaryotic initiation fac	N/A	no	0.926	0.838	0.887	1e-174
Q3B8Q2	411	Eukaryotic initiation fac	yes	no	0.994	0.856	0.722	1e-151
A6M931	411	Eukaryotic initiation fac	yes	no	0.994	0.856	0.722	1e-151
Q2NL22	411	Eukaryotic initiation fac	yes	no	0.994	0.856	0.722	1e-151
Q7ZVA6	406	Eukaryotic initiation fac	yes	no	0.974	0.849	0.739	1e-151
P38919	411	Eukaryotic initiation fac	yes	no	0.949	0.817	0.752	1e-151
Q91VC3	411	Eukaryotic initiation fac	yes	no	0.949	0.817	0.752	1e-151

>sp|Q5VNM3|RH2_ORYSJ DEAD-box ATP-dependent RNA helicase 2 OS=Oryza sativa subsp. japonica GN=Os01g0639100 PE=2 SV=1

 Score =  622 bits (1604), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 297/343 (86%), Positives = 319/343 (93%), Gaps = 2/343 (0%)

Query: 1   MAAATAMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQ 60
           MAAAT  RR  G G MDD+ + FET+ GVE I+SFD MGI+DDLLRGIY YGFEKPSAIQ
Sbjct: 1   MAAATTSRR--GPGAMDDENLTFETSPGVEVISSFDQMGIRDDLLRGIYAYGFEKPSAIQ 58

Query: 61  QRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKV 120
           QRAV+PII GRDVIAQAQSGTGKTSMI+L+VCQ VDT+ REVQALILSPTRELA QTE+V
Sbjct: 59  QRAVLPIISGRDVIAQAQSGTGKTSMISLSVCQIVDTAVREVQALILSPTRELAAQTERV 118

Query: 121 ILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLV 180
           +LAIGDFINIQ HAC+GGKS+GEDIRKLEHGVHVVSGTPGRVCDMIKR+TLRTRAIKLL+
Sbjct: 119 MLAIGDFINIQVHACIGGKSIGEDIRKLEHGVHVVSGTPGRVCDMIKRRTLRTRAIKLLI 178

Query: 181 LDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE 240
           LDE+DEML RGFKDQIYDVYRYLPP+LQV LISATLPHEILEMT+KFMTDPV+ILVKRDE
Sbjct: 179 LDEADEMLGRGFKDQIYDVYRYLPPELQVCLISATLPHEILEMTSKFMTDPVRILVKRDE 238

Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS 300
           LTLEGIKQFFVAVE+EEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTE+MR  NFTVS
Sbjct: 239 LTLEGIKQFFVAVEKEEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTERMRSNNFTVS 298

Query: 301 SMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAIL 343
           +MHGDMPQKERDAIMGEFRSG TRVLITTDVWARGLDVQQ  L
Sbjct: 299 AMHGDMPQKERDAIMGEFRSGATRVLITTDVWARGLDVQQVSL 341

ATP-dependent RNA helicase involved in 40S ribosomal subunit biogenesis. Required for the processing and cleavage of 35S pre-rRNA at sites A0, A1, and A2, leading to mature 18S rRNA.
Oryza sativa subsp. japonica (taxid: 39947)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 3

>sp|Q10I26|RH34_ORYSJ DEAD-box ATP-dependent RNA helicase 34 OS=Oryza sativa subsp. japonica GN=Os03g0566800 PE=2 SV=1

 Score =  619 bits (1597), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 295/343 (86%), Positives = 319/343 (93%), Gaps = 2/343 (0%)

Query: 1   MAAATAMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQ 60
           MAAAT  RR  G G MDD+ + FET+ GVE I+SFD MGI++DLLRGIY YGFEKPSAIQ
Sbjct: 1   MAAATTSRR--GPGAMDDENLTFETSPGVEVISSFDQMGIREDLLRGIYAYGFEKPSAIQ 58

Query: 61  QRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKV 120
           QRAV+PII GRDVIAQAQSGTGKTSMI+L+VCQ VDT+ REVQALILSPTRELA QTE+V
Sbjct: 59  QRAVLPIISGRDVIAQAQSGTGKTSMISLSVCQIVDTAVREVQALILSPTRELAAQTERV 118

Query: 121 ILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLV 180
           +LAIGD+INIQ HAC+GGKS+GEDIRKLEHGVHVVSGTPGRVCDMIKR+TLRTRAIKLL+
Sbjct: 119 MLAIGDYINIQVHACIGGKSIGEDIRKLEHGVHVVSGTPGRVCDMIKRRTLRTRAIKLLI 178

Query: 181 LDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE 240
           LDE+DEML RGFKDQIYDVYRYLPP+LQV LISATLPHEILEMT+KFMTDPV+ILVKRDE
Sbjct: 179 LDEADEMLGRGFKDQIYDVYRYLPPELQVCLISATLPHEILEMTSKFMTDPVRILVKRDE 238

Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS 300
           LTLEGIKQFFVAVE+EEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTE+MR  NFTVS
Sbjct: 239 LTLEGIKQFFVAVEKEEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTERMRSNNFTVS 298

Query: 301 SMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAIL 343
           +MHGDMPQKERDAIMGEFRSG TRVLITTDVWARGLDVQQ  L
Sbjct: 299 AMHGDMPQKERDAIMGEFRSGATRVLITTDVWARGLDVQQVSL 341

ATP-dependent RNA helicase involved in 40S ribosomal subunit biogenesis. Required for the processing and cleavage of 35S pre-rRNA at sites A0, A1, and A2, leading to mature 18S rRNA.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q94A52|RH2_ARATH DEAD-box ATP-dependent RNA helicase 2 OS=Arabidopsis thaliana GN=RH2 PE=2 SV=2

 Score =  612 bits (1577), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 291/338 (86%), Positives = 315/338 (93%)

Query: 15  GMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVI 74
            MDDDK+VFETT+G+E ITSF+ MGIK+D+LRG+Y+YGFEKPSAIQQRAVMPI++GRDVI
Sbjct: 17  AMDDDKLVFETTDGIEPITSFNDMGIKEDVLRGVYEYGFEKPSAIQQRAVMPILQGRDVI 76

Query: 75  AQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA 134
           AQAQSGTGKTSMIAL+VCQ VDTSSREVQALILSPTRELATQTEK I AIG   NIQAHA
Sbjct: 77  AQAQSGTGKTSMIALSVCQVVDTSSREVQALILSPTRELATQTEKTIQAIGLHANIQAHA 136

Query: 135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKD 194
           C+GG SVGEDIRKLEHGVHVVSGTPGRVCDMIKR++LRTRAIKLL+LDESDEMLSRGFKD
Sbjct: 137 CIGGNSVGEDIRKLEHGVHVVSGTPGRVCDMIKRRSLRTRAIKLLILDESDEMLSRGFKD 196

Query: 195 QIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVE 254
           QIYDVYRYLPPDLQV L+SATLPHEILEMT+KFMT+PVKILVKRDELTLEGIKQFFVAVE
Sbjct: 197 QIYDVYRYLPPDLQVCLVSATLPHEILEMTSKFMTEPVKILVKRDELTLEGIKQFFVAVE 256

Query: 255 REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAI 314
           +EEWKFDTLCDLYDTLTITQAVIFCNTKRKVD+L+EKMR +NFTVSSMHGDMPQKERDAI
Sbjct: 257 KEEWKFDTLCDLYDTLTITQAVIFCNTKRKVDYLSEKMRSHNFTVSSMHGDMPQKERDAI 316

Query: 315 MGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN 352
           M EFRSG +RVLITTDVWARG+DVQQ  L     L  N
Sbjct: 317 MNEFRSGDSRVLITTDVWARGIDVQQVSLVINYDLPNN 354

ATP-dependent RNA helicase involved in 40S ribosomal subunit biogenesis. Required for the processing and cleavage of 35S pre-rRNA at sites A0, A1, and A2, leading to mature 18S rRNA.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|P41380|IF4A3_NICPL Eukaryotic initiation factor 4A-3 OS=Nicotiana plumbaginifolia PE=2 SV=1

 Score =  610 bits (1572), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 291/328 (88%), Positives = 310/328 (94%)

Query: 16  MDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIA 75
           M++D++VFET++GVE I SF  MGIKDDLLRG+YQYGFEKPSAIQQRAV+PII GRDVIA
Sbjct: 1   MEEDRLVFETSKGVEPIASFAEMGIKDDLLRGVYQYGFEKPSAIQQRAVLPIISGRDVIA 60

Query: 76  QAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHAC 135
           QAQSGTGKTSMIALTVCQ VDT S EVQALILSPTRELA QTEKVILAIGD+IN+QAHAC
Sbjct: 61  QAQSGTGKTSMIALTVCQIVDTKSSEVQALILSPTRELAAQTEKVILAIGDYINVQAHAC 120

Query: 136 VGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQ 195
           +GGKSVGEDIRKLEHGV VVSGTPGRVCDMIKR+TLRTR IKLL+LDESDEMLSRGFKDQ
Sbjct: 121 IGGKSVGEDIRKLEHGVQVVSGTPGRVCDMIKRRTLRTRGIKLLILDESDEMLSRGFKDQ 180

Query: 196 IYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVER 255
           IYDVYRYLPP+LQVVLISATLP+EILE+T+KFMTDPV+ILVKRDELTLEGIKQFFVAVE+
Sbjct: 181 IYDVYRYLPPELQVVLISATLPNEILEITSKFMTDPVRILVKRDELTLEGIKQFFVAVEK 240

Query: 256 EEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIM 315
           EEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLT KMR  NFTVSSMHGDMPQKERDAIM
Sbjct: 241 EEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTSKMRENNFTVSSMHGDMPQKERDAIM 300

Query: 316 GEFRSGTTRVLITTDVWARGLDVQQAIL 343
            EFR GTTRVLITTDVWARGLDVQQ  L
Sbjct: 301 AEFRGGTTRVLITTDVWARGLDVQQVSL 328

ATP-dependent RNA helicase which is a subunit of the eIF4F complex involved in cap recognition and is required for mRNA binding to ribosome. In the current model of translation initiation, eIF4A unwinds RNA secondary structures in the 5'-UTR of mRNAs which is necessary to allow efficient binding of the small ribosomal subunit, and subsequent scanning for the initiator codon.

Nicotiana plumbaginifolia (taxid: 4092)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q3B8Q2|IF4A3_RAT Eukaryotic initiation factor 4A-III OS=Rattus norvegicus GN=Eif4a3 PE=1 SV=1

 Score =  535 bits (1377), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 258/357 (72%), Positives = 298/357 (83%), Gaps = 5/357 (1%)

Query: 1   MAAATAMRRRGGGGGM-----DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEK 55
           MAA   M   G          D  K+ FET+E V+   +FD MG+++DLLRGIY YGFEK
Sbjct: 1   MAATATMATSGSARKRLLKEEDMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEK 60

Query: 56  PSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT 115
           PSAIQQRA+  IIKGRDVIAQ+QSGTGKT+  +++V Q +D   RE QALIL+PTRELA 
Sbjct: 61  PSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAV 120

Query: 116 QTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRA 175
           Q +K +LA+GD++N+Q HAC+GG +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRA
Sbjct: 121 QIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRA 180

Query: 176 IKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKIL 235
           IK+LVLDE+DEML++GFK+QIYDVYRYLPP  QVVLISATLPHEILEMT KFMTDP++IL
Sbjct: 181 IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRIL 240

Query: 236 VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY 295
           VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  
Sbjct: 241 VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREA 300

Query: 296 NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN 352
           NFTVSSMHGDMPQKER++IM EFRSG +RVLI+TDVWARGLDV Q  L     L  N
Sbjct: 301 NFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNN 357

ATP-dependent RNA helicase. Component of a splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junction on mRNAs. The EJC is a dynamic structure consisting of a few core proteins and several more peripheral nuclear and cytoplasmic associated factors that join the complex only transiently either during EJC assembly or during subsequent mRNA metabolism. Core components of the EJC, that remains bound to spliced mRNAs throughout all stages of mRNA metabolism, functions to mark the position of the exon-exon junction in the mature mRNA and thereby influences downstream processes of gene expression including mRNA splicing, nuclear mRNA export, subcellular mRNA localization, translation efficiency and nonsense-mediated mRNA decay (NMD). Constitutes at least part of the platform anchoring other EJC proteins to spliced mRNAs. Its RNA-dependent ATPase and RNA-helicase activities are induced by CASC3, but abolished in presence of the MAGOH/RBM8A heterodimer, thereby trapping the ATP-bound EJC core onto spliced mRNA in a stable conformation. The inhibition of ATPase activity by the MAGOH/RBM8A heterodimer increases the RNA-binding affinity of the EJC. Involved in translational enhancement of spliced mRNAs after formation of the 80S ribosome complex. Binds spliced mRNA in sequence-independent manner, 20-24 nucleotides upstream of mRNA exon-exon junctions. Shows higher affinity for single-stranded RNA in an ATP-bound core EJC complex than after the ATP is hydrolyzed.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|A6M931|IF4A3_PIG Eukaryotic initiation factor 4A-III OS=Sus scrofa GN=EIF4A3 PE=2 SV=1

 Score =  535 bits (1377), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 258/357 (72%), Positives = 298/357 (83%), Gaps = 5/357 (1%)

Query: 1   MAAATAMRRRGGGGGM-----DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEK 55
           MAA   M   G          D  K+ FET+E V+   +FD MG+++DLLRGIY YGFEK
Sbjct: 1   MAATATMATSGSARKRLLKEEDMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEK 60

Query: 56  PSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT 115
           PSAIQQRA+  IIKGRDVIAQ+QSGTGKT+  +++V Q +D   RE QALIL+PTRELA 
Sbjct: 61  PSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAV 120

Query: 116 QTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRA 175
           Q +K +LA+GD++N+Q HAC+GG +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRA
Sbjct: 121 QIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRA 180

Query: 176 IKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKIL 235
           IK+LVLDE+DEML++GFK+QIYDVYRYLPP  QVVLISATLPHEILEMT KFMTDP++IL
Sbjct: 181 IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRIL 240

Query: 236 VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY 295
           VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  
Sbjct: 241 VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREA 300

Query: 296 NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN 352
           NFTVSSMHGDMPQKER++IM EFRSG +RVLI+TDVWARGLDV Q  L     L  N
Sbjct: 301 NFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNN 357

ATP-dependent RNA helicase. Component of a splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junction on mRNAs. The EJC is a dynamic structure consisting of a few core proteins and several more peripheral nuclear and cytoplasmic associated factors that join the complex only transiently either during EJC assembly or during subsequent mRNA metabolism. Core components of the EJC, that remains bound to spliced mRNAs throughout all stages of mRNA metabolism, functions to mark the position of the exon-exon junction in the mature mRNA and thereby influences downstream processes of gene expression including mRNA splicing, nuclear mRNA export, subcellular mRNA localization, translation efficiency and nonsense-mediated mRNA decay (NMD). Constitutes at least part of the platform anchoring other EJC proteins to spliced mRNAs. Its RNA-dependent ATPase and RNA-helicase activities are induced by CASC3, but abolished in presence of the MAGOH/RBM8A heterodimer, thereby trapping the ATP-bound EJC core onto spliced mRNA in a stable conformation. The inhibition of ATPase activity by the MAGOH/RBM8A heterodimer increases the RNA-binding affinity of the EJC. Involved in translational enhancement of spliced mRNAs after formation of the 80S ribosome complex. Binds spliced mRNA in sequence-independent manner, 20-24 nucleotides upstream of mRNA exon-exon junctions. Shows higher affinity for single-stranded RNA in an ATP-bound core EJC complex than after the ATP is hydrolyzed.

Sus scrofa (taxid: 9823)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q2NL22|IF4A3_BOVIN Eukaryotic initiation factor 4A-III OS=Bos taurus GN=EIF4A3 PE=2 SV=3

 Score =  535 bits (1377), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 258/357 (72%), Positives = 298/357 (83%), Gaps = 5/357 (1%)

Query: 1   MAAATAMRRRGGGGGM-----DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEK 55
           MAA   M   G          D  K+ FET+E V+   +FD MG+++DLLRGIY YGFEK
Sbjct: 1   MAATATMATSGSARKRLLKEEDMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEK 60

Query: 56  PSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT 115
           PSAIQQRA+  IIKGRDVIAQ+QSGTGKT+  +++V Q +D   RE QALIL+PTRELA 
Sbjct: 61  PSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAV 120

Query: 116 QTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRA 175
           Q +K +LA+GD++N+Q HAC+GG +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRA
Sbjct: 121 QIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRA 180

Query: 176 IKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKIL 235
           IK+LVLDE+DEML++GFK+QIYDVYRYLPP  QVVLISATLPHEILEMT KFMTDP++IL
Sbjct: 181 IKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRIL 240

Query: 236 VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY 295
           VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  
Sbjct: 241 VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREA 300

Query: 296 NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN 352
           NFTVSSMHGDMPQKER++IM EFRSG +RVLI+TDVWARGLDV Q  L     L  N
Sbjct: 301 NFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNN 357

ATP-dependent RNA helicase. Component of a splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junction on mRNAs. The EJC is a dynamic structure consisting of a few core proteins and several more peripheral nuclear and cytoplasmic associated factors that join the complex only transiently either during EJC assembly or during subsequent mRNA metabolism. Core components of the EJC, that remains bound to spliced mRNAs throughout all stages of mRNA metabolism, functions to mark the position of the exon-exon junction in the mature mRNA and thereby influences downstream processes of gene expression including mRNA splicing, nuclear mRNA export, subcellular mRNA localization, translation efficiency and nonsense-mediated mRNA decay (NMD). Constitutes at least part of the platform anchoring other EJC proteins to spliced mRNAs. Its RNA-dependent ATPase and RNA-helicase activities are induced by CASC3, but abolished in presence of the MAGOH/RBM8A heterodimer, thereby trapping the ATP-bound EJC core onto spliced mRNA in a stable conformation. The inhibition of ATPase activity by the MAGOH/RBM8A heterodimer increases the RNA-binding affinity of the EJC. Involved in translational enhancement of spliced mRNAs after formation of the 80S ribosome complex. Binds spliced mRNA in sequence-independent manner, 20-24 nucleotides upstream of mRNA exon-exon junctions. Shows higher affinity for single-stranded RNA in an ATP-bound core EJC complex than after the ATP is hydrolyzed.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q7ZVA6|IF4A3_DANRE Eukaryotic initiation factor 4A-III OS=Danio rerio GN=eif4a3 PE=2 SV=1

 Score =  535 bits (1377), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 255/345 (73%), Positives = 295/345 (85%)

Query: 1   MAAATAMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQ 60
           MA A    R+      D  K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQ
Sbjct: 1   MATAVVPVRKRILKEEDMTKIEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQ 60

Query: 61  QRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKV 120
           QRA+  IIKGRDVIAQ+QSGTGKT+   ++V Q +D   RE QALIL+PTRELA Q +KV
Sbjct: 61  QRAIKQIIKGRDVIAQSQSGTGKTATFCVSVLQCLDIQVRETQALILAPTRELAGQIQKV 120

Query: 121 ILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLV 180
           +LA+GD++N+Q HAC+GG +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LV
Sbjct: 121 LLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLV 180

Query: 181 LDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE 240
           LDE+DEML++GFK+QIYDVYRYLPP  QV LISATLPHEILEMT KFMTDP++ILVKRDE
Sbjct: 181 LDEADEMLNKGFKEQIYDVYRYLPPATQVCLISATLPHEILEMTNKFMTDPIRILVKRDE 240

Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS 300
           LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVS
Sbjct: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVS 300

Query: 301 SMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFF 345
           SMHGDMPQKER++IM EFRSG +RVLI+TDVWARGLDV Q  L  
Sbjct: 301 SMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVSQVSLII 345

ATP-dependent RNA helicase. Component of a splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junction on mRNAs. The EJC is a dynamic structure consisting of a few core proteins and several more peripheral nuclear and cytoplasmic associated factors that join the complex only transiently either during EJC assembly or during subsequent mRNA metabolism. Core components of the EJC, that remains bound to spliced mRNAs throughout all stages of mRNA metabolism, functions to mark the position of the exon-exon junction in the mature mRNA and thereby influences downstream processes of gene expression including mRNA splicing, nuclear mRNA export, subcellular mRNA localization, translation efficiency and nonsense-mediated mRNA decay (NMD). Constitutes at least part of the platform anchoring other EJC proteins to spliced mRNAs. Binds spliced mRNA in sequence-independent manner, 20-24 nucleotides upstream of mRNA exon-exon junctions.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|P38919|IF4A3_HUMAN Eukaryotic initiation factor 4A-III OS=Homo sapiens GN=EIF4A3 PE=1 SV=4

 Score =  535 bits (1377), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 253/336 (75%), Positives = 293/336 (87%)

Query: 17  DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQ 76
           D  K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ
Sbjct: 22  DMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQ 81

Query: 77  AQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACV 136
           +QSGTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+
Sbjct: 82  SQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACI 141

Query: 137 GGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQI 196
           GG +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QI
Sbjct: 142 GGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQI 201

Query: 197 YDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVERE 256
           YDVYRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVERE
Sbjct: 202 YDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVERE 261

Query: 257 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMG 316
           EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM 
Sbjct: 262 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMK 321

Query: 317 EFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN 352
           EFRSG +RVLI+TDVWARGLDV Q  L     L  N
Sbjct: 322 EFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNN 357

ATP-dependent RNA helicase. Component of a splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junction on mRNAs. The EJC is a dynamic structure consisting of a few core proteins and several more peripheral nuclear and cytoplasmic associated factors that join the complex only transiently either during EJC assembly or during subsequent mRNA metabolism. Core components of the EJC, that remains bound to spliced mRNAs throughout all stages of mRNA metabolism, functions to mark the position of the exon-exon junction in the mature mRNA and thereby influences downstream processes of gene expression including mRNA splicing, nuclear mRNA export, subcellular mRNA localization, translation efficiency and nonsense-mediated mRNA decay (NMD). Constitutes at least part of the platform anchoring other EJC proteins to spliced mRNAs. Its RNA-dependent ATPase and RNA-helicase activities are induced by CASC3, but abolished in presence of the MAGOH/RBM8A heterodimer, thereby trapping the ATP-bound EJC core onto spliced mRNA in a stable conformation. The inhibition of ATPase activity by the MAGOH/RBM8A heterodimer increases the RNA-binding affinity of the EJC. Involved in translational enhancement of spliced mRNAs after formation of the 80S ribosome complex. Binds spliced mRNA in sequence-independent manner, 20-24 nucleotides upstream of mRNA exon-exon junctions. Shows higher affinity for single-stranded RNA in an ATP-bound core EJC complex than after the ATP is hydrolyzed.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q91VC3|IF4A3_MOUSE Eukaryotic initiation factor 4A-III OS=Mus musculus GN=Eif4a3 PE=2 SV=3

 Score =  535 bits (1377), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 253/336 (75%), Positives = 293/336 (87%)

Query: 17  DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQ 76
           D  K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ
Sbjct: 22  DMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQ 81

Query: 77  AQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACV 136
           +QSGTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+
Sbjct: 82  SQSGTGKTATFSVSVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACI 141

Query: 137 GGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQI 196
           GG +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QI
Sbjct: 142 GGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQI 201

Query: 197 YDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVERE 256
           YDVYRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVERE
Sbjct: 202 YDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVERE 261

Query: 257 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMG 316
           EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM 
Sbjct: 262 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMK 321

Query: 317 EFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN 352
           EFRSG +RVLI+TDVWARGLDV Q  L     L  N
Sbjct: 322 EFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNN 357

ATP-dependent RNA helicase. Component of a splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junction on mRNAs. The EJC is a dynamic structure consisting of a few core proteins and several more peripheral nuclear and cytoplasmic associated factors that join the complex only transiently either during EJC assembly or during subsequent mRNA metabolism. Core components of the EJC, that remains bound to spliced mRNAs throughout all stages of mRNA metabolism, functions to mark the position of the exon-exon junction in the mature mRNA and thereby influences downstream processes of gene expression including mRNA splicing, nuclear mRNA export, subcellular mRNA localization, translation efficiency and nonsense-mediated mRNA decay (NMD). Constitutes at least part of the platform anchoring other EJC proteins to spliced mRNAs. Its RNA-dependent ATPase and RNA-helicase activities are induced by CASC3, but abolished in presence of the MAGOH/RBM8A heterodimer, thereby trapping the ATP-bound EJC core onto spliced mRNA in a stable conformation. The inhibition of ATPase activity by the MAGOH/RBM8A heterodimer increases the RNA-binding affinity of the EJC. Involved in translational enhancement of spliced mRNAs after formation of the 80S ribosome complex. Binds spliced mRNA in sequence-independent manner, 20-24 nucleotides upstream of mRNA exon-exon junctions. Shows higher affinity for single-stranded RNA in an ATP-bound core EJC complex than after the ATP is hydrolyzed.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

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	354
225464928	412	PREDICTED: eukaryotic initiation factor	0.966	0.830	0.896	1e-179
255559772	407	dead box ATP-dependent RNA helicase, put	0.923	0.803	0.926	1e-178
356530272	407	PREDICTED: DEAD-box ATP-dependent RNA he	0.960	0.835	0.897	1e-178
356556161	406	PREDICTED: DEAD-box ATP-dependent RNA he	0.957	0.834	0.894	1e-177
147785805	398	hypothetical protein VITISV_037577 [Viti	0.906	0.806	0.931	1e-176
115438787	404	Os01g0639100 [Oryza sativa Japonica Grou	0.963	0.844	0.865	1e-176
317159567	395	DEAD box RNA helicase RH2b [Hevea brasil	0.923	0.827	0.917	1e-175
115453811	404	Os03g0566800 [Oryza sativa Japonica Grou	0.963	0.844	0.860	1e-175
449461689	410	PREDICTED: eukaryotic initiation factor	0.946	0.817	0.901	1e-175
118574850	406	DH [Medicago sativa]	0.985	0.859	0.867	1e-175

>gi|225464928|ref|XP_002275011.1| PREDICTED: eukaryotic initiation factor 4A-3-like [Vitis vinifera]

 Score =  635 bits (1637), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 311/347 (89%), Positives = 326/347 (93%), Gaps = 5/347 (1%)

Query: 2   AAATAM---RRRGG--GGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKP 56
           AAATA      RGG   G +DD+K+VFETTEGVE I SFD MGIKDDLLRGIY YGFEKP
Sbjct: 3   AAATASVVPANRGGRRNGAVDDEKLVFETTEGVEPIMSFDQMGIKDDLLRGIYAYGFEKP 62

Query: 57  SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ 116
           SAIQQRAV+PII+GRDVIAQAQSGTGKTSMIALTVCQ VDTS+REVQALILSPTRELA+Q
Sbjct: 63  SAIQQRAVLPIIQGRDVIAQAQSGTGKTSMIALTVCQMVDTSNREVQALILSPTRELASQ 122

Query: 117 TEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAI 176
           TEKVILAIGDFINIQAHAC+GGKSVGEDIRKLE+GVH+VSGTPGRVCDMIKR+TLRTRAI
Sbjct: 123 TEKVILAIGDFINIQAHACIGGKSVGEDIRKLEYGVHIVSGTPGRVCDMIKRRTLRTRAI 182

Query: 177 KLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILV 236
           KLLVLDESDEMLSRGFKDQIYDVYRYLPP+LQVVLISATLP+EILE+T KFMTDPV+ILV
Sbjct: 183 KLLVLDESDEMLSRGFKDQIYDVYRYLPPELQVVLISATLPNEILEITNKFMTDPVRILV 242

Query: 237 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYN 296
           KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  N
Sbjct: 243 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRSNN 302

Query: 297 FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAIL 343
           FTVSSMHGDMPQKERDAIM EFRSGTTRVLITTDVWARGLDVQQ  L
Sbjct: 303 FTVSSMHGDMPQKERDAIMAEFRSGTTRVLITTDVWARGLDVQQVSL 349

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255559772|ref|XP_002520905.1| dead box ATP-dependent RNA helicase, putative [Ricinus communis] gi|223539871|gb|EEF41450.1| dead box ATP-dependent RNA helicase, putative [Ricinus communis]

 Score =  630 bits (1625), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 303/327 (92%), Positives = 317/327 (96%)

Query: 17  DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQ 76
           +D+K+VFETTEG+E ITSFD MGIK+DLLRGIY YGFEKPSAIQQRAVMPIIKGRDVIAQ
Sbjct: 18  EDEKLVFETTEGIEPITSFDEMGIKNDLLRGIYAYGFEKPSAIQQRAVMPIIKGRDVIAQ 77

Query: 77  AQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACV 136
           AQSGTGKTSMIALT CQ VDTSSREVQALILSPTRELA QTEKVILAIGD+INIQAHAC+
Sbjct: 78  AQSGTGKTSMIALTACQLVDTSSREVQALILSPTRELAAQTEKVILAIGDYINIQAHACI 137

Query: 137 GGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQI 196
           GGKSVGEDIRKLE+GVHVVSGTPGRVCDMIKR+TLRTRAIKLLVLDESDEMLSRGFKDQI
Sbjct: 138 GGKSVGEDIRKLEYGVHVVSGTPGRVCDMIKRRTLRTRAIKLLVLDESDEMLSRGFKDQI 197

Query: 197 YDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVERE 256
           YDVYRYLPP+LQVVLISATLP+EILEMT+KFMTDP+KILVKRDELTLEGIKQFFVAVERE
Sbjct: 198 YDVYRYLPPELQVVLISATLPNEILEMTSKFMTDPIKILVKRDELTLEGIKQFFVAVERE 257

Query: 257 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMG 316
           EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKERDAIMG
Sbjct: 258 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRNNNFTVSSMHGDMPQKERDAIMG 317

Query: 317 EFRSGTTRVLITTDVWARGLDVQQAIL 343
           EF+SGTTRVLITTDVWARGLDVQQ  L
Sbjct: 318 EFQSGTTRVLITTDVWARGLDVQQVSL 344

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356530272|ref|XP_003533706.1| PREDICTED: DEAD-box ATP-dependent RNA helicase 2-like [Glycine max]

 Score =  629 bits (1622), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 307/342 (89%), Positives = 318/342 (92%), Gaps = 2/342 (0%)

Query: 2   AAATAMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQ 61
           +   A RRR      +D  M FETTEGV+AI SF+ MGIKDDLLRGIYQYGFEKPSAIQQ
Sbjct: 5   SVVPANRRRAAANPAED--MDFETTEGVKAIASFEEMGIKDDLLRGIYQYGFEKPSAIQQ 62

Query: 62  RAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVI 121
           RAV PII+GRDVIAQAQSGTGKTSMIALTVCQ VDTS REVQALILSPTRELA+QTEKVI
Sbjct: 63  RAVTPIIQGRDVIAQAQSGTGKTSMIALTVCQVVDTSVREVQALILSPTRELASQTEKVI 122

Query: 122 LAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVL 181
           LAIGDFINIQAHACVGGKSVGEDIRKLE+GVHVVSGTPGRVCDMIKR+TLRTRAIK+LVL
Sbjct: 123 LAIGDFINIQAHACVGGKSVGEDIRKLEYGVHVVSGTPGRVCDMIKRRTLRTRAIKMLVL 182

Query: 182 DESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL 241
           DESDEMLSRGFKDQIYDVYRYLPPDLQV LISATLPHEILEMT KFMTDPV+ILVKRDEL
Sbjct: 183 DESDEMLSRGFKDQIYDVYRYLPPDLQVCLISATLPHEILEMTNKFMTDPVRILVKRDEL 242

Query: 242 TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSS 301
           TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSS
Sbjct: 243 TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRNNNFTVSS 302

Query: 302 MHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAIL 343
           MHGDMPQKERDAIMGEFR+GTTRVLITTDVWARGLDVQQ  L
Sbjct: 303 MHGDMPQKERDAIMGEFRAGTTRVLITTDVWARGLDVQQVSL 344

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556161|ref|XP_003546395.1| PREDICTED: DEAD-box ATP-dependent RNA helicase 2-like [Glycine max]

 Score =  627 bits (1617), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 306/342 (89%), Positives = 318/342 (92%), Gaps = 3/342 (0%)

Query: 2   AAATAMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQ 61
           +   A RRR        ++M FETTEGV+AI SF+ MGIKDDLLRGIYQYGFEKPSAIQQ
Sbjct: 5   SVVPANRRRAANPA---EEMDFETTEGVKAIASFEEMGIKDDLLRGIYQYGFEKPSAIQQ 61

Query: 62  RAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVI 121
           RAV PII+GRDVIAQAQSGTGKTSMIALTVCQ VDTS REVQALILSPTRELA+QTEKVI
Sbjct: 62  RAVTPIIQGRDVIAQAQSGTGKTSMIALTVCQVVDTSVREVQALILSPTRELASQTEKVI 121

Query: 122 LAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVL 181
           LAIGDFINIQAHACVGGKSVGEDIRKLE+GVHVVSGTPGRVCDMIKR+TLRTRAIK+LVL
Sbjct: 122 LAIGDFINIQAHACVGGKSVGEDIRKLEYGVHVVSGTPGRVCDMIKRRTLRTRAIKMLVL 181

Query: 182 DESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL 241
           DESDEMLSRGFKDQIYDVYRYLPPDLQV LISATLPHEILEMT KFMTDPV+ILVKRDEL
Sbjct: 182 DESDEMLSRGFKDQIYDVYRYLPPDLQVCLISATLPHEILEMTNKFMTDPVRILVKRDEL 241

Query: 242 TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSS 301
           TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSS
Sbjct: 242 TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRNNNFTVSS 301

Query: 302 MHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAIL 343
           MHGDMPQKERDAIMGEFR+GTTRVLITTDVWARGLDVQQ  L
Sbjct: 302 MHGDMPQKERDAIMGEFRAGTTRVLITTDVWARGLDVQQVSL 343

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147785805|emb|CAN62124.1| hypothetical protein VITISV_037577 [Vitis vinifera]

 Score =  623 bits (1606), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 299/321 (93%), Positives = 312/321 (97%)

Query: 21  MVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSG 80
           +VFETTEGVE I SFD MGIKDDLLRGIY YGFEKPSAIQQRAV+PII+GRDVIAQAQSG
Sbjct: 10  LVFETTEGVEPIMSFDQMGIKDDLLRGIYAYGFEKPSAIQQRAVLPIIQGRDVIAQAQSG 69

Query: 81  TGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKS 140
           TGKTSMIALTVCQ VDTS+REVQALILSPTRELA+QTEKVILAIGDFINIQAHAC+GGKS
Sbjct: 70  TGKTSMIALTVCQMVDTSNREVQALILSPTRELASQTEKVILAIGDFINIQAHACIGGKS 129

Query: 141 VGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVY 200
           VGEDIRKLE+GVH+VSGTPGRVCDMIKR+TLRTRAIKLLVLDESDEMLSRGFKDQIYDVY
Sbjct: 130 VGEDIRKLEYGVHIVSGTPGRVCDMIKRRTLRTRAIKLLVLDESDEMLSRGFKDQIYDVY 189

Query: 201 RYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKF 260
           RYLPP+LQVVLISATLP+EILE+T KFMTDPV+ILVKRDELTLEGIKQFFVAVEREEWKF
Sbjct: 190 RYLPPELQVVLISATLPNEILEITNKFMTDPVRILVKRDELTLEGIKQFFVAVEREEWKF 249

Query: 261 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRS 320
           DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKERDAIM EFRS
Sbjct: 250 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRSNNFTVSSMHGDMPQKERDAIMAEFRS 309

Query: 321 GTTRVLITTDVWARGLDVQQA 341
           GTTRVLITTDVWARGLDVQQA
Sbjct: 310 GTTRVLITTDVWARGLDVQQA 330

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115438787|ref|NP_001043673.1| Os01g0639100 [Oryza sativa Japonica Group] gi|75321708|sp|Q5VNM3.1|RH2_ORYSJ RecName: Full=DEAD-box ATP-dependent RNA helicase 2 gi|55297015|dbj|BAD68586.1| putative nicotiana eukaryotic translation initiation factor 4A [Oryza sativa Japonica Group] gi|55297606|dbj|BAD68952.1| putative nicotiana eukaryotic translation initiation factor 4A [Oryza sativa Japonica Group] gi|113533204|dbj|BAF05587.1| Os01g0639100 [Oryza sativa Japonica Group] gi|215707106|dbj|BAG93566.1| unnamed protein product [Oryza sativa Japonica Group] gi|222618929|gb|EEE55061.1| hypothetical protein OsJ_02769 [Oryza sativa Japonica Group]

 Score =  622 bits (1604), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 297/343 (86%), Positives = 319/343 (93%), Gaps = 2/343 (0%)

Query: 1   MAAATAMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQ 60
           MAAAT  RR  G G MDD+ + FET+ GVE I+SFD MGI+DDLLRGIY YGFEKPSAIQ
Sbjct: 1   MAAATTSRR--GPGAMDDENLTFETSPGVEVISSFDQMGIRDDLLRGIYAYGFEKPSAIQ 58

Query: 61  QRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKV 120
           QRAV+PII GRDVIAQAQSGTGKTSMI+L+VCQ VDT+ REVQALILSPTRELA QTE+V
Sbjct: 59  QRAVLPIISGRDVIAQAQSGTGKTSMISLSVCQIVDTAVREVQALILSPTRELAAQTERV 118

Query: 121 ILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLV 180
           +LAIGDFINIQ HAC+GGKS+GEDIRKLEHGVHVVSGTPGRVCDMIKR+TLRTRAIKLL+
Sbjct: 119 MLAIGDFINIQVHACIGGKSIGEDIRKLEHGVHVVSGTPGRVCDMIKRRTLRTRAIKLLI 178

Query: 181 LDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE 240
           LDE+DEML RGFKDQIYDVYRYLPP+LQV LISATLPHEILEMT+KFMTDPV+ILVKRDE
Sbjct: 179 LDEADEMLGRGFKDQIYDVYRYLPPELQVCLISATLPHEILEMTSKFMTDPVRILVKRDE 238

Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS 300
           LTLEGIKQFFVAVE+EEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTE+MR  NFTVS
Sbjct: 239 LTLEGIKQFFVAVEKEEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTERMRSNNFTVS 298

Query: 301 SMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAIL 343
           +MHGDMPQKERDAIMGEFRSG TRVLITTDVWARGLDVQQ  L
Sbjct: 299 AMHGDMPQKERDAIMGEFRSGATRVLITTDVWARGLDVQQVSL 341

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|317159567|gb|ADV04058.1| DEAD box RNA helicase RH2b [Hevea brasiliensis]

 Score =  621 bits (1601), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 300/327 (91%), Positives = 313/327 (95%)

Query: 17  DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQ 76
           +D+K+ F TTEG+E ITSFD MGIK+DLLRGIY YGFEKP AIQQRAVMPIIKGRDVIAQ
Sbjct: 6   EDEKLAFGTTEGIEPITSFDEMGIKNDLLRGIYAYGFEKPPAIQQRAVMPIIKGRDVIAQ 65

Query: 77  AQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACV 136
           AQSGTG+TSMIALTVCQ VDTSSREVQALILSPTRELA QTEKVILAIGD+INIQAHAC+
Sbjct: 66  AQSGTGRTSMIALTVCQLVDTSSREVQALILSPTRELAAQTEKVILAIGDYINIQAHACI 125

Query: 137 GGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQI 196
           GGKSVGEDIRKLE GVHVVSGTPGRVCDMIKR+TLRTRAI+LLVLDESDEMLSRGFKDQI
Sbjct: 126 GGKSVGEDIRKLEFGVHVVSGTPGRVCDMIKRRTLRTRAIRLLVLDESDEMLSRGFKDQI 185

Query: 197 YDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVERE 256
           YDVYRYLPP+LQVVLISATLP+EILEMT+KFMTDPVKILVKRDELTLEGIKQFFVAVERE
Sbjct: 186 YDVYRYLPPELQVVLISATLPNEILEMTSKFMTDPVKILVKRDELTLEGIKQFFVAVERE 245

Query: 257 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMG 316
           EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKERDAIM 
Sbjct: 246 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRSNNFTVSSMHGDMPQKERDAIMS 305

Query: 317 EFRSGTTRVLITTDVWARGLDVQQAIL 343
           EFRSGTTRVLITTDVWARGLDVQQ  L
Sbjct: 306 EFRSGTTRVLITTDVWARGLDVQQVSL 332

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115453811|ref|NP_001050506.1| Os03g0566800 [Oryza sativa Japonica Group] gi|122246919|sp|Q10I26.1|RH34_ORYSJ RecName: Full=DEAD-box ATP-dependent RNA helicase 34 gi|13957631|gb|AAK50586.1|AC084404_11 putative translation initiation factor [Oryza sativa Japonica Group] gi|108709369|gb|ABF97164.1| Eukaryotic initiation factor 4A-3, putative, expressed [Oryza sativa Japonica Group] gi|113548977|dbj|BAF12420.1| Os03g0566800 [Oryza sativa Japonica Group]

 Score =  619 bits (1597), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 295/343 (86%), Positives = 319/343 (93%), Gaps = 2/343 (0%)

Query: 1   MAAATAMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQ 60
           MAAAT  RR  G G MDD+ + FET+ GVE I+SFD MGI++DLLRGIY YGFEKPSAIQ
Sbjct: 1   MAAATTSRR--GPGAMDDENLTFETSPGVEVISSFDQMGIREDLLRGIYAYGFEKPSAIQ 58

Query: 61  QRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKV 120
           QRAV+PII GRDVIAQAQSGTGKTSMI+L+VCQ VDT+ REVQALILSPTRELA QTE+V
Sbjct: 59  QRAVLPIISGRDVIAQAQSGTGKTSMISLSVCQIVDTAVREVQALILSPTRELAAQTERV 118

Query: 121 ILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLV 180
           +LAIGD+INIQ HAC+GGKS+GEDIRKLEHGVHVVSGTPGRVCDMIKR+TLRTRAIKLL+
Sbjct: 119 MLAIGDYINIQVHACIGGKSIGEDIRKLEHGVHVVSGTPGRVCDMIKRRTLRTRAIKLLI 178

Query: 181 LDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE 240
           LDE+DEML RGFKDQIYDVYRYLPP+LQV LISATLPHEILEMT+KFMTDPV+ILVKRDE
Sbjct: 179 LDEADEMLGRGFKDQIYDVYRYLPPELQVCLISATLPHEILEMTSKFMTDPVRILVKRDE 238

Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS 300
           LTLEGIKQFFVAVE+EEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTE+MR  NFTVS
Sbjct: 239 LTLEGIKQFFVAVEKEEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTERMRSNNFTVS 298

Query: 301 SMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAIL 343
           +MHGDMPQKERDAIMGEFRSG TRVLITTDVWARGLDVQQ  L
Sbjct: 299 AMHGDMPQKERDAIMGEFRSGATRVLITTDVWARGLDVQQVSL 341

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461689|ref|XP_004148574.1| PREDICTED: eukaryotic initiation factor 4A-3-like [Cucumis sativus] gi|449508400|ref|XP_004163303.1| PREDICTED: eukaryotic initiation factor 4A-3-like [Cucumis sativus]

 Score =  619 bits (1597), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 302/335 (90%), Positives = 313/335 (93%)

Query: 18  DDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQA 77
           +DK+ FETTEGVE I +FD MGIKDDLLRGIY YGFEKPSAIQQRAV PII+GRDVIAQA
Sbjct: 22  EDKLEFETTEGVEPILTFDQMGIKDDLLRGIYAYGFEKPSAIQQRAVRPIIEGRDVIAQA 81

Query: 78  QSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVG 137
           QSGTGKTSMIALTVCQ VDT+SREVQALILSPTRELATQTEKVILAIGD+INIQAHAC+G
Sbjct: 82  QSGTGKTSMIALTVCQMVDTTSREVQALILSPTRELATQTEKVILAIGDYINIQAHACIG 141

Query: 138 GKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIY 197
           GKSVGEDIRKLE GV VVSGTPGRVCDMIKR+TLRTRAIKLLVLDESDEMLSRGFKDQIY
Sbjct: 142 GKSVGEDIRKLEFGVQVVSGTPGRVCDMIKRRTLRTRAIKLLVLDESDEMLSRGFKDQIY 201

Query: 198 DVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREE 257
           DVYRYLPP+LQVVLISATLPHEILEMT KFMTDPV+ILVKRDELTLEGIKQFFVAVEREE
Sbjct: 202 DVYRYLPPELQVVLISATLPHEILEMTNKFMTDPVRILVKRDELTLEGIKQFFVAVEREE 261

Query: 258 WKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGE 317
           WKFDTLCDLYDTLTITQAVIFCNTKRKV+WLTEKMR  NFTVS MHGDMPQKERDAIMGE
Sbjct: 262 WKFDTLCDLYDTLTITQAVIFCNTKRKVEWLTEKMRSNNFTVSHMHGDMPQKERDAIMGE 321

Query: 318 FRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN 352
           FRSGTTRVLITTDVWARGLDVQQ  L     L  N
Sbjct: 322 FRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNN 356

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118574850|gb|ABL07003.1| DH [Medicago sativa]

 Score =  619 bits (1596), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 308/355 (86%), Positives = 319/355 (89%), Gaps = 6/355 (1%)

Query: 1   MAAAT---AMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPS 57
           MA A+   A RRR      D D   FETTEGV+AI SF+ MGIKDDLLRGIY YGFEKPS
Sbjct: 1   MATASVVPANRRRTVTANEDMD---FETTEGVKAIGSFEEMGIKDDLLRGIYNYGFEKPS 57

Query: 58  AIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQT 117
           AIQQRAV PII+GRDVIAQAQSGTGKTSMIALTVCQ VDTS REVQALI+SPTRELA+QT
Sbjct: 58  AIQQRAVAPIIQGRDVIAQAQSGTGKTSMIALTVCQVVDTSVREVQALIVSPTRELASQT 117

Query: 118 EKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIK 177
           EKVILAIGD+INIQAHAC+GGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR+TLRTRAIK
Sbjct: 118 EKVILAIGDYINIQAHACIGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRRTLRTRAIK 177

Query: 178 LLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVK 237
           LLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV LISATLPHEILEMT KFMTDPV+ILVK
Sbjct: 178 LLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVCLISATLPHEILEMTNKFMTDPVRILVK 237

Query: 238 RDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNF 297
           RDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NF
Sbjct: 238 RDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRNNNF 297

Query: 298 TVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN 352
           TVSSMHGDMPQ+ERDAIM EFR GTTRVLITTDVWARGLDVQQ  L     L  N
Sbjct: 298 TVSSMHGDMPQRERDAIMSEFRVGTTRVLITTDVWARGLDVQQVSLVINYDLPNN 352

Source: Medicago sativa

Species: Medicago sativa

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	354
TAIR|locus:2091191	408	EIF4A-III "eukaryotic initiati	0.906	0.786	0.884	6.7e-152
FB|FBgn0037573	399	eIF4AIII "eIF4AIII" [Drosophil	0.898	0.796	0.786	2.5e-136
UNIPROTKB|Q5ZM36	412	EIF4A3 "Eukaryotic initiation	0.906	0.779	0.775	1.2e-134
UNIPROTKB|Q2NL22	411	EIF4A3 "Eukaryotic initiation	0.906	0.781	0.775	1.2e-134
UNIPROTKB|E2RDZ4	411	EIF4A3 "Uncharacterized protei	0.906	0.781	0.775	1.2e-134
UNIPROTKB|P38919	411	EIF4A3 "Eukaryotic initiation	0.906	0.781	0.775	1.2e-134
UNIPROTKB|A6M931	411	EIF4A3 "Eukaryotic initiation	0.906	0.781	0.775	1.2e-134
RGD|1591139	411	Eif4a3 "eukaryotic translation	0.906	0.781	0.775	1.2e-134
ZFIN|ZDB-GENE-040426-915	406	eif4a3 "eukaryotic translation	0.906	0.790	0.775	1.6e-134
WB|WBGene00018007	399	F33D11.10 [Caenorhabditis eleg	0.898	0.796	0.761	2.7e-132

TAIR|locus:2091191 EIF4A-III "eukaryotic initiation factor 4A-III" [Arabidopsis thaliana (taxid:3702)]

 Score = 1482 (526.7 bits), Expect = 6.7e-152, P = 6.7e-152
 Identities = 284/321 (88%), Positives = 308/321 (95%)

Query:    20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
             K+VFETT+G+E ITSF+ MGIK+D+LRG+Y+YGFEKPSAIQQRAVMPI++GRDVIAQAQS
Sbjct:    22 KLVFETTDGIEPITSFNDMGIKEDVLRGVYEYGFEKPSAIQQRAVMPILQGRDVIAQAQS 81

Query:    80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
             GTGKTSMIAL+VCQ VDTSSREVQALILSPTRELATQTEK I AIG   NIQAHAC+GG 
Sbjct:    82 GTGKTSMIALSVCQVVDTSSREVQALILSPTRELATQTEKTIQAIGLHANIQAHACIGGN 141

Query:   140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
             SVGEDIRKLEHGVHVVSGTPGRVCDMIKR++LRTRAIKLL+LDESDEMLSRGFKDQIYDV
Sbjct:   142 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRRSLRTRAIKLLILDESDEMLSRGFKDQIYDV 201

Query:   200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
             YRYLPPDLQV L+SATLPHEILEMT+KFMT+PVKILVKRDELTLEGIKQFFVAVE+EEWK
Sbjct:   202 YRYLPPDLQVCLVSATLPHEILEMTSKFMTEPVKILVKRDELTLEGIKQFFVAVEKEEWK 261

Query:   260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
             FDTLCDLYDTLTITQAVIFCNTKRKVD+L+EKMR +NFTVSSMHGDMPQKERDAIM EFR
Sbjct:   262 FDTLCDLYDTLTITQAVIFCNTKRKVDYLSEKMRSHNFTVSSMHGDMPQKERDAIMNEFR 321

Query:   320 SGTTRVLITTDVWARGLDVQQ 340
             SG +RVLITTDVWARG+DVQQ
Sbjct:   322 SGDSRVLITTDVWARGIDVQQ 342

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA;ISS

GO:0005730 "nucleolus" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0001666 "response to hypoxia" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005654 "nucleoplasm" evidence=IDA

GO:0006397 "mRNA processing" evidence=IPI

GO:0016607 "nuclear speck" evidence=IDA

GO:0035145 "exon-exon junction complex" evidence=IDA

FB|FBgn0037573 eIF4AIII "eIF4AIII" [Drosophila melanogaster (taxid:7227)]

 Score = 1335 (475.0 bits), Expect = 2.5e-136, P = 2.5e-136
 Identities = 250/318 (78%), Positives = 289/318 (90%)

Query:    23 FETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTG 82
             FET+E VE I +F+AM +K++LLRGIY YGFEKPSAIQQR++ PI+KGRDVIAQAQSGTG
Sbjct:    16 FETSEDVEVIPTFNAMNLKEELLRGIYAYGFEKPSAIQQRSITPIVKGRDVIAQAQSGTG 75

Query:    83 KTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVG 142
             KT+  ++++ Q++DT+ RE Q L LSPTRELA Q +KVILA+GD +N+Q H C+GG ++G
Sbjct:    76 KTATFSISILQSLDTTLRETQVLCLSPTRELAVQIQKVILALGDMMNVQCHVCIGGTNLG 135

Query:   143 EDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
             EDIRKL++G H+VSGTPGRV DMIKR+ LRTRAIK+LVLDE+DEML++GFK+QIYDVYRY
Sbjct:   136 EDIRKLDYGQHIVSGTPGRVFDMIKRRVLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRY 195

Query:   203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
             LPP  QVVLISATLPHEILEMT+KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWKFDT
Sbjct:   196 LPPATQVVLISATLPHEILEMTSKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 255

Query:   263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT 322
             LCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKERD IM EFR+G 
Sbjct:   256 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERDEIMKEFRAGQ 315

Query:   323 TRVLITTDVWARGLDVQQ 340
             +RVLITTDVWARG+DVQQ
Sbjct:   316 SRVLITTDVWARGIDVQQ 333

GO:0016281 "eukaryotic translation initiation factor 4F complex" evidence=ISS

GO:0003743 "translation initiation factor activity" evidence=ISS

GO:0006413 "translational initiation" evidence=ISS

GO:0004004 "ATP-dependent RNA helicase activity" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA

GO:0045495 "pole plasm" evidence=IDA

GO:0045451 "pole plasm oskar mRNA localization" evidence=IGI

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0071011 "precatalytic spliceosome" evidence=IDA

GO:0071013 "catalytic step 2 spliceosome" evidence=IDA

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

GO:0006974 "response to DNA damage stimulus" evidence=IMP

GO:0008380 "RNA splicing" evidence=IMP

UNIPROTKB|Q5ZM36 EIF4A3 "Eukaryotic initiation factor 4A-III" [Gallus gallus (taxid:9031)]

 Score = 1319 (469.4 bits), Expect = 1.2e-134, P = 1.2e-134
 Identities = 249/321 (77%), Positives = 289/321 (90%)

Query:    20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
             K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QS
Sbjct:    26 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 85

Query:    80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
             GTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG 
Sbjct:    86 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 145

Query:   140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
             +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct:   146 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 205

Query:   200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
             YRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct:   206 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 265

Query:   260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
             FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFR
Sbjct:   266 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 325

Query:   320 SGTTRVLITTDVWARGLDVQQ 340
             SG +RVLI+TDVWARGLDV Q
Sbjct:   326 SGASRVLISTDVWARGLDVPQ 346

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0006417 "regulation of translation" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0051028 "mRNA transport" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

UNIPROTKB|Q2NL22 EIF4A3 "Eukaryotic initiation factor 4A-III" [Bos taurus (taxid:9913)]

 Score = 1319 (469.4 bits), Expect = 1.2e-134, P = 1.2e-134
 Identities = 249/321 (77%), Positives = 289/321 (90%)

Query:    20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
             K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QS
Sbjct:    25 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 84

Query:    80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
             GTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG 
Sbjct:    85 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 144

Query:   140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
             +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct:   145 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 204

Query:   200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
             YRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct:   205 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 264

Query:   260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
             FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFR
Sbjct:   265 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 324

Query:   320 SGTTRVLITTDVWARGLDVQQ 340
             SG +RVLI+TDVWARGLDV Q
Sbjct:   325 SGASRVLISTDVWARGLDVPQ 345

GO:0016607 "nuclear speck" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

GO:0048026 "positive regulation of mRNA splicing, via spliceosome" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0045727 "positive regulation of translation" evidence=IEA

GO:0035145 "exon-exon junction complex" evidence=IEA

GO:0017148 "negative regulation of translation" evidence=IEA

GO:0008143 "poly(A) RNA binding" evidence=IEA

GO:0004004 "ATP-dependent RNA helicase activity" evidence=IEA

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=IEA

GO:0051028 "mRNA transport" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|E2RDZ4 EIF4A3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 1319 (469.4 bits), Expect = 1.2e-134, P = 1.2e-134
 Identities = 249/321 (77%), Positives = 289/321 (90%)

Query:    20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
             K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QS
Sbjct:    25 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 84

Query:    80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
             GTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG 
Sbjct:    85 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 144

Query:   140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
             +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct:   145 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 204

Query:   200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
             YRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct:   205 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 264

Query:   260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
             FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFR
Sbjct:   265 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 324

Query:   320 SGTTRVLITTDVWARGLDVQQ 340
             SG +RVLI+TDVWARGLDV Q
Sbjct:   325 SGASRVLISTDVWARGLDVPQ 345

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

GO:0048026 "positive regulation of mRNA splicing, via spliceosome" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0045727 "positive regulation of translation" evidence=IEA

GO:0035145 "exon-exon junction complex" evidence=IEA

GO:0017148 "negative regulation of translation" evidence=IEA

GO:0008143 "poly(A) RNA binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0004004 "ATP-dependent RNA helicase activity" evidence=IEA

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|P38919 EIF4A3 "Eukaryotic initiation factor 4A-III" [Homo sapiens (taxid:9606)]

 Score = 1319 (469.4 bits), Expect = 1.2e-134, P = 1.2e-134
 Identities = 249/321 (77%), Positives = 289/321 (90%)

Query:    20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
             K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QS
Sbjct:    25 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 84

Query:    80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
             GTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG 
Sbjct:    85 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 144

Query:   140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
             +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct:   145 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 204

Query:   200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
             YRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct:   205 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 264

Query:   260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
             FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFR
Sbjct:   265 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 324

Query:   320 SGTTRVLITTDVWARGLDVQQ 340
             SG +RVLI+TDVWARGLDV Q
Sbjct:   325 SGASRVLISTDVWARGLDVPQ 345

GO:0006364 "rRNA processing" evidence=IEA

GO:0051028 "mRNA transport" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0048026 "positive regulation of mRNA splicing, via spliceosome" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IDA

GO:0045727 "positive regulation of translation" evidence=IMP

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

GO:0035145 "exon-exon junction complex" evidence=IDA

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=IMP;TAS

GO:0005515 "protein binding" evidence=IPI

GO:0004004 "ATP-dependent RNA helicase activity" evidence=IDA

GO:0005524 "ATP binding" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0008143 "poly(A) RNA binding" evidence=IDA

GO:0017148 "negative regulation of translation" evidence=IDA

GO:0000288 "nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay" evidence=TAS

GO:0000289 "nuclear-transcribed mRNA poly(A) tail shortening" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0019221 "cytokine-mediated signaling pathway" evidence=TAS

UNIPROTKB|A6M931 EIF4A3 "Eukaryotic initiation factor 4A-III" [Sus scrofa (taxid:9823)]

 Score = 1319 (469.4 bits), Expect = 1.2e-134, P = 1.2e-134
 Identities = 249/321 (77%), Positives = 289/321 (90%)

Query:    20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
             K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QS
Sbjct:    25 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 84

Query:    80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
             GTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG 
Sbjct:    85 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 144

Query:   140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
             +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct:   145 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 204

Query:   200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
             YRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct:   205 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 264

Query:   260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
             FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFR
Sbjct:   265 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 324

Query:   320 SGTTRVLITTDVWARGLDVQQ 340
             SG +RVLI+TDVWARGLDV Q
Sbjct:   325 SGASRVLISTDVWARGLDVPQ 345

GO:0016607 "nuclear speck" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0051028 "mRNA transport" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0006417 "regulation of translation" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

RGD|1591139 Eif4a3 "eukaryotic translation initiation factor 4A, isoform 3" [Rattus norvegicus (taxid:10116)]

 Score = 1319 (469.4 bits), Expect = 1.2e-134, P = 1.2e-134
 Identities = 249/321 (77%), Positives = 289/321 (90%)

Query:    20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
             K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QS
Sbjct:    25 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 84

Query:    80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
             GTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG 
Sbjct:    85 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 144

Query:   140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
             +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct:   145 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 204

Query:   200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
             YRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct:   205 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 264

Query:   260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
             FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFR
Sbjct:   265 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 324

Query:   320 SGTTRVLITTDVWARGLDVQQ 340
             SG +RVLI+TDVWARGLDV Q
Sbjct:   325 SGASRVLISTDVWARGLDVPQ 345

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=IEA

GO:0004004 "ATP-dependent RNA helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008143 "poly(A) RNA binding" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

GO:0017148 "negative regulation of translation" evidence=IEA

GO:0035145 "exon-exon junction complex" evidence=IEA

GO:0045727 "positive regulation of translation" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0048026 "positive regulation of mRNA splicing, via spliceosome" evidence=IEA

GO:0051028 "mRNA transport" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

ZFIN|ZDB-GENE-040426-915 eif4a3 "eukaryotic translation initiation factor 4A, isoform 3" [Danio rerio (taxid:7955)]

 Score = 1318 (469.0 bits), Expect = 1.6e-134, P = 1.6e-134
 Identities = 249/321 (77%), Positives = 288/321 (89%)

Query:    20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
             K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QS
Sbjct:    20 KIEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 79

Query:    80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
             GTGKT+   ++V Q +D   RE QALIL+PTRELA Q +KV+LA+GD++N+Q HAC+GG 
Sbjct:    80 GTGKTATFCVSVLQCLDIQVRETQALILAPTRELAGQIQKVLLALGDYMNVQCHACIGGT 139

Query:   140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
             +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct:   140 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 199

Query:   200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
             YRYLPP  QV LISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct:   200 YRYLPPATQVCLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 259

Query:   260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
             FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFR
Sbjct:   260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 319

Query:   320 SGTTRVLITTDVWARGLDVQQ 340
             SG +RVLI+TDVWARGLDV Q
Sbjct:   320 SGASRVLISTDVWARGLDVSQ 340

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0051028 "mRNA transport" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006417 "regulation of translation" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

WB|WBGene00018007 F33D11.10 [Caenorhabditis elegans (taxid:6239)]

 Score = 1297 (461.6 bits), Expect = 2.7e-132, P = 2.7e-132
 Identities = 242/318 (76%), Positives = 287/318 (90%)

Query:    23 FETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTG 82
             FE++E V  I +FD MG+++DLLRGIY YGFEKPSAIQQRAV  I+K RDVIAQAQSGTG
Sbjct:    16 FESSEEVNVIPTFDKMGLREDLLRGIYAYGFEKPSAIQQRAVPAILKARDVIAQAQSGTG 75

Query:    83 KTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVG 142
             KT+  +++V Q++DT  RE QALILSPTRELA Q +KV+LA+GD++N+Q HAC+GG ++G
Sbjct:    76 KTATFSISVLQSLDTQVRETQALILSPTRELAVQIQKVVLALGDYMNVQCHACIGGTNLG 135

Query:   143 EDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
             EDIRKL++G HVVSGTPGRV DMI+R+ LRTRAIKLLVLDE+DEML++GFK+Q+YD+YRY
Sbjct:   136 EDIRKLDYGQHVVSGTPGRVFDMIRRRNLRTRAIKLLVLDEADEMLNKGFKEQLYDIYRY 195

Query:   203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
             LPP  QVVL+SATLPHEILEMT+KFMTDP++ILVKRDELTLEGIKQFFVAV+REEWKFDT
Sbjct:   196 LPPGAQVVLLSATLPHEILEMTSKFMTDPIRILVKRDELTLEGIKQFFVAVDREEWKFDT 255

Query:   263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT 322
             L DLYDTLTITQAV+FCNT+RKVDWLT+KM+  NFTVSSMHGDM QK+RD +M EFR+GT
Sbjct:   256 LIDLYDTLTITQAVLFCNTRRKVDWLTDKMKEANFTVSSMHGDMEQKDRDEVMKEFRAGT 315

Query:   323 TRVLITTDVWARGLDVQQ 340
             TRVLI+TDVWARGLDV Q
Sbjct:   316 TRVLISTDVWARGLDVPQ 333

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

GO:0001703 "gastrulation with mouth forming first" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0051301 "cell division" evidence=IMP

GO:0000910 "cytokinesis" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0018996 "molting cycle, collagen and cuticulin-based cuticle" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
A1C595	FAL1_ASPCL	3, ., 6, ., 4, ., 1, 3	0.6875	0.9491	0.8421	N/A	no
Q2HFP1	IF4A_CHAGB	3, ., 6, ., 4, ., 1, 3	0.6439	0.9124	0.8136	N/A	no
P0CQ73	FAL1_CRYNB	3, ., 6, ., 4, ., 1, 3	0.7379	0.9378	0.8383	N/A	no
P0CQ72	FAL1_CRYNJ	3, ., 6, ., 4, ., 1, 3	0.7379	0.9378	0.8383	yes	no
Q4IAA0	FAL1_GIBZE	3, ., 6, ., 4, ., 1, 3	0.6734	0.9604	0.8478	yes	no
Q2NL22	IF4A3_BOVIN	3, ., 6, ., 4, ., 1, 3	0.7226	0.9943	0.8564	yes	no
A1D071	FAL1_NEOFI	3, ., 6, ., 4, ., 1, 3	0.6895	0.9463	0.8395	N/A	no
Q5VNM3	RH2_ORYSJ	3, ., 6, ., 4, ., 1, 3	0.8658	0.9632	0.8440	yes	no
B5FZY7	IF4A3_TAEGU	3, ., 6, ., 4, ., 1, 3	0.7529	0.9491	0.8195	yes	no
A5DWJ1	FAL1_LODEL	3, ., 6, ., 4, ., 1, 3	0.6341	0.9209	0.8170	N/A	no
O42226	I4A3B_XENLA	3, ., 6, ., 4, ., 1, 3	0.7616	0.9124	0.7801	N/A	no
A4QVP2	IF4A_MAGO7	3, ., 6, ., 4, ., 1, 3	0.6532	0.9124	0.8156	N/A	no
Q9P735	FAL1_NEUCR	3, ., 6, ., 4, ., 1, 3	0.6783	0.9576	0.8475	N/A	no
Q9C8J1	RH34_ARATH	3, ., 6, ., 4, ., 1, 3	0.7392	0.9209	0.8316	no	no
A3GFV3	FAL1_PICST	3, ., 6, ., 4, ., 1, 3	0.6402	0.9209	0.8170	yes	no
P41380	IF4A3_NICPL	3, ., 6, ., 4, ., 1, 3	0.8871	0.9265	0.8388	N/A	no
A5DE68	FAL1_PICGU	3, ., 6, ., 4, ., 1, 3	0.6207	0.9209	0.8211	N/A	no
A6M931	IF4A3_PIG	3, ., 6, ., 4, ., 1, 3	0.7226	0.9943	0.8564	yes	no
Q6BT27	FAL1_DEBHA	3, ., 6, ., 4, ., 1, 3	0.6219	0.9209	0.8170	yes	no
Q2UAK1	FAL1_ASPOR	3, ., 6, ., 4, ., 1, 3	0.6863	0.9548	0.8492	yes	no
B5DG42	IF4A3_SALSA	3, ., 6, ., 4, ., 1, 3	0.7391	0.9745	0.8497	N/A	no
Q5A9Z6	FAL1_CANAL	3, ., 6, ., 4, ., 1, 3	0.6341	0.9209	0.8170	N/A	no
Q7RV88	IF4A_NEUCR	3, ., 6, ., 4, ., 1, 3	0.6501	0.9124	0.8136	N/A	no
A7EM88	FAL1_SCLS1	3, ., 6, ., 4, ., 1, 3	0.6895	0.9463	0.8395	N/A	no
Q91VC3	IF4A3_MOUSE	3, ., 6, ., 4, ., 1, 3	0.7529	0.9491	0.8175	yes	no
A5AAE5	FAL1_ASPNC	3, ., 6, ., 4, ., 1, 3	0.6925	0.9463	0.8395	yes	no
Q5U526	I4A3A_XENLA	3, ., 6, ., 4, ., 1, 3	0.7629	0.9293	0.7927	N/A	no
Q7ZVA6	IF4A3_DANRE	3, ., 6, ., 4, ., 1, 3	0.7391	0.9745	0.8497	yes	no
A6S4N4	FAL1_BOTFB	3, ., 6, ., 4, ., 1, 3	0.6865	0.9463	0.8395	N/A	no
Q0UAT0	FAL1_PHANO	3, ., 6, ., 4, ., 1, 3	0.6388	0.8757	0.8288	N/A	no
Q2GWJ5	FAL1_CHAGB	3, ., 6, ., 4, ., 1, 3	0.6763	0.9604	0.8629	N/A	no
A4QU31	FAL1_MAGO7	3, ., 6, ., 4, ., 1, 3	0.6676	0.9604	0.8478	N/A	no
P38919	IF4A3_HUMAN	3, ., 6, ., 4, ., 1, 3	0.7529	0.9491	0.8175	yes	no
Q5ZM36	IF4A3_CHICK	3, ., 6, ., 4, ., 1, 3	0.7529	0.9491	0.8155	yes	no
B7ZTW1	IF4A3_XENTR	3, ., 6, ., 4, ., 1, 3	0.7629	0.9293	0.7927	yes	no
Q4R3Q1	IF4A3_MACFA	3, ., 6, ., 4, ., 1, 3	0.7470	0.9491	0.8175	N/A	no
Q6C347	FAL1_YARLI	3, ., 6, ., 4, ., 1, 3	0.6809	0.9209	0.8211	yes	no
Q55D61	IF4A_DICDI	3, ., 6, ., 4, ., 1, 3	0.6708	0.9011	0.7876	yes	no
Q10I26	RH34_ORYSJ	3, ., 6, ., 4, ., 1, 3	0.8600	0.9632	0.8440	yes	no
Q94A52	RH2_ARATH	3, ., 6, ., 4, ., 1, 3	0.8609	0.9548	0.8284	yes	no
Q4P184	FAL1_USTMA	3, ., 6, ., 4, ., 1, 3	0.7286	0.9265	0.8261	N/A	no
Q3B8Q2	IF4A3_RAT	3, ., 6, ., 4, ., 1, 3	0.7226	0.9943	0.8564	yes	no
Q1DTB3	FAL1_COCIM	3, ., 6, ., 4, ., 1, 3	0.6985	0.9463	0.8395	N/A	no
Q0CAS8	FAL1_ASPTN	3, ., 6, ., 4, ., 1, 3	0.6955	0.9463	0.8395	N/A	no
Q10055	FAL1_SCHPO	3, ., 6, ., 4, ., 1, 3	0.6890	0.9265	0.8324	yes	no
Q5AUL4	FAL1_EMENI	3, ., 6, ., 4, ., 1, 3	0.6955	0.9463	0.8395	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.6.4.13	0.979
3rd Layer	3.6.4	0.983

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	354
PTZ00424	401	PTZ00424, PTZ00424, helicase 45; Provisional	1e-174
COG0513	513	COG0513, SrmB, Superfamily II DNA and RNA helicase	1e-112
cd00268	203	cd00268, DEADc, DEAD-box helicases	2e-92
PRK11776	460	PRK11776, PRK11776, ATP-dependent RNA helicase Dbp	2e-82
PRK10590	456	PRK10590, PRK10590, ATP-dependent RNA helicase Rhl	1e-60
PRK11634	629	PRK11634, PRK11634, ATP-dependent RNA helicase Dea	2e-54
pfam00270	169	pfam00270, DEAD, DEAD/DEAH box helicase	3e-50
PTZ00110	545	PTZ00110, PTZ00110, helicase; Provisional	4e-48
PRK01297	475	PRK01297, PRK01297, ATP-dependent RNA helicase Rhl	2e-47
smart00487	201	smart00487, DEXDc, DEAD-like helicases superfamily	8e-47
PLN00206	518	PLN00206, PLN00206, DEAD-box ATP-dependent RNA hel	3e-46
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	9e-46
PRK04537	572	PRK04537, PRK04537, ATP-dependent RNA helicase Rhl	8e-44
PRK04837	423	PRK04837, PRK04837, ATP-dependent RNA helicase Rhl	6e-41
cd00046	144	cd00046, DEXDc, DEAD-like helicases superfamily	1e-32
cd00079	131	cd00079, HELICc, Helicase superfamily c-terminal d	1e-23
smart00490	82	smart00490, HELICc, helicase superfamily c-termina	7e-14
pfam00271	78	pfam00271, Helicase_C, Helicase conserved C-termin	8e-14
COG1205	851	COG1205, COG1205, Distinct helicase family with a	6e-10
COG1061	442	COG1061, SSL2, DNA or RNA helicases of superfamily	2e-08
TIGR00643	630	TIGR00643, recG, ATP-dependent DNA helicase RecG	3e-05
COG1200	677	COG1200, RecG, RecG-like helicase [DNA replication	6e-05
PRK10917	681	PRK10917, PRK10917, ATP-dependent DNA helicase Rec	1e-04
COG1202	830	COG1202, COG1202, Superfamily II helicase, archaea	2e-04
TIGR01587	358	TIGR01587, cas3_core, CRISPR-associated helicase C	0.003
COG1201	814	COG1201, Lhr, Lhr-like helicases [General function	0.004

>gnl|CDD|185609 PTZ00424, PTZ00424, helicase 45; Provisional

 Score =  489 bits (1260), Expect = e-174
 Identities = 210/314 (66%), Positives = 257/314 (81%)

Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           E + SFDA+ + +DLLRGIY YGFEKPSAIQQR + PI+ G D I QAQSGTGKT+   +
Sbjct: 25  EIVDSFDALKLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVI 84

Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
              Q +D      QALIL+PTRELA Q +KV+LA+GD++ ++ HACVGG  V +DI KL+
Sbjct: 85  AALQLIDYDLNACQALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDDINKLK 144

Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
            GVH+V GTPGRV DMI ++ LR   +KL +LDE+DEMLSRGFK QIYDV++ LPPD+QV
Sbjct: 145 AGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEMLSRGFKGQIYDVFKKLPPDVQV 204

Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 269
            L SAT+P+EILE+TTKFM DP +ILVK+DELTLEGI+QF+VAVE+EEWKFDTLCDLY+T
Sbjct: 205 ALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVEKEEWKFDTLCDLYET 264

Query: 270 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT 329
           LTITQA+I+CNT+RKVD+LT+KM   +FTVS MHGDM QK+RD IM EFRSG+TRVLITT
Sbjct: 265 LTITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITT 324

Query: 330 DVWARGLDVQQAIL 343
           D+ ARG+DVQQ  L
Sbjct: 325 DLLARGIDVQQVSL 338

Length = 401

>gnl|CDD|223587 COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]

 Score =  335 bits (861), Expect = e-112
 Identities = 131/313 (41%), Positives = 192/313 (61%), Gaps = 5/313 (1%)

Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
             F ++G+  +LL+ +   GFE+P+ IQ  A+  I+ GRDV+ QAQ+GTGKT+   L + 
Sbjct: 29  PEFASLGLSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLL 88

Query: 93  QTVDTSSR--EVQALILSPTRELATQTEKVILAIGDF-INIQAHACVGGKSVGEDIRKLE 149
           Q +  S     V ALIL+PTRELA Q  + +  +G     ++     GG S+ + I  L+
Sbjct: 89  QKILKSVERKYVSALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEALK 148

Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
            GV +V  TPGR+ D+IKR  L    ++ LVLDE+D ML  GF D I  + + LPPD Q 
Sbjct: 149 RGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEADRMLDMGFIDDIEKILKALPPDRQT 208

Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRDEL--TLEGIKQFFVAVEREEWKFDTLCDLY 267
           +L SAT+P +I E+  +++ DPV+I V  ++L  TL+ IKQF++ VE EE K + L  L 
Sbjct: 209 LLFSATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEVESEEEKLELLLKLL 268

Query: 268 DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLI 327
                 + ++F  TKR V+ L E +R   F V+++HGD+PQ+ERD  + +F+ G  RVL+
Sbjct: 269 KDEDEGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLV 328

Query: 328 TTDVWARGLDVQQ 340
            TDV ARGLD+  
Sbjct: 329 ATDVAARGLDIPD 341

Length = 513

>gnl|CDD|238167 cd00268, DEADc, DEAD-box helicases

 Score =  274 bits (703), Expect = 2e-92
 Identities = 94/203 (46%), Positives = 137/203 (67%), Gaps = 2/203 (0%)

Query: 35  FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQT 94
           F+ +G+  +LLRGIY  GFEKP+ IQ RA+ P++ GRDVI QAQ+G+GKT+   + + + 
Sbjct: 1   FEELGLSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEK 60

Query: 95  VDTSSR--EVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGV 152
           +D S +    QALIL+PTRELA Q  +V   +G   N++     GG S+ + IRKL+ G 
Sbjct: 61  LDPSPKKDGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGP 120

Query: 153 HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLI 212
           H+V  TPGR+ D+++R  L    +K LVLDE+D ML  GF+DQI ++ + LP D Q +L 
Sbjct: 121 HIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLLF 180

Query: 213 SATLPHEILEMTTKFMTDPVKIL 235
           SAT+P E+ ++  KF+ +PV+IL
Sbjct: 181 SATMPKEVRDLARKFLRNPVRIL 203

A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region. Length = 203

>gnl|CDD|236977 PRK11776, PRK11776, ATP-dependent RNA helicase DbpA; Provisional

 Score =  257 bits (660), Expect = 2e-82
 Identities = 116/311 (37%), Positives = 176/311 (56%), Gaps = 7/311 (2%)

Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
           T+F  + +   LL  + + G+ + + IQ +++  I+ G+DVIAQA++G+GKT+   L + 
Sbjct: 4   TAFSTLPLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLL 63

Query: 93  QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
           Q +D     VQAL+L PTRELA Q  K I  +  FI NI+     GG  +G  I  LEHG
Sbjct: 64  QKLDVKRFRVQALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLEHG 123

Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
            H++ GTPGR+ D +++ TL   A+  LVLDE+D ML  GF+D I  + R  P   Q +L
Sbjct: 124 AHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLL 183

Query: 212 ISATLPHEILEMTTKFMTDP--VKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 269
            SAT P  I  ++ +F  DP  VK+    D      I+Q F  V  +E +   L  L   
Sbjct: 184 FSATYPEGIAAISQRFQRDPVEVKVESTHDLPA---IEQRFYEVSPDE-RLPALQRLLLH 239

Query: 270 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT 329
                 V+FCNTK++   + + +    F+  ++HGD+ Q++RD ++  F + +  VL+ T
Sbjct: 240 HQPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVAT 299

Query: 330 DVWARGLDVQQ 340
           DV ARGLD++ 
Sbjct: 300 DVAARGLDIKA 310

Length = 460

>gnl|CDD|236722 PRK10590, PRK10590, ATP-dependent RNA helicase RhlE; Provisional

 Score =  201 bits (512), Expect = 1e-60
 Identities = 108/313 (34%), Positives = 178/313 (56%), Gaps = 7/313 (2%)

Query: 34  SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
           SFD++G+  D+LR + + G+ +P+ IQQ+A+  +++GRD++A AQ+GTGKT+   L + Q
Sbjct: 2   SFDSLGLSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQ 61

Query: 94  TVDTSS------REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRK 147
            + T        R V+ALIL+PTRELA Q  + +     ++NI++    GG S+   + K
Sbjct: 62  HLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMK 121

Query: 148 LEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDL 207
           L  GV V+  TPGR+ D+  +  ++   +++LVLDE+D ML  GF   I  V   LP   
Sbjct: 122 LRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLDEADRMLDMGFIHDIRRVLAKLPAKR 181

Query: 208 QVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY 267
           Q +L SAT   +I  +  K + +P++I V R     E + Q    V+++  K + L  + 
Sbjct: 182 QNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFVDKKR-KRELLSQMI 240

Query: 268 DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLI 327
                 Q ++F  TK   + L E++       +++HG+  Q  R   + +F+SG  RVL+
Sbjct: 241 GKGNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLV 300

Query: 328 TTDVWARGLDVQQ 340
            TD+ ARGLD+++
Sbjct: 301 ATDIAARGLDIEE 313

Length = 456

>gnl|CDD|236941 PRK11634, PRK11634, ATP-dependent RNA helicase DeaD; Provisional

 Score =  188 bits (479), Expect = 2e-54
 Identities = 108/315 (34%), Positives = 165/315 (52%), Gaps = 8/315 (2%)

Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           E  T+F  +G+K  +L  +   G+EKPS IQ   +  ++ GRDV+  AQ+G+GKT+  +L
Sbjct: 3   EFETTFADLGLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSL 62

Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI----NIQAHACVGGKSVGEDI 145
            +   +D   +  Q L+L+PTRELA Q   V  A+ DF      +   A  GG+     +
Sbjct: 63  PLLHNLDPELKAPQILVLAPTRELAVQ---VAEAMTDFSKHMRGVNVVALYGGQRYDVQL 119

Query: 146 RKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPP 205
           R L  G  +V GTPGR+ D +KR TL    +  LVLDE+DEML  GF + +  +   +P 
Sbjct: 120 RALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLRMGFIEDVETIMAQIPE 179

Query: 206 DLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCD 265
             Q  L SAT+P  I  +T +FM +P ++ ++    T   I Q +  V     K + L  
Sbjct: 180 GHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVWGMR-KNEALVR 238

Query: 266 LYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRV 325
             +      A+IF  TK     + E +    +  ++++GDM Q  R+  +   + G   +
Sbjct: 239 FLEAEDFDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDI 298

Query: 326 LITTDVWARGLDVQQ 340
           LI TDV ARGLDV++
Sbjct: 299 LIATDVAARGLDVER 313

Length = 629

>gnl|CDD|215832 pfam00270, DEAD, DEAD/DEAH box helicase

 Score =  165 bits (419), Expect = 3e-50
 Identities = 64/168 (38%), Positives = 103/168 (61%), Gaps = 2/168 (1%)

Query: 57  SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ 116
           + IQ +A+  I+ G+DV+ QA +G+GKT    L + Q +       QAL+L+PTRELA Q
Sbjct: 1   TPIQAQAIPAILSGKDVLVQAPTGSGKTLAFLLPILQALLPKKGGPQALVLAPTRELAEQ 60

Query: 117 TEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG-VHVVSGTPGRVCDMIKRKTLRT-R 174
             + +  +   + ++     GG S+ E  RKL+ G   ++ GTPGR+ D+++R  L+  +
Sbjct: 61  IYEELKKLFKILGLRVALLTGGTSLKEQARKLKKGKADILVGTPGRLLDLLRRGKLKLLK 120

Query: 175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILE 222
            +KLLVLDE+  +L  GF D + ++   LPPD Q++L+SATLP  + +
Sbjct: 121 NLKLLVLDEAHRLLDMGFGDDLEEILSRLPPDRQILLLSATLPRNLED 168

Members of this family include the DEAD and DEAH box helicases. 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. Length = 169

>gnl|CDD|240273 PTZ00110, PTZ00110, helicase; Provisional

 Score =  169 bits (431), Expect = 4e-48
 Identities = 104/320 (32%), Positives = 164/320 (51%), Gaps = 16/320 (5%)

Query: 32  ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPI-IKGRDVIAQAQSGTGKTSMIALT 90
           + SF+     D +L+ +   GF +P+ IQ +   PI + GRD+I  A++G+GKT  +A  
Sbjct: 129 VVSFEYTSFPDYILKSLKNAGFTEPTPIQVQG-WPIALSGRDMIGIAETGSGKT--LAFL 185

Query: 91  VCQTVDTSSREVQ-------ALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE 143
           +   V  +++ +         L+L+PTRELA Q  +     G    I+     GG     
Sbjct: 186 LPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRG 245

Query: 144 DIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL 203
            I  L  GV ++   PGR+ D ++      R +  LVLDE+D ML  GF+ QI  +   +
Sbjct: 246 QIYALRRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLDMGFEPQIRKIVSQI 305

Query: 204 PPDLQVVLISATLPHEILEMTTKFMTD-PVKILVKRDELTL-EGIKQFFVAVEREEWKFD 261
            PD Q ++ SAT P E+  +      + PV + V   +LT    IKQ    VE  E K  
Sbjct: 306 RPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTACHNIKQEVFVVEEHE-KRG 364

Query: 262 TLCDLYDTLTI--TQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
            L  L   +     + +IF  TK+  D+LT+++R   +    +HGD  Q+ER  ++ EF+
Sbjct: 365 KLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFK 424

Query: 320 SGTTRVLITTDVWARGLDVQ 339
           +G + ++I TDV +RGLDV+
Sbjct: 425 TGKSPIMIATDVASRGLDVK 444

Length = 545

>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional

 Score =  166 bits (422), Expect = 2e-47
 Identities = 93/322 (28%), Positives = 163/322 (50%), Gaps = 11/322 (3%)

Query: 27  EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSM 86
           E  E  T F    +  +L+  I+  GF   + IQ + +   + G D I +AQ+GTGKT+ 
Sbjct: 81  EPQEGKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAA 140

Query: 87  IALTVC----QTVDTSSR---EVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
             +++     QT     R   E +ALI++PTREL  Q  K   A+  +  +     VGG 
Sbjct: 141 FLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGM 200

Query: 140 SVGEDIRKLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYD 198
              + +++LE     ++  TPGR+ D  +R  +    ++++VLDE+D ML  GF  Q+  
Sbjct: 201 DFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLDMGFIPQVRQ 260

Query: 199 VYRYLPP--DLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVERE 256
           + R  P   + Q +L SAT   +++ +  ++ TDP  + ++ + +  + ++Q   AV   
Sbjct: 261 IIRQTPRKEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQHVYAVAGS 320

Query: 257 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMG 316
           + K+  L +L       + ++F N K +V  + E++       + + GD+PQ +R   + 
Sbjct: 321 D-KYKLLYNLVTQNPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLE 379

Query: 317 EFRSGTTRVLITTDVWARGLDV 338
            FR G  RVL+ TDV  RG+ +
Sbjct: 380 GFREGKIRVLVATDVAGRGIHI 401

Length = 475

>gnl|CDD|214692 smart00487, DEXDc, DEAD-like helicases superfamily

 Score =  157 bits (399), Expect = 8e-47
 Identities = 72/204 (35%), Positives = 114/204 (55%), Gaps = 5/204 (2%)

Query: 48  IYQYGFEKPSAIQQRAVMPIIKG-RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALI 106
           I ++GFE     Q+ A+  ++ G RDVI  A +G+GKT    L   + +    +  + L+
Sbjct: 1   IEKFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALK-RGKGGRVLV 59

Query: 107 LSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGV-HVVSGTPGRVCDM 165
           L PTRELA Q  + +  +G  + ++     GG S  E +RKLE G   ++  TPGR+ D+
Sbjct: 60  LVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDL 119

Query: 166 IKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTT 225
           ++   L    + L++LDE+  +L  GF DQ+  + + LP ++Q++L+SAT P EI  +  
Sbjct: 120 LENDKLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIENLLE 179

Query: 226 KFMTDPVKILVKRDELTLEGIKQF 249
            F+ DPV I V      LE I+QF
Sbjct: 180 LFLNDPVFIDVGF--TPLEPIEQF 201

Length = 201

>gnl|CDD|215103 PLN00206, PLN00206, DEAD-box ATP-dependent RNA helicase; Provisional

 Score =  164 bits (417), Expect = 3e-46
 Identities = 99/329 (30%), Positives = 169/329 (51%), Gaps = 21/329 (6%)

Query: 32  ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
           I SF + G+   LL  +   G+E P+ IQ +A+   + GR ++  A +G+GKT+   + +
Sbjct: 120 ILSFSSCGLPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPI 179

Query: 92  ---CQTV----DTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED 144
              C T+     +  R   A++L+PTREL  Q E     +G  +  +    VGG ++ + 
Sbjct: 180 ISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQ 239

Query: 145 IRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP 204
           + +++ GV ++ GTPGR+ D++ +  +    + +LVLDE D ML RGF+DQ+  +++ L 
Sbjct: 240 LYRIQQGVELIVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCMLERGFRDQVMQIFQALS 299

Query: 205 PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLC 264
              QV+L SAT+  E+ +  +    D + I +       + +KQ  + VE ++ K     
Sbjct: 300 QP-QVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVETKQKK----Q 354

Query: 265 DLYDTLTITQ-----AVIFCNTKRKVDWLTEKMR-GYNFTVSSMHGDMPQKERDAIMGEF 318
            L+D L   Q     AV+F +++   D L   +         S+HG+   KER  +M  F
Sbjct: 355 KLFDILKSKQHFKPPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSF 414

Query: 319 RSGTTRVLITTDVWARGLD---VQQAILF 344
             G   V++ T V  RG+D   V+Q I+F
Sbjct: 415 LVGEVPVIVATGVLGRGVDLLRVRQVIIF 443

Length = 518

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score =  161 bits (409), Expect = 9e-46
 Identities = 92/314 (29%), Positives = 150/314 (47%), Gaps = 11/314 (3%)

Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
           T+F  + + + LL  +   G+ +P+AIQ  A+ P + GRDV+  A +GTGKT+   L   
Sbjct: 1   TTFSELELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPAL 60

Query: 93  QTVDTSSRE----VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL 148
           Q +    R      + LIL+PTRELA Q       +    ++      GG +        
Sbjct: 61  QHLLDFPRRKSGPPRILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVF 120

Query: 149 EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFK---DQIYDVYRYLPP 205
                +V  TPGR+   IK +    RA++ L+LDE+D ML  GF    + I    R+   
Sbjct: 121 SENQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRMLDMGFAQDIETIAAETRWRK- 179

Query: 206 DLQVVLISATLPHE-ILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLC 264
             Q +L SATL  + + +   + + DPV++  +      + I Q++   +  E K   LC
Sbjct: 180 --QTLLFSATLEGDAVQDFAERLLNDPVEVEAEPSRRERKKIHQWYYRADDLEHKTALLC 237

Query: 265 DLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTR 324
            L     +T++++F  T+ +V  L   +R        + G+M Q +R+  +     G   
Sbjct: 238 HLLKQPEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVN 297

Query: 325 VLITTDVWARGLDV 338
           VL+ TDV ARG+D+
Sbjct: 298 VLVATDVAARGIDI 311

Length = 434

>gnl|CDD|235307 PRK04537, PRK04537, ATP-dependent RNA helicase RhlB; Provisional

 Score =  158 bits (401), Expect = 8e-44
 Identities = 102/317 (32%), Positives = 164/317 (51%), Gaps = 15/317 (4%)

Query: 34  SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
           +F +  +   LL G+   GF + + IQ   +   + G DV  QAQ+GTGKT    + V  
Sbjct: 10  TFSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMN 69

Query: 94  T-------VDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR 146
                    D    + +ALIL+PTRELA Q  K  +  G  + ++     GG    +   
Sbjct: 70  RLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRE 129

Query: 147 KLEHGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPP 205
            L+ GV V+  TPGR+ D +K+ K +   A ++ VLDE+D M   GF   I  + R +P 
Sbjct: 130 LLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLGFIKDIRFLLRRMPE 189

Query: 206 --DLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ--FFVAVEREEWKFD 261
               Q +L SATL H +LE+  + M +P K++V+ + +T   ++Q  +F A   +E K  
Sbjct: 190 RGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFPA---DEEKQT 246

Query: 262 TLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSG 321
            L  L       + ++F NTK  V+ +   +  + + V  + GD+PQK+R++++  F+ G
Sbjct: 247 LLLGLLSRSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKG 306

Query: 322 TTRVLITTDVWARGLDV 338
              +L+ TDV ARGL +
Sbjct: 307 QLEILVATDVAARGLHI 323

Length = 572

>gnl|CDD|235314 PRK04837, PRK04837, ATP-dependent RNA helicase RhlB; Provisional

 Score =  148 bits (375), Expect = 6e-41
 Identities = 99/327 (30%), Positives = 157/327 (48%), Gaps = 38/327 (11%)

Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIA---- 88
             F    +   ++  + + GF   + IQ  A+   + GRDV  QAQ+GTGKT  +A    
Sbjct: 8   QKFSDFALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKT--MAFLTA 65

Query: 89  -----LTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE 143
                L+     D    + +ALI++PTRELA Q       +     ++     GG    +
Sbjct: 66  TFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDK 125

Query: 144 DIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL 203
            ++ LE GV ++ GT GR+ D  K+  +   AI+++VLDE+D M   GF   I  ++R +
Sbjct: 126 QLKVLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMFDLGFIKDIRWLFRRM 185

Query: 204 PPDLQ--VVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ--FFVAVE----- 254
           PP  Q   +L SATL + + E+  + M +P  + V+ ++ T   IK+  F+ + E     
Sbjct: 186 PPANQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKEELFYPSNEEKMRL 245

Query: 255 -----REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQK 309
                 EEW               +A+IF NTK + + +   +      V  + GD+ QK
Sbjct: 246 LQTLIEEEWP-------------DRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQK 292

Query: 310 ERDAIMGEFRSGTTRVLITTDVWARGL 336
           +R  I+ EF  G   +L+ TDV ARGL
Sbjct: 293 KRLRILEEFTRGDLDILVATDVAARGL 319

Length = 423

>gnl|CDD|238005 cd00046, DEXDc, DEAD-like helicases superfamily

 Score =  118 bits (298), Expect = 1e-32
 Identities = 51/146 (34%), Positives = 82/146 (56%), Gaps = 2/146 (1%)

Query: 71  RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI 130
           RDV+  A +G+GKT    L + + +D+     Q L+L+PTRELA Q  + +  +     I
Sbjct: 1   RDVLLAAPTGSGKTLAALLPILELLDSLKG-GQVLVLAPTRELANQVAERLKELFGE-GI 58

Query: 131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR 190
           +    +GG S+ +  + L     +V GTPGR+ D ++R  L  + + LL+LDE+  +L++
Sbjct: 59  KVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQ 118

Query: 191 GFKDQIYDVYRYLPPDLQVVLISATL 216
           GF      +   LP D QV+L+SAT 
Sbjct: 119 GFGLLGLKILLKLPKDRQVLLLSATP 144

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Length = 144

>gnl|CDD|238034 cd00079, HELICc, Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process

 Score = 93.8 bits (234), Expect = 1e-23
 Identities = 34/98 (34%), Positives = 56/98 (57%), Gaps = 4/98 (4%)

Query: 246 IKQFFVAVEREEWKFDTLCDLYDTLTIT--QAVIFCNTKRKVDWLTEKMRGYNFTVSSMH 303
           IKQ+ +    E+ K + L +L         + +IFC +K+ +D L E +R     V+++H
Sbjct: 2   IKQYVL--PVEDEKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALH 59

Query: 304 GDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQA 341
           GD  Q+ER+ ++ +FR G   VL+ TDV ARG+D+   
Sbjct: 60  GDGSQEEREEVLKDFREGEIVVLVATDVIARGIDLPNV 97

Length = 131

>gnl|CDD|197757 smart00490, HELICc, helicase superfamily c-terminal domain

 Score = 65.7 bits (161), Expect = 7e-14
 Identities = 20/56 (35%), Positives = 34/56 (60%)

Query: 286 DWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQA 341
           + L E ++     V+ +HG + Q+ER+ I+ +F +G  +VL+ TDV  RGLD+   
Sbjct: 1   EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGV 56

Length = 82

>gnl|CDD|201125 pfam00271, Helicase_C, Helicase conserved C-terminal domain

 Score = 65.6 bits (161), Expect = 8e-14
 Identities = 19/52 (36%), Positives = 34/52 (65%)

Query: 290 EKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQA 341
           + +R     V+ +HG + Q+ER+ I+ +FR+G ++VL+ TDV  RG+D+   
Sbjct: 1   KLLRKPGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDV 52

The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. Length = 78

>gnl|CDD|224126 COG1205, COG1205, Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]

 Score = 60.1 bits (146), Expect = 6e-10
 Identities = 74/346 (21%), Positives = 125/346 (36%), Gaps = 53/346 (15%)

Query: 24  ETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGK 83
              E     TS       + L   + + G E+  + Q  A+  I +GR+V+    +G+GK
Sbjct: 39  PEIEARPGKTSEFPELRDESLKSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGK 98

Query: 84  TSMIALTVCQTVDTSSREVQALILSPTRELAT-QTEKVILAIGDF-INIQAHACVGGKSV 141
           T    L +   +       +AL+L PT  LA  Q E++   I D    +      G    
Sbjct: 99  TESFLLPILDHL-LRDPSARALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPP 157

Query: 142 GEDIRKLEHGVHVVSGTPGRVCDMIKRKTLR--------TRAIKLLVLDE---------S 184
            E    + +   ++   P    DM+    LR         R +K LV+DE         S
Sbjct: 158 EERRAIIRNPPDILLTNP----DMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRGVQGS 213

Query: 185 D-EMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHE---ILEMTTKFMTDPV-------- 232
           +  +L R    ++    R     LQ++  SATL +      E+  +    PV        
Sbjct: 214 EVALLLRRLLRRL----RRYGSPLQIICTSATLANPGEFAEELFGRDFEVPVDEDGSPRG 269

Query: 233 -KILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEK 291
            +  V+R+    E  +    +   E      L       T+     F  ++++V+ L   
Sbjct: 270 LRYFVRREPPIRELAESIRRSALAELATLAALLVRNGIQTLV----FFRSRKQVELLYLS 325

Query: 292 MRG--------YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT 329
            R             VS+    + ++ER  I  EF+ G    +I T
Sbjct: 326 PRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELLGVIAT 371

Length = 851

>gnl|CDD|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]

 Score = 55.1 bits (133), Expect = 2e-08
 Identities = 60/336 (17%), Positives = 118/336 (35%), Gaps = 75/336 (22%)

Query: 55  KPSAIQQRAV----MPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT 110
           +    Q+ A+          R  +    +G GKT ++A      +  S      L+L PT
Sbjct: 36  ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKT-VVAAEAIAELKRS-----TLVLVPT 89

Query: 111 RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKT 170
           +EL  Q  + +       +        G   G +       V V +     V  + +R+ 
Sbjct: 90  KELLDQWAEALKKFLLLND------EIGIYGGGEKELEPAKVTVAT-----VQTLARRQL 138

Query: 171 LR---TRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL-ISATLPHE------- 219
           L         L++ DE   + +  ++ +I ++     P     L ++AT   E       
Sbjct: 139 LDEFLGNEFGLIIFDEVHHLPAPSYR-RILELLSAAYP----RLGLTATPEREDGGRIGD 193

Query: 220 --------ILEMTTKFMTD-----PVKILVKRDELTLEGIKQF--FVAVEREEWK----- 259
                   + E++ K + D     P K +  +  LT +  +++    A  RE  +     
Sbjct: 194 LFDLIGPIVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGTL 253

Query: 260 FDTLCDLYDTLTI-----------------TQAVIFCNTKRKVDWLTEKMRGYNFTVSSM 302
                     +                    + +IF +       + +        V ++
Sbjct: 254 RAENEARRIAIASERKIAAVRGLLLKHARGDKTLIFASDVEHAYEIAKLFLAPGI-VEAI 312

Query: 303 HGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
            G+ P++ER+AI+  FR+G  +VL+T  V   G+D+
Sbjct: 313 TGETPKEEREAILERFRTGGIKVLVTVKVLDEGVDI 348

Length = 442

>gnl|CDD|233069 TIGR00643, recG, ATP-dependent DNA helicase RecG

 Score = 45.4 bits (108), Expect = 3e-05
 Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 288 LTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQA 341
           L +    YN  V  +HG M   E++A+M EFR G   +L+ T V   G+DV  A
Sbjct: 476 LKKAFPKYN--VGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEVGVDVPNA 527

[DNA metabolism, DNA replication, recombination, and repair]. Length = 630

>gnl|CDD|224121 COG1200, RecG, RecG-like helicase [DNA replication, recombination, and repair / Transcription]

 Score = 44.5 bits (106), Expect = 6e-05
 Identities = 15/37 (40%), Positives = 22/37 (59%)

Query: 302 MHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
           +HG M   E+DA+M  F+ G   +L+ T V   G+DV
Sbjct: 513 VHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVGVDV 549

Length = 677

>gnl|CDD|236794 PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional

 Score = 43.2 bits (103), Expect = 1e-04
 Identities = 12/30 (40%), Positives = 19/30 (63%)

Query: 302 MHGDMPQKERDAIMGEFRSGTTRVLITTDV 331
           +HG M   E+DA+M  F++G   +L+ T V
Sbjct: 511 LHGRMKPAEKDAVMAAFKAGEIDILVATTV 540

Length = 681

>gnl|CDD|224123 COG1202, COG1202, Superfamily II helicase, archaea-specific [General function prediction only]

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 46/183 (25%), Positives = 76/183 (41%), Gaps = 13/183 (7%)

Query: 164 DMIKRKTLRTRAIKLLVLDE--SDEMLSRGFK-DQIYDVYRYLPPDLQVVLISATLPHEI 220
           D + R       I  +V+DE  + E   RG + D +    RYL P  Q + +SAT+ +  
Sbjct: 327 DYLLRTGKDLGDIGTVVIDEIHTLEDEERGPRLDGLIGRLRYLFPGAQFIYLSATVGNP- 385

Query: 221 LEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKF-DTLCDL-YDTLTIT----Q 274
            E+  K     V  L     + LE     F   E E+W     L    + T +      Q
Sbjct: 386 EELAKKLGAKLV--LYDERPVPLER-HLVFARNESEKWDIIARLVKREFSTESSKGYRGQ 442

Query: 275 AVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWAR 334
            ++F  ++R+   L + + G     +  H  +P KER ++   F +     ++TT   A 
Sbjct: 443 TIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAALAA 502

Query: 335 GLD 337
           G+D
Sbjct: 503 GVD 505

Length = 830

>gnl|CDD|233483 TIGR01587, cas3_core, CRISPR-associated helicase Cas3

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 32/172 (18%), Positives = 60/172 (34%), Gaps = 15/172 (8%)

Query: 178 LLVLDESDEMLS--RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKIL 235
           LL+ DE              + +V +    D+ ++L+SATLP  + E   K         
Sbjct: 127 LLIFDEVHFYDEYTLALILAVLEVLKDN--DVPILLMSATLPKFLKEYAEKIGYVEFNEP 184

Query: 236 VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL-TITQAVIFCNTKRKV----DWLTE 290
           +   E       +F      +  +  +L  L + +    +  I  NT  +       L E
Sbjct: 185 LDLKEERRFERHRFIKIESDKVGEISSLERLLEFIKKGGKIAIIVNTVDRAQEFYQQLKE 244

Query: 291 KMRGYNFTVSSMHGDMPQKERDA----IMGEFRSGTTRVLITTDVWARGLDV 338
                   +  +H    +K+R      ++ E +     V++ T V    LD+
Sbjct: 245 N--APEEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQVIEASLDI 294

This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model [Mobile and extrachromosomal element functions, Other]. Length = 358

>gnl|CDD|224122 COG1201, Lhr, Lhr-like helicases [General function prediction only]

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 64/309 (20%), Positives = 124/309 (40%), Gaps = 49/309 (15%)

Query: 53  FEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKT---------SMIALTVCQTVDTSSREVQ 103
           F   +  Q+ A+  I  G +V+  A +G+GKT          +++L   +  D     + 
Sbjct: 20  FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDG----IY 75

Query: 104 ALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVC 163
           AL +SP + L     + +      + I+     G     E  + L++  H++  TP  + 
Sbjct: 76  ALYISPLKALNNDIRRRLEEPLRELGIEVAVRHGDTPQSEKQKMLKNPPHILITTPESLA 135

Query: 164 DMIKRKTLRT--RAIKLLVLDESDEMLS--RGFKDQIYDVY--------RYLPPDLQVVL 211
            ++     R   R ++ +++DE   +    RG       V         R L  D Q + 
Sbjct: 136 ILLNSPKFRELLRDVRYVIVDEIHALAESKRG-------VQLALSLERLRELAGDFQRIG 188

Query: 212 ISATL--PHEILEMTTKFM---TDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDL 266
           +SAT+  P E+     KF+    DP +I+       LE IK     VE   +  +    L
Sbjct: 189 LSATVGPPEEVA----KFLVGFGDPCEIVDVSAAKKLE-IK-VISPVEDLIYDEELWAAL 242

Query: 267 YDTLT--ITQ---AVIFCNTKRKVDWLTEKMRG-YNFTVSSMHGDMPQKERDAIMGEFRS 320
           Y+ +   + +    +IF NT+   + L  +++      +   HG + ++ R  +    + 
Sbjct: 243 YERIAELVKKHRTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKE 302

Query: 321 GTTRVLITT 329
           G  + ++ T
Sbjct: 303 GELKAVVAT 311

Length = 814

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	354
KOG0328	400	consensus Predicted ATP-dependent RNA helicase FAL	100.0
KOG0330	476	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0331	519	consensus ATP-dependent RNA helicase [RNA processi	100.0
COG0513	513	SrmB Superfamily II DNA and RNA helicases [DNA rep	100.0
PRK04837	423	ATP-dependent RNA helicase RhlB; Provisional	100.0
PRK11776	460	ATP-dependent RNA helicase DbpA; Provisional	100.0
PRK10590	456	ATP-dependent RNA helicase RhlE; Provisional	100.0
PTZ00110	545	helicase; Provisional	100.0
PRK11634	629	ATP-dependent RNA helicase DeaD; Provisional	100.0
PRK04537	572	ATP-dependent RNA helicase RhlB; Provisional	100.0
PRK11192	434	ATP-dependent RNA helicase SrmB; Provisional	100.0
PLN00206	518	DEAD-box ATP-dependent RNA helicase; Provisional	100.0
PTZ00424	401	helicase 45; Provisional	100.0
KOG0333	673	consensus U5 snRNP-like RNA helicase subunit [RNA	100.0
KOG0326	459	consensus ATP-dependent RNA helicase [RNA processi	100.0
PRK01297	475	ATP-dependent RNA helicase RhlB; Provisional	100.0
KOG0338	691	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0343	758	consensus RNA Helicase [RNA processing and modific	100.0
KOG0340	442	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0345	567	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0342	543	consensus ATP-dependent RNA helicase pitchoune [RN	100.0
KOG0335	482	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0336	629	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0346	569	consensus RNA helicase [RNA processing and modific	100.0
KOG0339	731	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0332	477	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0348	708	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0341	610	consensus DEAD-box protein abstrakt [RNA processin	100.0
KOG0327	397	consensus Translation initiation factor 4F, helica	100.0
KOG0347	731	consensus RNA helicase [RNA processing and modific	100.0
TIGR03817	742	DECH_helic helicase/secretion neighborhood putativ	100.0
KOG0334	997	consensus RNA helicase [RNA processing and modific	100.0
KOG0337	529	consensus ATP-dependent RNA helicase [RNA processi	100.0
PLN03137	1195	ATP-dependent DNA helicase; Q4-like; Provisional	100.0
KOG4284	980	consensus DEAD box protein [Transcription]	100.0
TIGR00614	470	recQ_fam ATP-dependent DNA helicase, RecQ family.	100.0
KOG0350	620	consensus DEAD-box ATP-dependent RNA helicase [RNA	100.0
PRK11057	607	ATP-dependent DNA helicase RecQ; Provisional	100.0
PRK13767	876	ATP-dependent helicase; Provisional	100.0
TIGR01389	591	recQ ATP-dependent DNA helicase RecQ. The ATP-depe	100.0
PRK02362	737	ski2-like helicase; Provisional	100.0
KOG0344	593	consensus ATP-dependent RNA helicase [RNA processi	100.0
COG1201	814	Lhr Lhr-like helicases [General function predictio	100.0
PRK00254	720	ski2-like helicase; Provisional	100.0
PRK09401	1176	reverse gyrase; Reviewed	100.0
TIGR02621	844	cas3_GSU0051 CRISPR-associated helicase Cas3, Anae	100.0
TIGR00580	926	mfd transcription-repair coupling factor (mfd). Al	100.0
PRK10689	1147	transcription-repair coupling factor; Provisional	100.0
PRK01172	674	ski2-like helicase; Provisional	100.0
PRK10917	681	ATP-dependent DNA helicase RecG; Provisional	100.0
PRK14701	1638	reverse gyrase; Provisional	100.0
COG0514	590	RecQ Superfamily II DNA helicase [DNA replication,	100.0
TIGR01054	1171	rgy reverse gyrase. Generally, these gyrases are e	100.0
TIGR00643	630	recG ATP-dependent DNA helicase RecG.	100.0
KOG0329	387	consensus ATP-dependent RNA helicase [RNA processi	100.0
PRK09751	1490	putative ATP-dependent helicase Lhr; Provisional	100.0
PHA02558	501	uvsW UvsW helicase; Provisional	100.0
COG1111	542	MPH1 ERCC4-like helicases [DNA replication, recomb	100.0
COG1202	830	Superfamily II helicase, archaea-specific [General	100.0
TIGR01970	819	DEAH_box_HrpB ATP-dependent helicase HrpB. This mo	100.0
PRK11664	812	ATP-dependent RNA helicase HrpB; Provisional	100.0
COG1205	851	Distinct helicase family with a unique C-terminal	100.0
PRK13766	773	Hef nuclease; Provisional	100.0
PHA02653	675	RNA helicase NPH-II; Provisional	100.0
TIGR01587	358	cas3_core CRISPR-associated helicase Cas3. This mo	100.0
COG1204	766	Superfamily II helicase [General function predicti	100.0
cd00268	203	DEADc DEAD-box helicases. A diverse family of prot	100.0
TIGR00603	732	rad25 DNA repair helicase rad25. All proteins in t	100.0
TIGR03158	357	cas3_cyano CRISPR-associated helicase, Cyano-type.	100.0
KOG0354	746	consensus DEAD-box like helicase [General function	100.0
PRK12898	656	secA preprotein translocase subunit SecA; Reviewed	100.0
TIGR03714	762	secA2 accessory Sec system translocase SecA2. Memb	100.0
COG1061	442	SSL2 DNA or RNA helicases of superfamily II [Trans	99.98
PRK09200	790	preprotein translocase subunit SecA; Reviewed	99.98
COG1200	677	RecG RecG-like helicase [DNA replication, recombin	99.98
TIGR00963	745	secA preprotein translocase, SecA subunit. The pro	99.98
KOG0353	695	consensus ATP-dependent DNA helicase [General func	99.97
KOG0351	941	consensus ATP-dependent DNA helicase [Replication,	99.97
KOG0349	725	consensus Putative DEAD-box RNA helicase DDX1 [RNA	99.97
KOG0952	1230	consensus DNA/RNA helicase MER3/SLH1, DEAD-box sup	99.97
KOG0352	641	consensus ATP-dependent DNA helicase [Replication,	99.97
COG1197	1139	Mfd Transcription-repair coupling factor (superfam	99.96
PRK04914	956	ATP-dependent helicase HepA; Validated	99.96
PRK05580	679	primosome assembly protein PriA; Validated	99.96
PRK11131	1294	ATP-dependent RNA helicase HrpA; Provisional	99.96
PRK09694	878	helicase Cas3; Provisional	99.96
PF00270	169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	99.96
PRK11448	1123	hsdR type I restriction enzyme EcoKI subunit R; Pr	99.95
KOG0951	1674	consensus RNA helicase BRR2, DEAD-box superfamily	99.95
TIGR00595	505	priA primosomal protein N'. All proteins in this f	99.95
PRK12904	830	preprotein translocase subunit SecA; Reviewed	99.95
PRK13104	896	secA preprotein translocase subunit SecA; Reviewed	99.95
COG4098	441	comFA Superfamily II DNA/RNA helicase required for	99.95
TIGR01967	1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	99.94
COG1110	1187	Reverse gyrase [DNA replication, recombination, an	99.94
PLN03142	1033	Probable chromatin-remodeling complex ATPase chain	99.93
PRK12906	796	secA preprotein translocase subunit SecA; Reviewed	99.92
PRK12899	970	secA preprotein translocase subunit SecA; Reviewed	99.92
PRK13107	908	preprotein translocase subunit SecA; Reviewed	99.91
KOG0947	1248	consensus Cytoplasmic exosomal RNA helicase SKI2,	99.91
COG4581	1041	Superfamily II RNA helicase [DNA replication, reco	99.91
TIGR01407	850	dinG_rel DnaQ family exonuclease/DinG family helic	99.9
TIGR00348	667	hsdR type I site-specific deoxyribonuclease, HsdR	99.9
smart00487	201	DEXDc DEAD-like helicases superfamily.	99.89
COG1203	733	CRISPR-associated helicase Cas3 [Defense mechanism	99.88
KOG0385	971	consensus Chromatin remodeling complex WSTF-ISWI,	99.88
COG4096	875	HsdR Type I site-specific restriction-modification	99.88
KOG0948	1041	consensus Nuclear exosomal RNA helicase MTR4, DEAD	99.87
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	99.87
COG1198	730	PriA Primosomal protein N' (replication factor Y)	99.86
KOG1123	776	consensus RNA polymerase II transcription initiati	99.86
KOG0387	923	consensus Transcription-coupled repair protein CSB	99.85
KOG0922	674	consensus DEAH-box RNA helicase [RNA processing an	99.84
PRK07246	820	bifunctional ATP-dependent DNA helicase/DNA polyme	99.83
KOG0950	1008	consensus DNA polymerase theta/eta, DEAD-box super	99.83
COG0556	663	UvrB Helicase subunit of the DNA excision repair c	99.82
COG4889	1518	Predicted helicase [General function prediction on	99.81
PRK12326	764	preprotein translocase subunit SecA; Reviewed	99.8
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	99.8
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	99.8
TIGR03117	636	cas_csf4 CRISPR-associated DEAD/DEAH-box helicase	99.79
KOG1000	689	consensus Chromatin remodeling protein HARP/SMARCA	99.79
KOG0390	776	consensus DNA repair protein, SNF2 family [Replica	99.79
KOG0920	924	consensus ATP-dependent RNA helicase A [RNA proces	99.79
KOG0389	941	consensus SNF2 family DNA-dependent ATPase [Chroma	99.78
PRK12900	1025	secA preprotein translocase subunit SecA; Reviewed	99.78
PRK08074	928	bifunctional ATP-dependent DNA helicase/DNA polyme	99.77
PRK13103	913	secA preprotein translocase subunit SecA; Reviewed	99.76
KOG0384	1373	consensus Chromodomain-helicase DNA-binding protei	99.76
KOG0923	902	consensus mRNA splicing factor ATP-dependent RNA h	99.75
KOG0392	1549	consensus SNF2 family DNA-dependent ATPase domain-	99.74
CHL00122	870	secA preprotein translocase subunit SecA; Validate	99.74
TIGR00631	655	uvrb excinuclease ABC, B subunit. This family is b	99.72
PRK12902	939	secA preprotein translocase subunit SecA; Reviewed	99.72
KOG0925	699	consensus mRNA splicing factor ATP-dependent RNA h	99.7
PRK12903	925	secA preprotein translocase subunit SecA; Reviewed	99.7
KOG0926	1172	consensus DEAH-box RNA helicase [RNA processing an	99.7
KOG0949	1330	consensus Predicted helicase, DEAD-box superfamily	99.69
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	99.68
PRK11747	697	dinG ATP-dependent DNA helicase DinG; Provisional	99.66
TIGR00604	705	rad3 DNA repair helicase (rad3). All proteins in t	99.65
COG1199	654	DinG Rad3-related DNA helicases [Transcription / D	99.64
KOG4439	901	consensus RNA polymerase II transcription terminat	99.61
KOG0388	1185	consensus SNF2 family DNA-dependent ATPase [Replic	99.57
KOG0953	700	consensus Mitochondrial RNA helicase SUV3, DEAD-bo	99.55
KOG1002	791	consensus Nucleotide excision repair protein RAD16	99.54
KOG0386	1157	consensus Chromatin remodeling complex SWI/SNF, co	99.52
KOG4150	1034	consensus Predicted ATP-dependent RNA helicase [RN	99.52
KOG0391	1958	consensus SNF2 family DNA-dependent ATPase [Genera	99.52
cd00079	131	HELICc Helicase superfamily c-terminal domain; ass	99.51
PF07652	148	Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR	99.5
PF06862	442	DUF1253: Protein of unknown function (DUF1253); In	99.5
PF02399	824	Herpes_ori_bp: Origin of replication binding prote	99.49
PF00176	299	SNF2_N: SNF2 family N-terminal domain; InterPro: I	99.49
COG0610	962	Type I site-specific restriction-modification syst	99.47
PRK14873	665	primosome assembly protein PriA; Provisional	99.46
PF00271	78	Helicase_C: Helicase conserved C-terminal domain;	99.43
PRK05298	652	excinuclease ABC subunit B; Provisional	99.38
smart00489	289	DEXDc3 DEAD-like helicases superfamily.	99.35
smart00488	289	DEXDc2 DEAD-like helicases superfamily.	99.35
TIGR02562	1110	cas3_yersinia CRISPR-associated helicase Cas3. The	99.33
PRK12901	1112	secA preprotein translocase subunit SecA; Reviewed	99.33
KOG0951	1674	consensus RNA helicase BRR2, DEAD-box superfamily	99.33
KOG1015	1567	consensus Transcription regulator XNP/ATRX, DEAD-b	99.3
COG0553	866	HepA Superfamily II DNA/RNA helicases, SNF2 family	99.23
smart00490	82	HELICc helicase superfamily c-terminal domain.	99.2
COG0653	822	SecA Preprotein translocase subunit SecA (ATPase,	99.18
PF07517	266	SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011	99.17
KOG2340	698	consensus Uncharacterized conserved protein [Funct	99.1
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	98.95
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	98.81
PRK15483	986	type III restriction-modification system StyLTI en	98.77
KOG1802	935	consensus RNA helicase nonsense mRNA reducing fact	98.76
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.74
KOG1133	821	consensus Helicase of the DEAD superfamily [Replic	98.73
PF13872	303	AAA_34: P-loop containing NTP hydrolase pore-1	98.64
PRK10536	262	hypothetical protein; Provisional	98.51
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	98.51
PF13245	76	AAA_19: Part of AAA domain	98.47
KOG0921	1282	consensus Dosage compensation complex, subunit MLE	98.46
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	98.43
KOG0952	1230	consensus DNA/RNA helicase MER3/SLH1, DEAD-box sup	98.42
PRK10875	615	recD exonuclease V subunit alpha; Provisional	98.41
TIGR00376	637	DNA helicase, putative. The gene product may repre	98.4
PF12340	229	DUF3638: Protein of unknown function (DUF3638); In	98.4
KOG1803	649	consensus DNA helicase [Replication, recombination	98.37
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	98.37
KOG1132	945	consensus Helicase of the DEAD superfamily [Replic	98.34
KOG1016	1387	consensus Predicted DNA helicase, DEAD-box superfa	98.31
PF13307	167	Helicase_C_2: Helicase C-terminal domain; PDB: 4A1	98.25
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.2
COG3587	985	Restriction endonuclease [Defense mechanisms]	98.11
PF00580	315	UvrD-helicase: UvrD/REP helicase N-terminal domain	98.1
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	98.08
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	98.06
PRK13889	988	conjugal transfer relaxase TraA; Provisional	98.04
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	98.03
KOG1805	1100	consensus DNA replication helicase [Replication, r	98.01
PRK13826	1102	Dtr system oriT relaxase; Provisional	97.94
KOG1131	755	consensus RNA polymerase II transcription initiati	97.88
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.86
PRK08181	269	transposase; Validated	97.83
PRK04296	190	thymidine kinase; Provisional	97.82
KOG1001	674	consensus Helicase-like transcription factor HLTF/	97.8
PRK06526	254	transposase; Provisional	97.77
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.76
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.75
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.68
PRK11054	684	helD DNA helicase IV; Provisional	97.62
smart00382	148	AAA ATPases associated with a variety of cellular	97.62
PRK14974	336	cell division protein FtsY; Provisional	97.56
PRK10919	672	ATP-dependent DNA helicase Rep; Provisional	97.53
TIGR02760	1960	TraI_TIGR conjugative transfer relaxase protein Tr	97.42
PHA02533	534	17 large terminase protein; Provisional	97.39
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.38
COG3421	812	Uncharacterized protein conserved in bacteria [Fun	97.38
PRK07952	244	DNA replication protein DnaC; Validated	97.38
KOG0383	696	consensus Predicted helicase [General function pre	97.35
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.34
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.34
KOG0298	1394	consensus DEAD box-containing helicase-like transc	97.32
PRK05642	234	DNA replication initiation factor; Validated	97.31
TIGR01075	715	uvrD DNA helicase II. Designed to identify uvrD me	97.3
PRK06835	329	DNA replication protein DnaC; Validated	97.3
PRK06893	229	DNA replication initiation factor; Validated	97.29
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.29
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.28
PRK11773	721	uvrD DNA-dependent helicase II; Provisional	97.27
COG2256	436	MGS1 ATPase related to the helicase subunit of the	97.26
PRK08727	233	hypothetical protein; Validated	97.26
PRK06921	266	hypothetical protein; Provisional	97.25
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.25
TIGR01074	664	rep ATP-dependent DNA helicase Rep. Designed to id	97.25
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.22
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.19
PRK08084	235	DNA replication initiation factor; Provisional	97.18
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.17
PRK12377	248	putative replication protein; Provisional	97.17
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.16
smart00492	141	HELICc3 helicase superfamily c-terminal domain.	97.16
TIGR02785	1232	addA_Gpos recombination helicase AddA, Firmicutes	97.15
PF05127	177	Helicase_RecD: Helicase; InterPro: IPR007807 This	97.14
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.14
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.13
TIGR01547	396	phage_term_2 phage terminase, large subunit, PBSX	97.12
PF13173	128	AAA_14: AAA domain	97.11
PRK14712	1623	conjugal transfer nickase/helicase TraI; Provision	97.11
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.11
smart00491	142	HELICc2 helicase superfamily c-terminal domain.	97.1
PLN03025	319	replication factor C subunit; Provisional	97.1
PRK13709	1747	conjugal transfer nickase/helicase TraI; Provision	97.04
PF00004	132	AAA: ATPase family associated with various cellula	97.02
PHA03368	738	DNA packaging terminase subunit 1; Provisional	97.02
PHA03333	752	putative ATPase subunit of terminase; Provisional	96.98
CHL00181	287	cbbX CbbX; Provisional	96.97
PF03354	477	Terminase_1: Phage Terminase ; InterPro: IPR005021	96.96
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.93
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.92
PRK00411	394	cdc6 cell division control protein 6; Reviewed	96.91
PRK14088	440	dnaA chromosomal replication initiation protein; P	96.91
PRK05707	328	DNA polymerase III subunit delta'; Validated	96.9
TIGR01073	726	pcrA ATP-dependent DNA helicase PcrA. Designed to	96.89
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	96.88
PRK08116	268	hypothetical protein; Validated	96.87
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	96.87
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.85
PRK09183	259	transposase/IS protein; Provisional	96.84
PRK10917	681	ATP-dependent DNA helicase RecG; Provisional	96.84
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	96.83
PRK14086	617	dnaA chromosomal replication initiation protein; P	96.82
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.8
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	96.8
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	96.79
PRK12422	445	chromosomal replication initiation protein; Provis	96.77
PF14617	252	CMS1: U3-containing 90S pre-ribosomal complex subu	96.77
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	96.76
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.76
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.75
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	96.73
PRK12402	337	replication factor C small subunit 2; Reviewed	96.7
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	96.69
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	96.67
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.67
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.67
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	96.67
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	96.66
COG4626	546	Phage terminase-like protein, large subunit [Gener	96.64
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	96.62
PRK08769	319	DNA polymerase III subunit delta'; Validated	96.6
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.59
TIGR00643	630	recG ATP-dependent DNA helicase RecG.	96.58
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.57
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	96.57
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.56
KOG2028	554	consensus ATPase related to the helicase subunit o	96.55
COG1435	201	Tdk Thymidine kinase [Nucleotide transport and met	96.54
PTZ00112	1164	origin recognition complex 1 protein; Provisional	96.53
TIGR02760	1960	TraI_TIGR conjugative transfer relaxase protein Tr	96.52
PHA02544	316	44 clamp loader, small subunit; Provisional	96.49
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.48
KOG1513	1300	consensus Nuclear helicase MOP-3/SNO (DEAD-box sup	96.47
COG3973	747	Superfamily I DNA and RNA helicases [General funct	96.47
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.46
PRK05580	679	primosome assembly protein PriA; Validated	96.45
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.44
TIGR00596	814	rad1 DNA repair protein (rad1). This family is bas	96.42
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.42
PRK13342	413	recombination factor protein RarA; Reviewed	96.41
PTZ00293	211	thymidine kinase; Provisional	96.39
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	96.38
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.38
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.37
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.37
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	96.36
PRK05298	652	excinuclease ABC subunit B; Provisional	96.34
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.31
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	96.31
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	96.3
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.3
TIGR00580	926	mfd transcription-repair coupling factor (mfd). Al	96.28
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	96.28
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	96.27
TIGR00595	505	priA primosomal protein N'. All proteins in this f	96.26
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	96.26
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.26
PRK05973	237	replicative DNA helicase; Provisional	96.25
COG1200	677	RecG RecG-like helicase [DNA replication, recombin	96.24
PF05876	557	Terminase_GpA: Phage terminase large subunit (GpA)	96.23
PRK08939	306	primosomal protein DnaI; Reviewed	96.22
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	96.2
PRK04195	482	replication factor C large subunit; Provisional	96.19
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.19
PRK14873	665	primosome assembly protein PriA; Provisional	96.19
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.18
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.18
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	96.17
PRK11823	446	DNA repair protein RadA; Provisional	96.14
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.13
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.12
PRK13341	725	recombination factor protein RarA/unknown domain f	96.11
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	96.11
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.1
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.1
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	96.09
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.07
COG0593	408	DnaA ATPase involved in DNA replication initiation	96.04
PF05729	166	NACHT: NACHT domain	96.04
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	96.04
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	96.03
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.02
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	96.02
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	96.0
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.98
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	95.98
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	95.97
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.96
PRK10867	433	signal recognition particle protein; Provisional	95.96
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	95.95
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	95.92
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	95.91
PRK06964	342	DNA polymerase III subunit delta'; Validated	95.9
PF02572	172	CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase	95.88
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	95.88
PRK04328	249	hypothetical protein; Provisional	95.87
PF03237	384	Terminase_6: Terminase-like family; InterPro: IPR0	95.86
PRK10689	1147	transcription-repair coupling factor; Provisional	95.85
PRK06067	234	flagellar accessory protein FlaH; Validated	95.83
PRK07471	365	DNA polymerase III subunit delta'; Validated	95.82
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	95.81
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	95.81
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	95.79
COG1110	1187	Reverse gyrase [DNA replication, recombination, an	95.78
PRK09112	351	DNA polymerase III subunit delta'; Validated	95.77
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	95.77
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	95.77
COG1444	758	Predicted P-loop ATPase fused to an acetyltransfer	95.7
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.68
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	95.65
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	95.63
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.62
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	95.62
PRK06620	214	hypothetical protein; Validated	95.61
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	95.61
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	95.6
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	95.6
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	95.6
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	95.59
COG4962	355	CpaF Flp pilus assembly protein, ATPase CpaF [Intr	95.59
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	95.57
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	95.57
PRK07993	334	DNA polymerase III subunit delta'; Validated	95.5
TIGR00959	428	ffh signal recognition particle protein. This mode	95.45
PHA03372	668	DNA packaging terminase subunit 1; Provisional	95.45
PRK04841	903	transcriptional regulator MalT; Provisional	95.44
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	95.43
PRK06871	325	DNA polymerase III subunit delta'; Validated	95.42
PRK07940	394	DNA polymerase III subunit delta'; Validated	95.42
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	95.4
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	95.4
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	95.39
PRK13851	344	type IV secretion system protein VirB11; Provision	95.35
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	95.34
COG0513	513	SrmB Superfamily II DNA and RNA helicases [DNA rep	95.32
COG3972	660	Superfamily I DNA and RNA helicases [General funct	95.31
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	95.31
PRK06090	319	DNA polymerase III subunit delta'; Validated	95.28
PRK09376	416	rho transcription termination factor Rho; Provisio	95.26
COG1197	1139	Mfd Transcription-repair coupling factor (superfam	95.23
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	95.22
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.2
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.17
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	95.16
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.14
PHA00729	226	NTP-binding motif containing protein	95.13
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	95.13
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	95.13
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	95.11
TIGR00767	415	rho transcription termination factor Rho. Members	95.1
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	95.08
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	95.07
PRK06904	472	replicative DNA helicase; Validated	95.06
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	95.06
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	95.05
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	95.05
PHA00012	361	I assembly protein	95.04
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	95.03
COG0210	655	UvrD Superfamily I DNA and RNA helicases [DNA repl	95.02
COG1198	730	PriA Primosomal protein N' (replication factor Y)	94.98
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	94.97
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	94.96
PRK10416	318	signal recognition particle-docking protein FtsY;	94.94
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	94.92
PRK09354	349	recA recombinase A; Provisional	94.9
PRK03992	389	proteasome-activating nucleotidase; Provisional	94.84
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	94.76
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	94.69
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	94.64
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	94.63
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.63
cd01128	249	rho_factor Transcription termination factor rho is	94.61
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	94.59
COG2109	198	BtuR ATP:corrinoid adenosyltransferase [Coenzyme m	94.59
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	94.52
PRK10436	462	hypothetical protein; Provisional	94.51
KOG0333	673	consensus U5 snRNP-like RNA helicase subunit [RNA	94.46
PRK08506	472	replicative DNA helicase; Provisional	94.44
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	94.43
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	94.41
PRK13764	602	ATPase; Provisional	94.4
PHA00350	399	putative assembly protein	94.38
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	94.37
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	94.37
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	94.33
TIGR02533	486	type_II_gspE general secretory pathway protein E.	94.31
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	94.31
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	94.3
PRK08840	464	replicative DNA helicase; Provisional	94.3
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	94.29
PF06733	174	DEAD_2: DEAD_2; InterPro: IPR010614 This represent	94.15
PRK07414	178	cob(I)yrinic acid a,c-diamide adenosyltransferase;	94.07
PHA02535	581	P terminase ATPase subunit; Provisional	94.06
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	93.98
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	93.97
PRK10865	857	protein disaggregation chaperone; Provisional	93.92
PRK07399	314	DNA polymerase III subunit delta'; Validated	93.89
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	93.88
KOG0736	953	consensus Peroxisome assembly factor 2 containing	93.87
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	93.86
cd01126	384	TraG_VirD4 The TraG/TraD/VirD4 family are bacteria	93.85
PRK08058	329	DNA polymerase III subunit delta'; Validated	93.83
CHL00176	638	ftsH cell division protein; Validated	93.83
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	93.83
CHL00095	821	clpC Clp protease ATP binding subunit	93.82
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	93.82
PRK07004	460	replicative DNA helicase; Provisional	93.75
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	93.74
PRK14701	1638	reverse gyrase; Provisional	93.71
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	93.71
KOG0338	691	consensus ATP-dependent RNA helicase [RNA processi	93.7
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	93.68
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	93.65
PRK09087	226	hypothetical protein; Validated	93.65
PF02534	469	T4SS-DNA_transf: Type IV secretory system Conjugat	93.64
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	93.61
cd00268	203	DEADc DEAD-box helicases. A diverse family of prot	93.6
PRK05748	448	replicative DNA helicase; Provisional	93.54
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	93.52
PRK08006	471	replicative DNA helicase; Provisional	93.5
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	93.46
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	93.43
PF12846	304	AAA_10: AAA-like domain	93.41
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	93.38
PRK13695	174	putative NTPase; Provisional	93.38
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	93.33
TIGR02784	1141	addA_alphas double-strand break repair helicase Ad	93.32
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	93.26
cd03239	178	ABC_SMC_head The structural maintenance of chromos	93.18
COG1074	1139	RecB ATP-dependent exoDNAse (exonuclease V) beta s	93.18
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	93.17
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	93.16

>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.6e-63  Score=389.39  Aligned_cols=342  Identities=75%  Similarity=1.133  Sum_probs=331.2

Q ss_pred             CCCCCCCCcceeecccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHH
Q 018574           12 GGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV   91 (354)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~   91 (354)
                      .....+.+...++++++.+...+|+++|+.+++++.+...||..|...|+.++..+++|++++.++..|+|||.+|...+
T Consensus         6 ~~~~~~~~~~~feTs~~~~v~~~F~~Mgl~edlLrgiY~yGfekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~si~v   85 (400)
T KOG0328|consen    6 LFTMEDMDTVEFETSEKVKVIPTFDDMGLKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFSISV   85 (400)
T ss_pred             hcccccccceeEeeccCcccccchhhcCchHHHHHHHHHhccCCchHHHhhhhhhhhcccceEEEecCCCCceEEEEeee
Confidence            34456778888899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCc
Q 018574           92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL  171 (354)
Q Consensus        92 ~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~  171 (354)
                      ++.+.-+.+..++|++.||++|+.|+.+.+..++...++.+..+.||.+..++..++..+.+++.+||+++.+++++..+
T Consensus        86 lq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mnvq~hacigg~n~gedikkld~G~hvVsGtPGrv~dmikr~~L  165 (400)
T KOG0328|consen   86 LQSLDISVRETQALILSPTRELAVQIQKVILALGDYMNVQCHACIGGKNLGEDIKKLDYGQHVVSGTPGRVLDMIKRRSL  165 (400)
T ss_pred             eeecccccceeeEEEecChHHHHHHHHHHHHHhcccccceEEEEecCCccchhhhhhcccceEeeCCCchHHHHHHhccc
Confidence            99988888888999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEE
Q 018574          172 RTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFV  251 (354)
Q Consensus       172 ~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (354)
                      ..+.+.++|+||++.+++.+|..++..+++.+|++.|++++|||+|.++.++.+.|..+|..+...+++...+++.++|.
T Consensus       166 ~tr~vkmlVLDEaDemL~kgfk~Qiydiyr~lp~~~Qvv~~SATlp~eilemt~kfmtdpvrilvkrdeltlEgIKqf~v  245 (400)
T KOG0328|consen  166 RTRAVKMLVLDEADEMLNKGFKEQIYDIYRYLPPGAQVVLVSATLPHEILEMTEKFMTDPVRILVKRDELTLEGIKQFFV  245 (400)
T ss_pred             cccceeEEEeccHHHHHHhhHHHHHHHHHHhCCCCceEEEEeccCcHHHHHHHHHhcCCceeEEEecCCCchhhhhhhee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccc
Q 018574          252 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDV  331 (354)
Q Consensus       252 ~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~  331 (354)
                      .+..++||.+.|..+.....-.+++|||+++..++.+.+.+++.++.+...||+++.++|+.++++|++|+.+||++|++
T Consensus       246 ~ve~EewKfdtLcdLYd~LtItQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~SrvLitTDV  325 (400)
T KOG0328|consen  246 AVEKEEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTDV  325 (400)
T ss_pred             eechhhhhHhHHHHHhhhhehheEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCceEEEEech
Confidence            99999999999999999998899999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCCCcCCCcEEEecCCCCCC
Q 018574          332 WARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       332 ~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +++|+|+|.+++|||||+|.+.
T Consensus       326 waRGiDv~qVslviNYDLP~nr  347 (400)
T KOG0328|consen  326 WARGIDVQQVSLVINYDLPNNR  347 (400)
T ss_pred             hhccCCcceeEEEEecCCCccH
Confidence            9999999999999999999875

>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=3.1e-61  Score=393.48  Aligned_cols=326  Identities=30%  Similarity=0.504  Sum_probs=312.9

Q ss_pred             cCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEE
Q 018574           27 EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALI  106 (354)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~li  106 (354)
                      ...++..+|.++++.|+++++++..|+..|+++|+++++.++.|+++|..|.||||||.+|++|+++.+......+.++|
T Consensus        55 ~~~e~~~sf~dLgv~~~L~~ac~~l~~~~PT~IQ~~aiP~~L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lV  134 (476)
T KOG0330|consen   55 QTDESFKSFADLGVHPELLEACQELGWKKPTKIQSEAIPVALGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALV  134 (476)
T ss_pred             hhhhhhcchhhcCcCHHHHHHHHHhCcCCCchhhhhhcchhhCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEE
Confidence            34678899999999999999999999999999999999999999999999999999999999999999999888899999


Q ss_pred             EcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc-CCccCCCccEEEEecch
Q 018574          107 LSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDESD  185 (354)
Q Consensus       107 l~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~-~~~~~~~~~~vvvDE~h  185 (354)
                      ++|+++|+.|+.+.++.++...++.+..+.||.+...+...+.+.++|+|+||++|.+++++ ..+.+..++++|+||||
T Consensus       135 LtPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~q~~~L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEAD  214 (476)
T KOG0330|consen  135 LTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQLSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEAD  214 (476)
T ss_pred             ecCcHHHHHHHHHHHHHhccccCeEEEEEecCchHHHHHHHhhcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhchHH
Confidence            99999999999999999999999999999999999999999999999999999999999985 67888999999999999


Q ss_pred             hhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHH
Q 018574          186 EMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCD  265 (354)
Q Consensus       186 ~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  265 (354)
                      ++++.+|...+..|++.+|..+|.+++|||++..+..+....+..|..+.........+.+.+.|..++... +...|..
T Consensus       215 rlLd~dF~~~ld~ILk~ip~erqt~LfsATMt~kv~kL~rasl~~p~~v~~s~ky~tv~~lkQ~ylfv~~k~-K~~yLV~  293 (476)
T KOG0330|consen  215 RLLDMDFEEELDYILKVIPRERQTFLFSATMTKKVRKLQRASLDNPVKVAVSSKYQTVDHLKQTYLFVPGKD-KDTYLVY  293 (476)
T ss_pred             hhhhhhhHHHHHHHHHhcCccceEEEEEeecchhhHHHHhhccCCCeEEeccchhcchHHhhhheEeccccc-cchhHHH
Confidence            999999999999999999999999999999999999999899999999999988888999999999998877 9999999


Q ss_pred             HHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEE
Q 018574          266 LYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFF  345 (354)
Q Consensus       266 ~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi  345 (354)
                      +++...+..+||||++...++.++-.|+..|+.+..+||.|+...|...++.|++|..+||+||+++++|+|+|.+++||
T Consensus       294 ll~e~~g~s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~TDVaSRGLDip~Vd~VV  373 (476)
T KOG0330|consen  294 LLNELAGNSVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTDVASRGLDIPHVDVVV  373 (476)
T ss_pred             HHHhhcCCcEEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhccCCcEEEecchhcccCCCCCceEEE
Confidence            99999989999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCCCC
Q 018574          346 FLFLFCNV  353 (354)
Q Consensus       346 ~~~~p~s~  353 (354)
                      |||+|.+.
T Consensus       374 NyDiP~~s  381 (476)
T KOG0330|consen  374 NYDIPTHS  381 (476)
T ss_pred             ecCCCCcH
Confidence            99999863

>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=2.4e-59  Score=406.28  Aligned_cols=321  Identities=33%  Similarity=0.567  Sum_probs=298.3

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc------CCCceeEEE
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT------SSREVQALI  106 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~------~~~~~~~li  106 (354)
                      ..|..+++++.....++..||..|+|+|.+.|+.++.|++++..+.||||||++|++|++.++..      ...++.+||
T Consensus        91 ~~f~~~~ls~~~~~~lk~~g~~~PtpIQaq~wp~~l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLV  170 (519)
T KOG0331|consen   91 AAFQELGLSEELMKALKEQGFEKPTPIQAQGWPIALSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLV  170 (519)
T ss_pred             hhhhcccccHHHHHHHHhcCCCCCchhhhcccceeccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEE
Confidence            37889999999999999999999999999999999999999999999999999999999998875      445788999


Q ss_pred             EcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          107 LSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       107 l~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      ++||++|+.|+.+.+..++....+...++.||.....+...+.++.+|+|+||+++.++++...+.++++.++|+||||+
T Consensus       171 L~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~~Q~~~l~~gvdiviaTPGRl~d~le~g~~~l~~v~ylVLDEADr  250 (519)
T KOG0331|consen  171 LAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQLRDLERGVDVVIATPGRLIDLLEEGSLNLSRVTYLVLDEADR  250 (519)
T ss_pred             EcCcHHHHHHHHHHHHHHcCCCCccEEEEeCCCCccHHHHHHhcCCcEEEeCChHHHHHHHcCCccccceeEEEeccHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccCcHHHHHHHHhhC-CCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCc--ccccCceeEEEEeccccchHHHH
Q 018574          187 MLSRGFKDQIYDVYRYL-PPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE--LTLEGIKQFFVAVEREEWKFDTL  263 (354)
Q Consensus       187 ~~~~~~~~~~~~i~~~~-~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l  263 (354)
                      |++.+|...+..|+..+ +++.|.++.|||+|..+..+...++.++..+.+....  ....++.+....++.. .+...+
T Consensus       251 MldmGFe~qI~~Il~~i~~~~rQtlm~saTwp~~v~~lA~~fl~~~~~i~ig~~~~~~a~~~i~qive~~~~~-~K~~~l  329 (519)
T KOG0331|consen  251 MLDMGFEPQIRKILSQIPRPDRQTLMFSATWPKEVRQLAEDFLNNPIQINVGNKKELKANHNIRQIVEVCDET-AKLRKL  329 (519)
T ss_pred             hhccccHHHHHHHHHhcCCCcccEEEEeeeccHHHHHHHHHHhcCceEEEecchhhhhhhcchhhhhhhcCHH-HHHHHH
Confidence            99999999999999999 5566899999999999999999999999888877543  4567788888888744 477777


Q ss_pred             HHHHhhC---CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCC
Q 018574          264 CDLYDTL---TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ  340 (354)
Q Consensus       264 ~~~l~~~---~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~  340 (354)
                      ..++...   ..+|+||||++++.+++++..|++.++.+..+||+.++.+|..+++.|++|+..|||||+++++|+|+|+
T Consensus       330 ~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdVAaRGLDi~d  409 (519)
T KOG0331|consen  330 GKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDVAARGLDVPD  409 (519)
T ss_pred             HHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhcccCCcceEEEcccccccCCCcc
Confidence            7777765   3569999999999999999999998899999999999999999999999999999999999999999999


Q ss_pred             CcEEEecCCCCCCC
Q 018574          341 AILFFFLFLFCNVF  354 (354)
Q Consensus       341 ~~~Vi~~~~p~s~~  354 (354)
                      +++|||||+|.|++
T Consensus       410 V~lVInydfP~~vE  423 (519)
T KOG0331|consen  410 VDLVINYDFPNNVE  423 (519)
T ss_pred             ccEEEeCCCCCCHH
Confidence            99999999999874

>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=9.1e-57  Score=406.44  Aligned_cols=322  Identities=41%  Similarity=0.655  Sum_probs=303.1

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-CCCcee-EEEEcCC
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQ-ALILSPT  110 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~-~lil~p~  110 (354)
                      .+|.++++++.+.+++.+.||..|+++|..+++.++.|+++++.++||+|||.+|++|+++.+.. ...... +||++||
T Consensus        29 ~~F~~l~l~~~ll~~l~~~gf~~pt~IQ~~~IP~~l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PT  108 (513)
T COG0513          29 PEFASLGLSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPT  108 (513)
T ss_pred             CCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCC
Confidence            67999999999999999999999999999999999999999999999999999999999999774 222222 9999999


Q ss_pred             HHHHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc
Q 018574          111 RELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       111 ~~l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      ++|+.|+++.+..+.... ++.+..+.||.+...+...+..+++|+|+||+++.++++...+.+..+.++|+||||+|++
T Consensus       109 RELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~~~l~~~~~ivVaTPGRllD~i~~~~l~l~~v~~lVlDEADrmLd  188 (513)
T COG0513         109 RELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEADRMLD  188 (513)
T ss_pred             HHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHHHHHhcCCCEEEECccHHHHHHHcCCcchhhcCEEEeccHhhhhc
Confidence            999999999999999988 7999999999999999988888899999999999999999999999999999999999999


Q ss_pred             cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcc--cccCceeEEEEeccccchHHHHHHHH
Q 018574          190 RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL--TLEGIKQFFVAVEREEWKFDTLCDLY  267 (354)
Q Consensus       190 ~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~l  267 (354)
                      .+|.+.+..++..++.+.|.+++|||++..+..+...++.+|..+.......  ....+.+++..+.....+...|..++
T Consensus       189 ~Gf~~~i~~I~~~~p~~~qtllfSAT~~~~i~~l~~~~l~~p~~i~v~~~~~~~~~~~i~q~~~~v~~~~~k~~~L~~ll  268 (513)
T COG0513         189 MGFIDDIEKILKALPPDRQTLLFSATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEVESEEEKLELLLKLL  268 (513)
T ss_pred             CCCHHHHHHHHHhCCcccEEEEEecCCCHHHHHHHHHHccCCcEEEEccccccccccCceEEEEEeCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999998888775555  78899999999987666999999999


Q ss_pred             hhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEec
Q 018574          268 DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFL  347 (354)
Q Consensus       268 ~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~  347 (354)
                      ......++||||+++..+++++..|+..|+.+..+||++++.+|.++++.|++|+.+|||||+++++|||+|++++||||
T Consensus       269 ~~~~~~~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaTDvaaRGiDi~~v~~Viny  348 (513)
T COG0513         269 KDEDEGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGLDIPDVSHVINY  348 (513)
T ss_pred             hcCCCCeEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEechhhccCCccccceeEEc
Confidence            99888899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCC
Q 018574          348 FLFCNVF  354 (354)
Q Consensus       348 ~~p~s~~  354 (354)
                      |+|.+++
T Consensus       349 D~p~~~e  355 (513)
T COG0513         349 DLPLDPE  355 (513)
T ss_pred             cCCCCHH
Confidence            9998763

>PRK04837 ATP-dependent RNA helicase RhlB; Provisional

Probab=100.00  E-value=2.9e-55  Score=392.82  Aligned_cols=324  Identities=30%  Similarity=0.417  Sum_probs=289.6

Q ss_pred             cccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC-------CCc
Q 018574           29 VEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS-------SRE  101 (354)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~-------~~~  101 (354)
                      ..+..+|+++++++++.+++...||..|+++|.++++.+++|+++++.||||+|||++|++|++..+...       ..+
T Consensus         4 ~~~~~~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~   83 (423)
T PRK04837          4 HLTEQKFSDFALHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQ   83 (423)
T ss_pred             cCCCCCHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCC
Confidence            3455789999999999999999999999999999999999999999999999999999999999877532       234


Q ss_pred             eeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEE
Q 018574          102 VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVL  181 (354)
Q Consensus       102 ~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvv  181 (354)
                      +++||++|+++|+.|+.+.+..+....++.+..+.||.+...+...+..+++|+|+||+++.+++....+.+.+++++|+
T Consensus        84 ~~~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l~~~~~IlV~TP~~l~~~l~~~~~~l~~v~~lVi  163 (423)
T PRK04837         84 PRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVL  163 (423)
T ss_pred             ceEEEECCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhcCCCCEEEECHHHHHHHHHcCCcccccccEEEE
Confidence            68999999999999999999999988899999999998888877778888999999999999999888888999999999


Q ss_pred             ecchhhhccCcHHHHHHHHhhCCC--CCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccch
Q 018574          182 DESDEMLSRGFKDQIYDVYRYLPP--DLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK  259 (354)
Q Consensus       182 DE~h~~~~~~~~~~~~~i~~~~~~--~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (354)
                      ||||++.+.+|...+..++..++.  ..+.+++|||++..........+.++..+...........+.+.+.... ...+
T Consensus       164 DEad~l~~~~f~~~i~~i~~~~~~~~~~~~~l~SAT~~~~~~~~~~~~~~~p~~i~v~~~~~~~~~i~~~~~~~~-~~~k  242 (423)
T PRK04837        164 DEADRMFDLGFIKDIRWLFRRMPPANQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKEELFYPS-NEEK  242 (423)
T ss_pred             ecHHHHhhcccHHHHHHHHHhCCCccceeEEEEeccCCHHHHHHHHHHCCCCEEEEEcCCCcCCCceeEEEEeCC-HHHH
Confidence            999999999999999999998874  4567899999999988888888888887777665555555555544433 3347


Q ss_pred             HHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcC
Q 018574          260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       260 ~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~  339 (354)
                      ...+..++.....+++||||++++.++.++..|...++.+..+||+++..+|..++++|++|+.+|||||+++++|+|+|
T Consensus       243 ~~~l~~ll~~~~~~~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~g~~~vLVaTdv~~rGiDip  322 (423)
T PRK04837        243 MRLLQTLIEEEWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDVAARGLHIP  322 (423)
T ss_pred             HHHHHHHHHhcCCCeEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHcCCCcEEEEechhhcCCCcc
Confidence            88888888877778999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEecCCCCCC
Q 018574          340 QAILFFFLFLFCNV  353 (354)
Q Consensus       340 ~~~~Vi~~~~p~s~  353 (354)
                      ++++||+||+|.|+
T Consensus       323 ~v~~VI~~d~P~s~  336 (423)
T PRK04837        323 AVTHVFNYDLPDDC  336 (423)
T ss_pred             ccCEEEEeCCCCch
Confidence            99999999999986

>PRK11776 ATP-dependent RNA helicase DbpA; Provisional

Probab=100.00  E-value=3.5e-55  Score=396.37  Aligned_cols=320  Identities=37%  Similarity=0.602  Sum_probs=294.8

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      ..+|+++++++.+.+++.+.||..|+++|.++++.+++|+++++.+|||+|||.+|++|+++.+.......++||++|++
T Consensus         3 ~~~f~~l~l~~~l~~~l~~~g~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~Ptr   82 (460)
T PRK11776          3 MTAFSTLPLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTR   82 (460)
T ss_pred             CCChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCH
Confidence            36799999999999999999999999999999999999999999999999999999999999987665566899999999


Q ss_pred             HHHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc
Q 018574          112 ELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       112 ~l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      +|+.|+.+.++.+.... ++++..+.|+.+...+...+..+++|+|+||+++.+++.+..+.+.++++||+||||++.+.
T Consensus        83 eLa~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~~~~l~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~~l~~  162 (460)
T PRK11776         83 ELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLDM  162 (460)
T ss_pred             HHHHHHHHHHHHHHhhCCCcEEEEEECCCChHHHHHHhcCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHHHHhCc
Confidence            99999999999887654 68899999999988888888888999999999999999888888899999999999999999


Q ss_pred             CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhC
Q 018574          191 GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL  270 (354)
Q Consensus       191 ~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~  270 (354)
                      +|...+..++..++...|.+++|||+++....+...++.++..+...... ....+.+.+..+.... +...+..++...
T Consensus       163 g~~~~l~~i~~~~~~~~q~ll~SAT~~~~~~~l~~~~~~~~~~i~~~~~~-~~~~i~~~~~~~~~~~-k~~~l~~ll~~~  240 (460)
T PRK11776        163 GFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTH-DLPAIEQRFYEVSPDE-RLPALQRLLLHH  240 (460)
T ss_pred             CcHHHHHHHHHhCCcccEEEEEEecCcHHHHHHHHHhcCCCEEEEECcCC-CCCCeeEEEEEeCcHH-HHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999988877765543 3455777777777666 888999999888


Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      ..+++||||++++.++.+++.|.+.++.+..+||++++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|
T Consensus       241 ~~~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaTdv~~rGiDi~~v~~VI~~d~p  320 (460)
T PRK11776        241 QPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVINYELA  320 (460)
T ss_pred             CCCceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEecccccccchhcCCeEEEecCC
Confidence            88899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCC
Q 018574          351 CNV  353 (354)
Q Consensus       351 ~s~  353 (354)
                      .|+
T Consensus       321 ~~~  323 (460)
T PRK11776        321 RDP  323 (460)
T ss_pred             CCH
Confidence            885

>PRK10590 ATP-dependent RNA helicase RhlE; Provisional

Probab=100.00  E-value=7.2e-55  Score=392.52  Aligned_cols=319  Identities=34%  Similarity=0.557  Sum_probs=290.0

Q ss_pred             CcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC------CceeEEEE
Q 018574           34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS------REVQALIL  107 (354)
Q Consensus        34 ~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~------~~~~~lil  107 (354)
                      +|+++++++++.+.+.+.||..|+++|.++++.+++++++++.+|||+|||++|++|+++.+....      ...++||+
T Consensus         2 ~f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil   81 (456)
T PRK10590          2 SFDSLGLSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALIL   81 (456)
T ss_pred             CHHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEE
Confidence            689999999999999999999999999999999999999999999999999999999998875432      23479999


Q ss_pred             cCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhh
Q 018574          108 SPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM  187 (354)
Q Consensus       108 ~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~  187 (354)
                      +|+++|+.|+.+.+..+....++....+.++.+...+...+...++|+|+||++|.++.....+.++++++||+||||++
T Consensus        82 ~PtreLa~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~l~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~lViDEah~l  161 (456)
T PRK10590         82 TPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLDEADRM  161 (456)
T ss_pred             eCcHHHHHHHHHHHHHHhccCCCEEEEEECCcCHHHHHHHHcCCCcEEEEChHHHHHHHHcCCcccccceEEEeecHHHH
Confidence            99999999999999999888899999999999888888888888999999999999998888888899999999999999


Q ss_pred             hccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHH
Q 018574          188 LSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY  267 (354)
Q Consensus       188 ~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l  267 (354)
                      .+.++...+..++..++...|.+++|||++.....+...++.++..+...........+.+.+..+.... +...+..++
T Consensus       162 l~~~~~~~i~~il~~l~~~~q~l~~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~~~~-k~~~l~~l~  240 (456)
T PRK10590        162 LDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFVDKKR-KRELLSQMI  240 (456)
T ss_pred             hccccHHHHHHHHHhCCccCeEEEEeCCCcHHHHHHHHHHcCCCeEEEEecccccccceeEEEEEcCHHH-HHHHHHHHH
Confidence            9999999999999999999999999999999988888888888887776665555566666666555443 777788888


Q ss_pred             hhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEec
Q 018574          268 DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFL  347 (354)
Q Consensus       268 ~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~  347 (354)
                      ......++||||++++.++.+++.|+..++.+..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++++||+|
T Consensus       241 ~~~~~~~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaTdv~~rGiDip~v~~VI~~  320 (456)
T PRK10590        241 GKGNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNY  320 (456)
T ss_pred             HcCCCCcEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEccHHhcCCCcccCCEEEEe
Confidence            87777899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCC
Q 018574          348 FLFCNV  353 (354)
Q Consensus       348 ~~p~s~  353 (354)
                      |+|.++
T Consensus       321 ~~P~~~  326 (456)
T PRK10590        321 ELPNVP  326 (456)
T ss_pred             CCCCCH
Confidence            999985

>PTZ00110 helicase; Provisional

Probab=100.00  E-value=7.8e-55  Score=397.63  Aligned_cols=327  Identities=30%  Similarity=0.473  Sum_probs=289.7

Q ss_pred             ccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC-----CC
Q 018574           26 TEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS-----SR  100 (354)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~-----~~  100 (354)
                      ...+.+..+|+++++++.+.+.+++.||..|+++|.++|+.+++|+++++.+|||||||++|++|++..+...     ..
T Consensus       123 ~~~p~p~~~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~  202 (545)
T PTZ00110        123 ENVPKPVVSFEYTSFPDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGD  202 (545)
T ss_pred             CCCCcccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCC
Confidence            4456778899999999999999999999999999999999999999999999999999999999998776432     23


Q ss_pred             ceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEE
Q 018574          101 EVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLV  180 (354)
Q Consensus       101 ~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vv  180 (354)
                      ++.+|||+||++|+.|+.+.+.+++...++.+..+.++.....+...+..+++|+|+||++|.+++......+.++++||
T Consensus       203 gp~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~gg~~~~~q~~~l~~~~~IlVaTPgrL~d~l~~~~~~l~~v~~lV  282 (545)
T PTZ00110        203 GPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESNVTNLRRVTYLV  282 (545)
T ss_pred             CcEEEEECChHHHHHHHHHHHHHHhcccCccEEEEeCCCCHHHHHHHHHcCCCEEEECHHHHHHHHHcCCCChhhCcEEE
Confidence            57899999999999999999999998888999999999888888888888899999999999999998888889999999


Q ss_pred             EecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccC-CCeEEEecCCc-ccccCceeEEEEeccccc
Q 018574          181 LDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMT-DPVKILVKRDE-LTLEGIKQFFVAVEREEW  258 (354)
Q Consensus       181 vDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  258 (354)
                      +||||++++.+|...+..++..++++.|++++|||++.+...+...++. .+..+...... .....+.+.+..+.... 
T Consensus       283 iDEAd~mld~gf~~~i~~il~~~~~~~q~l~~SAT~p~~v~~l~~~l~~~~~v~i~vg~~~l~~~~~i~q~~~~~~~~~-  361 (545)
T PTZ00110        283 LDEADRMLDMGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTACHNIKQEVFVVEEHE-  361 (545)
T ss_pred             eehHHhhhhcchHHHHHHHHHhCCCCCeEEEEEeCCCHHHHHHHHHHhccCCEEEEECCCccccCCCeeEEEEEEechh-
Confidence            9999999999999999999999999999999999999998888888775 46665554433 22345566665555443 


Q ss_pred             hHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCC
Q 018574          259 KFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGL  336 (354)
Q Consensus       259 ~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  336 (354)
                      +...+..++...  ...++||||++++.++.++..|+..++.+..+||++++.+|..++++|++|+.+|||||+++++|+
T Consensus       362 k~~~L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~G~~~ILVaTdv~~rGI  441 (545)
T PTZ00110        362 KRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRGL  441 (545)
T ss_pred             HHHHHHHHHHHhcccCCeEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhcCCCcEEEEcchhhcCC
Confidence            777777777654  457999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcCCCcEEEecCCCCCC
Q 018574          337 DVQQAILFFFLFLFCNV  353 (354)
Q Consensus       337 di~~~~~Vi~~~~p~s~  353 (354)
                      |+|++++||+||+|.|+
T Consensus       442 Di~~v~~VI~~d~P~s~  458 (545)
T PTZ00110        442 DVKDVKYVINFDFPNQI  458 (545)
T ss_pred             CcccCCEEEEeCCCCCH
Confidence            99999999999999985

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional

Probab=100.00  E-value=6.2e-55  Score=401.48  Aligned_cols=322  Identities=32%  Similarity=0.523  Sum_probs=296.0

Q ss_pred             cccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC
Q 018574           31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT  110 (354)
Q Consensus        31 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~  110 (354)
                      ...+|.++++++.+++++.++||.+|+++|.++++.+++++++++.||||+|||.+|++|++..+.....++++||++|+
T Consensus         4 ~~~~f~~l~L~~~ll~al~~~G~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PT   83 (629)
T PRK11634          4 FETTFADLGLKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPT   83 (629)
T ss_pred             ccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCc
Confidence            34579999999999999999999999999999999999999999999999999999999999888766566789999999


Q ss_pred             HHHHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc
Q 018574          111 RELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       111 ~~l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      ++|+.|+++.+..+.... ++.+..++++.+...+...+..+++|+|+||+++.+++....+.+.++++||+||||+++.
T Consensus        84 reLa~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~q~~~l~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~ml~  163 (629)
T PRK11634         84 RELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLR  163 (629)
T ss_pred             HHHHHHHHHHHHHHHhhcCCceEEEEECCcCHHHHHHHhcCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHHHHhh
Confidence            999999999999887654 7888999999988888888888899999999999999988888889999999999999999


Q ss_pred             cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhh
Q 018574          190 RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT  269 (354)
Q Consensus       190 ~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~  269 (354)
                      .+|...+..++..++...|.+++|||++.....+...++.++..+.+.......+.+.+.+..+.... +...+..++..
T Consensus       164 ~gf~~di~~Il~~lp~~~q~llfSAT~p~~i~~i~~~~l~~~~~i~i~~~~~~~~~i~q~~~~v~~~~-k~~~L~~~L~~  242 (629)
T PRK11634        164 MGFIEDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVWGMR-KNEALVRFLEA  242 (629)
T ss_pred             cccHHHHHHHHHhCCCCCeEEEEEccCChhHHHHHHHHcCCCeEEEccCccccCCceEEEEEEechhh-HHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999988877776666777777777666544 88888888888


Q ss_pred             CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          270 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       270 ~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      ....++||||+++..++.+++.|...++.+..+||++++.+|.++++.|++|+.+|||||+++++|+|+|++++||+||+
T Consensus       243 ~~~~~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVATdv~arGIDip~V~~VI~~d~  322 (629)
T PRK11634        243 EDFDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYDI  322 (629)
T ss_pred             cCCCCEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEcchHhcCCCcccCCEEEEeCC
Confidence            77789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCC
Q 018574          350 FCNV  353 (354)
Q Consensus       350 p~s~  353 (354)
                      |.++
T Consensus       323 P~~~  326 (629)
T PRK11634        323 PMDS  326 (629)
T ss_pred             CCCH
Confidence            9875

>PRK04537 ATP-dependent RNA helicase RhlB; Provisional

Probab=100.00  E-value=3.4e-54  Score=394.62  Aligned_cols=321  Identities=31%  Similarity=0.479  Sum_probs=287.1

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC-------CCceeE
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS-------SREVQA  104 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~-------~~~~~~  104 (354)
                      ..+|+++++++.+.+.|.+.||..|+++|.++++.+++|+++++.+|||+|||++|++|++..+...       ...+++
T Consensus         8 ~~~f~~l~l~~~l~~~L~~~g~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~ra   87 (572)
T PRK04537          8 DLTFSSFDLHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRA   87 (572)
T ss_pred             CCChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceE
Confidence            3579999999999999999999999999999999999999999999999999999999999877432       124689


Q ss_pred             EEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC-CccCCCccEEEEec
Q 018574          105 LILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK-TLRTRAIKLLVLDE  183 (354)
Q Consensus       105 lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~-~~~~~~~~~vvvDE  183 (354)
                      ||++|+++|+.|+++.+..++...++.+..++|+.....+...+..+++|+|+||++|.+++... .+.+..+++||+||
T Consensus        88 LIl~PTreLa~Qi~~~~~~l~~~~~i~v~~l~Gg~~~~~q~~~l~~~~dIiV~TP~rL~~~l~~~~~~~l~~v~~lViDE  167 (572)
T PRK04537         88 LILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDE  167 (572)
T ss_pred             EEEeCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHHhCCCCEEEECHHHHHHHHHhccccchhheeeeEecC
Confidence            99999999999999999999988899999999999888777777778999999999999988764 46678899999999


Q ss_pred             chhhhccCcHHHHHHHHhhCCC--CCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHH
Q 018574          184 SDEMLSRGFKDQIYDVYRYLPP--DLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFD  261 (354)
Q Consensus       184 ~h~~~~~~~~~~~~~i~~~~~~--~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  261 (354)
                      +|++.+.+|...+..++..++.  ..|++++|||++..+..+...++..+..+...........+.+.+...... .+..
T Consensus       168 Ah~lld~gf~~~i~~il~~lp~~~~~q~ll~SATl~~~v~~l~~~~l~~p~~i~v~~~~~~~~~i~q~~~~~~~~-~k~~  246 (572)
T PRK04537        168 ADRMFDLGFIKDIRFLLRRMPERGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFPADE-EKQT  246 (572)
T ss_pred             HHHHhhcchHHHHHHHHHhcccccCceEEEEeCCccHHHHHHHHHHhcCCcEEEeccccccccceeEEEEecCHH-HHHH
Confidence            9999999999999999998876  689999999999999888888888887776665555555666665554443 4788


Q ss_pred             HHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCC
Q 018574          262 TLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQA  341 (354)
Q Consensus       262 ~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~  341 (354)
                      .+..++......++||||++++.++.+++.|.+.++.+..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++
T Consensus       247 ~L~~ll~~~~~~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTdv~arGIDip~V  326 (572)
T PRK04537        247 LLLGLLSRSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGLHIDGV  326 (572)
T ss_pred             HHHHHHhcccCCcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEehhhhcCCCccCC
Confidence            88888888777899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEecCCCCCC
Q 018574          342 ILFFFLFLFCNV  353 (354)
Q Consensus       342 ~~Vi~~~~p~s~  353 (354)
                      ++||+||+|.|+
T Consensus       327 ~~VInyd~P~s~  338 (572)
T PRK04537        327 KYVYNYDLPFDA  338 (572)
T ss_pred             CEEEEcCCCCCH
Confidence            999999999885

>PRK11192 ATP-dependent RNA helicase SrmB; Provisional

Probab=100.00  E-value=1.4e-53  Score=383.77  Aligned_cols=320  Identities=28%  Similarity=0.462  Sum_probs=291.7

Q ss_pred             CcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC----CCceeEEEEcC
Q 018574           34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS----SREVQALILSP  109 (354)
Q Consensus        34 ~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~----~~~~~~lil~p  109 (354)
                      +|+++++++.+.+.+++.||..|+++|.++++.+++|+++++.+|||+|||.+|++|+++.+...    ....++||++|
T Consensus         2 ~f~~l~l~~~l~~~l~~~g~~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~P   81 (434)
T PRK11192          2 TFSELELDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTP   81 (434)
T ss_pred             CHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECC
Confidence            69999999999999999999999999999999999999999999999999999999999877532    22357999999


Q ss_pred             CHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc
Q 018574          110 TRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       110 ~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      +++|+.|+.+.+..+....++.+..+.|+.........+..+++|+|+||++|.+++....+...++++||+||||++.+
T Consensus        82 t~eLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEah~~l~  161 (434)
T PRK11192         82 TRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRMLD  161 (434)
T ss_pred             cHHHHHHHHHHHHHHHccCCcEEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEECHHHHhC
Confidence            99999999999999998889999999999988887777777899999999999999988888889999999999999999


Q ss_pred             cCcHHHHHHHHhhCCCCCcEEEEEeeCch-hHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh
Q 018574          190 RGFKDQIYDVYRYLPPDLQVVLISATLPH-EILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD  268 (354)
Q Consensus       190 ~~~~~~~~~i~~~~~~~~~~i~lSaT~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~  268 (354)
                      .+|...+..+....+...|.+++|||++. ....+...++.++..+...........+.+++........+...+..+++
T Consensus       162 ~~~~~~~~~i~~~~~~~~q~~~~SAT~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~~~~~k~~~l~~l~~  241 (434)
T PRK11192        162 MGFAQDIETIAAETRWRKQTLLFSATLEGDAVQDFAERLLNDPVEVEAEPSRRERKKIHQWYYRADDLEHKTALLCHLLK  241 (434)
T ss_pred             CCcHHHHHHHHHhCccccEEEEEEeecCHHHHHHHHHHHccCCEEEEecCCcccccCceEEEEEeCCHHHHHHHHHHHHh
Confidence            99999999999999888999999999975 46777777788888877776666667788887777766668888999888


Q ss_pred             hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       269 ~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      .....++||||++++.++.++..|+..++.+..+||+++..+|..+++.|++|+.+|||||+++++|+|+|++++||+||
T Consensus       242 ~~~~~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaTd~~~~GiDip~v~~VI~~d  321 (434)
T PRK11192        242 QPEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVINFD  321 (434)
T ss_pred             cCCCCeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEccccccCccCCCCCEEEEEC
Confidence            77778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCC
Q 018574          349 LFCNV  353 (354)
Q Consensus       349 ~p~s~  353 (354)
                      +|.|.
T Consensus       322 ~p~s~  326 (434)
T PRK11192        322 MPRSA  326 (434)
T ss_pred             CCCCH
Confidence            99885

>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional

Probab=100.00  E-value=1.4e-53  Score=388.45  Aligned_cols=327  Identities=28%  Similarity=0.486  Sum_probs=288.3

Q ss_pred             cccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-------
Q 018574           25 TTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-------   97 (354)
Q Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-------   97 (354)
                      ....+.++.+|+++++++.+.+.+.+.||..|+++|.++++.+++|+++++.+|||+|||++|++|++..+..       
T Consensus       113 g~~~p~pi~~f~~~~l~~~l~~~L~~~g~~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~  192 (518)
T PLN00206        113 GEAVPPPILSFSSCGLPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPS  192 (518)
T ss_pred             CCCCCchhcCHHhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHhhcccccc
Confidence            3445678899999999999999999999999999999999999999999999999999999999999977642       


Q ss_pred             CCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCcc
Q 018574           98 SSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIK  177 (354)
Q Consensus        98 ~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~  177 (354)
                      ...++++||++|+++|+.|+.+.++.+....++....+.+|.....+...+..+++|+|+||++|.+++......+.+++
T Consensus       193 ~~~~~~aLIL~PTreLa~Qi~~~~~~l~~~~~~~~~~~~gG~~~~~q~~~l~~~~~IiV~TPgrL~~~l~~~~~~l~~v~  272 (518)
T PLN00206        193 EQRNPLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRLIDLLSKHDIELDNVS  272 (518)
T ss_pred             ccCCceEEEEeCCHHHHHHHHHHHHHHhCCCCceEEEEECCcchHHHHHHhcCCCCEEEECHHHHHHHHHcCCccchhee
Confidence            22467899999999999999999999988888888889999888888778888899999999999999988888889999


Q ss_pred             EEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEecccc
Q 018574          178 LLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREE  257 (354)
Q Consensus       178 ~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  257 (354)
                      +||+||||++.+.+|...+..++..++ ..|++++|||+++....+...+..++..+...........+.+.+..+....
T Consensus       273 ~lViDEad~ml~~gf~~~i~~i~~~l~-~~q~l~~SATl~~~v~~l~~~~~~~~~~i~~~~~~~~~~~v~q~~~~~~~~~  351 (518)
T PLN00206        273 VLVLDEVDCMLERGFRDQVMQIFQALS-QPQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVETKQ  351 (518)
T ss_pred             EEEeecHHHHhhcchHHHHHHHHHhCC-CCcEEEEEeeCCHHHHHHHHHhCCCCEEEEeCCCCCCCcceeEEEEeccchh
Confidence            999999999999999999999988884 6799999999999999888888888877776655544455566655555444


Q ss_pred             chHHHHHHHHhhCC--CCcEEEEcCchhhHHHHHHHHhc-CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcccccc
Q 018574          258 WKFDTLCDLYDTLT--ITQAVIFCNTKRKVDWLTEKMRG-YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWAR  334 (354)
Q Consensus       258 ~~~~~l~~~l~~~~--~~~~lvf~~~~~~~~~l~~~l~~-~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~  334 (354)
                       +...+..++....  ..++||||+++..++.++..|.. .++.+..+||+++..+|..+++.|++|+.+|||||+++++
T Consensus       352 -k~~~l~~~l~~~~~~~~~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G~~~ILVaTdvl~r  430 (518)
T PLN00206        352 -KKQKLFDILKSKQHFKPPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGR  430 (518)
T ss_pred             -HHHHHHHHHHhhcccCCCEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCCCCCEEEEecHhhc
Confidence             6666677776433  35899999999999999999975 5889999999999999999999999999999999999999


Q ss_pred             CCCcCCCcEEEecCCCCCC
Q 018574          335 GLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       335 Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+|+|++++||+||+|.|+
T Consensus       431 GiDip~v~~VI~~d~P~s~  449 (518)
T PLN00206        431 GVDLLRVRQVIIFDMPNTI  449 (518)
T ss_pred             cCCcccCCEEEEeCCCCCH
Confidence            9999999999999999985

>PTZ00424 helicase 45; Provisional

Probab=100.00  E-value=1.9e-52  Score=374.16  Aligned_cols=323  Identities=65%  Similarity=1.040  Sum_probs=294.4

Q ss_pred             cccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC
Q 018574           31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT  110 (354)
Q Consensus        31 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~  110 (354)
                      ...+|+++++++.+.+++.++||..|+++|.++++.+++++++++.+|||+|||.+|+++++..+.....+.++||++|+
T Consensus        26 ~~~~~~~l~l~~~~~~~l~~~~~~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt  105 (401)
T PTZ00424         26 IVDSFDALKLNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPT  105 (401)
T ss_pred             ccCCHhhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCC
Confidence            46889999999999999999999999999999999999999999999999999999999999888655556789999999


Q ss_pred             HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc
Q 018574          111 RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       111 ~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      ++|+.|+.+.+..++...+..+..+.|+.....+...+..+++|+|+||+++.+.+......+.++++||+||+|++.+.
T Consensus       106 ~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~~~~~  185 (401)
T PTZ00424        106 RELAQQIQKVVLALGDYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEMLSR  185 (401)
T ss_pred             HHHHHHHHHHHHHHhhhcCceEEEEECCcCHHHHHHHHcCCCCEEEECcHHHHHHHHhCCcccccccEEEEecHHHHHhc
Confidence            99999999999999888888888888988887777778888999999999999988887778899999999999999998


Q ss_pred             CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhC
Q 018574          191 GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL  270 (354)
Q Consensus       191 ~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~  270 (354)
                      ++...+..+++.++++.|++++|||++.........+...+..+..........++.+.+........+...+..++...
T Consensus       186 ~~~~~~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  265 (401)
T PTZ00424        186 GFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVEKEEWKFDTLCDLYETL  265 (401)
T ss_pred             chHHHHHHHHhhCCCCcEEEEEEecCCHHHHHHHHHHcCCCEEEEeCCCCcccCCceEEEEecChHHHHHHHHHHHHHhc
Confidence            89889999999999999999999999999888888888888777766666666777777777766666778888888877


Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      ...++||||++++.++.+++.|+..++.+..+||+++..+|..+++.|++|+.+|||||+++++|+|+|++++||++|+|
T Consensus       266 ~~~~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~~l~~GiDip~v~~VI~~~~p  345 (401)
T PTZ00424        266 TITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLP  345 (401)
T ss_pred             CCCeEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEcccccCCcCcccCCEEEEECCC
Confidence            77899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCC
Q 018574          351 CNV  353 (354)
Q Consensus       351 ~s~  353 (354)
                      .|+
T Consensus       346 ~s~  348 (401)
T PTZ00424        346 ASP  348 (401)
T ss_pred             CCH
Confidence            875

>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]

Probab=100.00  E-value=1.1e-53  Score=361.48  Aligned_cols=330  Identities=27%  Similarity=0.442  Sum_probs=310.6

Q ss_pred             ecccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC-----
Q 018574           24 ETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS-----   98 (354)
Q Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~-----   98 (354)
                      .....+.+..+|++.+++.++++.+.+.||..|+|+|+.+++..++.+++|..+.||||||.+|++|++..+...     
T Consensus       236 kg~~lpnplrnwEE~~~P~e~l~~I~~~~y~eptpIqR~aipl~lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~  315 (673)
T KOG0333|consen  236 KGGRLPNPLRNWEESGFPLELLSVIKKPGYKEPTPIQRQAIPLGLQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMAR  315 (673)
T ss_pred             cCCCCCccccChhhcCCCHHHHHHHHhcCCCCCchHHHhhccchhccCCeeeEEeccCCccccchhhHHHHHHcCCCcch
Confidence            334567889999999999999999999999999999999999999999999999999999999999998776432     


Q ss_pred             ----CCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCC
Q 018574           99 ----SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTR  174 (354)
Q Consensus        99 ----~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~  174 (354)
                          ..++.++++.||++|++|+.++..+++..+++.+..+.||.+.+++..++..+|+|+|+||+.|.+.+++..+.++
T Consensus       316 ~en~~~gpyaiilaptReLaqqIeeEt~kf~~~lg~r~vsvigg~s~EEq~fqls~gceiviatPgrLid~Lenr~lvl~  395 (673)
T KOG0333|consen  316 LENNIEGPYAIILAPTRELAQQIEEETNKFGKPLGIRTVSVIGGLSFEEQGFQLSMGCEIVIATPGRLIDSLENRYLVLN  395 (673)
T ss_pred             hhhcccCceeeeechHHHHHHHHHHHHHHhcccccceEEEEecccchhhhhhhhhccceeeecCchHHHHHHHHHHHHhc
Confidence                3467899999999999999999999999999999999999999999889999999999999999999999999999


Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCC-------------------------CcEEEEEeeCchhHHHHHHhccC
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPD-------------------------LQVVLISATLPHEILEMTTKFMT  229 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~-------------------------~~~i~lSaT~~~~~~~~~~~~~~  229 (354)
                      .+.+||+||++++.+.+|.+.+..++..+|..                         .|-+.+|||+++.+..+...++.
T Consensus       396 qctyvvldeadrmiDmgfE~dv~~iL~~mPssn~k~~tde~~~~~~~~~~~~~~k~yrqT~mftatm~p~verlar~ylr  475 (673)
T KOG0333|consen  396 QCTYVVLDEADRMIDMGFEPDVQKILEQMPSSNAKPDTDEKEGEERVRKNFSSSKKYRQTVMFTATMPPAVERLARSYLR  475 (673)
T ss_pred             cCceEeccchhhhhcccccHHHHHHHHhCCccccCCCccchhhHHHHHhhcccccceeEEEEEecCCChHHHHHHHHHhh
Confidence            99999999999999999999999999999732                         68899999999999999999999


Q ss_pred             CCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHH
Q 018574          230 DPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQK  309 (354)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~  309 (354)
                      +|..+.+.......+.+.|.+..+..+. +...|..++......++|||+|+++.++.+++.|.+.|+.+..+||+-+++
T Consensus       476 ~pv~vtig~~gk~~~rveQ~v~m~~ed~-k~kkL~eil~~~~~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qe  554 (673)
T KOG0333|consen  476 RPVVVTIGSAGKPTPRVEQKVEMVSEDE-KRKKLIEILESNFDPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQE  554 (673)
T ss_pred             CCeEEEeccCCCCccchheEEEEecchH-HHHHHHHHHHhCCCCCEEEEEechhhHHHHHHHHhhccceEEEeeCCccHH
Confidence            9999999988888899999988888887 799999999998889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCCC
Q 018574          310 ERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNVF  354 (354)
Q Consensus       310 ~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~~  354 (354)
                      +|..+++.|++|..+|||||+++++|+|+|+|.+||+|||++|++
T Consensus       555 QRe~aL~~fr~~t~dIlVaTDvAgRGIDIpnVSlVinydmaksie  599 (673)
T KOG0333|consen  555 QRENALADFREGTGDILVATDVAGRGIDIPNVSLVINYDMAKSIE  599 (673)
T ss_pred             HHHHHHHHHHhcCCCEEEEecccccCCCCCccceeeecchhhhHH
Confidence            999999999999999999999999999999999999999999863

>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=3.5e-55  Score=349.40  Aligned_cols=324  Identities=34%  Similarity=0.614  Sum_probs=309.3

Q ss_pred             cccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc
Q 018574           29 VEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS  108 (354)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~  108 (354)
                      ......|+++.+..+++..+.+.||..|.|+|.++++..+.|++++..|..|+|||-+|.+|++..+.......+++|++
T Consensus        81 ~TkG~efEd~~Lkr~LLmgIfe~G~ekPSPiQeesIPiaLtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilV  160 (459)
T KOG0326|consen   81 ATKGNEFEDYCLKRELLMGIFEKGFEKPSPIQEESIPIALTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILV  160 (459)
T ss_pred             cccCccHHHhhhhHHHHHHHHHhccCCCCCccccccceeecchhhhhhccCCCCCccceechhhhhcCccccceeEEEEe
Confidence            34568899999999999999999999999999999999999999999999999999999999999999888888999999


Q ss_pred             CCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhh
Q 018574          109 PTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML  188 (354)
Q Consensus       109 p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~  188 (354)
                      |+++|+.|..+.++.+++..++.+...+||++..++...+..+.+++|+||++++++.+...-.++.+.++|+||||.++
T Consensus       161 PtrelALQtSqvc~~lskh~~i~vmvttGGT~lrDDI~Rl~~~VH~~vgTPGRIlDL~~KgVa~ls~c~~lV~DEADKlL  240 (459)
T KOG0326|consen  161 PTRELALQTSQVCKELSKHLGIKVMVTTGGTSLRDDIMRLNQTVHLVVGTPGRILDLAKKGVADLSDCVILVMDEADKLL  240 (459)
T ss_pred             ecchhhHHHHHHHHHHhcccCeEEEEecCCcccccceeeecCceEEEEcCChhHHHHHhcccccchhceEEEechhhhhh
Confidence            99999999999999999999999999999999999999999999999999999999999998889999999999999999


Q ss_pred             ccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh
Q 018574          189 SRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD  268 (354)
Q Consensus       189 ~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~  268 (354)
                      +..|...+..++..+|++.|++++|||+|-.+..++..++..|..+.. .++..+.++.++|..+.... |..-|..+..
T Consensus       241 s~~F~~~~e~li~~lP~~rQillySATFP~tVk~Fm~~~l~kPy~INL-M~eLtl~GvtQyYafV~e~q-KvhCLntLfs  318 (459)
T KOG0326|consen  241 SVDFQPIVEKLISFLPKERQILLYSATFPLTVKGFMDRHLKKPYEINL-MEELTLKGVTQYYAFVEERQ-KVHCLNTLFS  318 (459)
T ss_pred             chhhhhHHHHHHHhCCccceeeEEecccchhHHHHHHHhccCcceeeh-hhhhhhcchhhheeeechhh-hhhhHHHHHH
Confidence            999999999999999999999999999999999999999999987774 45578899999999998777 9999999999


Q ss_pred             hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       269 ~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      ...-.+.|||||+...++.+++.+.+.|+.|..+|+.|.+++|.+++.+|++|..+.||||+.+.+|+|+++++.|||||
T Consensus       319 kLqINQsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL~TRGIDiqavNvVINFD  398 (459)
T KOG0326|consen  319 KLQINQSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGIDIQAVNVVINFD  398 (459)
T ss_pred             HhcccceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhccccceeeehhhhhcccccceeeEEEecC
Confidence            88888999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCC
Q 018574          349 LFCNVF  354 (354)
Q Consensus       349 ~p~s~~  354 (354)
                      +|+++|
T Consensus       399 fpk~aE  404 (459)
T KOG0326|consen  399 FPKNAE  404 (459)
T ss_pred             CCCCHH
Confidence            999874

>PRK01297 ATP-dependent RNA helicase RhlB; Provisional

Probab=100.00  E-value=6.7e-52  Score=375.85  Aligned_cols=323  Identities=28%  Similarity=0.485  Sum_probs=287.4

Q ss_pred             ccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCC-------ce
Q 018574           30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSR-------EV  102 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~-------~~  102 (354)
                      +....|.++++++.+.+++.+.||..|+++|.++++.+++|+++++.+|||+|||++|++|++..+.....       .+
T Consensus        84 ~~~~~f~~~~l~~~l~~~l~~~g~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~  163 (475)
T PRK01297         84 EGKTRFHDFNLAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEP  163 (475)
T ss_pred             cCCCCHhHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCc
Confidence            44567889999999999999999999999999999999999999999999999999999999988765421       46


Q ss_pred             eEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc-CCCeEEEeCcHHHHHHHhcCCccCCCccEEEE
Q 018574          103 QALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVL  181 (354)
Q Consensus       103 ~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvv  181 (354)
                      ++|||+|+++|+.|+.+.++.+....++.+..+.||.+...+...+. ..++|+|+||++|..+.......++++++||+
T Consensus       164 ~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~lVi  243 (475)
T PRK01297        164 RALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVL  243 (475)
T ss_pred             eEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEEEccCChHHHHHHHhCCCCCEEEECHHHHHHHHHcCCcccccCceEEe
Confidence            79999999999999999999998888899999999887766665553 46899999999999988887888899999999


Q ss_pred             ecchhhhccCcHHHHHHHHhhCCC--CCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccch
Q 018574          182 DESDEMLSRGFKDQIYDVYRYLPP--DLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK  259 (354)
Q Consensus       182 DE~h~~~~~~~~~~~~~i~~~~~~--~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (354)
                      ||+|.+.+.++...+..++..++.  ..|++++|||++.+.......+..++..+...........+.+.+....... +
T Consensus       244 DEah~l~~~~~~~~l~~i~~~~~~~~~~q~i~~SAT~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~-k  322 (475)
T PRK01297        244 DEADRMLDMGFIPQVRQIIRQTPRKEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQHVYAVAGSD-K  322 (475)
T ss_pred             chHHHHHhcccHHHHHHHHHhCCCCCCceEEEEEeecCHHHHHHHHHhccCCEEEEeccCcCCCCcccEEEEEecchh-H
Confidence            999999999999999999888854  5799999999999999999999888887776666555566666666555444 7


Q ss_pred             HHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcC
Q 018574          260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       260 ~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~  339 (354)
                      ...+..++......++||||++++.++.+++.|.+.++.+..+||+++.++|.++++.|++|+.+|||||+++++|+|+|
T Consensus       323 ~~~l~~ll~~~~~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT~~l~~GIDi~  402 (475)
T PRK01297        323 YKLLYNLVTQNPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHID  402 (475)
T ss_pred             HHHHHHHHHhcCCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEccccccCCccc
Confidence            78888888887778999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEecCCCCCC
Q 018574          340 QAILFFFLFLFCNV  353 (354)
Q Consensus       340 ~~~~Vi~~~~p~s~  353 (354)
                      ++++||+||+|.|+
T Consensus       403 ~v~~VI~~~~P~s~  416 (475)
T PRK01297        403 GISHVINFTLPEDP  416 (475)
T ss_pred             CCCEEEEeCCCCCH
Confidence            99999999999985

>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=5.9e-54  Score=362.04  Aligned_cols=322  Identities=29%  Similarity=0.470  Sum_probs=299.9

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCc---eeEEEEc
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSRE---VQALILS  108 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~---~~~lil~  108 (354)
                      ..+|.+++++-.+++++..+||..|+|+|...|+..+-|++++.+|.||+|||.+|++|++.++.....+   .++||+|
T Consensus       180 ~~sF~~mNLSRPlLka~~~lGy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~  259 (691)
T KOG0338|consen  180 NESFQSMNLSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLV  259 (691)
T ss_pred             hhhHHhcccchHHHHHHHhcCCCCCCchhhhcccHHhhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEe
Confidence            4589999999999999999999999999999999999999999999999999999999999998765543   4899999


Q ss_pred             CCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc-CCccCCCccEEEEecchhh
Q 018574          109 PTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDESDEM  187 (354)
Q Consensus       109 p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~-~~~~~~~~~~vvvDE~h~~  187 (354)
                      ||++|+.|+.+..+++..+.++.++.+.||-+...+...+...++|+|+||++|.+++++ ..++++++.++|+||||+|
T Consensus       260 PTRELaiQv~sV~~qlaqFt~I~~~L~vGGL~lk~QE~~LRs~PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlDEADRM  339 (691)
T KOG0338|consen  260 PTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLRSRPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRM  339 (691)
T ss_pred             ccHHHHHHHHHHHHHHHhhccceeeeeecCccHHHHHHHHhhCCCEEEecchhHHHHhccCCCccccceeEEEechHHHH
Confidence            999999999999999999999999999999999999999999999999999999999987 4678899999999999999


Q ss_pred             hccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEec--cccchHHHHHH
Q 018574          188 LSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVE--REEWKFDTLCD  265 (354)
Q Consensus       188 ~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~l~~  265 (354)
                      ++.+|...++.|.+.++.++|.+++|||++..+..+.+-.+..|+.+.++.+....+.+.+-|....  .+......+..
T Consensus       340 LeegFademnEii~lcpk~RQTmLFSATMteeVkdL~slSL~kPvrifvd~~~~~a~~LtQEFiRIR~~re~dRea~l~~  419 (691)
T KOG0338|consen  340 LEEGFADEMNEIIRLCPKNRQTMLFSATMTEEVKDLASLSLNKPVRIFVDPNKDTAPKLTQEFIRIRPKREGDREAMLAS  419 (691)
T ss_pred             HHHHHHHHHHHHHHhccccccceeehhhhHHHHHHHHHhhcCCCeEEEeCCccccchhhhHHHheeccccccccHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999888888887766543  33446777888


Q ss_pred             HHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEE
Q 018574          266 LYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFF  345 (354)
Q Consensus       266 ~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi  345 (354)
                      ++...-...++||+.++++|..+.-.|-=+|.++.-+||.+++.+|.+.++.|++++++|||||+++++|+||+.+..||
T Consensus       420 l~~rtf~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsRGLDI~gV~tVI  499 (691)
T KOG0338|consen  420 LITRTFQDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASRGLDIEGVQTVI  499 (691)
T ss_pred             HHHHhcccceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhccCCEEEEechhhccCCccceeEEE
Confidence            88877778999999999999999998888899999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCCCC
Q 018574          346 FLFLFCNV  353 (354)
Q Consensus       346 ~~~~p~s~  353 (354)
                      ||.+|.+.
T Consensus       500 Ny~mP~t~  507 (691)
T KOG0338|consen  500 NYAMPKTI  507 (691)
T ss_pred             eccCchhH
Confidence            99999875

>KOG0343 consensus RNA Helicase [RNA processing and modification]

Probab=100.00  E-value=8.4e-53  Score=358.23  Aligned_cols=322  Identities=29%  Similarity=0.456  Sum_probs=297.4

Q ss_pred             ccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc----CCCceeEE
Q 018574           30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT----SSREVQAL  105 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~----~~~~~~~l  105 (354)
                      .....|.++++++...+.|++.+|..++..|++.|+..++|++++-.+.||||||++|+.|+++.+..    ...|.-+|
T Consensus        66 ~~~~kF~dlpls~~t~kgLke~~fv~~teiQ~~~Ip~aL~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGal  145 (758)
T KOG0343|consen   66 TTIKKFADLPLSQKTLKGLKEAKFVKMTEIQRDTIPMALQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGAL  145 (758)
T ss_pred             hhhhhHHhCCCchHHHHhHhhcCCccHHHHHHhhcchhccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeE
Confidence            34458999999999999999999999999999999999999999999999999999999999998854    33456799


Q ss_pred             EEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc-CCccCCCccEEEEecc
Q 018574          106 ILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDES  184 (354)
Q Consensus       106 il~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~-~~~~~~~~~~vvvDE~  184 (354)
                      ||.||++|+.|+.+.+++++...++....+.||.+...+...+. ..+|+||||++|+.++.. ..+...++.++|+|||
T Consensus       146 IISPTRELA~QtFevL~kvgk~h~fSaGLiiGG~~~k~E~eRi~-~mNILVCTPGRLLQHmde~~~f~t~~lQmLvLDEA  224 (758)
T KOG0343|consen  146 IISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDVKFELERIS-QMNILVCTPGRLLQHMDENPNFSTSNLQMLVLDEA  224 (758)
T ss_pred             EecchHHHHHHHHHHHHHHhhccccccceeecCchhHHHHHhhh-cCCeEEechHHHHHHhhhcCCCCCCcceEEEeccH
Confidence            99999999999999999999999999999999999877776665 489999999999988765 5667789999999999


Q ss_pred             hhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCC--cccccCceeEEEEeccccchHHH
Q 018574          185 DEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRD--ELTLEGIKQFFVAVEREEWKFDT  262 (354)
Q Consensus       185 h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~  262 (354)
                      +++++.+|...+..|++.+|..+|.+++|||....+..+....+.+|..+.+...  ...+.++.+.|..++... +++.
T Consensus       225 DR~LDMGFk~tL~~Ii~~lP~~RQTLLFSATqt~svkdLaRLsL~dP~~vsvhe~a~~atP~~L~Q~y~~v~l~~-Ki~~  303 (758)
T KOG0343|consen  225 DRMLDMGFKKTLNAIIENLPKKRQTLLFSATQTKSVKDLARLSLKDPVYVSVHENAVAATPSNLQQSYVIVPLED-KIDM  303 (758)
T ss_pred             HHHHHHhHHHHHHHHHHhCChhheeeeeecccchhHHHHHHhhcCCCcEEEEeccccccChhhhhheEEEEehhh-HHHH
Confidence            9999999999999999999999999999999999999999999999988876643  456778899999988877 9999


Q ss_pred             HHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCC
Q 018574          263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ  340 (354)
Q Consensus       263 l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~  340 (354)
                      |..+++.+...++|||+.|++++..+++.++++  |++...+||.+++..|.++++.|.....-||+||+++++|+|+|.
T Consensus       304 L~sFI~shlk~K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~~~~vLF~TDv~aRGLDFpa  383 (758)
T KOG0343|consen  304 LWSFIKSHLKKKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRKRAVVLFCTDVAARGLDFPA  383 (758)
T ss_pred             HHHHHHhccccceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHHHHHHHHHHhcceEEEeehhhhccCCCcc
Confidence            999999999999999999999999999999876  889999999999999999999999999999999999999999999


Q ss_pred             CcEEEecCCCCCC
Q 018574          341 AILFFFLFLFCNV  353 (354)
Q Consensus       341 ~~~Vi~~~~p~s~  353 (354)
                      +++||.+|+|+++
T Consensus       384 VdwViQ~DCPedv  396 (758)
T KOG0343|consen  384 VDWVIQVDCPEDV  396 (758)
T ss_pred             cceEEEecCchhH
Confidence            9999999999975

>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=3.6e-52  Score=336.55  Aligned_cols=323  Identities=32%  Similarity=0.471  Sum_probs=293.8

Q ss_pred             ccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      ....+|..+|+++|+.+.++.+|+.+|+|.|..+++.+++|++++-.|.||||||.+|.+|+++.+.....+..++|++|
T Consensus         4 ~t~~~F~~LGl~~Wlve~l~~l~i~~pTpiQ~~cIpkILeGrdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTP   83 (442)
T KOG0340|consen    4 KTAKPFSILGLSPWLVEQLKALGIKKPTPIQQACIPKILEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTP   83 (442)
T ss_pred             cccCchhhcCccHHHHHHHHHhcCCCCCchHhhhhHHHhcccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecc
Confidence            34578999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC----CccCCCccEEEEecch
Q 018574          110 TRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK----TLRTRAIKLLVLDESD  185 (354)
Q Consensus       110 ~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~----~~~~~~~~~vvvDE~h  185 (354)
                      |++|+.|..++|...++..++++..+.||.+.-.+...+.+.++++++||+++..++...    .+.+.++.++|+|||+
T Consensus        84 TrELA~QiaEQF~alGk~l~lK~~vivGG~d~i~qa~~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkflVlDEAD  163 (442)
T KOG0340|consen   84 TRELALQIAEQFIALGKLLNLKVSVIVGGTDMIMQAAILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFLVLDEAD  163 (442)
T ss_pred             hHHHHHHHHHHHHHhcccccceEEEEEccHHHhhhhhhcccCCCeEecCccccccccccCCccchhhhhceeeEEecchh
Confidence            999999999999999999999999999999999998899999999999999998887754    3445789999999999


Q ss_pred             hhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCC--CeEEEecCCcccccCceeEEEEeccccchHHHH
Q 018574          186 EMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTD--PVKILVKRDELTLEGIKQFFVAVEREEWKFDTL  263 (354)
Q Consensus       186 ~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  263 (354)
                      .+++..|...+..+.+.+|..+|-+++|||++....+....-...  ...+....+....+.+.+.|..++... +...+
T Consensus       164 rvL~~~f~d~L~~i~e~lP~~RQtLlfSATitd~i~ql~~~~i~k~~a~~~e~~~~vstvetL~q~yI~~~~~v-kdaYL  242 (442)
T KOG0340|consen  164 RVLAGCFPDILEGIEECLPKPRQTLLFSATITDTIKQLFGCPITKSIAFELEVIDGVSTVETLYQGYILVSIDV-KDAYL  242 (442)
T ss_pred             hhhccchhhHHhhhhccCCCccceEEEEeehhhHHHHhhcCCcccccceEEeccCCCCchhhhhhheeecchhh-hHHHH
Confidence            999999999999999999999999999999988877766554443  334445566667778888888887766 77777


Q ss_pred             HHHHhhCCC---CcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCC
Q 018574          264 CDLYDTLTI---TQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ  340 (354)
Q Consensus       264 ~~~l~~~~~---~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~  340 (354)
                      ..+++...+   +.++||+++..+++.++..|+.+++++..+|+.+++.+|...+..|+++..+|||||+++++|+|||.
T Consensus       243 v~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaTDVAsRGLDIP~  322 (442)
T KOG0340|consen  243 VHLLRDFENKENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNAARILIATDVASRGLDIPT  322 (442)
T ss_pred             HHHHhhhhhccCceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcCccEEEEechhhcCCCCCc
Confidence            777776544   57999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcEEEecCCCCCC
Q 018574          341 AILFFFLFLFCNV  353 (354)
Q Consensus       341 ~~~Vi~~~~p~s~  353 (354)
                      +..|||+|+|.+|
T Consensus       323 V~LVvN~diPr~P  335 (442)
T KOG0340|consen  323 VELVVNHDIPRDP  335 (442)
T ss_pred             eeEEEecCCCCCH
Confidence            9999999999986

>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=1.5e-51  Score=344.48  Aligned_cols=320  Identities=31%  Similarity=0.496  Sum_probs=290.2

Q ss_pred             cCcccCC--CCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC----Cc-eeEE
Q 018574           33 TSFDAMG--IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS----RE-VQAL  105 (354)
Q Consensus        33 ~~~~~~~--~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~----~~-~~~l  105 (354)
                      ..|++++  ++++++.++...||..+||.|...++.++.++++++.++||||||++|++|++..+..+.    ++ ..+|
T Consensus         4 ~~~~~l~~~L~~~l~~~l~~~GF~~mTpVQa~tIPlll~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgal   83 (567)
T KOG0345|consen    4 KSFSSLAPPLSPWLLEALDESGFEKMTPVQAATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGAL   83 (567)
T ss_pred             cchhhcCCCccHHHHHHHHhcCCcccCHHHHhhhHHHhcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEE
Confidence            4677765  569999999999999999999999999999999999999999999999999999884322    11 3689


Q ss_pred             EEcCCHHHHHHHHHHHHHhccC-cCeEEEEEeCCcchHHhHHhhcC-CCeEEEeCcHHHHHHHhcC--CccCCCccEEEE
Q 018574          106 ILSPTRELATQTEKVILAIGDF-INIQAHACVGGKSVGEDIRKLEH-GVHVVSGTPGRVCDMIKRK--TLRTRAIKLLVL  181 (354)
Q Consensus       106 il~p~~~l~~q~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~-~~~iiv~T~~~l~~~~~~~--~~~~~~~~~vvv  181 (354)
                      ||+||++|+.|+.+.+..+... .++++..+.||.+..++...+.+ ++.|+|+||++|.+++.+.  .+....+.++|+
T Consensus        84 IIsPTRELa~QI~~V~~~F~~~l~~l~~~l~vGG~~v~~Di~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVL  163 (567)
T KOG0345|consen   84 IISPTRELARQIREVAQPFLEHLPNLNCELLVGGRSVEEDIKTFKEEGPNILVGTPGRLLDILQREAEKLSFRSLEILVL  163 (567)
T ss_pred             EecCcHHHHHHHHHHHHHHHHhhhccceEEEecCccHHHHHHHHHHhCCcEEEeCchhHHHHHhchhhhccccccceEEe
Confidence            9999999999999998887766 68899999999999988887764 5889999999999999874  445569999999


Q ss_pred             ecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcc--cccCceeEEEEeccccch
Q 018574          182 DESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL--TLEGIKQFFVAVEREEWK  259 (354)
Q Consensus       182 DE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~  259 (354)
                      ||||++++.+|...++.|++.+|+.++.=++|||...+...+....+++|..+.+.....  ++..+...|..+...+ +
T Consensus       164 DEADrLldmgFe~~~n~ILs~LPKQRRTGLFSATq~~~v~dL~raGLRNpv~V~V~~k~~~~tPS~L~~~Y~v~~a~e-K  242 (567)
T KOG0345|consen  164 DEADRLLDMGFEASVNTILSFLPKQRRTGLFSATQTQEVEDLARAGLRNPVRVSVKEKSKSATPSSLALEYLVCEADE-K  242 (567)
T ss_pred             cchHhHhcccHHHHHHHHHHhcccccccccccchhhHHHHHHHHhhccCceeeeecccccccCchhhcceeeEecHHH-H
Confidence            999999999999999999999999999999999999999999999999999998887766  7777888888888887 9


Q ss_pred             HHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCC
Q 018574          260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLD  337 (354)
Q Consensus       260 ~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gid  337 (354)
                      ...+..++.....+|+|||++|+..+++++..|..+  ......+||.+++..|..+++.|+.-...+|+||+++++|+|
T Consensus       243 ~~~lv~~L~~~~~kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl~~TDVaARGlD  322 (567)
T KOG0345|consen  243 LSQLVHLLNNNKDKKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRKLSNGVLFCTDVAARGLD  322 (567)
T ss_pred             HHHHHHHHhccccccEEEEecCcchHHHHHHHHHHHhCCCcEEEecchhcchhHHHHHHHHHhccCceEEeehhhhccCC
Confidence            999999999999999999999999999999999776  567889999999999999999999988899999999999999


Q ss_pred             cCCCcEEEecCCCCCC
Q 018574          338 VQQAILFFFLFLFCNV  353 (354)
Q Consensus       338 i~~~~~Vi~~~~p~s~  353 (354)
                      +|++++||+||.|.++
T Consensus       323 ip~iD~VvQ~DpP~~~  338 (567)
T KOG0345|consen  323 IPGIDLVVQFDPPKDP  338 (567)
T ss_pred             CCCceEEEecCCCCCh
Confidence            9999999999999875

>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]

Probab=100.00  E-value=6.4e-51  Score=342.69  Aligned_cols=322  Identities=28%  Similarity=0.433  Sum_probs=291.3

Q ss_pred             cccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC----CCceeEEE
Q 018574           31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS----SREVQALI  106 (354)
Q Consensus        31 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~----~~~~~~li  106 (354)
                      ....|++..+++...++++++||..+++.|...++.++.|+++++.|-||+|||++|++|+++.+...    +.+..++|
T Consensus        80 ~~~~f~~~~LS~~t~kAi~~~GF~~MT~VQ~~ti~pll~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlI  159 (543)
T KOG0342|consen   80 TTFRFEEGSLSPLTLKAIKEMGFETMTPVQQKTIPPLLEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLI  159 (543)
T ss_pred             hhhHhhccccCHHHHHHHHhcCccchhHHHHhhcCccCCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEE
Confidence            35667888999999999999999999999999999999999999999999999999999999988543    34457999


Q ss_pred             EcCCHHHHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC-CccCCCccEEEEecc
Q 018574          107 LSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK-TLRTRAIKLLVLDES  184 (354)
Q Consensus       107 l~p~~~l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~-~~~~~~~~~vvvDE~  184 (354)
                      +|||++|+.|.+.+++.+.... ++.+..+.||.+...+..++..+++|+|+||++|.+++++. .+...+..++|+|||
T Consensus       160 i~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~~~~~e~~kl~k~~niliATPGRLlDHlqNt~~f~~r~~k~lvlDEA  239 (543)
T KOG0342|consen  160 ICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNFSVEADKLVKGCNILIATPGRLLDHLQNTSGFLFRNLKCLVLDEA  239 (543)
T ss_pred             ecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCccchHHHHHhhccccEEEeCCchHHhHhhcCCcchhhccceeEeecc
Confidence            9999999999999999999887 89999999999999999999889999999999999999884 445566789999999


Q ss_pred             hhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccC-CCeEEEecCC--cccccCceeEEEEeccccchHH
Q 018574          185 DEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMT-DPVKILVKRD--ELTLEGIKQFFVAVEREEWKFD  261 (354)
Q Consensus       185 h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~-~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~  261 (354)
                      |++++.+|.+.+..|.+.++..+|.+++|||.+..+..+..-.+. ++.++.....  ..+.+.+.|.|...+... .+.
T Consensus       240 DrlLd~GF~~di~~Ii~~lpk~rqt~LFSAT~~~kV~~l~~~~L~~d~~~v~~~d~~~~~The~l~Qgyvv~~~~~-~f~  318 (543)
T KOG0342|consen  240 DRLLDIGFEEDVEQIIKILPKQRQTLLFSATQPSKVKDLARGALKRDPVFVNVDDGGERETHERLEQGYVVAPSDS-RFS  318 (543)
T ss_pred             hhhhhcccHHHHHHHHHhccccceeeEeeCCCcHHHHHHHHHhhcCCceEeecCCCCCcchhhcccceEEeccccc-hHH
Confidence            999999999999999999999999999999999999998876655 4666665544  345577888888888777 578


Q ss_pred             HHHHHHhhCCC-CcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCC
Q 018574          262 TLCDLYDTLTI-TQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ  340 (354)
Q Consensus       262 ~l~~~l~~~~~-~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~  340 (354)
                      .+..+++.... .|+||||+|......+++.|+...++|..+||+.++..|..+..+|++.+.-||+||++.++|+|+|+
T Consensus       319 ll~~~LKk~~~~~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~cTDVaARGlD~P~  398 (543)
T KOG0342|consen  319 LLYTFLKKNIKRYKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTDVAARGLDIPD  398 (543)
T ss_pred             HHHHHHHHhcCCceEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhcccceEEecchhhccCCCCC
Confidence            88888887765 89999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcEEEecCCCCCC
Q 018574          341 AILFFFLFLFCNV  353 (354)
Q Consensus       341 ~~~Vi~~~~p~s~  353 (354)
                      +++||.||.|.++
T Consensus       399 V~~VvQ~~~P~d~  411 (543)
T KOG0342|consen  399 VDWVVQYDPPSDP  411 (543)
T ss_pred             ceEEEEeCCCCCH
Confidence            9999999999985

>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=5e-51  Score=348.48  Aligned_cols=327  Identities=31%  Similarity=0.470  Sum_probs=299.3

Q ss_pred             ccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCC-----
Q 018574           26 TEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSR-----  100 (354)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~-----  100 (354)
                      ...+..+..|.+-.+.+.+..+++..++..|+|+|+.+++.+..|++.+++|+||+|||.+|++|++.++.....     
T Consensus        67 ~~~p~~i~~f~~~~l~~~l~~ni~~~~~~~ptpvQk~sip~i~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~  146 (482)
T KOG0335|consen   67 RDVPPHIPTFDEAILGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGE  146 (482)
T ss_pred             CccCCCcccccccchhHHHhhccccccccCCCcceeeccceeecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcc
Confidence            445666779998899999999999999999999999999999999999999999999999999999988854422     


Q ss_pred             -----ceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCC
Q 018574          101 -----EVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRA  175 (354)
Q Consensus       101 -----~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~  175 (354)
                           .+.++|++||++|+.|.+.+.+++.-..+++.....++.+...+.....++++|+|+||++|.++++...+.+.+
T Consensus       147 ~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~~~q~~~~~~gcdIlvaTpGrL~d~~e~g~i~l~~  226 (482)
T KOG0335|consen  147 SGGGVYPRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDLGAQLRFIKRGCDILVATPGRLKDLIERGKISLDN  226 (482)
T ss_pred             cCCCCCCceEEEeCcHHHhhHHHHHHHhhcccccceeeeeeCCcchhhhhhhhccCccEEEecCchhhhhhhcceeehhh
Confidence                 478999999999999999999999989999999999999999999999999999999999999999999999999


Q ss_pred             ccEEEEecchhhhc-cCcHHHHHHHHhhCCC----CCcEEEEEeeCchhHHHHHHhccCC-CeEEEecCCcccccCceeE
Q 018574          176 IKLLVLDESDEMLS-RGFKDQIYDVYRYLPP----DLQVVLISATLPHEILEMTTKFMTD-PVKILVKRDELTLEGIKQF  249 (354)
Q Consensus       176 ~~~vvvDE~h~~~~-~~~~~~~~~i~~~~~~----~~~~i~lSaT~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  249 (354)
                      ++++|+||||.|++ .+|...++.+......    ..|-+++|||.+..+..+...++.+ ...+.+.......+++.+.
T Consensus       227 ~k~~vLDEADrMlD~mgF~p~Ir~iv~~~~~~~~~~~qt~mFSAtfp~~iq~l~~~fl~~~yi~laV~rvg~~~~ni~q~  306 (482)
T KOG0335|consen  227 CKFLVLDEADRMLDEMGFEPQIRKIVEQLGMPPKNNRQTLLFSATFPKEIQRLAADFLKDNYIFLAVGRVGSTSENITQK  306 (482)
T ss_pred             CcEEEecchHHhhhhccccccHHHHhcccCCCCccceeEEEEeccCChhhhhhHHHHhhccceEEEEeeeccccccceeE
Confidence            99999999999999 8999999999988754    6899999999999999988888887 7777777777888999999


Q ss_pred             EEEeccccchHHHHHHHHhhCC----CC-----cEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhC
Q 018574          250 FVAVEREEWKFDTLCDLYDTLT----IT-----QAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRS  320 (354)
Q Consensus       250 ~~~~~~~~~~~~~l~~~l~~~~----~~-----~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~  320 (354)
                      ...+...+ +...|.+++....    .+     +++|||.+++.+.+++..|...++++..+||+.++.+|.+.++.|++
T Consensus       307 i~~V~~~~-kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg~~tq~er~~al~~Fr~  385 (482)
T KOG0335|consen  307 ILFVNEME-KRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIEREQALNDFRN  385 (482)
T ss_pred             eeeecchh-hHHHHHHHhhcccCCcccCCcccceEEEEeeccchhhHHHHHHhcCCCCceeecchhhhhHHHHHHHHhhc
Confidence            99988777 7777777766433    33     79999999999999999999999999999999999999999999999


Q ss_pred             CCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          321 GTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       321 g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+..+||||+++++|+|+|+|+|||+||+|.+.
T Consensus       386 g~~pvlVaT~VaaRGlDi~~V~hVInyDmP~d~  418 (482)
T KOG0335|consen  386 GKAPVLVATNVAARGLDIPNVKHVINYDMPADI  418 (482)
T ss_pred             CCcceEEEehhhhcCCCCCCCceeEEeecCcch
Confidence            999999999999999999999999999999873

>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=3e-50  Score=331.44  Aligned_cols=326  Identities=29%  Similarity=0.465  Sum_probs=294.4

Q ss_pred             cCcccccCccc-CCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc------CC
Q 018574           27 EGVEAITSFDA-MGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT------SS   99 (354)
Q Consensus        27 ~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~------~~   99 (354)
                      +.+.+..+|++ ++-.+++.+++++.||.+|+|+|.++|+-+++|.+++..+.||+|||++|++|.+-++..      ..
T Consensus       213 pIPnP~ctFddAFq~~pevmenIkK~GFqKPtPIqSQaWPI~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr  292 (629)
T KOG0336|consen  213 PIPNPVCTFDDAFQCYPEVMENIKKTGFQKPTPIQSQAWPILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQR  292 (629)
T ss_pred             cCCCCcCcHHHHHhhhHHHHHHHHhccCCCCCcchhcccceeecCcceEEEEecCCCcCHHHhccceeeeeccchhhhcc
Confidence            46777788886 678999999999999999999999999999999999999999999999999998877743      23


Q ss_pred             CceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEE
Q 018574          100 REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLL  179 (354)
Q Consensus       100 ~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~v  179 (354)
                      .++.+|+++|+++|+.|+.-+..++. +.++...++.|+.+..++...++.+.+|+++||++|.++.....+++..+.++
T Consensus       293 ~~p~~lvl~ptreLalqie~e~~kys-yng~ksvc~ygggnR~eqie~lkrgveiiiatPgrlndL~~~n~i~l~siTYl  371 (629)
T KOG0336|consen  293 NGPGVLVLTPTRELALQIEGEVKKYS-YNGLKSVCVYGGGNRNEQIEDLKRGVEIIIATPGRLNDLQMDNVINLASITYL  371 (629)
T ss_pred             CCCceEEEeccHHHHHHHHhHHhHhh-hcCcceEEEecCCCchhHHHHHhcCceEEeeCCchHhhhhhcCeeeeeeeEEE
Confidence            46789999999999999998887765 55788889999999999999999999999999999999999999999999999


Q ss_pred             EEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCccccc-CceeEEEEeccccc
Q 018574          180 VLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLE-GIKQFFVAVEREEW  258 (354)
Q Consensus       180 vvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  258 (354)
                      |+|||++|++.+|...+.+++-.+++++|.+..|||+|+.+..+...|+.+|..+....-....- .+.+.+ .++.+..
T Consensus       372 VlDEADrMLDMgFEpqIrkilldiRPDRqtvmTSATWP~~VrrLa~sY~Kep~~v~vGsLdL~a~~sVkQ~i-~v~~d~~  450 (629)
T KOG0336|consen  372 VLDEADRMLDMGFEPQIRKILLDIRPDRQTVMTSATWPEGVRRLAQSYLKEPMIVYVGSLDLVAVKSVKQNI-IVTTDSE  450 (629)
T ss_pred             EecchhhhhcccccHHHHHHhhhcCCcceeeeecccCchHHHHHHHHhhhCceEEEecccceeeeeeeeeeE-EecccHH
Confidence            99999999999999999999999999999999999999999999999999998877766655443 444554 6666666


Q ss_pred             hHHHHHHHHhhCCC-CcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCC
Q 018574          259 KFDTLCDLYDTLTI-TQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLD  337 (354)
Q Consensus       259 ~~~~l~~~l~~~~~-~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gid  337 (354)
                      +...+..+++...+ .|+||||..+..|+.+...|.--|+....+||.-.+.+|+..++.|++|+.+|||+|+.+++|+|
T Consensus       451 k~~~~~~f~~~ms~ndKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG~vrILvaTDlaSRGlD  530 (629)
T KOG0336|consen  451 KLEIVQFFVANMSSNDKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGEVRILVATDLASRGLD  530 (629)
T ss_pred             HHHHHHHHHHhcCCCceEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHHhhhcCceEEEEEechhhcCCC
Confidence            88888888887654 69999999999999999999888999999999999999999999999999999999999999999


Q ss_pred             cCCCcEEEecCCCCCCC
Q 018574          338 VQQAILFFFLFLFCNVF  354 (354)
Q Consensus       338 i~~~~~Vi~~~~p~s~~  354 (354)
                      +|+++||++||+|.|++
T Consensus       531 v~DiTHV~NyDFP~nIe  547 (629)
T KOG0336|consen  531 VPDITHVYNYDFPRNIE  547 (629)
T ss_pred             chhcceeeccCCCccHH
Confidence            99999999999999864

>KOG0346 consensus RNA helicase [RNA processing and modification]

Probab=100.00  E-value=1.5e-49  Score=329.73  Aligned_cols=320  Identities=27%  Similarity=0.411  Sum_probs=281.1

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc------CCCceeEEE
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT------SSREVQALI  106 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~------~~~~~~~li  106 (354)
                      .+|+++++++.+++++.+.||.+|+-+|+.+|+.+++|++++..|-||||||.+|++|+++.+..      ...++.++|
T Consensus        19 ktFe~~gLD~RllkAi~~lG~ekpTlIQs~aIplaLEgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~i   98 (569)
T KOG0346|consen   19 KTFEEFGLDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVI   98 (569)
T ss_pred             ccHHHhCCCHHHHHHHHHhCcCCcchhhhcccchhhcCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEE
Confidence            79999999999999999999999999999999999999999999999999999999999998743      345678999


Q ss_pred             EcCCHHHHHHHHHHHHHhccCcC--eEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCC-ccCCCccEEEEec
Q 018574          107 LSPTRELATQTEKVILAIGDFIN--IQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKT-LRTRAIKLLVLDE  183 (354)
Q Consensus       107 l~p~~~l~~q~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~-~~~~~~~~vvvDE  183 (354)
                      ++||++|+.|++..+.++....+  +++.-+..+.+.......+...++|+|+||+.+..++..+. .....+.++|+||
T Consensus        99 LvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~LVvDE  178 (569)
T KOG0346|consen   99 LVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDE  178 (569)
T ss_pred             EechHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHHHhhccchhhhheeeEEech
Confidence            99999999999999888765543  33333443444444445667779999999999999988766 5678899999999


Q ss_pred             chhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccc-cCceeEEEEeccccchHHH
Q 018574          184 SDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTL-EGIKQFFVAVEREEWKFDT  262 (354)
Q Consensus       184 ~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  262 (354)
                      ||.+++.+|.+.+..+.+.+|+..|.++||||++.++..+...++.+|..+.....+... ..+.+++..+. +.++...
T Consensus       179 ADLllsfGYeedlk~l~~~LPr~~Q~~LmSATl~dDv~~LKkL~l~nPviLkl~e~el~~~dqL~Qy~v~cs-e~DKfll  257 (569)
T KOG0346|consen  179 ADLLLSFGYEEDLKKLRSHLPRIYQCFLMSATLSDDVQALKKLFLHNPVILKLTEGELPNPDQLTQYQVKCS-EEDKFLL  257 (569)
T ss_pred             hhhhhhcccHHHHHHHHHhCCchhhheeehhhhhhHHHHHHHHhccCCeEEEeccccCCCcccceEEEEEec-cchhHHH
Confidence            999999999999999999999999999999999999999999999999988887777664 44566666666 5558888


Q ss_pred             HHHHHhhC-CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-----------
Q 018574          263 LCDLYDTL-TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-----------  330 (354)
Q Consensus       263 l~~~l~~~-~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----------  330 (354)
                      +..+++.. -.+|+|||+|+++.+.++.-.|+..|++..++.|+++.+.|-.++++|+.|-++++|+|+           
T Consensus       258 lyallKL~LI~gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~YdivIAtD~s~~~~~~eee  337 (569)
T KOG0346|consen  258 LYALLKLRLIRGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGLYDIVIATDDSADGDKLEEE  337 (569)
T ss_pred             HHHHHHHHHhcCceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCcceeEEEEccCccchhhhhcc
Confidence            88877743 458999999999999999999999999999999999999999999999999999999998           


Q ss_pred             ------------------------ccccCCCcCCCcEEEecCCCCCC
Q 018574          331 ------------------------VWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       331 ------------------------~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                                              -.++|+|+.++.+|+|||+|.++
T Consensus       338 ~kgk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~  384 (569)
T KOG0346|consen  338 VKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETV  384 (569)
T ss_pred             ccccccccCCCCccccccccCchhchhccccchheeeeeecCCCCch
Confidence                                    24689999999999999999985

>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=4.7e-48  Score=326.24  Aligned_cols=330  Identities=30%  Similarity=0.448  Sum_probs=308.4

Q ss_pred             ecccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-----C
Q 018574           24 ETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-----S   98 (354)
Q Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-----~   98 (354)
                      .....+..+.+|+.++++..+..++.+..|.+|++.|.++++..+.|++++-+|-||||||-+|+.|++-++..     .
T Consensus       214 ~g~s~~rpvtsfeh~gfDkqLm~airk~Ey~kptpiq~qalptalsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~  293 (731)
T KOG0339|consen  214 SGSSPPRPVTSFEHFGFDKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKP  293 (731)
T ss_pred             ccCCCCCCcchhhhcCchHHHHHHHhhhhcccCCcccccccccccccccchheeeccCcchhHHHHHHHHHhcchhhhcC
Confidence            34556788999999999999999999999999999999999999999999999999999999999999887743     2


Q ss_pred             CCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccE
Q 018574           99 SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKL  178 (354)
Q Consensus        99 ~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~  178 (354)
                      ..++-.||+|||++|+.|+..+++++++.++++++.++||.+..++...+..++.|||+||++|.++..-...++.+.++
T Consensus       294 g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~k~Lk~g~EivVaTPgRlid~VkmKatn~~rvS~  373 (731)
T KOG0339|consen  294 GEGPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELKEGAEIVVATPGRLIDMVKMKATNLSRVSY  373 (731)
T ss_pred             CCCCeEEEEeccHHHHHHHHHHHHHhhhhccceEEEeecCCcHHHHHHhhhcCCeEEEechHHHHHHHHhhcccceeeeE
Confidence            45778999999999999999999999999999999999999999999999999999999999999999998999999999


Q ss_pred             EEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccc
Q 018574          179 LVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEW  258 (354)
Q Consensus       179 vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  258 (354)
                      +|+||+++|++.+|...++.|...++++.|.+++|||++..+..+.+.++.+|+++....-......+.+.+..+++...
T Consensus       374 LV~DEadrmfdmGfe~qVrSI~~hirpdrQtllFsaTf~~kIe~lard~L~dpVrvVqg~vgean~dITQ~V~V~~s~~~  453 (731)
T KOG0339|consen  374 LVLDEADRMFDMGFEPQVRSIKQHIRPDRQTLLFSATFKKKIEKLARDILSDPVRVVQGEVGEANEDITQTVSVCPSEEK  453 (731)
T ss_pred             EEEechhhhhccccHHHHHHHHhhcCCcceEEEeeccchHHHHHHHHHHhcCCeeEEEeehhccccchhheeeeccCcHH
Confidence            99999999999999999999999999999999999999999999999999999999888777778889999999999888


Q ss_pred             hHHHHHHHHh-hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCC
Q 018574          259 KFDTLCDLYD-TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLD  337 (354)
Q Consensus       259 ~~~~l~~~l~-~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gid  337 (354)
                      |+..+..-|- ....+++|||+.-+..+++++..|+-.++.+..+||++.+.+|.+++.+|+.+...||++|++..+|+|
T Consensus       454 Kl~wl~~~L~~f~S~gkvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKkk~~~VlvatDvaargld  533 (731)
T KOG0339|consen  454 KLNWLLRHLVEFSSEGKVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATDVAARGLD  533 (731)
T ss_pred             HHHHHHHHhhhhccCCcEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHHHhhcCCceEEEeeHhhcCCC
Confidence            8877766554 445589999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCcEEEecCCCCCC
Q 018574          338 VQQAILFFFLFLFCNV  353 (354)
Q Consensus       338 i~~~~~Vi~~~~p~s~  353 (354)
                      +|.++.||+||+-.++
T Consensus       534 I~~ikTVvnyD~ardI  549 (731)
T KOG0339|consen  534 IPSIKTVVNYDFARDI  549 (731)
T ss_pred             ccccceeecccccchh
Confidence            9999999999998775

>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=1.3e-48  Score=317.97  Aligned_cols=322  Identities=39%  Similarity=0.624  Sum_probs=296.5

Q ss_pred             CcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhc--CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEE
Q 018574           28 GVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIK--GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQAL  105 (354)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~--~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~l  105 (354)
                      +--+..+|+++.+.|++++.+..++|..|+.+|..+++.++.  .++.|.++..|+|||.+|.+.++.+......-+.++
T Consensus        85 PlyS~ksFeeL~LkPellkgly~M~F~kPskIQe~aLPlll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~PQ~i  164 (477)
T KOG0332|consen   85 PLYSAKSFEELRLKPELLKGLYAMKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVPQCI  164 (477)
T ss_pred             CccccccHHhhCCCHHHHhHHHHhccCCcchHHHhhcchhhcCCchhhhhhhcCCCchhHHHHHHHHHhcCccccCCCce
Confidence            345678999999999999999999999999999999999988  478999999999999999999999998887788999


Q ss_pred             EEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc-CCccCCCccEEEEecc
Q 018574          106 ILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDES  184 (354)
Q Consensus       106 il~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~-~~~~~~~~~~vvvDE~  184 (354)
                      .++|+++|+.|+-+.+.+.+++.+++......+..... -..+  ..+|+++||+.+.+++.. ..+.+..+.++|+|||
T Consensus       165 CLaPtrELA~Q~~eVv~eMGKf~~ita~yair~sk~~r-G~~i--~eqIviGTPGtv~Dlm~klk~id~~kikvfVlDEA  241 (477)
T KOG0332|consen  165 CLAPTRELAPQTGEVVEEMGKFTELTASYAIRGSKAKR-GNKL--TEQIVIGTPGTVLDLMLKLKCIDLEKIKVFVLDEA  241 (477)
T ss_pred             eeCchHHHHHHHHHHHHHhcCceeeeEEEEecCccccc-CCcc--hhheeeCCCccHHHHHHHHHhhChhhceEEEecch
Confidence            99999999999999999999998888877766652111 1111  258999999999998877 7788899999999999


Q ss_pred             hhhhcc-CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHH
Q 018574          185 DEMLSR-GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTL  263 (354)
Q Consensus       185 h~~~~~-~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  263 (354)
                      +.+++. +|++.-..+...++++.|++++|||+......+......++..+.....+....++.++|..+.....|+..+
T Consensus       242 D~Mi~tqG~~D~S~rI~~~lP~~~QllLFSATf~e~V~~Fa~kivpn~n~i~Lk~eel~L~~IkQlyv~C~~~~~K~~~l  321 (477)
T KOG0332|consen  242 DVMIDTQGFQDQSIRIMRSLPRNQQLLLFSATFVEKVAAFALKIVPNANVIILKREELALDNIKQLYVLCACRDDKYQAL  321 (477)
T ss_pred             hhhhhcccccccchhhhhhcCCcceEEeeechhHHHHHHHHHHhcCCCceeeeehhhccccchhhheeeccchhhHHHHH
Confidence            999864 7899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcE
Q 018574          264 CDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAIL  343 (354)
Q Consensus       264 ~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~  343 (354)
                      .++.....-+..||||.++..|..++..++..|..+.++||++.-.+|..+++.|++|..+|||+|+++++|||++.++.
T Consensus       322 ~~lyg~~tigqsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTnV~ARGiDv~qVs~  401 (477)
T KOG0332|consen  322 VNLYGLLTIGQSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTNVCARGIDVAQVSV  401 (477)
T ss_pred             HHHHhhhhhhheEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCcceEEEEechhhcccccceEEE
Confidence            99999988899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCCC
Q 018574          344 FFFLFLFCN  352 (354)
Q Consensus       344 Vi~~~~p~s  352 (354)
                      |||||+|-.
T Consensus       402 VvNydlP~~  410 (477)
T KOG0332|consen  402 VVNYDLPVK  410 (477)
T ss_pred             EEecCCccc
Confidence            999999964

>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=5.2e-48  Score=327.88  Aligned_cols=329  Identities=26%  Similarity=0.423  Sum_probs=280.4

Q ss_pred             ecccCcccccCcccCCCCHHHHHHHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-----
Q 018574           24 ETTEGVEAITSFDAMGIKDDLLRGIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-----   97 (354)
Q Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-----   97 (354)
                      ..++.+-....|.++|+++.+.+.++. +++..|+..|.++|+.+++|++++|.++||||||++|++|+.+.+..     
T Consensus       127 ~v~e~~fts~~f~~LGL~~~lv~~L~~~m~i~~pTsVQkq~IP~lL~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki  206 (708)
T KOG0348|consen  127 QVSEAPFTSAAFASLGLHPHLVSHLNTKMKISAPTSVQKQAIPVLLEGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKI  206 (708)
T ss_pred             cccccccccccchhcCCCHHHHHHHHHHhccCccchHhhcchhhhhcCcceEEEcCCCCcccHHHHHHHHHHHHhcCccc
Confidence            334455667889999999999999997 79999999999999999999999999999999999999999998844     


Q ss_pred             -CCCceeEEEEcCCHHHHHHHHHHHHHhccC-cCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc-CCccCC
Q 018574           98 -SSREVQALILSPTRELATQTEKVILAIGDF-INIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR-KTLRTR  174 (354)
Q Consensus        98 -~~~~~~~lil~p~~~l~~q~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~-~~~~~~  174 (354)
                       +..|+-+||++||++|+.|.++.+.++... ..+-.+.+.||.....+...+.+|+.|+|+||++|.+.+.+ ..+.++
T Consensus       207 ~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~~~hWIVPg~lmGGEkkKSEKARLRKGiNILIgTPGRLvDHLknT~~i~~s  286 (708)
T KOG0348|consen  207 QRSDGPYALVIVPTRELALQIYETVQKLLKPFHWIVPGVLMGGEKKKSEKARLRKGINILIGTPGRLVDHLKNTKSIKFS  286 (708)
T ss_pred             cccCCceEEEEechHHHHHHHHHHHHHHhcCceEEeeceeecccccccHHHHHhcCceEEEcCchHHHHHHhccchheee
Confidence             345678999999999999999999998764 46677889999999888999999999999999999999887 567788


Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCC-------------CCcEEEEEeeCchhHHHHHHhccCCCeEEEecCC--
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPP-------------DLQVVLISATLPHEILEMTTKFMTDPVKILVKRD--  239 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~-------------~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~--  239 (354)
                      ++++||+||+|++++-+|.+.+..|++.+..             ..|-+++|||+...+..+...-+.+|..+..+..  
T Consensus       287 ~LRwlVlDEaDrlleLGfekdit~Il~~v~~~~~~e~~~~~lp~q~q~mLlSATLtd~V~rLa~~sLkDpv~I~ld~s~~  366 (708)
T KOG0348|consen  287 RLRWLVLDEADRLLELGFEKDITQILKAVHSIQNAECKDPKLPHQLQNMLLSATLTDGVNRLADLSLKDPVYISLDKSHS  366 (708)
T ss_pred             eeeEEEecchhHHHhccchhhHHHHHHHHhhccchhcccccccHHHHhHhhhhhhHHHHHHHhhccccCceeeeccchhh
Confidence            9999999999999999999999999887721             2678999999999999999988999887772110  


Q ss_pred             -----------------------cccccCceeEEEEeccccchHHHHH----HHHhhCCCCcEEEEcCchhhHHHHHHHH
Q 018574          240 -----------------------ELTLEGIKQFFVAVEREEWKFDTLC----DLYDTLTITQAVIFCNTKRKVDWLTEKM  292 (354)
Q Consensus       240 -----------------------~~~~~~~~~~~~~~~~~~~~~~~l~----~~l~~~~~~~~lvf~~~~~~~~~l~~~l  292 (354)
                                             ...++.+.+.|..+++.. .+..|.    ...+.....|+|||+.+.+.++.-+..|
T Consensus       367 ~~~p~~~a~~ev~~~~~~~~l~~~~iPeqL~qry~vVPpKL-RLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf  445 (708)
T KOG0348|consen  367 QLNPKDKAVQEVDDGPAGDKLDSFAIPEQLLQRYTVVPPKL-RLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLF  445 (708)
T ss_pred             hcCcchhhhhhcCCcccccccccccCcHHhhhceEecCCch-hHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHH
Confidence                                   112344567788887766 333333    3444556679999999999999988888


Q ss_pred             hcC----------------------CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCC
Q 018574          293 RGY----------------------NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       293 ~~~----------------------~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      .+.                      +.+++.+||+|.+++|..+++.|...+-.||+||+++++|+|+|++++||.||.|
T Consensus       446 ~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~~~~~VLLcTDVAaRGLDlP~V~~vVQYd~P  525 (708)
T KOG0348|consen  446 SEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRRAVLLCTDVAARGLDLPHVGLVVQYDPP  525 (708)
T ss_pred             HhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHHHHHHHhhccccceEEEehhhhhccCCCCCcCeEEEeCCC
Confidence            642                      3558899999999999999999999999999999999999999999999999999


Q ss_pred             CCC
Q 018574          351 CNV  353 (354)
Q Consensus       351 ~s~  353 (354)
                      .++
T Consensus       526 ~s~  528 (708)
T KOG0348|consen  526 FST  528 (708)
T ss_pred             CCH
Confidence            875

>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]

Probab=100.00  E-value=1.8e-49  Score=324.79  Aligned_cols=329  Identities=30%  Similarity=0.463  Sum_probs=295.5

Q ss_pred             eecccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcc-------
Q 018574           23 FETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTV-------   95 (354)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~-------   95 (354)
                      .+....+.++.+|.++.++..+++.+++.|+..|+|+|.+-++.++.|++.|-.+-||||||++|.+|++-.+       
T Consensus       160 veGd~ipPPIksF~eMKFP~~~L~~lk~KGI~~PTpIQvQGlPvvLsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~l  239 (610)
T KOG0341|consen  160 VEGDDIPPPIKSFKEMKFPKPLLRGLKKKGIVHPTPIQVQGLPVVLSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMML  239 (610)
T ss_pred             eeCCCCCCchhhhhhccCCHHHHHHHHhcCCCCCCceeecCcceEeecCceeeEEeecCCceEEEeHHHHHHHHHHHhcC
Confidence            3445567788999999999999999999999999999999999999999999999999999999999887544       


Q ss_pred             -ccCCCceeEEEEcCCHHHHHHHHHHHHHhccCc------CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc
Q 018574           96 -DTSSREVQALILSPTRELATQTEKVILAIGDFI------NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR  168 (354)
Q Consensus        96 -~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~  168 (354)
                       .....++-.||+||+++|+.|..+.+..+...+      .++...+.||.+..++...++.+.+|+|+||++|.+++..
T Consensus       240 Pf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~eql~~v~~GvHivVATPGRL~DmL~K  319 (610)
T KOG0341|consen  240 PFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQLDVVRRGVHIVVATPGRLMDMLAK  319 (610)
T ss_pred             ccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHHHHHHHhcCeeEEEcCcchHHHHHHH
Confidence             234457789999999999999999888776433      4677889999999999999999999999999999999999


Q ss_pred             CCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCcee
Q 018574          169 KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ  248 (354)
Q Consensus       169 ~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (354)
                      ..+.+..++++.+||++++.+.+|...++.++..+...+|.+++|||+|..+..+..+.+-.|..+++.+.....-++.+
T Consensus       320 K~~sLd~CRyL~lDEADRmiDmGFEddir~iF~~FK~QRQTLLFSATMP~KIQ~FAkSALVKPvtvNVGRAGAAsldViQ  399 (610)
T KOG0341|consen  320 KIMSLDACRYLTLDEADRMIDMGFEDDIRTIFSFFKGQRQTLLFSATMPKKIQNFAKSALVKPVTVNVGRAGAASLDVIQ  399 (610)
T ss_pred             hhccHHHHHHhhhhhHHHHhhccchhhHHHHHHHHhhhhheeeeeccccHHHHHHHHhhcccceEEecccccccchhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999988877766666655


Q ss_pred             EEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEE
Q 018574          249 FFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT  328 (354)
Q Consensus       249 ~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~  328 (354)
                      .+..+..+. ++..+.+.++... .+++|||..+.+++.++++|--.|..++.+||+-++++|...++.|+.|+-+|||+
T Consensus       400 evEyVkqEa-KiVylLeCLQKT~-PpVLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~ai~afr~gkKDVLVA  477 (610)
T KOG0341|consen  400 EVEYVKQEA-KIVYLLECLQKTS-PPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEAFRAGKKDVLVA  477 (610)
T ss_pred             HHHHHHhhh-hhhhHHHHhccCC-CceEEEeccccChHHHHHHHHHccceeEEeecCcchhHHHHHHHHHhcCCCceEEE
Confidence            555554444 7777777777654 78999999999999999999888999999999999999999999999999999999


Q ss_pred             ccccccCCCcCCCcEEEecCCCCCC
Q 018574          329 TDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       329 T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |++++.|+|+|++.||||||||..+
T Consensus       478 TDVASKGLDFp~iqHVINyDMP~eI  502 (610)
T KOG0341|consen  478 TDVASKGLDFPDIQHVINYDMPEEI  502 (610)
T ss_pred             ecchhccCCCccchhhccCCChHHH
Confidence            9999999999999999999999865

>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.1e-47  Score=312.96  Aligned_cols=324  Identities=62%  Similarity=0.977  Sum_probs=304.5

Q ss_pred             cCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEE
Q 018574           27 EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALI  106 (354)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~li  106 (354)
                      .-.+-..+|+++++++++++.+..+||.+|+.+|++++..+..|.++.+++++|+|||.++..++++.+........+++
T Consensus        20 n~~evvdsfddm~L~e~LLrgiy~yGFekPSaIQqraI~p~i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qali   99 (397)
T KOG0327|consen   20 NWNEVVDSFDDMNLKESLLRGIYAYGFEKPSAIQQRAILPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALI   99 (397)
T ss_pred             cHHHHhhhhhhcCCCHHHHhHHHhhccCCchHHHhccccccccCCceeEeeeccccchhhhHHHHHhhcCcchHHHHHHH
Confidence            34566789999999999999999999999999999999999999999999999999999999999999987777788999


Q ss_pred             EcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh-cCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecch
Q 018574          107 LSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL-EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESD  185 (354)
Q Consensus       107 l~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h  185 (354)
                      ++|+++|+.|.......++...+..+..+.|+.+...+...+ ...++|+++||+++...+....+....+.++|+||++
T Consensus       100 laPtreLa~qi~~v~~~lg~~~~~~v~~~igg~~~~~~~~~i~~~~~hivvGTpgrV~dml~~~~l~~~~iKmfvlDEaD  179 (397)
T KOG0327|consen  100 LAPTRELAQQIQKVVRALGDHMDVSVHACIGGTNVRREDQALLKDKPHIVVGTPGRVFDMLNRGSLSTDGIKMFVLDEAD  179 (397)
T ss_pred             hcchHHHHHHHHHHHHhhhcccceeeeeecCcccchhhhhhhhccCceeecCCchhHHHhhccccccccceeEEeecchH
Confidence            999999999999999999999999999999998887555444 4458999999999999998888888889999999999


Q ss_pred             hhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHH
Q 018574          186 EMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCD  265 (354)
Q Consensus       186 ~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  265 (354)
                      .++..+|.+.+..+++.++++.|++++|||.+.++....+.+..+|..+.....+...+++.++|..+..+. |...+..
T Consensus       180 EmLs~gfkdqI~~if~~lp~~vQv~l~SAT~p~~vl~vt~~f~~~pv~i~vkk~~ltl~gikq~~i~v~k~~-k~~~l~d  258 (397)
T KOG0327|consen  180 EMLSRGFKDQIYDIFQELPSDVQVVLLSATMPSDVLEVTKKFMREPVRILVKKDELTLEGIKQFYINVEKEE-KLDTLCD  258 (397)
T ss_pred             hhhccchHHHHHHHHHHcCcchhheeecccCcHHHHHHHHHhccCceEEEecchhhhhhheeeeeeeccccc-cccHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999998888 9999999


Q ss_pred             HHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEE
Q 018574          266 LYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFF  345 (354)
Q Consensus       266 ~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi  345 (354)
                      +.+  .-...+||||+++.+..+...|...+..+..+|+++.+.+|..+++.|+.|..+|||+|+.+++|+|+.++..||
T Consensus       259 l~~--~~~q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~gssrvlIttdl~argidv~~~slvi  336 (397)
T KOG0327|consen  259 LYR--RVTQAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDLLARGIDVQQVSLVV  336 (397)
T ss_pred             HHH--hhhcceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcCCceEEeeccccccccchhhcceee
Confidence            998  457899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCCCC
Q 018574          346 FLFLFCNV  353 (354)
Q Consensus       346 ~~~~p~s~  353 (354)
                      +||+|.+.
T Consensus       337 nydlP~~~  344 (397)
T KOG0327|consen  337 NYDLPARK  344 (397)
T ss_pred             eeccccch
Confidence            99999865

>KOG0347 consensus RNA helicase [RNA processing and modification]

Probab=100.00  E-value=6.7e-48  Score=328.25  Aligned_cols=323  Identities=27%  Similarity=0.416  Sum_probs=274.3

Q ss_pred             ccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcC-CcEEEEcCCCCchhhHhHHHHhhccccC----------
Q 018574           30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG-RDVIAQAQSGTGKTSMIALTVCQTVDTS----------   98 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~----------   98 (354)
                      ..+..|..++++..++++|...||..|+++|...++++..| .+++-.|.||||||++|-+|+++.+...          
T Consensus       178 ~DvsAW~~l~lp~~iL~aL~~~gFs~Pt~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~  257 (731)
T KOG0347|consen  178 VDVSAWKNLFLPMEILRALSNLGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNT  257 (731)
T ss_pred             cChHHHhcCCCCHHHHHHHHhcCCCCCccchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhhhhH
Confidence            34678999999999999999999999999999999999998 7999999999999999999999855322          


Q ss_pred             -CCcee--EEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCc---c
Q 018574           99 -SREVQ--ALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL---R  172 (354)
Q Consensus        99 -~~~~~--~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~---~  172 (354)
                       ..+++  +||++||++|+.|+.+.+..+....++.+..+.||-....+..-+...++|+|+||++|..++.....   .
T Consensus       258 ~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~~p~IVVATPGRlweli~e~n~~l~~  337 (731)
T KOG0347|consen  258 SAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQRLLNQRPDIVVATPGRLWELIEEDNTHLGN  337 (731)
T ss_pred             HhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHHHHHHHHhcCCCEEEecchHHHHHHHhhhhhhhh
Confidence             12334  99999999999999999999999999999999999999888888888899999999999998877554   3


Q ss_pred             CCCccEEEEecchhhhccCcHHHHHHHHhhCC-----CCCcEEEEEeeCchh---------------------HHHHHHh
Q 018574          173 TRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP-----PDLQVVLISATLPHE---------------------ILEMTTK  226 (354)
Q Consensus       173 ~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~-----~~~~~i~lSaT~~~~---------------------~~~~~~~  226 (354)
                      +..+.++|+||+|+|+..++...+..+++.+.     ..+|-+.+|||+.-.                     +..+++.
T Consensus       338 ~k~vkcLVlDEaDRmvekghF~Els~lL~~L~e~~~~~qrQTlVFSATlt~~~~~~~~~~~k~~~k~~~~~~kiq~Lmk~  417 (731)
T KOG0347|consen  338 FKKVKCLVLDEADRMVEKGHFEELSKLLKHLNEEQKNRQRQTLVFSATLTLVLQQPLSSSRKKKDKEDELNAKIQHLMKK  417 (731)
T ss_pred             hhhceEEEEccHHHHhhhccHHHHHHHHHHhhhhhcccccceEEEEEEeehhhcChhHHhhhccchhhhhhHHHHHHHHH
Confidence            46788999999999999998888988888875     357999999997422                     1222222


Q ss_pred             --ccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeec
Q 018574          227 --FMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHG  304 (354)
Q Consensus       227 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~  304 (354)
                        +...|..+...+.......+......|+..+ +.-.+..++..++ |++|||||+++.+.+++-.|+.+++....+|+
T Consensus       418 ig~~~kpkiiD~t~q~~ta~~l~Es~I~C~~~e-KD~ylyYfl~ryP-GrTlVF~NsId~vKRLt~~L~~L~i~p~~LHA  495 (731)
T KOG0347|consen  418 IGFRGKPKIIDLTPQSATASTLTESLIECPPLE-KDLYLYYFLTRYP-GRTLVFCNSIDCVKRLTVLLNNLDIPPLPLHA  495 (731)
T ss_pred             hCccCCCeeEecCcchhHHHHHHHHhhcCCccc-cceeEEEEEeecC-CceEEEechHHHHHHHHHHHhhcCCCCchhhH
Confidence              3345666666666665555555555555444 5555556666666 89999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCCC
Q 018574          305 DMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNVF  354 (354)
Q Consensus       305 ~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~~  354 (354)
                      .|.+++|-..++.|++....|||||+++++|+|||++.|||||..|++.+
T Consensus       496 ~M~QKqRLknLEkF~~~~~~VLiaTDVAARGLDIp~V~HVIHYqVPrtse  545 (731)
T KOG0347|consen  496 SMIQKQRLKNLEKFKQSPSGVLIATDVAARGLDIPGVQHVIHYQVPRTSE  545 (731)
T ss_pred             HHHHHHHHHhHHHHhcCCCeEEEeehhhhccCCCCCcceEEEeecCCccc
Confidence            99999999999999999999999999999999999999999999999863

>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase

Probab=100.00  E-value=6.7e-45  Score=341.51  Aligned_cols=305  Identities=18%  Similarity=0.218  Sum_probs=238.4

Q ss_pred             CCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHH
Q 018574           40 IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEK  119 (354)
Q Consensus        40 ~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~  119 (354)
                      +++.+.+.+++.||..|+++|.++++.+++|+++++.+|||||||++|++|+++.+... ++.++||++|+++|+.|+.+
T Consensus        21 l~~~l~~~L~~~g~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~~LPiL~~l~~~-~~~~aL~l~PtraLa~q~~~   99 (742)
T TIGR03817        21 AHPDVVAALEAAGIHRPWQHQARAAELAHAGRHVVVATGTASGKSLAYQLPVLSALADD-PRATALYLAPTKALAADQLR   99 (742)
T ss_pred             CCHHHHHHHHHcCCCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHHHHHHHHHHhhC-CCcEEEEEcChHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999988654 45689999999999999999


Q ss_pred             HHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC----CccCCCccEEEEecchhhhccCcHHH
Q 018574          120 VILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK----TLRTRAIKLLVLDESDEMLSRGFKDQ  195 (354)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~----~~~~~~~~~vvvDE~h~~~~~~~~~~  195 (354)
                      .++.+. ..++++..+.|+....+ ...+..+++|+++||+++...+...    ...++++++||+||+|.+.+ .|+..
T Consensus       100 ~l~~l~-~~~i~v~~~~Gdt~~~~-r~~i~~~~~IivtTPd~L~~~~L~~~~~~~~~l~~l~~vViDEah~~~g-~fg~~  176 (742)
T TIGR03817       100 AVRELT-LRGVRPATYDGDTPTEE-RRWAREHARYVLTNPDMLHRGILPSHARWARFLRRLRYVVIDECHSYRG-VFGSH  176 (742)
T ss_pred             HHHHhc-cCCeEEEEEeCCCCHHH-HHHHhcCCCEEEEChHHHHHhhccchhHHHHHHhcCCEEEEeChhhccC-ccHHH
Confidence            999887 44788888888876543 3455667899999999986433211    12257899999999999865 34444


Q ss_pred             HHHH-------HhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEecc-------------
Q 018574          196 IYDV-------YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVER-------------  255 (354)
Q Consensus       196 ~~~i-------~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------  255 (354)
                      +..+       ....+.+.|++++|||+++... ....+...+..+. ..+... ..........+.             
T Consensus       177 ~~~il~rL~ri~~~~g~~~q~i~~SATi~n~~~-~~~~l~g~~~~~i-~~~~~~-~~~~~~~~~~p~~~~~~~~~~~~~r  253 (742)
T TIGR03817       177 VALVLRRLRRLCARYGASPVFVLASATTADPAA-AASRLIGAPVVAV-TEDGSP-RGARTVALWEPPLTELTGENGAPVR  253 (742)
T ss_pred             HHHHHHHHHHHHHhcCCCCEEEEEecCCCCHHH-HHHHHcCCCeEEE-CCCCCC-cCceEEEEecCCccccccccccccc
Confidence            3333       3334567899999999988754 5666676665433 222211 111222211111             


Q ss_pred             ---ccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC--------CCeEEEeecCCCHHHHHHHHHHHhCCCCc
Q 018574          256 ---EEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY--------NFTVSSMHGDMPQKERDAIMGEFRSGTTR  324 (354)
Q Consensus       256 ---~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~--------~~~~~~~~~~~~~~~r~~~~~~f~~g~~~  324 (354)
                         ...+...+..+++.  +.++||||++++.++.++..|++.        +.++..+||++++++|.+++++|++|+.+
T Consensus       254 ~~~~~~~~~~l~~l~~~--~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~G~i~  331 (742)
T TIGR03817       254 RSASAEAADLLADLVAE--GARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRDGELL  331 (742)
T ss_pred             cchHHHHHHHHHHHHHC--CCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHcCCce
Confidence               01234455555553  579999999999999999988753        56788999999999999999999999999


Q ss_pred             EEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          325 VLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       325 vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +||||+++++|+|+|++++||++|+|.|+
T Consensus       332 vLVaTd~lerGIDI~~vd~VI~~~~P~s~  360 (742)
T TIGR03817       332 GVATTNALELGVDISGLDAVVIAGFPGTR  360 (742)
T ss_pred             EEEECchHhccCCcccccEEEEeCCCCCH
Confidence            99999999999999999999999999875

A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.

>KOG0334 consensus RNA helicase [RNA processing and modification]

Probab=100.00  E-value=4e-45  Score=333.88  Aligned_cols=334  Identities=31%  Similarity=0.522  Sum_probs=306.6

Q ss_pred             CcceeecccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-
Q 018574           19 DKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-   97 (354)
Q Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-   97 (354)
                      +++.......+.++.+|...|++..++..++++||..|+++|.++|++++.|+++|.+|-||||||++|++|++.++.. 
T Consensus       351 ~~i~v~g~~~pkpv~sW~q~gl~~~il~tlkkl~y~k~~~IQ~qAiP~ImsGrdvIgvakTgSGKT~af~LPmirhi~dQ  430 (997)
T KOG0334|consen  351 DGIKVKGKECPKPVTSWTQCGLSSKILETLKKLGYEKPTPIQAQAIPAIMSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQ  430 (997)
T ss_pred             cceeeccCCCCcccchHhhCCchHHHHHHHHHhcCCCCcchhhhhcchhccCcceEEeeccCCccchhhhcchhhhhhcC
Confidence            3366677788999999999999999999999999999999999999999999999999999999999999999976643 


Q ss_pred             ----CCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCC---
Q 018574           98 ----SSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKT---  170 (354)
Q Consensus        98 ----~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~---  170 (354)
                          ...+|.++|++||++|+.|+.+.++++...+++.+..+.|+.....++..+++++.|+|+||+++.+.+-...   
T Consensus       431 r~~~~gdGPi~li~aPtrela~QI~r~~~kf~k~l~ir~v~vygg~~~~~qiaelkRg~eIvV~tpGRmiD~l~~n~grv  510 (997)
T KOG0334|consen  431 RPLEEGDGPIALILAPTRELAMQIHREVRKFLKLLGIRVVCVYGGSGISQQIAELKRGAEIVVCTPGRMIDILCANSGRV  510 (997)
T ss_pred             CChhhCCCceEEEEcCCHHHHHHHHHHHHHHHhhcCceEEEecCCccHHHHHHHHhcCCceEEeccchhhhhHhhcCCcc
Confidence                2347899999999999999999999999999999999999999999999999999999999999998876543   


Q ss_pred             ccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEE
Q 018574          171 LRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFF  250 (354)
Q Consensus       171 ~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (354)
                      .++.+..++|+||+|++++.+|.++...|+..+++..|.+.+|||++..+..+....+..|+.+.+.........+.+.+
T Consensus       511 tnlrR~t~lv~deaDrmfdmgfePq~~~Ii~nlrpdrQtvlfSatfpr~m~~la~~vl~~Pveiiv~~~svV~k~V~q~v  590 (997)
T KOG0334|consen  511 TNLRRVTYLVLDEADRMFDMGFEPQITRILQNLRPDRQTVLFSATFPRSMEALARKVLKKPVEIIVGGRSVVCKEVTQVV  590 (997)
T ss_pred             ccccccceeeechhhhhheeccCcccchHHhhcchhhhhhhhhhhhhHHHHHHHHHhhcCCeeEEEccceeEeccceEEE
Confidence            34455669999999999999999999999999999999999999999999999999999999988888888888899999


Q ss_pred             EEeccccchHHHHHHHHhh-CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEc
Q 018574          251 VAVEREEWKFDTLCDLYDT-LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT  329 (354)
Q Consensus       251 ~~~~~~~~~~~~l~~~l~~-~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T  329 (354)
                      ..+..+..++..|..++.. ...+++||||...+.+..+.+.|.+.|+.|..+||+.++.+|..++++|+++...+||+|
T Consensus       591 ~V~~~e~eKf~kL~eLl~e~~e~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~~~~~LLvaT  670 (997)
T KOG0334|consen  591 RVCAIENEKFLKLLELLGERYEDGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNGVVNLLVAT  670 (997)
T ss_pred             EEecCchHHHHHHHHHHHHHhhcCCEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHhccCceEEEeh
Confidence            9998666688888888874 456899999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccCCCcCCCcEEEecCCCCC
Q 018574          330 DVWARGLDVQQAILFFFLFLFCN  352 (354)
Q Consensus       330 ~~~~~Gidi~~~~~Vi~~~~p~s  352 (354)
                      +.+++|+|++.+.+|||||+|.-
T Consensus       671 svvarGLdv~~l~Lvvnyd~pnh  693 (997)
T KOG0334|consen  671 SVVARGLDVKELILVVNYDFPNH  693 (997)
T ss_pred             hhhhcccccccceEEEEcccchh
Confidence            99999999999999999999974

>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=1.7e-44  Score=298.32  Aligned_cols=320  Identities=30%  Similarity=0.472  Sum_probs=297.0

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC-CceeEEEEcCC
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS-REVQALILSPT  110 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~-~~~~~lil~p~  110 (354)
                      ...|..+|++..+.+++.+.||..|+|+|++-++.++++++++--+-||+|||.++++|+++.+.... .+.+++++.|+
T Consensus        20 ~g~fqsmgL~~~v~raI~kkg~~~ptpiqRKTipliLe~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~Ralilspt   99 (529)
T KOG0337|consen   20 SGGFQSMGLDYKVLRAIHKKGFNTPTPIQRKTIPLILEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPT   99 (529)
T ss_pred             CCCccccCCCHHHHHHHHHhhcCCCCchhcccccceeeccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCc
Confidence            68899999999999999999999999999999999999999999999999999999999999987654 45689999999


Q ss_pred             HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc
Q 018574          111 RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       111 ~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      ++|+.|..+..+.++...++....+.|+....++...+...+|||++||+++....-...+.++.+.+|||||++.++..
T Consensus       100 reLa~qtlkvvkdlgrgt~lr~s~~~ggD~~eeqf~~l~~npDii~ATpgr~~h~~vem~l~l~sveyVVfdEadrlfem  179 (529)
T KOG0337|consen  100 RELALQTLKVVKDLGRGTKLRQSLLVGGDSIEEQFILLNENPDIIIATPGRLLHLGVEMTLTLSSVEYVVFDEADRLFEM  179 (529)
T ss_pred             HHHHHHHHHHHHHhccccchhhhhhcccchHHHHHHHhccCCCEEEecCceeeeeehheeccccceeeeeehhhhHHHhh
Confidence            99999999999999999999999999999999999999988999999999998877766788889999999999999999


Q ss_pred             CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhC
Q 018574          191 GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL  270 (354)
Q Consensus       191 ~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~  270 (354)
                      +|.+.+.+++..++...|.+++|||+|..+..+.+..+.+|..+..+.+..-.+.....+..+...+ +...|..++...
T Consensus       180 gfqeql~e~l~rl~~~~QTllfSatlp~~lv~fakaGl~~p~lVRldvetkise~lk~~f~~~~~a~-K~aaLl~il~~~  258 (529)
T KOG0337|consen  180 GFQEQLHEILSRLPESRQTLLFSATLPRDLVDFAKAGLVPPVLVRLDVETKISELLKVRFFRVRKAE-KEAALLSILGGR  258 (529)
T ss_pred             hhHHHHHHHHHhCCCcceEEEEeccCchhhHHHHHccCCCCceEEeehhhhcchhhhhheeeeccHH-HHHHHHHHHhcc
Confidence            9999999999999999999999999999999999999999999987777776777777777776666 888888888765


Q ss_pred             C-CCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          271 T-ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       271 ~-~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      . .++++||+.+..+++.+...|+..|+.+..+++.+++..|..-+.+|+.++..+||.|+.+.+|+|+|-.+.||+||+
T Consensus       259 ~~~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG~diplldnvinyd~  338 (529)
T KOG0337|consen  259 IKDKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGLDIPLLDNVINYDF  338 (529)
T ss_pred             ccccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCCccceEEEehhhhccCCCccccccccccC
Confidence            4 357999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCC
Q 018574          350 FCN  352 (354)
Q Consensus       350 p~s  352 (354)
                      |.+
T Consensus       339 p~~  341 (529)
T KOG0337|consen  339 PPD  341 (529)
T ss_pred             CCC
Confidence            865

>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional

Probab=100.00  E-value=7.3e-43  Score=326.87  Aligned_cols=309  Identities=15%  Similarity=0.242  Sum_probs=237.1

Q ss_pred             cCccc--CCCCHHHHHHHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           33 TSFDA--MGIKDDLLRGIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        33 ~~~~~--~~~~~~~~~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      ..|..  ++++..+...++. +|+..+++.|.++|+.++.|+++++.+|||+|||++|.+|++..      +..+|||+|
T Consensus       435 ~~W~~~~fpw~~~L~~~lk~~FG~~sFRp~Q~eaI~aiL~GrDVLVimPTGSGKSLcYQLPAL~~------~GiTLVISP  508 (1195)
T PLN03137        435 KKWSSRNFPWTKKLEVNNKKVFGNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALIC------PGITLVISP  508 (1195)
T ss_pred             ccccccCCCchHHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHHHHHHHHHHHc------CCcEEEEeC
Confidence            45764  6777778777776 89999999999999999999999999999999999999999854      235999999


Q ss_pred             CHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc------CCCeEEEeCcHHHHH---HHhc--CCccCCCccE
Q 018574          110 TRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE------HGVHVVSGTPGRVCD---MIKR--KTLRTRAIKL  178 (354)
Q Consensus       110 ~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~iiv~T~~~l~~---~~~~--~~~~~~~~~~  178 (354)
                      +++|+.++...+...    ++....+.++....+....+.      ..++|+++||+++..   ++..  .......+.+
T Consensus       509 LiSLmqDQV~~L~~~----GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~~~d~ll~~L~~L~~~~~Lsl  584 (1195)
T PLN03137        509 LVSLIQDQIMNLLQA----NIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLENLNSRGLLAR  584 (1195)
T ss_pred             HHHHHHHHHHHHHhC----CCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHHhhcchHHHHHHHhhhhccccce
Confidence            999998666666543    577888888876655443222      458999999999852   1211  1112245789


Q ss_pred             EEEecchhhhccC--cHHHHHHH--HhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEec
Q 018574          179 LVLDESDEMLSRG--FKDQIYDV--YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVE  254 (354)
Q Consensus       179 vvvDE~h~~~~~~--~~~~~~~i--~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (354)
                      |||||||++..++  |+..+..+  +....+..+++++|||+++.....+...+.......+. .....+++  .|...+
T Consensus       585 IVIDEAHcVSqWGhDFRpdYr~L~~Lr~~fp~vPilALTATAT~~V~eDI~~~L~l~~~~vfr-~Sf~RpNL--~y~Vv~  661 (1195)
T PLN03137        585 FVIDEAHCVSQWGHDFRPDYQGLGILKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVFR-QSFNRPNL--WYSVVP  661 (1195)
T ss_pred             eccCcchhhhhcccchHHHHHHHHHHHHhCCCCCeEEEEecCCHHHHHHHHHHcCCCCcEEee-cccCccce--EEEEec
Confidence            9999999998876  66666543  33334577899999999988877665554433222222 22334443  333333


Q ss_pred             cccchHHHHHHHHhhC-CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccc
Q 018574          255 REEWKFDTLCDLYDTL-TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWA  333 (354)
Q Consensus       255 ~~~~~~~~l~~~l~~~-~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~  333 (354)
                      ........+..++... .++..||||.+++.++.++..|+..|+.+..|||++++.+|..+++.|..|+.+|||||.+++
T Consensus       662 k~kk~le~L~~~I~~~~~~esgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F~~Gei~VLVATdAFG  741 (1195)
T PLN03137        662 KTKKCLEDIDKFIKENHFDECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDEINIICATVAFG  741 (1195)
T ss_pred             cchhHHHHHHHHHHhcccCCCceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHHhcCCCcEEEEechhh
Confidence            3332345666666543 356799999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCcCCCcEEEecCCCCCCC
Q 018574          334 RGLDVQQAILFFFLFLFCNVF  354 (354)
Q Consensus       334 ~Gidi~~~~~Vi~~~~p~s~~  354 (354)
                      +|||+|++++|||||+|.|++
T Consensus       742 MGIDkPDVR~VIHydlPkSiE  762 (1195)
T PLN03137        742 MGINKPDVRFVIHHSLPKSIE  762 (1195)
T ss_pred             cCCCccCCcEEEEcCCCCCHH
Confidence            999999999999999999863

>KOG4284 consensus DEAD box protein [Transcription]

Probab=100.00  E-value=1.4e-43  Score=307.26  Aligned_cols=322  Identities=29%  Similarity=0.518  Sum_probs=299.9

Q ss_pred             ccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      .....|+++.+...++..|++.+|..|++.|..+|+.++.+-+.||++..|+|||++|...+++.+.......+.+|++|
T Consensus        22 ~~~~~fe~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~P  101 (980)
T KOG4284|consen   22 NCTPGFEQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTP  101 (980)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEec
Confidence            34577889999999999999999999999999999999999999999999999999999999999888777889999999


Q ss_pred             CHHHHHHHHHHHHHhcc-CcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhh
Q 018574          110 TRELATQTEKVILAIGD-FINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML  188 (354)
Q Consensus       110 ~~~l~~q~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~  188 (354)
                      |++++.|+.+.+.+++. ..++++..+.||+....+...++. +.|+||||+++..+.+...++...++++|+||||.+.
T Consensus       102 TREiaVQI~~tv~~v~~sf~g~~csvfIGGT~~~~d~~rlk~-~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~  180 (980)
T KOG4284|consen  102 TREIAVQIKETVRKVAPSFTGARCSVFIGGTAHKLDLIRLKQ-TRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLM  180 (980)
T ss_pred             chhhhhHHHHHHHHhcccccCcceEEEecCchhhhhhhhhhh-ceEEecCchHHHHHHHhcCCCccceeEEEeccHHhhh
Confidence            99999999999999886 458999999999998887777664 7899999999999999999999999999999999998


Q ss_pred             c-cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccc-------hH
Q 018574          189 S-RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEW-------KF  260 (354)
Q Consensus       189 ~-~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~  260 (354)
                      + ..|.+.+..|+..+|..+|++.+|||.+..+...+..++.+|-.+........+-++.+++........       ++
T Consensus       181 ~t~sfq~~In~ii~slP~~rQv~a~SATYp~nLdn~Lsk~mrdp~lVr~n~~d~~L~GikQyv~~~~s~nnsveemrlkl  260 (980)
T KOG4284|consen  181 DTESFQDDINIIINSLPQIRQVAAFSATYPRNLDNLLSKFMRDPALVRFNADDVQLFGIKQYVVAKCSPNNSVEEMRLKL  260 (980)
T ss_pred             chhhHHHHHHHHHHhcchhheeeEEeccCchhHHHHHHHHhcccceeecccCCceeechhheeeeccCCcchHHHHHHHH
Confidence            7 579999999999999999999999999999999999999999999999998889999999998776642       56


Q ss_pred             HHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCC
Q 018574          261 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ  340 (354)
Q Consensus       261 ~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~  340 (354)
                      ..|..+++..+..+.||||+....|+-++..|...|+.|.++.|.|++++|..+++.++.-..+|||+|+..++|+|-++
T Consensus       261 q~L~~vf~~ipy~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~~rILVsTDLtaRGIDa~~  340 (980)
T KOG4284|consen  261 QKLTHVFKSIPYVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFRVRILVSTDLTARGIDADN  340 (980)
T ss_pred             HHHHHHHhhCchHHHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhhceEEEEEecchhhccCCccc
Confidence            77777888888889999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcEEEecCCCCC
Q 018574          341 AILFFFLFLFCN  352 (354)
Q Consensus       341 ~~~Vi~~~~p~s  352 (354)
                      +++|||.|.|-+
T Consensus       341 vNLVVNiD~p~d  352 (980)
T KOG4284|consen  341 VNLVVNIDAPAD  352 (980)
T ss_pred             cceEEecCCCcc
Confidence            999999999975

>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family

Probab=100.00  E-value=2e-42  Score=312.62  Aligned_cols=288  Identities=16%  Similarity=0.295  Sum_probs=220.0

Q ss_pred             HCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcC
Q 018574           50 QYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN  129 (354)
Q Consensus        50 ~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~  129 (354)
                      .+||..|+|+|.++++.+++|+++++.+|||+|||++|++|++..      +..+||++|+++|+.|+.+.+...+    
T Consensus         6 ~~g~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y~lp~l~~------~~~~lVi~P~~~L~~dq~~~l~~~g----   75 (470)
T TIGR00614         6 VFGLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALCS------DGITLVISPLISLMEDQVLQLKASG----   75 (470)
T ss_pred             hcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHHHHHHHHc------CCcEEEEecHHHHHHHHHHHHHHcC----
Confidence            389999999999999999999999999999999999999998753      2358999999999999999887654    


Q ss_pred             eEEEEEeCCcchHHhH---Hhh-cCCCeEEEeCcHHHHHHH-hcCCc-cCCCccEEEEecchhhhccC--cHHHHHH---
Q 018574          130 IQAHACVGGKSVGEDI---RKL-EHGVHVVSGTPGRVCDMI-KRKTL-RTRAIKLLVLDESDEMLSRG--FKDQIYD---  198 (354)
Q Consensus       130 ~~~~~~~~~~~~~~~~---~~~-~~~~~iiv~T~~~l~~~~-~~~~~-~~~~~~~vvvDE~h~~~~~~--~~~~~~~---  198 (354)
                      +....+.++....+..   ..+ ....+|+++||+.+.... ....+ ...++++||+||||++.+++  |...+..   
T Consensus        76 i~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH~i~~~g~~fr~~~~~l~~  155 (470)
T TIGR00614        76 IPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCSASNRLLQTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGS  155 (470)
T ss_pred             CcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHcCchhHHHHHHhcCCcCEEEEeCCcccCccccccHHHHHHHHH
Confidence            6666777665544222   122 234799999999875322 11111 45688999999999998765  5555443   


Q ss_pred             HHhhCCCCCcEEEEEeeCchhHHHHHHhccC--CCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh-hCCCCcE
Q 018574          199 VYRYLPPDLQVVLISATLPHEILEMTTKFMT--DPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD-TLTITQA  275 (354)
Q Consensus       199 i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~-~~~~~~~  275 (354)
                      +...+ ++.+++++|||+++.....+...+.  .+..+..   ....+++.  +............+..++. ...++.+
T Consensus       156 l~~~~-~~~~~l~lTAT~~~~~~~di~~~l~l~~~~~~~~---s~~r~nl~--~~v~~~~~~~~~~l~~~l~~~~~~~~~  229 (470)
T TIGR00614       156 LKQKF-PNVPIMALTATASPSVREDILRQLNLKNPQIFCT---SFDRPNLY--YEVRRKTPKILEDLLRFIRKEFKGKSG  229 (470)
T ss_pred             HHHHc-CCCceEEEecCCCHHHHHHHHHHcCCCCCcEEeC---CCCCCCcE--EEEEeCCccHHHHHHHHHHHhcCCCce
Confidence            33333 5778999999999887665554433  3322221   12233332  2222222235556666665 4455567


Q ss_pred             EEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          276 VIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       276 lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ||||+++++++.++..|++.++.+..+||++++++|.++++.|++|+.+|||||+++++|+|+|++++|||+|+|.|+
T Consensus       230 IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~g~~~vLVaT~~~~~GID~p~V~~VI~~~~P~s~  307 (470)
T TIGR00614       230 IIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSM  307 (470)
T ss_pred             EEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHcCCCcEEEEechhhccCCcccceEEEEeCCCCCH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999986

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=1.3e-42  Score=292.81  Aligned_cols=321  Identities=22%  Similarity=0.346  Sum_probs=261.2

Q ss_pred             ccCcccCCCCHHHHHH----------HHHCCCCCChHHHHHhHhhhhc---------CCcEEEEcCCCCchhhHhHHHHh
Q 018574           32 ITSFDAMGIKDDLLRG----------IYQYGFEKPSAIQQRAVMPIIK---------GRDVIAQAQSGTGKTSMIALTVC   92 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~----------l~~~~~~~~~~~Q~~~~~~~~~---------~~~~ii~~~tGsGKT~~~~~~~~   92 (354)
                      ...|+.+++++.....          +.++++....|.|..++++++.         .+++.+.||||||||++|.+|+.
T Consensus       126 lq~~s~l~~se~k~~~d~lea~~~q~l~k~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIV  205 (620)
T KOG0350|consen  126 LQIFSVLGKSEMKNLEDTLEATIDQLLVKMAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIV  205 (620)
T ss_pred             eeeeeccchhHHHHHHHHHHHHHHHHHHHhhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHH
Confidence            3456667766666554          8889999999999999998864         57899999999999999999999


Q ss_pred             hccccC-CCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCC-C----eEEEeCcHHHHHHH
Q 018574           93 QTVDTS-SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG-V----HVVSGTPGRVCDMI  166 (354)
Q Consensus        93 ~~~~~~-~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~----~iiv~T~~~l~~~~  166 (354)
                      +.+... -+..+++||+|+++|+.|+++.+..+....++.++.+.|..+...+..++... +    +|+|+||++|.+++
T Consensus       206 Q~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl  285 (620)
T KOG0350|consen  206 QLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHL  285 (620)
T ss_pred             HHHccCCccceEEEEEeeHHHHHHHHHHHHHHhccCCceEEEecccccchHHHHHHHhcCCCccccceEEcCchHHHHhc
Confidence            999766 34468999999999999999999999999999999999998888877777543 3    89999999999999


Q ss_pred             hc-CCccCCCccEEEEecchhhhccCcHHHHHHHHhhCC----------------------------------CCCcEEE
Q 018574          167 KR-KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP----------------------------------PDLQVVL  211 (354)
Q Consensus       167 ~~-~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~----------------------------------~~~~~i~  211 (354)
                      .+ ..+.+.+++++|+||+|++.+..|...+..+...+.                                  +..+.++
T Consensus       286 ~~~k~f~Lk~LrfLVIDEADRll~qsfQ~Wl~~v~~~~~~~k~~~~~~nii~~~~~~~pt~~~e~~t~~~~~~~~l~kL~  365 (620)
T KOG0350|consen  286 NNTKSFDLKHLRFLVIDEADRLLDQSFQEWLDTVMSLCKTMKRVACLDNIIRQRQAPQPTVLSELLTKLGKLYPPLWKLV  365 (620)
T ss_pred             cCCCCcchhhceEEEechHHHHHHHHHHHHHHHHHHHhCCchhhcChhhhhhhcccCCchhhHHHHhhcCCcCchhHhhh
Confidence            85 788899999999999999988776655555544332                                  2234677


Q ss_pred             EEeeCchhHHHHHHhccCCCeEEEec----CCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHH
Q 018574          212 ISATLPHEILEMTTKFMTDPVKILVK----RDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDW  287 (354)
Q Consensus       212 lSaT~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~  287 (354)
                      +|||+.++-..+...-+..|......    .....++.+.+.+....... +.-.+..++......++|+|+++.+.+.+
T Consensus       366 ~satLsqdP~Kl~~l~l~~Prl~~v~~~~~~ryslp~~l~~~~vv~~~~~-kpl~~~~lI~~~k~~r~lcf~~S~~sa~R  444 (620)
T KOG0350|consen  366 FSATLSQDPSKLKDLTLHIPRLFHVSKPLIGRYSLPSSLSHRLVVTEPKF-KPLAVYALITSNKLNRTLCFVNSVSSANR  444 (620)
T ss_pred             cchhhhcChHHHhhhhcCCCceEEeecccceeeecChhhhhceeeccccc-chHhHHHHHHHhhcceEEEEecchHHHHH
Confidence            88888776666665556666333322    22223344555555554444 78888889999888999999999999999


Q ss_pred             HHHHHh----cCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          288 LTEKMR----GYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       288 l~~~l~----~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ++..|+    .....+..++|.++.+.|...++.|..|++.||||++++++|+|+.++++||+||+|.+.
T Consensus       445 l~~~L~v~~~~~~~~~s~~t~~l~~k~r~k~l~~f~~g~i~vLIcSD~laRGiDv~~v~~VINYd~P~~~  514 (620)
T KOG0350|consen  445 LAHVLKVEFCSDNFKVSEFTGQLNGKRRYKMLEKFAKGDINVLICSDALARGIDVNDVDNVINYDPPASD  514 (620)
T ss_pred             HHHHHHHHhccccchhhhhhhhhhHHHHHHHHHHHhcCCceEEEehhhhhcCCcccccceEeecCCCchh
Confidence            999887    346677779999999999999999999999999999999999999999999999999874

>PRK11057 ATP-dependent DNA helicase RecQ; Provisional

Probab=100.00  E-value=2e-41  Score=313.82  Aligned_cols=297  Identities=16%  Similarity=0.282  Sum_probs=226.7

Q ss_pred             CCHHHHHHHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHH
Q 018574           40 IKDDLLRGIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTE  118 (354)
Q Consensus        40 ~~~~~~~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~  118 (354)
                      ..+...+.+++ +||..++++|.++++.+++|+++++.+|||+|||++|++|++..      ...++|++|+++|+.|+.
T Consensus         9 ~~~~~~~~l~~~fG~~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y~lpal~~------~g~tlVisPl~sL~~dqv   82 (607)
T PRK11057          9 LESLAKQVLQETFGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL------DGLTLVVSPLISLMKDQV   82 (607)
T ss_pred             chhHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHc------CCCEEEEecHHHHHHHHH
Confidence            34444555555 79999999999999999999999999999999999999998754      235899999999999999


Q ss_pred             HHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC--c
Q 018574          119 KVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG--F  192 (354)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~--~  192 (354)
                      +.+...+    +....+.++........   ... ...+++++||+++........+...++++||+||||++..++  |
T Consensus        83 ~~l~~~g----i~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tPe~l~~~~~~~~l~~~~l~~iVIDEaH~i~~~G~~f  158 (607)
T PRK11057         83 DQLLANG----VAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNPALLAVDEAHCISQWGHDF  158 (607)
T ss_pred             HHHHHcC----CcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEEChHHhcChHHHHHHhhCCCCEEEEeCccccccccCcc
Confidence            9887654    66666666554443322   122 347899999999864322223344578999999999998765  4


Q ss_pred             HHHH---HHHHhhCCCCCcEEEEEeeCchhHHHHHHhccC--CCeEEEecCCcccccCceeEEEEeccccchHHHHHHHH
Q 018574          193 KDQI---YDVYRYLPPDLQVVLISATLPHEILEMTTKFMT--DPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY  267 (354)
Q Consensus       193 ~~~~---~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l  267 (354)
                      ...+   ..+...+ ++.+++++|||++......+...+.  ++....   .....+++.  +..... ......+..++
T Consensus       159 r~~y~~L~~l~~~~-p~~~~v~lTAT~~~~~~~di~~~l~l~~~~~~~---~~~~r~nl~--~~v~~~-~~~~~~l~~~l  231 (607)
T PRK11057        159 RPEYAALGQLRQRF-PTLPFMALTATADDTTRQDIVRLLGLNDPLIQI---SSFDRPNIR--YTLVEK-FKPLDQLMRYV  231 (607)
T ss_pred             cHHHHHHHHHHHhC-CCCcEEEEecCCChhHHHHHHHHhCCCCeEEEE---CCCCCCcce--eeeeec-cchHHHHHHHH
Confidence            4443   3334443 5788999999998876654444332  333222   112233332  222222 22556677777


Q ss_pred             hhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEec
Q 018574          268 DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFL  347 (354)
Q Consensus       268 ~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~  347 (354)
                      ....++++||||+++++++.+++.|++.++.+..+||++++++|.++++.|++|+.+|||||+++++|+|+|++++||||
T Consensus       232 ~~~~~~~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~a~~~GIDip~V~~VI~~  311 (607)
T PRK11057        232 QEQRGKSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNVRFVVHF  311 (607)
T ss_pred             HhcCCCCEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCCCCCEEEEechhhccCCCCCcCEEEEe
Confidence            77777899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCC
Q 018574          348 FLFCNV  353 (354)
Q Consensus       348 ~~p~s~  353 (354)
                      |+|.|+
T Consensus       312 d~P~s~  317 (607)
T PRK11057        312 DIPRNI  317 (607)
T ss_pred             CCCCCH
Confidence            999985

>PRK13767 ATP-dependent helicase; Provisional

Probab=100.00  E-value=8.3e-41  Score=319.98  Aligned_cols=309  Identities=18%  Similarity=0.253  Sum_probs=227.6

Q ss_pred             CCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC------CCceeEEEEcCCHHH
Q 018574           40 IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS------SREVQALILSPTREL  113 (354)
Q Consensus        40 ~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~------~~~~~~lil~p~~~l  113 (354)
                      +++.+.+.+++ +|..|+++|.++++.+++|+++++.+|||+|||.++++|++..+...      ..+.++||++|+++|
T Consensus        18 l~~~v~~~~~~-~~~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraL   96 (876)
T PRK13767         18 LRPYVREWFKE-KFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRAL   96 (876)
T ss_pred             cCHHHHHHHHH-ccCCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHH
Confidence            57777777666 68899999999999999999999999999999999999999877532      235679999999999


Q ss_pred             HHHHHHHHHH-------h----ccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCc--cCCCccEE
Q 018574          114 ATQTEKVILA-------I----GDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL--RTRAIKLL  179 (354)
Q Consensus       114 ~~q~~~~~~~-------~----~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~--~~~~~~~v  179 (354)
                      +.|+.+.+..       +    +... ++.+...+|+....+....+.++++|+|+||+++..++....+  .+.++++|
T Consensus        97 a~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~l~~~p~IlVtTPE~L~~ll~~~~~~~~l~~l~~V  176 (876)
T PRK13767         97 NNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQKMLKKPPHILITTPESLAILLNSPKFREKLRTVKWV  176 (876)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHHHHHhCCCCEEEecHHHHHHHhcChhHHHHHhcCCEE
Confidence            9999876542       1    2233 6788889999888777767777899999999999877655433  35789999


Q ss_pred             EEecchhhhccCcHHH----HHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccC-------CCeEEEecCCcccccCcee
Q 018574          180 VLDESDEMLSRGFKDQ----IYDVYRYLPPDLQVVLISATLPHEILEMTTKFMT-------DPVKILVKRDELTLEGIKQ  248 (354)
Q Consensus       180 vvDE~h~~~~~~~~~~----~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~  248 (354)
                      |+||+|.+.+...+..    +..+....+...|.+++|||+++. ......+..       .+..+. .........+..
T Consensus       177 VIDE~H~l~~~~RG~~l~~~L~rL~~l~~~~~q~IglSATl~~~-~~va~~L~~~~~~~~~r~~~iv-~~~~~k~~~i~v  254 (876)
T PRK13767        177 IVDEIHSLAENKRGVHLSLSLERLEELAGGEFVRIGLSATIEPL-EEVAKFLVGYEDDGEPRDCEIV-DARFVKPFDIKV  254 (876)
T ss_pred             EEechhhhccCccHHHHHHHHHHHHHhcCCCCeEEEEecccCCH-HHHHHHhcCccccCCCCceEEE-ccCCCccceEEE
Confidence            9999999986654433    334444444678999999999763 222222211       111111 111111100100


Q ss_pred             EE-----EEecccc---chHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC------CCeEEEeecCCCHHHHHHH
Q 018574          249 FF-----VAVEREE---WKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY------NFTVSSMHGDMPQKERDAI  314 (354)
Q Consensus       249 ~~-----~~~~~~~---~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~------~~~~~~~~~~~~~~~r~~~  314 (354)
                      ..     .......   .....+.++++.  ++++||||++++.++.++..|++.      +..+..+||++++++|..+
T Consensus       255 ~~p~~~l~~~~~~~~~~~l~~~L~~~i~~--~~~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls~~~R~~v  332 (876)
T PRK13767        255 ISPVDDLIHTPAEEISEALYETLHELIKE--HRTTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLSREVRLEV  332 (876)
T ss_pred             eccCccccccccchhHHHHHHHHHHHHhc--CCCEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCCHHHHHHH
Confidence            00     0001111   112333333332  468999999999999999999863      4578999999999999999


Q ss_pred             HHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          315 MGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       315 ~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ++.|++|+.+|||||+.+++|+|+|++++||++|.|.|+
T Consensus       333 e~~fk~G~i~vLVaTs~Le~GIDip~Vd~VI~~~~P~sv  371 (876)
T PRK13767        333 EEKLKRGELKVVVSSTSLELGIDIGYIDLVVLLGSPKSV  371 (876)
T ss_pred             HHHHHcCCCeEEEECChHHhcCCCCCCcEEEEeCCCCCH
Confidence            999999999999999999999999999999999999875

>TIGR01389 recQ ATP-dependent DNA helicase RecQ

Probab=100.00  E-value=1.4e-40  Score=309.23  Aligned_cols=292  Identities=17%  Similarity=0.257  Sum_probs=227.6

Q ss_pred             HHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           47 GIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        47 ~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .+++ +||..++++|.++++.+++|+++++.+|||+|||++|.+|++..      +..++|++|+++|..|+.+.++..+
T Consensus         4 ~l~~~fg~~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y~lpal~~------~g~~lVisPl~sL~~dq~~~l~~~g   77 (591)
T TIGR01389         4 VLKRTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLL------KGLTVVISPLISLMKDQVDQLRAAG   77 (591)
T ss_pred             HHHHhcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHHHHHHHHc------CCcEEEEcCCHHHHHHHHHHHHHcC
Confidence            4544 89999999999999999999999999999999999999998743      2348999999999999999888754


Q ss_pred             cCcCeEEEEEeCCcchHHhHH---h-hcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC--cHHHHHHH
Q 018574          126 DFINIQAHACVGGKSVGEDIR---K-LEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG--FKDQIYDV  199 (354)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~~---~-~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~--~~~~~~~i  199 (354)
                          +.+..+.++....+...   . .....+|+++||+++........+...++++||+||||++..++  |...+..+
T Consensus        78 ----i~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tpe~l~~~~~~~~l~~~~l~~iViDEaH~i~~~g~~frp~y~~l  153 (591)
T TIGR01389        78 ----VAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLEQDYFLNMLQRIPIALVAVDEAHCVSQWGHDFRPEYQRL  153 (591)
T ss_pred             ----CcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEEChhHhcChHHHHHHhcCCCCEEEEeCCcccccccCccHHHHHHH
Confidence                67777777765543322   1 23458999999999865433334455689999999999998754  55544443


Q ss_pred             ---HhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEE
Q 018574          200 ---YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAV  276 (354)
Q Consensus       200 ---~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~l  276 (354)
                         ...++ ..+++++|||++......+...+..+....+. .....+++.  +..... ..+...+..++....++++|
T Consensus       154 ~~l~~~~~-~~~vi~lTAT~~~~~~~~i~~~l~~~~~~~~~-~~~~r~nl~--~~v~~~-~~~~~~l~~~l~~~~~~~~I  228 (591)
T TIGR01389       154 GSLAERFP-QVPRIALTATADAETRQDIRELLRLADANEFI-TSFDRPNLR--FSVVKK-NNKQKFLLDYLKKHRGQSGI  228 (591)
T ss_pred             HHHHHhCC-CCCEEEEEeCCCHHHHHHHHHHcCCCCCCeEe-cCCCCCCcE--EEEEeC-CCHHHHHHHHHHhcCCCCEE
Confidence               44443 44599999999988877666555422111111 122233332  222222 23667777778777678999


Q ss_pred             EEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          277 IFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       277 vf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |||++++.++.+++.|+..++.+..+||+++.++|..+++.|.+|+.+|||||+++++|+|+|++++|||+|+|.|+
T Consensus       229 If~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g~~~vlVaT~a~~~GID~p~v~~VI~~~~p~s~  305 (591)
T TIGR01389       229 IYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHYDMPGNL  305 (591)
T ss_pred             EEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEechhhccCcCCCCCEEEEcCCCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999986

The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.

>PRK02362 ski2-like helicase; Provisional

Probab=100.00  E-value=2.1e-40  Score=314.48  Aligned_cols=302  Identities=18%  Similarity=0.273  Sum_probs=227.9

Q ss_pred             CcccCCCCHHHHHHHHHCCCCCChHHHHHhHhh-hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMP-IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        34 ~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~-~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      .|+++++++.+.+.+++.|+.+|+|+|.++++. +..|+++++.+|||+|||.++.++++..+..   +.+++|++|+++
T Consensus         2 ~~~~l~lp~~~~~~l~~~g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l~~---~~kal~i~P~ra   78 (737)
T PRK02362          2 KIAELPLPEGVIEFYEAEGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAIAR---GGKALYIVPLRA   78 (737)
T ss_pred             ChhhcCCCHHHHHHHHhCCCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHHhc---CCcEEEEeChHH
Confidence            578999999999999999999999999999998 7789999999999999999999999988753   456999999999


Q ss_pred             HHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc
Q 018574          113 LATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF  192 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~  192 (354)
                      |+.|..+.++.+.. .++++..++|+......   ....++|+|+||+++..++++....+.++++||+||+|.+.+.++
T Consensus        79 La~q~~~~~~~~~~-~g~~v~~~tGd~~~~~~---~l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l~d~~r  154 (737)
T PRK02362         79 LASEKFEEFERFEE-LGVRVGISTGDYDSRDE---WLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLIDSANR  154 (737)
T ss_pred             HHHHHHHHHHHhhc-CCCEEEEEeCCcCcccc---ccCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECccccCCCcc
Confidence            99999999987653 47888888887654432   223579999999999888876555567899999999999987777


Q ss_pred             HHHHHHHHhhC---CCCCcEEEEEeeCchhHHHHHHhccCC-------CeEEE--ec-CCcccccCceeEEEEeccccch
Q 018574          193 KDQIYDVYRYL---PPDLQVVLISATLPHEILEMTTKFMTD-------PVKIL--VK-RDELTLEGIKQFFVAVEREEWK  259 (354)
Q Consensus       193 ~~~~~~i~~~~---~~~~~~i~lSaT~~~~~~~~~~~~~~~-------~~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~  259 (354)
                      +..+..++..+   .+..|++++|||+++. ..+...+...       |..+.  .. ........ .+...........
T Consensus       155 g~~le~il~rl~~~~~~~qii~lSATl~n~-~~la~wl~~~~~~~~~rpv~l~~~v~~~~~~~~~~-~~~~~~~~~~~~~  232 (737)
T PRK02362        155 GPTLEVTLAKLRRLNPDLQVVALSATIGNA-DELADWLDAELVDSEWRPIDLREGVFYGGAIHFDD-SQREVEVPSKDDT  232 (737)
T ss_pred             hHHHHHHHHHHHhcCCCCcEEEEcccCCCH-HHHHHHhCCCcccCCCCCCCCeeeEecCCeecccc-ccccCCCccchHH
Confidence            77766665443   5678999999999753 2222221111       11100  00 00000000 0000111111112


Q ss_pred             HHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC------------------------------------CCeEEEee
Q 018574          260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY------------------------------------NFTVSSMH  303 (354)
Q Consensus       260 ~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~------------------------------------~~~~~~~~  303 (354)
                      ...+...+.  .++++||||++++.++.++..|...                                    ...+..+|
T Consensus       233 ~~~~~~~~~--~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~L~~~l~~gva~hH  310 (737)
T PRK02362        233 LNLVLDTLE--EGGQCLVFVSSRRNAEGFAKRAASALKKTLTAAERAELAELAEEIREVSDTETSKDLADCVAKGAAFHH  310 (737)
T ss_pred             HHHHHHHHH--cCCCeEEEEeCHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhccCccccHHHHHHHHhCEEeec
Confidence            333333333  4579999999999999988887542                                    13578899


Q ss_pred             cCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          304 GDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       304 ~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      +++++.+|..+++.|++|.++||+||+.+++|+|+|..++||+
T Consensus       311 agl~~~eR~~ve~~Fr~G~i~VLvaT~tla~GvnlPa~~VVI~  353 (737)
T PRK02362        311 AGLSREHRELVEDAFRDRLIKVISSTPTLAAGLNLPARRVIIR  353 (737)
T ss_pred             CCCCHHHHHHHHHHHHcCCCeEEEechhhhhhcCCCceEEEEe
Confidence            9999999999999999999999999999999999999999997

>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=7.7e-41  Score=288.29  Aligned_cols=328  Identities=27%  Similarity=0.366  Sum_probs=282.9

Q ss_pred             ccCcccccCccc----CCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC---
Q 018574           26 TEGVEAITSFDA----MGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS---   98 (354)
Q Consensus        26 ~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~---   98 (354)
                      ...+....+|.+    ....+.++.++...+|..|++.|.++++.++.+++++.++|||+|||++|.+|++..+...   
T Consensus       125 ~~~~~~l~~f~~lt~~~~~~~~ll~nl~~~~F~~Pt~iq~~aipvfl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~  204 (593)
T KOG0344|consen  125 FHLPPPLLSFSDLTYDYSMNKRLLENLQELGFDEPTPIQKQAIPVFLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQE  204 (593)
T ss_pred             CCCCCccccccccchhhhhcHHHHHhHhhCCCCCCCcccchhhhhhhcccceEEeccCCCcchhhhhhHHHHHHHHhhcc
Confidence            334566677776    5678999999999999999999999999999999999999999999999999999888543   


Q ss_pred             --CCceeEEEEcCCHHHHHHHHHHHHHhc--cCcCeEEEEEeCCcchHHh-HHhhcCCCeEEEeCcHHHHHHHhcCC--c
Q 018574           99 --SREVQALILSPTRELATQTEKVILAIG--DFINIQAHACVGGKSVGED-IRKLEHGVHVVSGTPGRVCDMIKRKT--L  171 (354)
Q Consensus        99 --~~~~~~lil~p~~~l~~q~~~~~~~~~--~~~~~~~~~~~~~~~~~~~-~~~~~~~~~iiv~T~~~l~~~~~~~~--~  171 (354)
                        ..+.+++|+.|+++|+.|.+.++.++.  ...+............... .......++++++||.++...+....  +
T Consensus       205 ~~~~gl~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~qk~a~~~~~k~dili~TP~ri~~~~~~~~~~i  284 (593)
T KOG0344|consen  205 KHKVGLRALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPAYPSQKPAFLSDEKYDILISTPMRIVGLLGLGKLNI  284 (593)
T ss_pred             cCccceEEEEecchHHHHHHHHHHHHhcCCCCCCchhhhhcccccchhhccchhHHHHHHHHhcCHHHHHHHhcCCCccc
Confidence              346689999999999999999999988  5555544444433211111 11112237899999999988887754  6


Q ss_pred             cCCCccEEEEecchhhhcc-CcHHHHHHHHhhCC-CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeE
Q 018574          172 RTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLP-PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQF  249 (354)
Q Consensus       172 ~~~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~-~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  249 (354)
                      .+..+..+|+||+|.+... .|..++..+++.+. ++..+-++|||.+.++++.......++..+.+...+.....+.+.
T Consensus       285 dl~~V~~lV~dEaD~lfe~~~f~~Qla~I~sac~s~~i~~a~FSat~~~~VEE~~~~i~~~~~~vivg~~~sa~~~V~Qe  364 (593)
T KOG0344|consen  285 DLSKVEWLVVDEADLLFEPEFFVEQLADIYSACQSPDIRVALFSATISVYVEEWAELIKSDLKRVIVGLRNSANETVDQE  364 (593)
T ss_pred             hhheeeeEeechHHhhhChhhHHHHHHHHHHHhcCcchhhhhhhccccHHHHHHHHHhhccceeEEEecchhHhhhhhhh
Confidence            7788999999999999998 88889998888775 466778899999999999999999999999998888888889999


Q ss_pred             EEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHH-hcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEE
Q 018574          250 FVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKM-RGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT  328 (354)
Q Consensus       250 ~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l-~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~  328 (354)
                      ...+.....++-.+..+++..-..+++||+++.+.|.+++..| .-.++.+.++||+.++.+|++.++.|+.|++.||+|
T Consensus       365 lvF~gse~~K~lA~rq~v~~g~~PP~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLic  444 (593)
T KOG0344|consen  365 LVFCGSEKGKLLALRQLVASGFKPPVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMERFRIGKIWVLIC  444 (593)
T ss_pred             heeeecchhHHHHHHHHHhccCCCCeEEEEecHHHHHHHHHHhhhccCcceeeEecccchhHHHHHHHHHhccCeeEEEe
Confidence            9999999889999999999988889999999999999999999 455889999999999999999999999999999999


Q ss_pred             ccccccCCCcCCCcEEEecCCCCCC
Q 018574          329 TDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       329 T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+++++|+|+.++++||+||+|.+.
T Consensus       445 Tdll~RGiDf~gvn~VInyD~p~s~  469 (593)
T KOG0344|consen  445 TDLLARGIDFKGVNLVINYDFPQSD  469 (593)
T ss_pred             hhhhhccccccCcceEEecCCCchh
Confidence            9999999999999999999999863

>COG1201 Lhr Lhr-like helicases [General function prediction only]

Probab=100.00  E-value=5.3e-40  Score=301.52  Aligned_cols=308  Identities=18%  Similarity=0.219  Sum_probs=247.6

Q ss_pred             CCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC-----CCceeEEEEcCCHHHH
Q 018574           40 IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS-----SREVQALILSPTRELA  114 (354)
Q Consensus        40 ~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~-----~~~~~~lil~p~~~l~  114 (354)
                      +++.+.+.++.. |..||+.|.++++.+.+|+++++.||||||||.++++|++..+...     ..+..+|||+|-++|.
T Consensus         8 l~~~v~~~~~~~-~~~~t~~Q~~a~~~i~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn   86 (814)
T COG1201           8 LDPRVREWFKRK-FTSLTPPQRYAIPEIHSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALN   86 (814)
T ss_pred             cCHHHHHHHHHh-cCCCCHHHHHHHHHHhCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHH
Confidence            689999999988 8899999999999999999999999999999999999999988765     2356899999999999


Q ss_pred             HHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCC--ccCCCccEEEEecchhhhccC-
Q 018574          115 TQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKT--LRTRAIKLLVLDESDEMLSRG-  191 (354)
Q Consensus       115 ~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~--~~~~~~~~vvvDE~h~~~~~~-  191 (354)
                      .++...++..+...|+.+..-+|++...+.....+++++|+++||++|.-++....  -.+.++.+||+||.|.+.... 
T Consensus        87 ~Di~~rL~~~~~~~G~~v~vRhGDT~~~er~r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~vr~VIVDEiHel~~sKR  166 (814)
T COG1201          87 NDIRRRLEEPLRELGIEVAVRHGDTPQSEKQKMLKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIHALAESKR  166 (814)
T ss_pred             HHHHHHHHHHHHHcCCccceecCCCChHHhhhccCCCCcEEEeChhHHHHHhcCHHHHHHhcCCcEEEeehhhhhhcccc
Confidence            99999999999999999999999999999888899999999999999987765532  235789999999999997654 


Q ss_pred             ---cHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCC--CeEEEecCCcccccCceeEEEEec------cccchH
Q 018574          192 ---FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTD--PVKILVKRDELTLEGIKQFFVAVE------REEWKF  260 (354)
Q Consensus       192 ---~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~  260 (354)
                         ..-.+..+....+ +.|.+++|||..+. ....+.+.+.  +..+....... ...+.-......      .....+
T Consensus       167 G~~Lsl~LeRL~~l~~-~~qRIGLSATV~~~-~~varfL~g~~~~~~Iv~~~~~k-~~~i~v~~p~~~~~~~~~~~~~~~  243 (814)
T COG1201         167 GVQLALSLERLRELAG-DFQRIGLSATVGPP-EEVAKFLVGFGDPCEIVDVSAAK-KLEIKVISPVEDLIYDEELWAALY  243 (814)
T ss_pred             chhhhhhHHHHHhhCc-ccEEEeehhccCCH-HHHHHHhcCCCCceEEEEcccCC-cceEEEEecCCccccccchhHHHH
Confidence               2233444444444 89999999999753 3444444433  23333222221 111111111111      112245


Q ss_pred             HHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCC-CeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcC
Q 018574          261 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYN-FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       261 ~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~-~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~  339 (354)
                      ..+..+++.+.  .+|||+||+..++.++..|++.+ ..+..+||.++.+.|..+.++|++|+.+++|||..++-|||+.
T Consensus       244 ~~i~~~v~~~~--ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~lravV~TSSLELGIDiG  321 (814)
T COG1201         244 ERIAELVKKHR--TTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLELGIDIG  321 (814)
T ss_pred             HHHHHHHhhcC--cEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhcCCceEEEEccchhhccccC
Confidence            56666666543  79999999999999999999886 7899999999999999999999999999999999999999999


Q ss_pred             CCcEEEecCCCCCC
Q 018574          340 QAILFFFLFLFCNV  353 (354)
Q Consensus       340 ~~~~Vi~~~~p~s~  353 (354)
                      +++.||+++-|+++
T Consensus       322 ~vdlVIq~~SP~sV  335 (814)
T COG1201         322 DIDLVIQLGSPKSV  335 (814)
T ss_pred             CceEEEEeCCcHHH
Confidence            99999999999875

>PRK00254 ski2-like helicase; Provisional

Probab=100.00  E-value=9.4e-40  Score=309.30  Aligned_cols=302  Identities=17%  Similarity=0.225  Sum_probs=232.2

Q ss_pred             CcccCCCCHHHHHHHHHCCCCCChHHHHHhHhh-hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMP-IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        34 ~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~-~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      +|+++++++.+.+.+++.|+..|+++|.++++. +..|+++++.+|||+|||.++.++++..+...  +.+++|++|+++
T Consensus         2 ~~~~l~l~~~~~~~l~~~g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~--~~~~l~l~P~~a   79 (720)
T PRK00254          2 KVDELRVDERIKRVLKERGIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLRE--GGKAVYLVPLKA   79 (720)
T ss_pred             cHHHcCCCHHHHHHHHhCCCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhc--CCeEEEEeChHH
Confidence            578899999999999999999999999999986 78899999999999999999999998877543  457999999999


Q ss_pred             HHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc
Q 018574          113 LATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF  192 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~  192 (354)
                      |+.|+.+.++.+. ..++++..++|+.......   ...++|+|+||+++..++++....++++++||+||+|.+.+.++
T Consensus        80 La~q~~~~~~~~~-~~g~~v~~~~Gd~~~~~~~---~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l~~~~r  155 (720)
T PRK00254         80 LAEEKYREFKDWE-KLGLRVAMTTGDYDSTDEW---LGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLIGSYDR  155 (720)
T ss_pred             HHHHHHHHHHHHh-hcCCEEEEEeCCCCCchhh---hccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcCccCCccc
Confidence            9999999998764 4578888888887654322   24589999999999888877666678999999999999988888


Q ss_pred             HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCccccc-C-ceeEEEEeccc------cchHHHHH
Q 018574          193 KDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLE-G-IKQFFVAVERE------EWKFDTLC  264 (354)
Q Consensus       193 ~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~------~~~~~~l~  264 (354)
                      +..+..++..+....|++++|||+++. ..+.. ++..... .......... . ..+.+......      ......+.
T Consensus       156 g~~le~il~~l~~~~qiI~lSATl~n~-~~la~-wl~~~~~-~~~~rpv~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  232 (720)
T PRK00254        156 GATLEMILTHMLGRAQILGLSATVGNA-EELAE-WLNAELV-VSDWRPVKLRKGVFYQGFLFWEDGKIERFPNSWESLVY  232 (720)
T ss_pred             hHHHHHHHHhcCcCCcEEEEEccCCCH-HHHHH-HhCCccc-cCCCCCCcceeeEecCCeeeccCcchhcchHHHHHHHH
Confidence            889999999998899999999999753 33333 3332211 0000000000 0 00011111111      01122333


Q ss_pred             HHHhhCCCCcEEEEcCchhhHHHHHHHHhcC---------------------------------CCeEEEeecCCCHHHH
Q 018574          265 DLYDTLTITQAVIFCNTKRKVDWLTEKMRGY---------------------------------NFTVSSMHGDMPQKER  311 (354)
Q Consensus       265 ~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~---------------------------------~~~~~~~~~~~~~~~r  311 (354)
                      +.+.  .++++||||++++.++.++..|.+.                                 ...+..+|+++++++|
T Consensus       233 ~~i~--~~~~vLVF~~sr~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~hHagl~~~eR  310 (720)
T PRK00254        233 DAVK--KGKGALVFVNTRRSAEKEALELAKKIKRFLTKPELRALKELADSLEENPTNEKLKKALRGGVAFHHAGLGRTER  310 (720)
T ss_pred             HHHH--hCCCEEEEEcChHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhcCCCcHHHHHHHhhCEEEeCCCCCHHHH
Confidence            3343  3578999999999998877666321                                 2348899999999999


Q ss_pred             HHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          312 DAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       312 ~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      ..+.+.|++|.++|||||+.+++|+|+|..++||.
T Consensus       311 ~~ve~~F~~G~i~VLvaT~tLa~Gvnipa~~vVI~  345 (720)
T PRK00254        311 VLIEDAFREGLIKVITATPTLSAGINLPAFRVIIR  345 (720)
T ss_pred             HHHHHHHHCCCCeEEEeCcHHhhhcCCCceEEEEC
Confidence            99999999999999999999999999999999994

>PRK09401 reverse gyrase; Reviewed

Probab=100.00  E-value=3.2e-39  Score=313.04  Aligned_cols=289  Identities=19%  Similarity=0.251  Sum_probs=225.5

Q ss_pred             HHHHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHH
Q 018574           45 LRGIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        45 ~~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      .+.+++ .|+ .|+++|..+++.++.|+++++.||||+|||. +.+++...+..  .+.+++|++||++|+.|+.+.+..
T Consensus        70 ~~~f~~~~G~-~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~-f~l~~~~~l~~--~g~~alIL~PTreLa~Qi~~~l~~  145 (1176)
T PRK09401         70 EKFFKKKTGS-KPWSLQRTWAKRLLLGESFAIIAPTGVGKTT-FGLVMSLYLAK--KGKKSYIIFPTRLLVEQVVEKLEK  145 (1176)
T ss_pred             HHHHHHhcCC-CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHH-HHHHHHHHHHh--cCCeEEEEeccHHHHHHHHHHHHH
Confidence            334544 467 8999999999999999999999999999995 44444433332  356799999999999999999999


Q ss_pred             hccCcCeEEEEEeCCcch-----HHhHHhhc-CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc--------
Q 018574          124 IGDFINIQAHACVGGKSV-----GEDIRKLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS--------  189 (354)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~-----~~~~~~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~--------  189 (354)
                      ++...++.+..+.++.+.     .+....+. .+++|+|+||+.+.+.+.  .+...+++++|+||||++++        
T Consensus       146 l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~--~l~~~~~~~lVvDEaD~~L~~~k~id~~  223 (1176)
T PRK09401        146 FGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFD--ELPKKKFDFVFVDDVDAVLKSSKNIDKL  223 (1176)
T ss_pred             HhhhcCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHH--hccccccCEEEEEChHHhhhcccchhhH
Confidence            998888887777766542     22233444 358999999999988776  45556799999999999985        


Q ss_pred             ---cCcH-HHHHHHHhhCCC------------------------CCcEEEEEeeCchh-HHHHHHhccCCCeEEEecCCc
Q 018574          190 ---RGFK-DQIYDVYRYLPP------------------------DLQVVLISATLPHE-ILEMTTKFMTDPVKILVKRDE  240 (354)
Q Consensus       190 ---~~~~-~~~~~i~~~~~~------------------------~~~~i~lSaT~~~~-~~~~~~~~~~~~~~~~~~~~~  240 (354)
                         .+|. ..+..++..++.                        ..|++++|||+++. ...   .++.++..+......
T Consensus       224 l~~lGF~~~~i~~i~~~i~~~~~~~~~~~~i~~l~~~i~~~~~~~~q~ilfSAT~~~~~~~~---~l~~~ll~~~v~~~~  300 (1176)
T PRK09401        224 LYLLGFSEEDIEKAMELIRLKRKYEEIYEKIRELEEKIAELKDKKGVLVVSSATGRPRGNRV---KLFRELLGFEVGSPV  300 (1176)
T ss_pred             HHhCCCCHHHHHHHHHhcccccccchhhhHHHHHHHhhhhcccCCceEEEEeCCCCccchHH---HHhhccceEEecCcc
Confidence               4563 567667666653                        67999999999864 322   223344445555555


Q ss_pred             ccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhh---HHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHH
Q 018574          241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRK---VDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGE  317 (354)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~---~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~  317 (354)
                      ....++.+.|....   .+...+..+++... .++||||++++.   ++.+++.|+..|+++..+||++     .+.+++
T Consensus       301 ~~~rnI~~~yi~~~---~k~~~L~~ll~~l~-~~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l-----~~~l~~  371 (1176)
T PRK09401        301 FYLRNIVDSYIVDE---DSVEKLVELVKRLG-DGGLIFVPSDKGKEYAEELAEYLEDLGINAELAISGF-----ERKFEK  371 (1176)
T ss_pred             cccCCceEEEEEcc---cHHHHHHHHHHhcC-CCEEEEEecccChHHHHHHHHHHHHCCCcEEEEeCcH-----HHHHHH
Confidence            55677787777654   36667777777654 689999999777   9999999999999999999998     234599


Q ss_pred             HhCCCCcEEEE----ccccccCCCcCC-CcEEEecCCCC
Q 018574          318 FRSGTTRVLIT----TDVWARGLDVQQ-AILFFFLFLFC  351 (354)
Q Consensus       318 f~~g~~~vlv~----T~~~~~Gidi~~-~~~Vi~~~~p~  351 (354)
                      |++|+.+||||    |+++++|+|+|+ +++|||||+|+
T Consensus       372 F~~G~~~VLVatas~tdv~aRGIDiP~~IryVI~y~vP~  410 (1176)
T PRK09401        372 FEEGEVDVLVGVASYYGVLVRGIDLPERIRYAIFYGVPK  410 (1176)
T ss_pred             HHCCCCCEEEEecCCCCceeecCCCCcceeEEEEeCCCC
Confidence            99999999999    689999999999 89999999997

>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype

Probab=100.00  E-value=5.3e-39  Score=296.55  Aligned_cols=296  Identities=20%  Similarity=0.236  Sum_probs=226.7

Q ss_pred             HHHHHHH-CCCCCChHHHHHhHhhhhcCC-cEEEEcCCCCchhhHhHHHHhhccccCCCce-eEEEEcCCHHHHHHHHHH
Q 018574           44 LLRGIYQ-YGFEKPSAIQQRAVMPIIKGR-DVIAQAQSGTGKTSMIALTVCQTVDTSSREV-QALILSPTRELATQTEKV  120 (354)
Q Consensus        44 ~~~~l~~-~~~~~~~~~Q~~~~~~~~~~~-~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~-~~lil~p~~~l~~q~~~~  120 (354)
                      +.+.+++ .||. |+|+|.++++.++.|+ ++++.+|||+|||.++.++++.. ......+ +.++++|+++|+.|+++.
T Consensus         4 f~~ff~~~~G~~-PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~-~~~~~~~~rLv~~vPtReLa~Qi~~~   81 (844)
T TIGR02621         4 FDEWYQGLHGYS-PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAV-EIGAKVPRRLVYVVNRRTVVDQVTEE   81 (844)
T ss_pred             HHHHHHHHhCCC-CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccc-cccccccceEEEeCchHHHHHHHHHH
Confidence            3444554 5885 9999999999999997 68888999999998766555533 2223233 455577999999999999


Q ss_pred             HHHhccCc-----------------------CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCc------
Q 018574          121 ILAIGDFI-----------------------NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL------  171 (354)
Q Consensus       121 ~~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~------  171 (354)
                      +.++++.+                       ++++..+.||.+...++..+..+++|+|+|++.+.+    ..+      
T Consensus        82 ~~~~~k~l~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~~~l~~~p~IIVgT~D~i~s----r~L~~gYg~  157 (844)
T TIGR02621        82 AEKIGERLPDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEWMLDPHRPAVIVGTVDMIGS----RLLFSGYGC  157 (844)
T ss_pred             HHHHHHHhcccchhhhhhhhhhccccccccCCeEEEEEECCCChHHHHHhcCCCCcEEEECHHHHcC----Ccccccccc
Confidence            99888654                       488999999999999999999999999999755532    222      


Q ss_pred             ----------cCCCccEEEEecchhhhccCcHHHHHHHHhhC--CC---CCcEEEEEeeCchhHHHHHHhccCCCeEEEe
Q 018574          172 ----------RTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL--PP---DLQVVLISATLPHEILEMTTKFMTDPVKILV  236 (354)
Q Consensus       172 ----------~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~--~~---~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~  236 (354)
                                .+.+..++|+||||  ++.+|...+..|++.+  ++   ..|+++||||++.+.......+..++..+..
T Consensus       158 ~~~~~pi~ag~L~~v~~LVLDEAD--Ld~gF~~~l~~Il~~l~rp~~~rprQtLLFSAT~p~ei~~l~~~~~~~p~~i~V  235 (844)
T TIGR02621       158 GFKSRPLHAGFLGQDALIVHDEAH--LEPAFQELLKQIMNEQQRPPDFLPLRVVELTATSRTDGPDRTTLLSAEDYKHPV  235 (844)
T ss_pred             ccccccchhhhhccceEEEEehhh--hccccHHHHHHHHHhcccCcccccceEEEEecCCCccHHHHHHHHccCCceeec
Confidence                      15778999999999  5788999999999964  33   2699999999998877777677666665555


Q ss_pred             cCCcccccCceeEEEEeccccchHHHHHHHH---hhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHH-
Q 018574          237 KRDELTLEGIKQFFVAVEREEWKFDTLCDLY---DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERD-  312 (354)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l---~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~-  312 (354)
                      .........+.+++ ..... .+...+...+   .....+++|||||+++.++.+++.|++.++  ..+||++++.+|. 
T Consensus       236 ~~~~l~a~ki~q~v-~v~~e-~Kl~~lv~~L~~ll~e~g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~  311 (844)
T TIGR02621       236 LKKRLAAKKIVKLV-PPSDE-KFLSTMVKELNLLMKDSGGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDD  311 (844)
T ss_pred             ccccccccceEEEE-ecChH-HHHHHHHHHHHHHHhhCCCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhh
Confidence            44444444555532 22222 2333322221   123457899999999999999999998776  8999999999999 


Q ss_pred             ----HHHHHHhC----CC-------CcEEEEccccccCCCcCCCcEEEecCCCCC
Q 018574          313 ----AIMGEFRS----GT-------TRVLITTDVWARGLDVQQAILFFFLFLFCN  352 (354)
Q Consensus       313 ----~~~~~f~~----g~-------~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s  352 (354)
                          .+++.|++    |+       ..|||||+++++|+|++. ++||+...|.+
T Consensus       312 ~~~~~il~~Fk~~~~~g~~~~~~~g~~ILVATdVaerGLDId~-d~VI~d~aP~e  365 (844)
T TIGR02621       312 LVKKEIFNRFLPQMLSGSRARPQQGTVYLVCTSAGEVGVNISA-DHLVCDLAPFE  365 (844)
T ss_pred             HHHHHHHHHHhccccccccccccccceEEeccchhhhcccCCc-ceEEECCCCHH
Confidence                77899986    44       679999999999999986 89999888754

This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.

>TIGR00580 mfd transcription-repair coupling factor (mfd)

Probab=100.00  E-value=2.7e-38  Score=299.80  Aligned_cols=294  Identities=19%  Similarity=0.216  Sum_probs=225.5

Q ss_pred             CCCHHHHHHHHH-CCCCCChHHHHHhHhhhhcC------CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           39 GIKDDLLRGIYQ-YGFEKPSAIQQRAVMPIIKG------RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        39 ~~~~~~~~~l~~-~~~~~~~~~Q~~~~~~~~~~------~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      +.+..+.+.+.+ ++| +|++.|.++++.+.++      .+.++++|||+|||.+++.+++..+..+   .+++|++||+
T Consensus       435 ~~~~~~~~~~~~~~~f-~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g---~qvlvLvPT~  510 (926)
T TIGR00580       435 PPDLEWQQEFEDSFPF-EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG---KQVAVLVPTT  510 (926)
T ss_pred             CCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC---CeEEEEeCcH
Confidence            345556565555 688 6999999999999874      6899999999999999999988877544   5699999999


Q ss_pred             HHHHHHHHHHHHhccCcCeEEEEEeCCcchHHh---HHhhcC-CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhh
Q 018574          112 ELATQTEKVILAIGDFINIQAHACVGGKSVGED---IRKLEH-GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM  187 (354)
Q Consensus       112 ~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~  187 (354)
                      +|+.|+++.+++.....++++..++++....+.   ...+.. .++|+|+||..+     ...+.+.+++++|+||+|++
T Consensus       511 ~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll-----~~~v~f~~L~llVIDEahrf  585 (926)
T TIGR00580       511 LLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLL-----QKDVKFKDLGLLIIDEEQRF  585 (926)
T ss_pred             HHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHh-----hCCCCcccCCEEEeeccccc
Confidence            999999999999888888888888877654332   233333 489999999533     23556789999999999995


Q ss_pred             hccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHH
Q 018574          188 LSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY  267 (354)
Q Consensus       188 ~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l  267 (354)
                           +......++.++.+.++++||||+.+....+......++..+.....  ....+...+....... ....+...+
T Consensus       586 -----gv~~~~~L~~~~~~~~vL~~SATpiprtl~~~l~g~~d~s~I~~~p~--~R~~V~t~v~~~~~~~-i~~~i~~el  657 (926)
T TIGR00580       586 -----GVKQKEKLKELRTSVDVLTLSATPIPRTLHMSMSGIRDLSIIATPPE--DRLPVRTFVMEYDPEL-VREAIRREL  657 (926)
T ss_pred             -----chhHHHHHHhcCCCCCEEEEecCCCHHHHHHHHhcCCCcEEEecCCC--CccceEEEEEecCHHH-HHHHHHHHH
Confidence                 23344555666778999999999988777666555555554443222  2223333333222111 112222222


Q ss_pred             hhCCCCcEEEEcCchhhHHHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEE
Q 018574          268 DTLTITQAVIFCNTKRKVDWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFF  345 (354)
Q Consensus       268 ~~~~~~~~lvf~~~~~~~~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi  345 (354)
                      .  .+++++|||++++.++.+++.|++.  +.++..+||+|+..+|.+++++|++|+.+|||||+++++|+|+|++++||
T Consensus       658 ~--~g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~iie~GIDIp~v~~VI  735 (926)
T TIGR00580       658 L--RGGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNANTII  735 (926)
T ss_pred             H--cCCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECChhhcccccccCCEEE
Confidence            2  3578999999999999999999885  67899999999999999999999999999999999999999999999999


Q ss_pred             ecCCCC
Q 018574          346 FLFLFC  351 (354)
Q Consensus       346 ~~~~p~  351 (354)
                      +++.|.
T Consensus       736 i~~a~~  741 (926)
T TIGR00580       736 IERADK  741 (926)
T ss_pred             EecCCC
Confidence            998875

All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.

>PRK10689 transcription-repair coupling factor; Provisional

Probab=100.00  E-value=6.1e-38  Score=303.52  Aligned_cols=291  Identities=18%  Similarity=0.225  Sum_probs=225.5

Q ss_pred             CHHHHHHHHHCCCCCChHHHHHhHhhhhcC------CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHH
Q 018574           41 KDDLLRGIYQYGFEKPSAIQQRAVMPIIKG------RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELA  114 (354)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~------~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~  114 (354)
                      +++..+....++| .|++.|.++++.++++      .+++++++||+|||.+++.++...+.   .+.+++|++||++|+
T Consensus       587 ~~~~~~~~~~~~~-~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~---~g~qvlvLvPT~eLA  662 (1147)
T PRK10689        587 REQYQLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE---NHKQVAVLVPTTLLA  662 (1147)
T ss_pred             HHHHHHHHHhCCC-CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH---cCCeEEEEeCcHHHH
Confidence            3445555667888 8999999999999886      78999999999999998887776654   345799999999999


Q ss_pred             HHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh---c-CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc
Q 018574          115 TQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL---E-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       115 ~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      .|+++.+.+.....++++..+.++.+..++...+   . ..++|+|+||+.+.     ..+.+.+++++|+||+|++   
T Consensus       663 ~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL~-----~~v~~~~L~lLVIDEahrf---  734 (1147)
T PRK10689        663 QQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLLQ-----SDVKWKDLGLLIVDEEHRF---  734 (1147)
T ss_pred             HHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHHh-----CCCCHhhCCEEEEechhhc---
Confidence            9999999987767778888888876665554332   2 35899999996442     3445678999999999997   


Q ss_pred             CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhC
Q 018574          191 GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL  270 (354)
Q Consensus       191 ~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~  270 (354)
                      ++  .....++.++.+.|++++|||+.+....+....+.++..+......  ...+...+........+...+..+.   
T Consensus       735 G~--~~~e~lk~l~~~~qvLl~SATpiprtl~l~~~gl~d~~~I~~~p~~--r~~v~~~~~~~~~~~~k~~il~el~---  807 (1147)
T PRK10689        735 GV--RHKERIKAMRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPAR--RLAVKTFVREYDSLVVREAILREIL---  807 (1147)
T ss_pred             ch--hHHHHHHhcCCCCcEEEEcCCCCHHHHHHHHhhCCCcEEEecCCCC--CCCceEEEEecCcHHHHHHHHHHHh---
Confidence            22  2234456677889999999999988888777777777655543321  2233333333322221223333333   


Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEE---
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFF---  345 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi---  345 (354)
                      .+++++|||++++.++.+++.|++.  +.++..+||+|++.+|.+++++|++|+.+|||||+++++|+|+|++++||   
T Consensus       808 r~gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTdIierGIDIP~v~~VIi~~  887 (1147)
T PRK10689        808 RGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIER  887 (1147)
T ss_pred             cCCeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECchhhcccccccCCEEEEec
Confidence            2478999999999999999999887  67899999999999999999999999999999999999999999999999   


Q ss_pred             --ecCCC
Q 018574          346 --FLFLF  350 (354)
Q Consensus       346 --~~~~p  350 (354)
                        +||+|
T Consensus       888 ad~fgla  894 (1147)
T PRK10689        888 ADHFGLA  894 (1147)
T ss_pred             CCCCCHH
Confidence              66665

>PRK01172 ski2-like helicase; Provisional

Probab=100.00  E-value=5.3e-38  Score=296.23  Aligned_cols=302  Identities=18%  Similarity=0.257  Sum_probs=223.7

Q ss_pred             CcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHH
Q 018574           34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTREL  113 (354)
Q Consensus        34 ~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l  113 (354)
                      .|+++++++.+.+.+...++ +++++|.++++.+.+++++++.+|||+|||.++.++++..+..+   .+++|++|+++|
T Consensus         2 ~~~~~~l~~~~~~~~~~~~~-~l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~l~~~---~k~v~i~P~raL   77 (674)
T PRK01172          2 KISDLGYDDEFLNLFTGNDF-ELYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYETFLAG---LKSIYIVPLRSL   77 (674)
T ss_pred             cHhhcCCCHHHHHHHhhCCC-CCCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHHHHhC---CcEEEEechHHH
Confidence            57789999999999999998 59999999999999999999999999999999999988877543   469999999999


Q ss_pred             HHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcH
Q 018574          114 ATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFK  193 (354)
Q Consensus       114 ~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~  193 (354)
                      +.|+++.+.++. ..+..+....|+......   ....++|+|+||+++..++.+....+.++++||+||+|.+.+.+++
T Consensus        78 a~q~~~~~~~l~-~~g~~v~~~~G~~~~~~~---~~~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~d~~rg  153 (674)
T PRK01172         78 AMEKYEELSRLR-SLGMRVKISIGDYDDPPD---FIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIGDEDRG  153 (674)
T ss_pred             HHHHHHHHHHHh-hcCCeEEEEeCCCCCChh---hhccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchhccCCCcc
Confidence            999999998764 456778777777654332   2235799999999998888776666788999999999999877666


Q ss_pred             HHHHHHHh---hCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEE-----EEeccccchHHHHHH
Q 018574          194 DQIYDVYR---YLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFF-----VAVEREEWKFDTLCD  265 (354)
Q Consensus       194 ~~~~~i~~---~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~l~~  265 (354)
                      ..+..++.   ..+++.|++++|||+++. ..+.. ++.... +.  .. ..+..+....     ............+..
T Consensus       154 ~~le~ll~~~~~~~~~~riI~lSATl~n~-~~la~-wl~~~~-~~--~~-~r~vpl~~~i~~~~~~~~~~~~~~~~~~~~  227 (674)
T PRK01172        154 PTLETVLSSARYVNPDARILALSATVSNA-NELAQ-WLNASL-IK--SN-FRPVPLKLGILYRKRLILDGYERSQVDINS  227 (674)
T ss_pred             HHHHHHHHHHHhcCcCCcEEEEeCccCCH-HHHHH-HhCCCc-cC--CC-CCCCCeEEEEEecCeeeecccccccccHHH
Confidence            66666544   445688999999999753 33333 332211 00  00 0000000000     001001101111222


Q ss_pred             HHhh--CCCCcEEEEcCchhhHHHHHHHHhcC-------------------------CCeEEEeecCCCHHHHHHHHHHH
Q 018574          266 LYDT--LTITQAVIFCNTKRKVDWLTEKMRGY-------------------------NFTVSSMHGDMPQKERDAIMGEF  318 (354)
Q Consensus       266 ~l~~--~~~~~~lvf~~~~~~~~~l~~~l~~~-------------------------~~~~~~~~~~~~~~~r~~~~~~f  318 (354)
                      ++..  ..++++||||++++.++.++..|.+.                         ...+..+||++++++|..+++.|
T Consensus       228 ~i~~~~~~~~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f  307 (674)
T PRK01172        228 LIKETVNDGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMF  307 (674)
T ss_pred             HHHHHHhCCCcEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHH
Confidence            2222  24578999999999999999888643                         12367899999999999999999


Q ss_pred             hCCCCcEEEEccccccCCCcCCCcEEEecCCC
Q 018574          319 RSGTTRVLITTDVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       319 ~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      ++|..+|||||+.+++|+|+|+. .||+.|.|
T Consensus       308 ~~g~i~VLvaT~~la~Gvnipa~-~VII~~~~  338 (674)
T PRK01172        308 RNRYIKVIVATPTLAAGVNLPAR-LVIVRDIT  338 (674)
T ss_pred             HcCCCeEEEecchhhccCCCcce-EEEEcCce
Confidence            99999999999999999999975 66666654

>PRK10917 ATP-dependent DNA helicase RecG; Provisional

Probab=100.00  E-value=4.3e-37  Score=287.83  Aligned_cols=293  Identities=22%  Similarity=0.277  Sum_probs=214.7

Q ss_pred             HHHHHH-HHHCCCCCChHHHHHhHhhhhcC------CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHH
Q 018574           42 DDLLRG-IYQYGFEKPSAIQQRAVMPIIKG------RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELA  114 (354)
Q Consensus        42 ~~~~~~-l~~~~~~~~~~~Q~~~~~~~~~~------~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~  114 (354)
                      ..+.+. ...++| +|++.|.++++.+.++      .+.++++|||||||.+++++++..+..   +.+++|++||++|+
T Consensus       248 ~~~~~~~~~~l~f-~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~---g~q~lilaPT~~LA  323 (681)
T PRK10917        248 GELLKKFLASLPF-ELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEA---GYQAALMAPTEILA  323 (681)
T ss_pred             hHHHHHHHHhCCC-CCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHc---CCeEEEEeccHHHH
Confidence            344444 445777 8999999999999875      378999999999999999999887754   45699999999999


Q ss_pred             HHHHHHHHHhccCcCeEEEEEeCCcchHHh---HHhhcC-CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc
Q 018574          115 TQTEKVILAIGDFINIQAHACVGGKSVGED---IRKLEH-GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       115 ~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      .|+++.++++....++++..++|+....+.   ...+.. .++|+|+||+.+..     ...+.++++||+||+|++...
T Consensus       324 ~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~-----~v~~~~l~lvVIDE~Hrfg~~  398 (681)
T PRK10917        324 EQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQD-----DVEFHNLGLVIIDEQHRFGVE  398 (681)
T ss_pred             HHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcc-----cchhcccceEEEechhhhhHH
Confidence            999999999988888999999999875433   233444 49999999976632     344678999999999996322


Q ss_pred             CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhC
Q 018574          191 GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL  270 (354)
Q Consensus       191 ~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~  270 (354)
                           ....+.......++++||||+.+....+......+...+  .........+...+..........+.+.+.+  .
T Consensus       399 -----qr~~l~~~~~~~~iL~~SATp~prtl~~~~~g~~~~s~i--~~~p~~r~~i~~~~~~~~~~~~~~~~i~~~~--~  469 (681)
T PRK10917        399 -----QRLALREKGENPHVLVMTATPIPRTLAMTAYGDLDVSVI--DELPPGRKPITTVVIPDSRRDEVYERIREEI--A  469 (681)
T ss_pred             -----HHHHHHhcCCCCCEEEEeCCCCHHHHHHHHcCCCceEEE--ecCCCCCCCcEEEEeCcccHHHHHHHHHHHH--H
Confidence                 222333344568899999999876655443222222222  2111112223333322221111223333333  2


Q ss_pred             CCCcEEEEcCchh--------hHHHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCC
Q 018574          271 TITQAVIFCNTKR--------KVDWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~--------~~~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~  340 (354)
                      .+++++|||+.++        .+..+++.|.+.  +.++..+||++++.+|.+++++|++|+.+|||||+++++|+|+|+
T Consensus       470 ~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GiDip~  549 (681)
T PRK10917        470 KGRQAYVVCPLIEESEKLDLQSAEETYEELQEAFPELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATTVIEVGVDVPN  549 (681)
T ss_pred             cCCcEEEEEcccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECcceeeCcccCC
Confidence            4568999999644        456677777765  468999999999999999999999999999999999999999999


Q ss_pred             CcEEEecCCCCC
Q 018574          341 AILFFFLFLFCN  352 (354)
Q Consensus       341 ~~~Vi~~~~p~s  352 (354)
                      +++||+++.|..
T Consensus       550 v~~VIi~~~~r~  561 (681)
T PRK10917        550 ATVMVIENAERF  561 (681)
T ss_pred             CcEEEEeCCCCC
Confidence            999999999863

>PRK14701 reverse gyrase; Provisional

Probab=100.00  E-value=2.4e-37  Score=306.02  Aligned_cols=294  Identities=17%  Similarity=0.226  Sum_probs=225.2

Q ss_pred             HHHHHHHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHH
Q 018574           42 DDLLRGIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKV  120 (354)
Q Consensus        42 ~~~~~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~  120 (354)
                      .++.+.+++ +|+ .|++.|.++++.+++|+++++.||||+|||..++++++....   ++.+++|++||++|+.|+.+.
T Consensus        66 ~~~~~~f~~~~G~-~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~~~al~~~~---~g~~aLVl~PTreLa~Qi~~~  141 (1638)
T PRK14701         66 EEFEEFFEKITGF-EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGAFIALFLAL---KGKKCYIILPTTLLVKQTVEK  141 (1638)
T ss_pred             HHHHHHHHHhhCC-CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHHHHHh---cCCeEEEEECHHHHHHHHHHH
Confidence            345556666 799 799999999999999999999999999999865555544322   345799999999999999999


Q ss_pred             HHHhccCc--CeEEEEEeCCcchHHhH---HhhcC-CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc-----
Q 018574          121 ILAIGDFI--NIQAHACVGGKSVGEDI---RKLEH-GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS-----  189 (354)
Q Consensus       121 ~~~~~~~~--~~~~~~~~~~~~~~~~~---~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~-----  189 (354)
                      ++.+....  ++.+..++|+.+..++.   ..+.. .++|+|+||+.+.......  ...+++++|+||||+++.     
T Consensus       142 l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~~l--~~~~i~~iVVDEAD~ml~~~kni  219 (1638)
T PRK14701        142 IESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQFLARNFPEM--KHLKFDFIFVDDVDAFLKASKNI  219 (1638)
T ss_pred             HHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCchhHHhHHHH--hhCCCCEEEEECceecccccccc
Confidence            99987664  45667778887665542   33444 4899999999887765532  226789999999999975     


Q ss_pred             ------cCcHHHHHH----HHh----------------------hCCCCCc-EEEEEeeCchhHHHHHHhccCCCeEEEe
Q 018574          190 ------RGFKDQIYD----VYR----------------------YLPPDLQ-VVLISATLPHEILEMTTKFMTDPVKILV  236 (354)
Q Consensus       190 ------~~~~~~~~~----i~~----------------------~~~~~~~-~i~lSaT~~~~~~~~~~~~~~~~~~~~~  236 (354)
                            .+|.+.+..    +++                      .++...| .+.+|||+++.. .. ..++.++..+..
T Consensus       220 d~~L~llGF~~e~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ll~~SAT~~~r~-~~-~~l~~~~l~f~v  297 (1638)
T PRK14701        220 DRSLQLLGFYEEIIEKAWKIIYLKKQGNIEDAMEKREILNKEIEKIGNKIGCLIVASATGKAKG-DR-VKLYRELLGFEV  297 (1638)
T ss_pred             chhhhcCCChHHHHHHHHHhhhcccccccchhhhhhhhhhhhhhhcCCCccEEEEEecCCCchh-HH-HHHhhcCeEEEe
Confidence                  366666653    321                      2234455 577999998641 11 133456666666


Q ss_pred             cCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhh---HHHHHHHHhcCCCeEEEeecCCCHHHHHH
Q 018574          237 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRK---VDWLTEKMRGYNFTVSSMHGDMPQKERDA  313 (354)
Q Consensus       237 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~---~~~l~~~l~~~~~~~~~~~~~~~~~~r~~  313 (354)
                      ........++.+.|....... + ..+..+++.. +..+||||++++.   ++++++.|++.|+++..+||+     |..
T Consensus       298 ~~~~~~lr~i~~~yi~~~~~~-k-~~L~~ll~~~-g~~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~-----R~~  369 (1638)
T PRK14701        298 GSGRSALRNIVDVYLNPEKII-K-EHVRELLKKL-GKGGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK-----NKK  369 (1638)
T ss_pred             cCCCCCCCCcEEEEEECCHHH-H-HHHHHHHHhC-CCCeEEEEeccccchHHHHHHHHHHHCCCeEEEecch-----HHH
Confidence            666666677787777654332 3 4676777765 4689999999775   589999999999999999995     888


Q ss_pred             HHHHHhCCCCcEEEEc----cccccCCCcCC-CcEEEecCCCC
Q 018574          314 IMGEFRSGTTRVLITT----DVWARGLDVQQ-AILFFFLFLFC  351 (354)
Q Consensus       314 ~~~~f~~g~~~vlv~T----~~~~~Gidi~~-~~~Vi~~~~p~  351 (354)
                      .+++|++|+.+|||||    +.+++|||+|+ +++|||||+|+
T Consensus       370 ~l~~F~~G~~~VLVaT~s~~gvaaRGIDiP~~Vryvi~~~~Pk  412 (1638)
T PRK14701        370 GFDLFEEGEIDYLIGVATYYGTLVRGLDLPERIRFAVFYGVPK  412 (1638)
T ss_pred             HHHHHHcCCCCEEEEecCCCCeeEecCccCCccCEEEEeCCCC
Confidence            9999999999999999    48899999998 99999999999

>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]

Probab=100.00  E-value=1.4e-37  Score=275.84  Aligned_cols=297  Identities=18%  Similarity=0.257  Sum_probs=231.7

Q ss_pred             HHHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           46 RGIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        46 ~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      ..|++ +|+..+++.|.++++.+++++++++..|||.||+++|-+|++-.     .| .+|||.|..+|.....+.++..
T Consensus         7 ~~L~~~fGy~~FR~gQ~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~-----~G-~TLVVSPLiSLM~DQV~~l~~~   80 (590)
T COG0514           7 QVLKQVFGYASFRPGQQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL-----EG-LTLVVSPLISLMKDQVDQLEAA   80 (590)
T ss_pred             HHHHHHhCccccCCCHHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc-----CC-CEEEECchHHHHHHHHHHHHHc
Confidence            44555 79999999999999999999999999999999999999998755     12 5899999999999999999877


Q ss_pred             ccCcCeEEEEEeCCcchHHhH---HhhcC-CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC--cHHHHHH
Q 018574          125 GDFINIQAHACVGGKSVGEDI---RKLEH-GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG--FKDQIYD  198 (354)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~---~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~--~~~~~~~  198 (354)
                      +    +....+...-+..+..   ..+.. ..++++.+|+++..-.....+....+.+++|||||++..|+  |++.+..
T Consensus        81 G----i~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisPErl~~~~f~~~L~~~~i~l~vIDEAHCiSqWGhdFRP~Y~~  156 (590)
T COG0514          81 G----IRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSPRFLELLKRLPISLVAIDEAHCISQWGHDFRPDYRR  156 (590)
T ss_pred             C----ceeehhhcccCHHHHHHHHHHHhcCceeEEEECchhhcChHHHHHHHhCCCceEEechHHHHhhcCCccCHhHHH
Confidence            6    6666666554433332   23333 37999999999976544444445678999999999999886  7776666


Q ss_pred             HHhhCC--CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEE
Q 018574          199 VYRYLP--PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAV  276 (354)
Q Consensus       199 i~~~~~--~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~l  276 (354)
                      +.....  ++.+++.+|||.++.+...+...+.......+ ....+++++............+...+.+ ......+..|
T Consensus       157 lg~l~~~~~~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~-~~sfdRpNi~~~v~~~~~~~~q~~fi~~-~~~~~~~~GI  234 (590)
T COG0514         157 LGRLRAGLPNPPVLALTATATPRVRDDIREQLGLQDANIF-RGSFDRPNLALKVVEKGEPSDQLAFLAT-VLPQLSKSGI  234 (590)
T ss_pred             HHHHHhhCCCCCEEEEeCCCChHHHHHHHHHhcCCCcceE-EecCCCchhhhhhhhcccHHHHHHHHHh-hccccCCCeE
Confidence            544332  37889999999999988877776654332111 1224455555444443322223332222 2255567799


Q ss_pred             EEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCCC
Q 018574          277 IFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNVF  354 (354)
Q Consensus       277 vf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~~  354 (354)
                      |||.|++.++.+++.|+..|+.+..||++++.++|..+.++|..++.+|+|||.++++|||-|+++.|||||+|.|++
T Consensus       235 IYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~~~~~iiVAT~AFGMGIdKpdVRfViH~~lP~s~E  312 (590)
T COG0514         235 IYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVRFVIHYDLPGSIE  312 (590)
T ss_pred             EEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhcCCCcEEEEeccccCccCCCCceEEEEecCCCCHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999974

>TIGR01054 rgy reverse gyrase

Probab=100.00  E-value=9.1e-37  Score=296.40  Aligned_cols=293  Identities=19%  Similarity=0.281  Sum_probs=217.6

Q ss_pred             HHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHH
Q 018574           43 DLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVIL  122 (354)
Q Consensus        43 ~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~  122 (354)
                      ++.+.+.+.....|+++|..+++.++.|+++++.||||+|||. +++++...+..  .+++++|++||++|+.|+.+.++
T Consensus        66 ~f~~~f~~~~g~~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~-f~l~~~~~l~~--~g~~vLIL~PTreLa~Qi~~~l~  142 (1171)
T TIGR01054        66 EFEEFFKKAVGSEPWSIQKMWAKRVLRGDSFAIIAPTGVGKTT-FGLAMSLFLAK--KGKRCYIILPTTLLVIQVAEKIS  142 (1171)
T ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHhCCCeEEEECCCCCCHHH-HHHHHHHHHHh--cCCeEEEEeCHHHHHHHHHHHHH
Confidence            3444455533448999999999999999999999999999996 55555544432  25679999999999999999999


Q ss_pred             HhccCcCeEEE---EEeCCcchHHh---HHhhcC-CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc------
Q 018574          123 AIGDFINIQAH---ACVGGKSVGED---IRKLEH-GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS------  189 (354)
Q Consensus       123 ~~~~~~~~~~~---~~~~~~~~~~~---~~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~------  189 (354)
                      .+....++...   .++|+.+..++   ...+.+ +++|+|+||+.+.+....  +.. +++++|+||||++++      
T Consensus       143 ~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~--l~~-~~~~iVvDEaD~~L~~~k~vd  219 (1171)
T TIGR01054       143 SLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDE--LGP-KFDFIFVDDVDALLKASKNVD  219 (1171)
T ss_pred             HHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHH--hcC-CCCEEEEeChHhhhhccccHH
Confidence            98876665443   45677665543   223333 489999999999877664  222 789999999999987      


Q ss_pred             -----cCcHHH-HHHHH----------------------hhCCCCCc--EEEEEeeC-chhHHHHHHhccCCCeEEEecC
Q 018574          190 -----RGFKDQ-IYDVY----------------------RYLPPDLQ--VVLISATL-PHEILEMTTKFMTDPVKILVKR  238 (354)
Q Consensus       190 -----~~~~~~-~~~i~----------------------~~~~~~~~--~i~lSaT~-~~~~~~~~~~~~~~~~~~~~~~  238 (354)
                           .+|... +..++                      +.++...|  ++++|||. +.....   .++.+...+....
T Consensus       220 ~il~llGF~~e~i~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~li~~SAT~~p~~~~~---~l~r~ll~~~v~~  296 (1171)
T TIGR01054       220 KLLKLLGFSEELIEKAWKLIRLRLKLYRALHAKKRLELLEAIPGKKRGCLIVSSATGRPRGKRA---KLFRELLGFEVGG  296 (1171)
T ss_pred             HHHHHcCCCHHHHHHHHHHhhhccccchHHHHHHHHHHHHhhhhccCcEEEEEeCCCCccccHH---HHcccccceEecC
Confidence                 345442 33332                      23344444  56789994 443332   2344444455555


Q ss_pred             CcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCch---hhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHH
Q 018574          239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTK---RKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIM  315 (354)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~---~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~  315 (354)
                      ......++.+.+.....   +...+..+++... .++||||+++   +.++++++.|++.|+++..+||+++    ...+
T Consensus       297 ~~~~~r~I~~~~~~~~~---~~~~L~~ll~~l~-~~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~----~~~l  368 (1171)
T TIGR01054       297 GSDTLRNVVDVYVEDED---LKETLLEIVKKLG-TGGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKP----KEDY  368 (1171)
T ss_pred             ccccccceEEEEEeccc---HHHHHHHHHHHcC-CCEEEEEeccccHHHHHHHHHHHHhCCceEEEEeCCCC----HHHH
Confidence            55556677777664332   2345666666553 6899999999   9999999999999999999999986    3688


Q ss_pred             HHHhCCCCcEEEEc----cccccCCCcCC-CcEEEecCCCCC
Q 018574          316 GEFRSGTTRVLITT----DVWARGLDVQQ-AILFFFLFLFCN  352 (354)
Q Consensus       316 ~~f~~g~~~vlv~T----~~~~~Gidi~~-~~~Vi~~~~p~s  352 (354)
                      +.|++|+.+|||||    +.+++|+|+|+ +++|||||+|+-
T Consensus       369 ~~Fr~G~~~vLVata~~tdv~aRGIDip~~V~~vI~~~~P~~  410 (1171)
T TIGR01054       369 EKFAEGEIDVLIGVASYYGTLVRGLDLPERVRYAVFLGVPKF  410 (1171)
T ss_pred             HHHHcCCCCEEEEeccccCcccccCCCCccccEEEEECCCCE
Confidence            99999999999994    89999999999 899999999974

Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.

>TIGR00643 recG ATP-dependent DNA helicase RecG

Probab=100.00  E-value=7.8e-36  Score=277.75  Aligned_cols=291  Identities=21%  Similarity=0.282  Sum_probs=211.3

Q ss_pred             HHHHHHHHHCCCCCChHHHHHhHhhhhcC------CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHH
Q 018574           42 DDLLRGIYQYGFEKPSAIQQRAVMPIIKG------RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT  115 (354)
Q Consensus        42 ~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~------~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~  115 (354)
                      ..+.+.++..+| +|++.|.++++.+.++      .+.++++|||||||.+++++++..+..   +.+++|++||++|+.
T Consensus       223 ~~~~~~~~~lpf-~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~---g~qvlilaPT~~LA~  298 (630)
T TIGR00643       223 ELLTKFLASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEA---GYQVALMAPTEILAE  298 (630)
T ss_pred             HHHHHHHHhCCC-CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHc---CCcEEEECCHHHHHH
Confidence            344556677888 8999999999999875      258999999999999999999888754   346999999999999


Q ss_pred             HHHHHHHHhccCcCeEEEEEeCCcchHHh---HHhhc-CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC
Q 018574          116 QTEKVILAIGDFINIQAHACVGGKSVGED---IRKLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG  191 (354)
Q Consensus       116 q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~  191 (354)
                      |+++.++++....++++..++|+....+.   ...+. ..++|+|+||+.+..     ...+.++++||+||+|++....
T Consensus       299 Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~-----~~~~~~l~lvVIDEaH~fg~~q  373 (630)
T TIGR00643       299 QHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQE-----KVEFKRLALVIIDEQHRFGVEQ  373 (630)
T ss_pred             HHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhc-----cccccccceEEEechhhccHHH
Confidence            99999999988888999999998765543   22333 347999999987643     3456789999999999863222


Q ss_pred             cHHHHHHHHhhCC--CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh-
Q 018574          192 FKDQIYDVYRYLP--PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD-  268 (354)
Q Consensus       192 ~~~~~~~i~~~~~--~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~-  268 (354)
                       .   ..+.....  ..+++++||||+.+....+......+...+  .........+...+..  . ... ..+...+. 
T Consensus       374 -r---~~l~~~~~~~~~~~~l~~SATp~prtl~l~~~~~l~~~~i--~~~p~~r~~i~~~~~~--~-~~~-~~~~~~i~~  443 (630)
T TIGR00643       374 -R---KKLREKGQGGFTPHVLVMSATPIPRTLALTVYGDLDTSII--DELPPGRKPITTVLIK--H-DEK-DIVYEFIEE  443 (630)
T ss_pred             -H---HHHHHhcccCCCCCEEEEeCCCCcHHHHHHhcCCcceeee--ccCCCCCCceEEEEeC--c-chH-HHHHHHHHH
Confidence             1   22222222  267899999999776554432211111111  1111111222222221  1 112 22333222 


Q ss_pred             h-CCCCcEEEEcCch--------hhHHHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCC
Q 018574          269 T-LTITQAVIFCNTK--------RKVDWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLD  337 (354)
Q Consensus       269 ~-~~~~~~lvf~~~~--------~~~~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gid  337 (354)
                      . ..+.+++|||+..        ..++.+++.|.+.  +..+..+||++++.+|.+++++|++|+.+|||||+++++|+|
T Consensus       444 ~l~~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GvD  523 (630)
T TIGR00643       444 EIAKGRQAYVVYPLIEESEKLDLKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEVGVD  523 (630)
T ss_pred             HHHhCCcEEEEEccccccccchHHHHHHHHHHHHhhCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECceeecCcc
Confidence            2 2356899999876        4466777777653  678999999999999999999999999999999999999999


Q ss_pred             cCCCcEEEecCCCC
Q 018574          338 VQQAILFFFLFLFC  351 (354)
Q Consensus       338 i~~~~~Vi~~~~p~  351 (354)
                      +|++++||+++.|.
T Consensus       524 iP~v~~VIi~~~~r  537 (630)
T TIGR00643       524 VPNATVMVIEDAER  537 (630)
T ss_pred             cCCCcEEEEeCCCc
Confidence            99999999999986

>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=100.00  E-value=1.6e-37  Score=241.17  Aligned_cols=285  Identities=34%  Similarity=0.614  Sum_probs=254.4

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      .-|.++-+.|++++++-..||..|...|.+.++...-|-+++++|..|-|||.+|++..++.+.-......++++|++++
T Consensus        42 sgfrdfllkpellraivdcgfehpsevqhecipqailgmdvlcqaksgmgktavfvl~tlqqiepv~g~vsvlvmchtre  121 (387)
T KOG0329|consen   42 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRE  121 (387)
T ss_pred             cchhhhhcCHHHHHHHHhccCCCchHhhhhhhhHHhhcchhheecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHH
Confidence            45667779999999999999999999999999999999999999999999999999999999987766778999999999


Q ss_pred             HHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc-
Q 018574          113 LATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-  190 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~-  190 (354)
                      |+-|+..+..++.++. ++++..+.||.+...+...+++.++|+|+||+++..+.++..+.+++...+|+|||+.++.. 
T Consensus       122 lafqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~~PhivVgTPGrilALvr~k~l~lk~vkhFvlDEcdkmle~l  201 (387)
T KOG0329|consen  122 LAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKNCPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDKMLEQL  201 (387)
T ss_pred             HHHHHHHHHHHHHhhCCCceEEEEEcceeccccHHHHhCCCeEEEcCcHHHHHHHHhccCchhhcceeehhhHHHHHHHH
Confidence            9999999999988765 57889999999988888888889999999999999999999999999999999999998765 


Q ss_pred             CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCC-cccccCceeEEEEeccccchHHHHHHHHhh
Q 018574          191 GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYDT  269 (354)
Q Consensus       191 ~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~  269 (354)
                      +.++.+.++.+.-|...|++.+|||++.++......++.+|..+.++.. .....++.++|..+...+ +...+..++..
T Consensus       202 DMrRDvQEifr~tp~~KQvmmfsatlskeiRpvC~kFmQdPmEi~vDdE~KLtLHGLqQ~YvkLke~e-KNrkl~dLLd~  280 (387)
T KOG0329|consen  202 DMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCHKFMQDPMEIFVDDEAKLTLHGLQQYYVKLKENE-KNRKLNDLLDV  280 (387)
T ss_pred             HHHHHHHHHhhcCcccceeeeeeeecchhhHHHHHhhhcCchhhhccchhhhhhhhHHHHHHhhhhhh-hhhhhhhhhhh
Confidence            6789999999999999999999999999999999999999988776654 345678888888887776 77888888888


Q ss_pred             CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          270 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       270 ~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      ....+++||+.+.....                               |   ..+ +|+|+..++|+|+.+++.|+|||+
T Consensus       281 LeFNQVvIFvKsv~Rl~-------------------------------f---~kr-~vat~lfgrgmdiervNi~~NYdm  325 (387)
T KOG0329|consen  281 LEFNQVVIFVKSVQRLS-------------------------------F---QKR-LVATDLFGRGMDIERVNIVFNYDM  325 (387)
T ss_pred             hhhcceeEeeehhhhhh-------------------------------h---hhh-hHHhhhhccccCcccceeeeccCC
Confidence            88899999999976600                               2   122 899999999999999999999999


Q ss_pred             CCCC
Q 018574          350 FCNV  353 (354)
Q Consensus       350 p~s~  353 (354)
                      |.++
T Consensus       326 p~~~  329 (387)
T KOG0329|consen  326 PEDS  329 (387)
T ss_pred             CCCc
Confidence            9985

>PRK09751 putative ATP-dependent helicase Lhr; Provisional

Probab=100.00  E-value=5.4e-36  Score=291.76  Aligned_cols=276  Identities=18%  Similarity=0.247  Sum_probs=203.5

Q ss_pred             EEcCCCCchhhHhHHHHhhccccC----------CCceeEEEEcCCHHHHHHHHHHHHHhc------------cCcCeEE
Q 018574           75 AQAQSGTGKTSMIALTVCQTVDTS----------SREVQALILSPTRELATQTEKVILAIG------------DFINIQA  132 (354)
Q Consensus        75 i~~~tGsGKT~~~~~~~~~~~~~~----------~~~~~~lil~p~~~l~~q~~~~~~~~~------------~~~~~~~  132 (354)
                      |++|||||||++|.+|++..+...          ..+.++|||+|+++|+.|+.+.++...            ...++++
T Consensus         1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V   80 (1490)
T PRK09751          1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRV   80 (1490)
T ss_pred             CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEE
Confidence            579999999999999999887542          135689999999999999999886411            1347899


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC-CccCCCccEEEEecchhhhccC----cHHHHHHHHhhCCCCC
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK-TLRTRAIKLLVLDESDEMLSRG----FKDQIYDVYRYLPPDL  207 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~-~~~~~~~~~vvvDE~h~~~~~~----~~~~~~~i~~~~~~~~  207 (354)
                      ...+|+.+..++...+.++++|+|+||++|..++... ...++++++|||||+|.+.+..    +...+..+...++.+.
T Consensus        81 ~vrtGDt~~~eR~rll~~ppdILVTTPEsL~~LLtsk~r~~L~~Vr~VIVDE~H~L~g~kRG~~Lel~LeRL~~l~~~~~  160 (1490)
T PRK09751         81 GIRTGDTPAQERSKLTRNPPDILITTPESLYLMLTSRARETLRGVETVIIDEVHAVAGSKRGAHLALSLERLDALLHTSA  160 (1490)
T ss_pred             EEEECCCCHHHHHHHhcCCCCEEEecHHHHHHHHhhhhhhhhccCCEEEEecHHHhcccccccHHHHHHHHHHHhCCCCC
Confidence            9999999988877777778999999999998876543 3457889999999999998653    3445666666667789


Q ss_pred             cEEEEEeeCchhHHHHHHhccCC-CeEEEecCCcccccCceeEEEEecccc-------------------c-hHHHHHHH
Q 018574          208 QVVLISATLPHEILEMTTKFMTD-PVKILVKRDELTLEGIKQFFVAVEREE-------------------W-KFDTLCDL  266 (354)
Q Consensus       208 ~~i~lSaT~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~-~~~~l~~~  266 (354)
                      |+|++|||+++. .+....+... +..+. .........+. .+.......                   . .......+
T Consensus       161 QrIgLSATI~n~-eevA~~L~g~~pv~Iv-~~~~~r~~~l~-v~vp~~d~~~~~~~~~~~~~~~~~~r~~~i~~~v~~~i  237 (1490)
T PRK09751        161 QRIGLSATVRSA-SDVAAFLGGDRPVTVV-NPPAMRHPQIR-IVVPVANMDDVSSVASGTGEDSHAGREGSIWPYIETGI  237 (1490)
T ss_pred             eEEEEEeeCCCH-HHHHHHhcCCCCEEEE-CCCCCcccceE-EEEecCchhhccccccccccccchhhhhhhhHHHHHHH
Confidence            999999999874 4444433322 44343 22222111222 111111100                   0 00111122


Q ss_pred             Hhh-CCCCcEEEEcCchhhHHHHHHHHhcCC---------------------------------CeEEEeecCCCHHHHH
Q 018574          267 YDT-LTITQAVIFCNTKRKVDWLTEKMRGYN---------------------------------FTVSSMHGDMPQKERD  312 (354)
Q Consensus       267 l~~-~~~~~~lvf~~~~~~~~~l~~~l~~~~---------------------------------~~~~~~~~~~~~~~r~  312 (354)
                      +.. ....++||||||++.++.++..|++..                                 ..+..+||++++++|.
T Consensus       238 l~~i~~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~  317 (1490)
T PRK09751        238 LDEVLRHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRA  317 (1490)
T ss_pred             HHHHhcCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHH
Confidence            222 234689999999999999999997531                                 1256789999999999


Q ss_pred             HHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          313 AIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       313 ~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+++.|++|+.++||||+.++.|||++++++||++|.|.|+
T Consensus       318 ~IE~~fK~G~LrvLVATssLELGIDIg~VDlVIq~gsP~sV  358 (1490)
T PRK09751        318 ITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVATPLSV  358 (1490)
T ss_pred             HHHHHHHhCCceEEEeCcHHHccCCcccCCEEEEeCCCCCH
Confidence            99999999999999999999999999999999999999875

>PHA02558 uvsW UvsW helicase; Provisional

Probab=100.00  E-value=6.3e-36  Score=271.75  Aligned_cols=283  Identities=14%  Similarity=0.137  Sum_probs=199.1

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEE
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAH  133 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~  133 (354)
                      ..|+++|.+++..++.++++++++|||+|||.++...+...+..  ...++||++|+++|+.||.+.+.++.......+.
T Consensus       113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~~~~~~--~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~~  190 (501)
T PHA02558        113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSRYYLEN--YEGKVLIIVPTTSLVTQMIDDFVDYRLFPREAMH  190 (501)
T ss_pred             CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhc--CCCeEEEEECcHHHHHHHHHHHHHhcccccccee
Confidence            48999999999999999999999999999998765443322222  2337999999999999999999988754444444


Q ss_pred             EEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      .+.+|....       .+.+|+|+|++++.+...   ..+.++++||+||||++.+.    .+..++..+++..+++++|
T Consensus       191 ~i~~g~~~~-------~~~~I~VaT~qsl~~~~~---~~~~~~~~iIvDEaH~~~~~----~~~~il~~~~~~~~~lGLT  256 (501)
T PHA02558        191 KIYSGTAKD-------TDAPIVVSTWQSAVKQPK---EWFDQFGMVIVDECHLFTGK----SLTSIITKLDNCKFKFGLT  256 (501)
T ss_pred             EEecCcccC-------CCCCEEEeeHHHHhhchh---hhccccCEEEEEchhcccch----hHHHHHHhhhccceEEEEe
Confidence            555554322       347999999999875432   23468899999999999654    3456666666678899999


Q ss_pred             eeCchhHHHH--HHhccCCCeEEEecCCccc------ccCceeEEE--------------------EeccccchHHHHHH
Q 018574          214 ATLPHEILEM--TTKFMTDPVKILVKRDELT------LEGIKQFFV--------------------AVEREEWKFDTLCD  265 (354)
Q Consensus       214 aT~~~~~~~~--~~~~~~~~~~~~~~~~~~~------~~~~~~~~~--------------------~~~~~~~~~~~l~~  265 (354)
                      ||+.......  ...++++ ........+..      ...+.....                    .......+...+.+
T Consensus       257 ATp~~~~~~~~~~~~~fG~-i~~~v~~~~li~~g~l~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Rn~~I~~  335 (501)
T PHA02558        257 GSLRDGKANILQYVGLFGD-IFKPVTTSQLMEEGQVTDLKINSIFLRYPDEDRVKLKGEDYQEEIKYITSHTKRNKWIAN  335 (501)
T ss_pred             ccCCCccccHHHHHHhhCC-ceEEecHHHHHhCCCcCCceEEEEeccCCHHHhhhhcccchHHHHHHHhccHHHHHHHHH
Confidence            9996532211  1112221 11111100000      000000000                    00011112222333


Q ss_pred             HHhh--CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEc-cccccCCCcCCCc
Q 018574          266 LYDT--LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT-DVWARGLDVQQAI  342 (354)
Q Consensus       266 ~l~~--~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T-~~~~~Gidi~~~~  342 (354)
                      ++..  ..+.+++|||+.+++++.+++.|++.+.++..+||+++.++|..+++.|++|+..|||+| +.+++|+|+|+++
T Consensus       336 ~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~~~vLvaT~~~l~eG~Dip~ld  415 (501)
T PHA02558        336 LALKLAKKGENTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGKGIIIVASYGVFSTGISIKNLH  415 (501)
T ss_pred             HHHHHHhcCCCEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCCCeEEEEEcceecccccccccc
Confidence            3222  234689999999999999999999999999999999999999999999999999999998 8999999999999


Q ss_pred             EEEecCCCCCC
Q 018574          343 LFFFLFLFCNV  353 (354)
Q Consensus       343 ~Vi~~~~p~s~  353 (354)
                      +||++..|+|.
T Consensus       416 ~vIl~~p~~s~  426 (501)
T PHA02558        416 HVIFAHPSKSK  426 (501)
T ss_pred             EEEEecCCcch
Confidence            99999888763

>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]

Probab=100.00  E-value=1.5e-34  Score=245.84  Aligned_cols=294  Identities=18%  Similarity=0.236  Sum_probs=213.3

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEE
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAH  133 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~  133 (354)
                      .+++.||..+....+.+ +.++..|||.|||+.+++.+...+.....  ++|+++||+.|+.|++..++++.....-.+.
T Consensus        14 ie~R~YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~--kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~   90 (542)
T COG1111          14 IEPRLYQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGG--KVLFLAPTKPLVLQHAEFCRKVTGIPEDEIA   90 (542)
T ss_pred             ccHHHHHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCC--eEEEecCCchHHHHHHHHHHHHhCCChhhee
Confidence            48899999999887766 99999999999999998888877765433  7999999999999999999998866666777


Q ss_pred             EEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-cHHHHHHHHhhCCCCCcEEEE
Q 018574          134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-FKDQIYDVYRYLPPDLQVVLI  212 (354)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-~~~~~~~i~~~~~~~~~~i~l  212 (354)
                      .++|.....+...... ...|+|+||+.+.+-+..+.++..++.++||||||+..... +.......++ ..+++.+++|
T Consensus        91 ~ltGev~p~~R~~~w~-~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAYv~Va~~y~~-~~k~~~ilgL  168 (542)
T COG1111          91 ALTGEVRPEEREELWA-KKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAYVFVAKEYLR-SAKNPLILGL  168 (542)
T ss_pred             eecCCCChHHHHHHHh-hCCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcchHHHHHHHHHH-hccCceEEEE
Confidence            8888877665544333 47999999999999999999999999999999999987653 4444444443 4467789999


Q ss_pred             EeeCchhHHH---HHHhccCCCeEEEecCCccccc---CceeEEE-----------------------------------
Q 018574          213 SATLPHEILE---MTTKFMTDPVKILVKRDELTLE---GIKQFFV-----------------------------------  251 (354)
Q Consensus       213 SaT~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~-----------------------------------  251 (354)
                      ||||..+...   .+..+.-+.+.+....+.-..+   .+...+.                                   
T Consensus       169 TASPGs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~L~~~g~~~~~  248 (542)
T COG1111         169 TASPGSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKPLKELGVIESS  248 (542)
T ss_pred             ecCCCCCHHHHHHHHHhCCcceEEEecCCCccHHHhhccceeEEEeccCcHHHHHHHHHHHHHHHHHHHHHHHcCceecc
Confidence            9999655322   2222211111111111100000   0000000                                   


Q ss_pred             --------------------------------------------------------------------------------
Q 018574          252 --------------------------------------------------------------------------------  251 (354)
Q Consensus       252 --------------------------------------------------------------------------------  251 (354)
                                                                                                      
T Consensus       249 ~~~~~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~~l~e~~~~~~sk~a~~l~~d~  328 (542)
T COG1111         249 SPVSKKDLLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLEKLEEEATKGGSKAAKSLLADP  328 (542)
T ss_pred             CcccHhHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHhcccchHHHHHHhcCh
Confidence                                                                                            


Q ss_pred             -------------EeccccchHHHHHHHH----hhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEE--Ee-------ecC
Q 018574          252 -------------AVEREEWKFDTLCDLY----DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS--SM-------HGD  305 (354)
Q Consensus       252 -------------~~~~~~~~~~~l~~~l----~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~--~~-------~~~  305 (354)
                                   .......|+..+..++    +...+.++|||++.+++|+.+.+.|.+.++.+.  ++       ..+
T Consensus       329 ~~~~al~~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~~~rFiGQa~r~~~~G  408 (542)
T COG1111         329 YFKRALRLLIRADESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKARVRFIGQASREGDKG  408 (542)
T ss_pred             hhHHHHHHHHHhccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCcceeEEeeccccccccc
Confidence                         0000001222222222    223346899999999999999999999877664  22       246


Q ss_pred             CCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCC
Q 018574          306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN  352 (354)
Q Consensus       306 ~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s  352 (354)
                      |+++++.+++++|++|+++|||||++.++|+|+|.++.||+|+.-.|
T Consensus       409 MsQkeQ~eiI~~Fr~Ge~nVLVaTSVgEEGLDIp~vDlVifYEpvpS  455 (542)
T COG1111         409 MSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEPVPS  455 (542)
T ss_pred             cCHHHHHHHHHHHhcCCceEEEEcccccccCCCCcccEEEEecCCcH
Confidence            99999999999999999999999999999999999999999997654

>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]

Probab=100.00  E-value=1.8e-34  Score=247.95  Aligned_cols=303  Identities=19%  Similarity=0.269  Sum_probs=238.9

Q ss_pred             cccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhh-hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMP-IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        31 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~-~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      .....+++++++.+.+.++..|+..+.|.|..++++ +++|++.++.++|+||||+..-++-+..+...  +.+.|++||
T Consensus       192 ~r~~vdeLdipe~fk~~lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~--g~KmlfLvP  269 (830)
T COG1202         192 ERVPVDELDIPEKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLSG--GKKMLFLVP  269 (830)
T ss_pred             ccccccccCCcHHHHHHHHhcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHhC--CCeEEEEeh
Confidence            346778899999999999999999999999999987 77899999999999999998888777776654  457999999


Q ss_pred             CHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhH----HhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecch
Q 018574          110 TRELATQTEKVILAIGDFINIQAHACVGGKSVGEDI----RKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESD  185 (354)
Q Consensus       110 ~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h  185 (354)
                      ..+|++|-++.++.-...+++.+..-.|........    ......+||||+|++-+..+++.+ -.+.+++.||+||+|
T Consensus       270 LVALANQKy~dF~~rYs~LglkvairVG~srIk~~~~pv~~~t~~dADIIVGTYEGiD~lLRtg-~~lgdiGtVVIDEiH  348 (830)
T COG1202         270 LVALANQKYEDFKERYSKLGLKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLLRTG-KDLGDIGTVVIDEIH  348 (830)
T ss_pred             hHHhhcchHHHHHHHhhcccceEEEEechhhhcccCCccccCCCCCCcEEEeechhHHHHHHcC-CcccccceEEeeeee
Confidence            999999999999887777888776655543333221    122334899999999998877765 556789999999999


Q ss_pred             hhhccCcHHHHHHH---HhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHH
Q 018574          186 EMLSRGFKDQIYDV---YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT  262 (354)
Q Consensus       186 ~~~~~~~~~~~~~i---~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  262 (354)
                      .+.+..-+..+..+   ++.+.++.|++++|||..+. .++.+.+-..+..  ++..   +-.+..+.....++..|.+.
T Consensus       349 tL~deERG~RLdGLI~RLr~l~~~AQ~i~LSATVgNp-~elA~~l~a~lV~--y~~R---PVplErHlvf~~~e~eK~~i  422 (830)
T COG1202         349 TLEDEERGPRLDGLIGRLRYLFPGAQFIYLSATVGNP-EELAKKLGAKLVL--YDER---PVPLERHLVFARNESEKWDI  422 (830)
T ss_pred             eccchhcccchhhHHHHHHHhCCCCeEEEEEeecCCh-HHHHHHhCCeeEe--ecCC---CCChhHeeeeecCchHHHHH
Confidence            99765433333333   44455789999999999776 4455554444332  2222   23344455555555558888


Q ss_pred             HHHHHhhCC--------CCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcccccc
Q 018574          263 LCDLYDTLT--------ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWAR  334 (354)
Q Consensus       263 l~~~l~~~~--------~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~  334 (354)
                      +..+.+..-        .+++|||++|++.+.+++..|...|++...||++++..+|..+...|.++++.++|+|.+++.
T Consensus       423 i~~L~k~E~~~~sskg~rGQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~q~l~~VVTTAAL~A  502 (830)
T COG1202         423 IARLVKREFSTESSKGYRGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAALAA  502 (830)
T ss_pred             HHHHHHHHHhhhhccCcCCceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhcCCcceEeehhhhhc
Confidence            887776321        268999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcCCCc
Q 018574          335 GLDVQQAI  342 (354)
Q Consensus       335 Gidi~~~~  342 (354)
                      |+|+|.-.
T Consensus       503 GVDFPASQ  510 (830)
T COG1202         503 GVDFPASQ  510 (830)
T ss_pred             CCCCchHH
Confidence            99999544

>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB

Probab=100.00  E-value=1.5e-33  Score=264.89  Aligned_cols=279  Identities=16%  Similarity=0.221  Sum_probs=211.4

Q ss_pred             hHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHH-HhccCcCeEEEEE
Q 018574           57 SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVIL-AIGDFINIQAHAC  135 (354)
Q Consensus        57 ~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~-~~~~~~~~~~~~~  135 (354)
                      ..+-.++++.+..++++++.|+||||||+++.++++....   .+.+++++.|+++++.|+++.+. .++...+..+...
T Consensus         4 ~~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~---~~~~ilvlqPrR~aA~qiA~rva~~~~~~~g~~VGy~   80 (819)
T TIGR01970         4 HAVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPG---IGGKIIMLEPRRLAARSAAQRLASQLGEAVGQTVGYR   80 (819)
T ss_pred             hHHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc---cCCeEEEEeCcHHHHHHHHHHHHHHhCCCcCcEEEEE
Confidence            3444567777888999999999999999999999987763   23479999999999999999885 4444555555544


Q ss_pred             eCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh-hhccCcHH-HHHHHHhhCCCCCcEEEEE
Q 018574          136 VGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE-MLSRGFKD-QIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~-~~~~~~~~-~~~~i~~~~~~~~~~i~lS  213 (354)
                      ..+.+      .....++|+|+|++.|.+.+.. ...+.++++||+||+|. .++.++.- .+..+...++++.|+++||
T Consensus        81 vr~~~------~~s~~t~I~v~T~G~Llr~l~~-d~~L~~v~~VIiDEaHER~L~~Dl~L~ll~~i~~~lr~dlqlIlmS  153 (819)
T TIGR01970        81 VRGEN------KVSRRTRLEVVTEGILTRMIQD-DPELDGVGALIFDEFHERSLDADLGLALALDVQSSLREDLKILAMS  153 (819)
T ss_pred             Ecccc------ccCCCCcEEEECCcHHHHHHhh-CcccccCCEEEEeccchhhhccchHHHHHHHHHHhcCCCceEEEEe
Confidence            44332      1334579999999999988875 34678999999999995 55555432 3455666677899999999


Q ss_pred             eeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccch----HHHHHHHHhhCCCCcEEEEcCchhhHHHHH
Q 018574          214 ATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK----FDTLCDLYDTLTITQAVIFCNTKRKVDWLT  289 (354)
Q Consensus       214 aT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~  289 (354)
                      ||++...   ...++.++..+......   ..+.+.|.........    ...+..++.. ..+++|||+++.++++.++
T Consensus       154 ATl~~~~---l~~~l~~~~vI~~~gr~---~pVe~~y~~~~~~~~~~~~v~~~l~~~l~~-~~g~iLVFlpg~~eI~~l~  226 (819)
T TIGR01970       154 ATLDGER---LSSLLPDAPVVESEGRS---FPVEIRYLPLRGDQRLEDAVSRAVEHALAS-ETGSILVFLPGQAEIRRVQ  226 (819)
T ss_pred             CCCCHHH---HHHHcCCCcEEEecCcc---eeeeeEEeecchhhhHHHHHHHHHHHHHHh-cCCcEEEEECCHHHHHHHH
Confidence            9998764   34556554444433321   1244555544333211    1233444443 3578999999999999999


Q ss_pred             HHHhc---CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCC
Q 018574          290 EKMRG---YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN  352 (354)
Q Consensus       290 ~~l~~---~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s  352 (354)
                      +.|++   .++.+..+||+++.++|.++++.|++|+.+|||||+++++|+|+|++++||++|+|+.
T Consensus       227 ~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G~rkVlVATnIAErgItIp~V~~VID~Gl~r~  292 (819)
T TIGR01970       227 EQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLATNIAETSLTIEGIRVVIDSGLARV  292 (819)
T ss_pred             HHHHhhcCCCcEEEEecCCCCHHHHHHHHhhcccCCeEEEEecchHhhcccccCceEEEEcCcccc
Confidence            99987   3788999999999999999999999999999999999999999999999999999974

This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.

>PRK11664 ATP-dependent RNA helicase HrpB; Provisional

Probab=100.00  E-value=2.3e-33  Score=264.36  Aligned_cols=279  Identities=17%  Similarity=0.230  Sum_probs=211.7

Q ss_pred             hHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHH-hccCcCeEEEEE
Q 018574           57 SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILA-IGDFINIQAHAC  135 (354)
Q Consensus        57 ~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~-~~~~~~~~~~~~  135 (354)
                      +.+-.++++.+.+++++++.|+||||||+++.++++.....   +.+++++.|+++++.|+++.+.. ++...+..+...
T Consensus         7 ~~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~---~~~ilvlqPrR~aA~qia~rva~~l~~~~g~~VGy~   83 (812)
T PRK11664          7 AAVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGI---NGKIIMLEPRRLAARNVAQRLAEQLGEKPGETVGYR   83 (812)
T ss_pred             HHHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCCc---CCeEEEECChHHHHHHHHHHHHHHhCcccCceEEEE
Confidence            44556777888889999999999999999999998876432   23699999999999999999854 555566666666


Q ss_pred             eCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhh-hccCc-HHHHHHHHhhCCCCCcEEEEE
Q 018574          136 VGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM-LSRGF-KDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~-~~~~~-~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      .++.+.      ......|+|+|++.+.+.+.. ...+.++++||+||+|.. ++.++ ...+..+.+.++++.|+++||
T Consensus        84 vr~~~~------~~~~t~I~v~T~G~Llr~l~~-d~~L~~v~~IIlDEaHER~l~~Dl~L~ll~~i~~~lr~~lqlilmS  156 (812)
T PRK11664         84 MRAESK------VGPNTRLEVVTEGILTRMIQR-DPELSGVGLVILDEFHERSLQADLALALLLDVQQGLRDDLKLLIMS  156 (812)
T ss_pred             ecCccc------cCCCCcEEEEChhHHHHHHhh-CCCcCcCcEEEEcCCCccccccchHHHHHHHHHHhCCccceEEEEe
Confidence            555432      223468999999999988775 446789999999999973 33332 234455667777889999999


Q ss_pred             eeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchH----HHHHHHHhhCCCCcEEEEcCchhhHHHHH
Q 018574          214 ATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKF----DTLCDLYDTLTITQAVIFCNTKRKVDWLT  289 (354)
Q Consensus       214 aT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~l~~~l~~~~~~~~lvf~~~~~~~~~l~  289 (354)
                      ||++.+.   ...++.++..+.....   ...+.+.|..........    ..+..++.. ..+.+|||+++.++++.++
T Consensus       157 ATl~~~~---l~~~~~~~~~I~~~gr---~~pV~~~y~~~~~~~~~~~~v~~~l~~~l~~-~~g~iLVFlpg~~ei~~l~  229 (812)
T PRK11664        157 ATLDNDR---LQQLLPDAPVIVSEGR---SFPVERRYQPLPAHQRFDEAVARATAELLRQ-ESGSLLLFLPGVGEIQRVQ  229 (812)
T ss_pred             cCCCHHH---HHHhcCCCCEEEecCc---cccceEEeccCchhhhHHHHHHHHHHHHHHh-CCCCEEEEcCCHHHHHHHH
Confidence            9998753   2455555444443322   123455555444333111    134444443 3588999999999999999


Q ss_pred             HHHhc---CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCC
Q 018574          290 EKMRG---YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN  352 (354)
Q Consensus       290 ~~l~~---~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s  352 (354)
                      +.|++   .++.+..+||+++.++|.++++.|++|+.+|||||+++++|+|+|++++||++|+|+.
T Consensus       230 ~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G~rkVlvATnIAErsLtIp~V~~VID~Gl~r~  295 (812)
T PRK11664        230 EQLASRVASDVLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLERV  295 (812)
T ss_pred             HHHHHhccCCceEEEeeCCCCHHHHHHHhccccCCCeEEEEecchHHhcccccCceEEEECCCccc
Confidence            99986   4778999999999999999999999999999999999999999999999999999864

>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]

Probab=100.00  E-value=1.4e-33  Score=266.11  Aligned_cols=309  Identities=20%  Similarity=0.257  Sum_probs=241.8

Q ss_pred             CCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHH
Q 018574           40 IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEK  119 (354)
Q Consensus        40 ~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~  119 (354)
                      .+..+..++.+.|+..|+.||.+++..+.+|++++|..|||||||.+|++|+++.+...... ++|+|.|+++|++.+.+
T Consensus        55 ~~~~l~~~l~~~g~~~lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a-~AL~lYPtnALa~DQ~~  133 (851)
T COG1205          55 RDESLKSALVKAGIERLYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSA-RALLLYPTNALANDQAE  133 (851)
T ss_pred             hhhHHHHHHHHhccccccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCc-cEEEEechhhhHhhHHH
Confidence            45566889999999999999999999999999999999999999999999999999877654 79999999999999999


Q ss_pred             HHHHhccCcC--eEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHh-cC---CccCCCccEEEEecchhhhccC--
Q 018574          120 VILAIGDFIN--IQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIK-RK---TLRTRAIKLLVLDESDEMLSRG--  191 (354)
Q Consensus       120 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~-~~---~~~~~~~~~vvvDE~h~~~~~~--  191 (354)
                      +++++....+  +++...+|++...+....+.++++|+++||++|-..+. +.   .+.++++++||+||+|.+-...  
T Consensus       134 rl~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElHtYrGv~GS  213 (851)
T COG1205         134 RLRELISDLPGKVTFGRYTGDTPPEERRAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRGVQGS  213 (851)
T ss_pred             HHHHHHHhCCCcceeeeecCCCChHHHHHHHhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEecceeccccchh
Confidence            9999988777  88888899988887777788899999999999977443 32   3345779999999999874331  


Q ss_pred             ----cHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEecc--------ccch
Q 018574          192 ----FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVER--------EEWK  259 (354)
Q Consensus       192 ----~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~  259 (354)
                          ..+.+..+++..+.+.|+++.|||.... .+....+.+......+... ..+..........+.        ....
T Consensus       214 ~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np-~e~~~~l~~~~f~~~v~~~-g~~~~~~~~~~~~p~~~~~~~~~r~s~  291 (851)
T COG1205         214 EVALLLRRLLRRLRRYGSPLQIICTSATLANP-GEFAEELFGRDFEVPVDED-GSPRGLRYFVRREPPIRELAESIRRSA  291 (851)
T ss_pred             HHHHHHHHHHHHHhccCCCceEEEEeccccCh-HHHHHHhcCCcceeeccCC-CCCCCceEEEEeCCcchhhhhhcccch
Confidence                2244444455556789999999999776 4455555555544432222 222223333333320        1124


Q ss_pred             HHHHHHHHhhC--CCCcEEEEcCchhhHHHHH----HHHhcCC----CeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEc
Q 018574          260 FDTLCDLYDTL--TITQAVIFCNTKRKVDWLT----EKMRGYN----FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT  329 (354)
Q Consensus       260 ~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~----~~l~~~~----~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T  329 (354)
                      ...+..+....  .+-++|+|+.+++.++.++    ..+...+    ..+..+++++.+.+|.++.+.|++|+..++++|
T Consensus       292 ~~~~~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~g~~~~~~st  371 (851)
T COG1205         292 LAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELLGVIAT  371 (851)
T ss_pred             HHHHHHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCHHHHHHHHHHHhcCCccEEecc
Confidence            44444444433  4568999999999999997    4444445    568899999999999999999999999999999


Q ss_pred             cccccCCCcCCCcEEEecCCCC
Q 018574          330 DVWARGLDVQQAILFFFLFLFC  351 (354)
Q Consensus       330 ~~~~~Gidi~~~~~Vi~~~~p~  351 (354)
                      ++++.|+|+.+++.||..+.|.
T Consensus       372 ~AlelgidiG~ldavi~~g~P~  393 (851)
T COG1205         372 NALELGIDIGSLDAVIAYGYPG  393 (851)
T ss_pred             hhhhhceeehhhhhHhhcCCCC
Confidence            9999999999999999999998

>PRK13766 Hef nuclease; Provisional

Probab=100.00  E-value=1e-32  Score=265.23  Aligned_cols=296  Identities=19%  Similarity=0.250  Sum_probs=215.1

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEE
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAH  133 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~  133 (354)
                      .++++||.+++..++.+ ++++.+|||+|||.++++++...+.  ..+.++||++|+++|+.||.+.++.+....+..+.
T Consensus        14 ~~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~--~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~   90 (773)
T PRK13766         14 IEARLYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLH--KKGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIV   90 (773)
T ss_pred             CCccHHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHH--hCCCeEEEEeCcHHHHHHHHHHHHHHhCCCCceEE
Confidence            48899999999988877 8999999999999998888887763  34467999999999999999999987654445677


Q ss_pred             EEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      .+.|+...... ......++|+|+||+.+...+....+...++++|||||||++........+...+.......+++++|
T Consensus        91 ~~~g~~~~~~r-~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~~~~~~i~~~~~~~~~~~~il~lT  169 (773)
T PRK13766         91 VFTGEVSPEKR-AELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGNYAYVYIAERYHEDAKNPLVLGLT  169 (773)
T ss_pred             EEeCCCCHHHH-HHHHhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCccccccccHHHHHHHHHhcCCCCEEEEEE
Confidence            77777665443 33444679999999999888777778888999999999999865533333444444444567799999


Q ss_pred             eeCchhH---HHHHHhccCCCeEEE--------------------ecCCc-------------------------c----
Q 018574          214 ATLPHEI---LEMTTKFMTDPVKIL--------------------VKRDE-------------------------L----  241 (354)
Q Consensus       214 aT~~~~~---~~~~~~~~~~~~~~~--------------------~~~~~-------------------------~----  241 (354)
                      ||+....   ......+......+.                    ..-..                         .    
T Consensus       170 aTP~~~~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~~~~v~l~~~~~~i~~~l~~~~~~~l~~l~~~~~~~~~~  249 (773)
T PRK13766        170 ASPGSDEEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIEWVRVELPEELKEIRDLLNEALKDRLKKLKELGVIVSIS  249 (773)
T ss_pred             cCCCCCHHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeEEEEeCCcHHHHHHHHHHHHHHHHHHHHHHHCCCcccCC
Confidence            9984332   111221111000000                    00000                         0    


Q ss_pred             ---ccc-------CceeE--------------------------------------------------------------
Q 018574          242 ---TLE-------GIKQF--------------------------------------------------------------  249 (354)
Q Consensus       242 ---~~~-------~~~~~--------------------------------------------------------------  249 (354)
                         ...       .+...                                                              
T Consensus       250 ~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~y~~~l~~~~~~~~~~~~~~~l~~~  329 (773)
T PRK13766        250 PDVSKKELLGLQKKLQQEIANDDSEGYEAISILAEAMKLRHAVELLETQGVEALRRYLERLREEARSSGGSKASKRLVED  329 (773)
T ss_pred             CCcCHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHhhccccCCcHHHHHHHhC
Confidence               000       00000                                                              


Q ss_pred             ---------EEEeccccchHHHHHHHHhh----CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecC--------CCH
Q 018574          250 ---------FVAVEREEWKFDTLCDLYDT----LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD--------MPQ  308 (354)
Q Consensus       250 ---------~~~~~~~~~~~~~l~~~l~~----~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~--------~~~  308 (354)
                               ...+.....|...+.++++.    ..++++||||++++.++.+++.|...++.+..++|.        +++
T Consensus       330 ~~~~~~~~~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~~~~~~~~~g~~~~~~~~~~~~  409 (773)
T PRK13766        330 PRFRKAVRKAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQ  409 (773)
T ss_pred             HHHHHHHHHHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhCCCceEEEEccccccccCCCCH
Confidence                     00001112245555555543    466799999999999999999999889999999886        888


Q ss_pred             HHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          309 KERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       309 ~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+|.++++.|++|+.+|||+|+++++|+|+|++++||+||.|+|+
T Consensus       410 ~~r~~~~~~F~~g~~~vLvaT~~~~eGldi~~~~~VI~yd~~~s~  454 (773)
T PRK13766        410 KEQIEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPVPSE  454 (773)
T ss_pred             HHHHHHHHHHHcCCCCEEEECChhhcCCCcccCCEEEEeCCCCCH
Confidence            899999999999999999999999999999999999999999875

>PHA02653 RNA helicase NPH-II; Provisional

Probab=100.00  E-value=3.5e-33  Score=256.54  Aligned_cols=277  Identities=18%  Similarity=0.192  Sum_probs=196.8

Q ss_pred             hHHHHHhHhhhhcCCcEEEEcCCCCchhhHh---------HHHHhhcccc---CCCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           57 SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMI---------ALTVCQTVDT---SSREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        57 ~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~---------~~~~~~~~~~---~~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      -..|.++++.+++++++++.|+||+|||.+.         +++.+..+..   .....++++++|+++|+.|+...+.+.
T Consensus       166 ~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i~~~  245 (675)
T PHA02653        166 PDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITLLKS  245 (675)
T ss_pred             HHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHHHHH
Confidence            3467889999999999999999999999873         2333333321   223457999999999999999988765


Q ss_pred             ccC---cCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHh
Q 018574          125 GDF---INIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYR  201 (354)
Q Consensus       125 ~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~  201 (354)
                      ...   .+..+....|+... ..........+++++|++..       ...+.++++||+||+|.+...+  +.+..+++
T Consensus       246 vg~~~~~g~~v~v~~Gg~~~-~~~~t~~k~~~Ilv~T~~L~-------l~~L~~v~~VVIDEaHEr~~~~--DllL~llk  315 (675)
T PHA02653        246 LGFDEIDGSPISLKYGSIPD-ELINTNPKPYGLVFSTHKLT-------LNKLFDYGTVIIDEVHEHDQIG--DIIIAVAR  315 (675)
T ss_pred             hCccccCCceEEEEECCcch-HHhhcccCCCCEEEEeCccc-------ccccccCCEEEccccccCccch--hHHHHHHH
Confidence            533   24556667777652 22222233678999997521       1235688999999999986554  45555554


Q ss_pred             hCC-CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEecc---------ccchHHHHHHHHhh--
Q 018574          202 YLP-PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVER---------EEWKFDTLCDLYDT--  269 (354)
Q Consensus       202 ~~~-~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~l~~~l~~--  269 (354)
                      ... ...|+++||||++.+...+ ..++.++..+.....  ....+.+.|.....         ...+...+..+...  
T Consensus       316 ~~~~~~rq~ILmSATl~~dv~~l-~~~~~~p~~I~I~gr--t~~pV~~~yi~~~~~~~~~~~y~~~~k~~~l~~L~~~~~  392 (675)
T PHA02653        316 KHIDKIRSLFLMTATLEDDRDRI-KEFFPNPAFVHIPGG--TLFPISEVYVKNKYNPKNKRAYIEEEKKNIVTALKKYTP  392 (675)
T ss_pred             HhhhhcCEEEEEccCCcHhHHHH-HHHhcCCcEEEeCCC--cCCCeEEEEeecCcccccchhhhHHHHHHHHHHHHHhhc
Confidence            443 3458999999998877665 567777766665422  23445555543221         11122222222222  


Q ss_pred             CCCCcEEEEcCchhhHHHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHH-hCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          270 LTITQAVIFCNTKRKVDWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEF-RSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       270 ~~~~~~lvf~~~~~~~~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f-~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      ...+++|||++++++++.+++.|++.  ++.+..+||++++.  ++.+++| ++|+.+|||||+++++|+|+|++++||+
T Consensus       393 ~~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~Lsq~--eq~l~~ff~~gk~kILVATdIAERGIDIp~V~~VID  470 (675)
T PHA02653        393 PKGSSGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGKVPNI--DEILEKVYSSKNPSIIISTPYLESSVTIRNATHVYD  470 (675)
T ss_pred             ccCCcEEEEECcHHHHHHHHHHHHhhcCCceEEeccCCcCHH--HHHHHHHhccCceeEEeccChhhccccccCeeEEEE
Confidence            23468999999999999999999876  68999999999864  4667777 6899999999999999999999999999


Q ss_pred             cC
Q 018574          347 LF  348 (354)
Q Consensus       347 ~~  348 (354)
                      +|
T Consensus       471 ~G  472 (675)
T PHA02653        471 TG  472 (675)
T ss_pred             CC
Confidence            99

>TIGR01587 cas3_core CRISPR-associated helicase Cas3

Probab=100.00  E-value=6.2e-33  Score=244.31  Aligned_cols=273  Identities=17%  Similarity=0.158  Sum_probs=186.1

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcch----------
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSV----------  141 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~----------  141 (354)
                      ++++.+|||+|||.+++.+++..+... .+.+++|++|+++|+.|+.+.+..+...   .+..++++...          
T Consensus         1 ~vvi~apTGsGKT~~~~~~~l~~~~~~-~~~~ii~v~P~~~L~~q~~~~l~~~f~~---~~~~~~~~~~~~~~~~~~~~~   76 (358)
T TIGR01587         1 LLVIEAPTGYGKTEAALLWALHSIKSQ-KADRVIIALPTRATINAMYRRAKELFGS---NLGLLHSSSSFKRIKEMGDSE   76 (358)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHHHhhC-CCCeEEEEeehHHHHHHHHHHHHHHhCc---ccEEeeccHHHHHHhccCCch
Confidence            478999999999999999999876543 4457999999999999999999886421   23333333221          


Q ss_pred             --HHhHHhh------cCCCeEEEeCcHHHHHHHhcCC----c--cCCCccEEEEecchhhhccCcHHHHHHHHhhCC-CC
Q 018574          142 --GEDIRKL------EHGVHVVSGTPGRVCDMIKRKT----L--RTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP-PD  206 (354)
Q Consensus       142 --~~~~~~~------~~~~~iiv~T~~~l~~~~~~~~----~--~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~-~~  206 (354)
                        .......      ....+|+++||+++...+....    .  .....++||+||+|.+....+.. +..+++.+. .+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~~~~~-l~~~l~~l~~~~  155 (358)
T TIGR01587        77 EFEHLFPLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEYTLAL-ILAVLEVLKDND  155 (358)
T ss_pred             hHHHHHHHHhhchhhhhhCCeeeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHHHHHH-HHHHHHHHHHcC
Confidence              0001111      1136799999999987665411    1  11223789999999987654333 444444443 47


Q ss_pred             CcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEE-eccccchHHHHHHHHhhC-CCCcEEEEcCchhh
Q 018574          207 LQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVA-VEREEWKFDTLCDLYDTL-TITQAVIFCNTKRK  284 (354)
Q Consensus       207 ~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~l~~~-~~~~~lvf~~~~~~  284 (354)
                      .|++++|||++.............+........... ....+.+.. ......+...+..++... .++++||||+++++
T Consensus       156 ~~~i~~SATlp~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~lVf~~t~~~  234 (358)
T TIGR01587       156 VPILLMSATLPKFLKEYAEKIGYVEFNEPLDLKEER-RFERHRFIKIESDKVGEISSLERLLEFIKKGGKIAIIVNTVDR  234 (358)
T ss_pred             CCEEEEecCchHHHHHHHhcCCCcccccCCCCcccc-ccccccceeeccccccCHHHHHHHHHHhhCCCeEEEEECCHHH
Confidence            899999999997766665554332211111111000 011222211 112223455566665543 45799999999999


Q ss_pred             HHHHHHHHhcCCC--eEEEeecCCCHHHHHH----HHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCC
Q 018574          285 VDWLTEKMRGYNF--TVSSMHGDMPQKERDA----IMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFC  351 (354)
Q Consensus       285 ~~~l~~~l~~~~~--~~~~~~~~~~~~~r~~----~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~  351 (354)
                      ++.+++.|++.+.  .+..+||++++.+|.+    +++.|++|+.+|||||+++++|+|++ ++.||+++.|-
T Consensus       235 ~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~~~~~GiDi~-~~~vi~~~~~~  306 (358)
T TIGR01587       235 AQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQVIEASLDIS-ADVMITELAPI  306 (358)
T ss_pred             HHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECcchhceeccC-CCEEEEcCCCH
Confidence            9999999987655  5899999999999876    48899999999999999999999996 88999988774

This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.

>COG1204 Superfamily II helicase [General function prediction only]

Probab=100.00  E-value=4.3e-33  Score=259.33  Aligned_cols=301  Identities=19%  Similarity=0.253  Sum_probs=224.2

Q ss_pred             CCCCHHHHHHHHHCCCCCChHHHHHhHhhhhc-CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHH
Q 018574           38 MGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ  116 (354)
Q Consensus        38 ~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q  116 (354)
                      ..+++.+.+.++..++.++.+.|+.++..... ++|+++++|||+|||..+++.++..+..+  +.+++|+||+++|+.+
T Consensus        14 ~~~~~~v~~i~~~~~~~el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~--~~k~vYivPlkALa~E   91 (766)
T COG1204          14 VKLDDRVLEILKGDGIDELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEG--GGKVVYIVPLKALAEE   91 (766)
T ss_pred             ccccHHHHHHhccCChHHhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhc--CCcEEEEeChHHHHHH
Confidence            34788899999999999999999999988666 49999999999999999999999988765  4569999999999999


Q ss_pred             HHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHH
Q 018574          117 TEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQI  196 (354)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~  196 (354)
                      .++++. ....+++++...+|+.....+   ...+++|+|+||+++....++.......+++||+||+|.+.+..-+..+
T Consensus        92 k~~~~~-~~~~~GirV~~~TgD~~~~~~---~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~~RG~~l  167 (766)
T COG1204          92 KYEEFS-RLEELGIRVGISTGDYDLDDE---RLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDRTRGPVL  167 (766)
T ss_pred             HHHHhh-hHHhcCCEEEEecCCcccchh---hhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeecCCcccCcee
Confidence            999998 445778999999999876553   2235899999999999998887778889999999999999776444444


Q ss_pred             HHHHhhC---CCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCccccc-CceeEEEEecccc------chHHHHHHH
Q 018574          197 YDVYRYL---PPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLE-GIKQFFVAVEREE------WKFDTLCDL  266 (354)
Q Consensus       197 ~~i~~~~---~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~------~~~~~l~~~  266 (354)
                      ..+....   ....|++++|||+++. .++......++............+ ...+.+.......      .....+...
T Consensus       168 E~iv~r~~~~~~~~rivgLSATlpN~-~evA~wL~a~~~~~~~rp~~l~~~v~~~~~~~~~~~~~k~~~~~~~~~~~~~v  246 (766)
T COG1204         168 ESIVARMRRLNELIRIVGLSATLPNA-EEVADWLNAKLVESDWRPVPLRRGVPYVGAFLGADGKKKTWPLLIDNLALELV  246 (766)
T ss_pred             hhHHHHHHhhCcceEEEEEeeecCCH-HHHHHHhCCcccccCCCCcccccCCccceEEEEecCccccccccchHHHHHHH
Confidence            4444443   3447999999999874 444444433333111111111111 1122222221111      123333333


Q ss_pred             HhhC-CCCcEEEEcCchhhHHHHHHHHhcC-------------------------------------CCeEEEeecCCCH
Q 018574          267 YDTL-TITQAVIFCNTKRKVDWLTEKMRGY-------------------------------------NFTVSSMHGDMPQ  308 (354)
Q Consensus       267 l~~~-~~~~~lvf~~~~~~~~~l~~~l~~~-------------------------------------~~~~~~~~~~~~~  308 (354)
                      +... .+++++|||++++.+...++.+++.                                     ...+.++|++++.
T Consensus       247 ~~~~~~~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHhAGL~~  326 (766)
T COG1204         247 LESLAEGGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPR  326 (766)
T ss_pred             HHHHhcCCeEEEEEecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccccCCCH
Confidence            3333 4569999999999999999988730                                     0126678999999


Q ss_pred             HHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEE
Q 018574          309 KERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFF  345 (354)
Q Consensus       309 ~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi  345 (354)
                      ++|..+.+.|+.|+++||+||+.++.|+|+|.-+.||
T Consensus       327 ~~R~~vE~~Fr~g~ikVlv~TpTLA~GVNLPA~~VII  363 (766)
T COG1204         327 EDRQLVEDAFRKGKIKVLVSTPTLAAGVNLPARTVII  363 (766)
T ss_pred             HHHHHHHHHHhcCCceEEEechHHhhhcCCcceEEEE
Confidence            9999999999999999999999999999999554444

>cd00268 DEADc DEAD-box helicases

Probab=100.00  E-value=2.1e-32  Score=221.78  Aligned_cols=200  Identities=47%  Similarity=0.812  Sum_probs=182.0

Q ss_pred             cccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC--CCceeEEEEcCCHH
Q 018574           35 FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS--SREVQALILSPTRE  112 (354)
Q Consensus        35 ~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~--~~~~~~lil~p~~~  112 (354)
                      |+++++++.+.+.+.+.|+..|+++|.++++.+.+++++++.+|||+|||.+++++++..+...  ..+++++|++|+++
T Consensus         1 ~~~~~~~~~i~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~   80 (203)
T cd00268           1 FEELGLSPELLRGIYALGFEKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRE   80 (203)
T ss_pred             CCcCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHH
Confidence            7889999999999999999999999999999999999999999999999999999999888776  45678999999999


Q ss_pred             HHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc
Q 018574          113 LATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF  192 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~  192 (354)
                      |+.|+.+.++.+....++.+..+.++....+....+..+++|+|+||+.+.+.+........+++++|+||+|.+.+.++
T Consensus        81 L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~~~~~~  160 (203)
T cd00268          81 LALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMGF  160 (203)
T ss_pred             HHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChHHhhccCh
Confidence            99999999999988778888889998887776666666799999999999998888777788999999999999988888


Q ss_pred             HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEE
Q 018574          193 KDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKI  234 (354)
Q Consensus       193 ~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~  234 (354)
                      ...+..+.+.++.+.|++++|||+++........++.++..+
T Consensus       161 ~~~~~~~~~~l~~~~~~~~~SAT~~~~~~~~~~~~~~~~~~~  202 (203)
T cd00268         161 EDQIREILKLLPKDRQTLLFSATMPKEVRDLARKFLRNPVRI  202 (203)
T ss_pred             HHHHHHHHHhCCcccEEEEEeccCCHHHHHHHHHHCCCCEEe
Confidence            999999999998899999999999999999888888887654

A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.

>TIGR00603 rad25 DNA repair helicase rad25

Probab=100.00  E-value=2.3e-32  Score=250.21  Aligned_cols=275  Identities=16%  Similarity=0.138  Sum_probs=189.2

Q ss_pred             CChHHHHHhHhhhhc-C--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeE
Q 018574           55 KPSAIQQRAVMPIIK-G--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQ  131 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~-~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~  131 (354)
                      .+++||.+++.++.. +  +..++.+|||+|||.+.+..+...      +.++|||||+..|+.||.+++.++.......
T Consensus       255 ~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l------~k~tLILvps~~Lv~QW~~ef~~~~~l~~~~  328 (732)
T TIGR00603       255 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV------KKSCLVLCTSAVSVEQWKQQFKMWSTIDDSQ  328 (732)
T ss_pred             CcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh------CCCEEEEeCcHHHHHHHHHHHHHhcCCCCce
Confidence            689999999998874 3  478999999999998887665432      2359999999999999999999986544455


Q ss_pred             EEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc--------CCccCCCccEEEEecchhhhccCcHHHHHHHHhhC
Q 018574          132 AHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR--------KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL  203 (354)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~--------~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~  203 (354)
                      +..+.++....     ......|+|+|++.+.....+        ..+....+++||+||||++.+..    +..++..+
T Consensus       329 I~~~tg~~k~~-----~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA~~----fr~il~~l  399 (732)
T TIGR00603       329 ICRFTSDAKER-----FHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPAAM----FRRVLTIV  399 (732)
T ss_pred             EEEEecCcccc-----cccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccHHH----HHHHHHhc
Confidence            55555543221     122368999999887532211        12334578999999999985544    34444444


Q ss_pred             CCCCcEEEEEeeCchhHH--HHHHhccCCCeEEEecC------CcccccCceeEEEEec--------------------c
Q 018574          204 PPDLQVVLISATLPHEIL--EMTTKFMTDPVKILVKR------DELTLEGIKQFFVAVE--------------------R  255 (354)
Q Consensus       204 ~~~~~~i~lSaT~~~~~~--~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~--------------------~  255 (354)
                      . ....++|||||..+..  ..+..+++ |..+...-      +..........+..+.                    .
T Consensus       400 ~-a~~RLGLTATP~ReD~~~~~L~~LiG-P~vye~~~~eLi~~G~LA~~~~~ev~v~~t~~~~~~yl~~~~~~k~~l~~~  477 (732)
T TIGR00603       400 Q-AHCKLGLTATLVREDDKITDLNFLIG-PKLYEANWMELQKKGFIANVQCAEVWCPMTPEFYREYLRENSRKRMLLYVM  477 (732)
T ss_pred             C-cCcEEEEeecCcccCCchhhhhhhcC-CeeeecCHHHHHhCCccccceEEEEEecCCHHHHHHHHHhcchhhhHHhhh
Confidence            3 4457999999954321  11222222 22111111      1011100000011111                    1


Q ss_pred             ccchHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCC-CCcEEEEcccc
Q 018574          256 EEWKFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSG-TTRVLITTDVW  332 (354)
Q Consensus       256 ~~~~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g-~~~vlv~T~~~  332 (354)
                      ...|...+..+++.+  .++++||||++.+.+..++..|.     +..+||+++..+|.++++.|+.| ..++||+|.++
T Consensus       478 np~K~~~~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L~-----~~~I~G~ts~~ER~~il~~Fr~~~~i~vLv~SkVg  552 (732)
T TIGR00603       478 NPNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKLG-----KPFIYGPTSQQERMQILQNFQHNPKVNTIFLSKVG  552 (732)
T ss_pred             ChHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHcC-----CceEECCCCHHHHHHHHHHHHhCCCccEEEEeccc
Confidence            112556666666654  56799999999999999998873     46689999999999999999875 78999999999


Q ss_pred             ccCCCcCCCcEEEecCCCC
Q 018574          333 ARGLDVQQAILFFFLFLFC  351 (354)
Q Consensus       333 ~~Gidi~~~~~Vi~~~~p~  351 (354)
                      .+|+|+|++++||+++.|.
T Consensus       553 deGIDlP~a~vvI~~s~~~  571 (732)
T TIGR00603       553 DTSIDLPEANVLIQISSHY  571 (732)
T ss_pred             ccccCCCCCCEEEEeCCCC
Confidence            9999999999999999884

All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type

Probab=100.00  E-value=1.8e-31  Score=232.42  Aligned_cols=278  Identities=14%  Similarity=0.145  Sum_probs=188.1

Q ss_pred             HHHHhHhhhhcCCc--EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccC----cCeEE
Q 018574           59 IQQRAVMPIIKGRD--VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDF----INIQA  132 (354)
Q Consensus        59 ~Q~~~~~~~~~~~~--~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~----~~~~~  132 (354)
                      +|.++++.+.++++  +++.+|||+|||.+++++++..      +.++++++|+++|+.|+.+.++.+...    .+..+
T Consensus         1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~~------~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v   74 (357)
T TIGR03158         1 HQVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLHG------ENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNL   74 (357)
T ss_pred             CHHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHHc------CCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceE
Confidence            69999999998874  7889999999999999988742      235899999999999999998887632    24555


Q ss_pred             EEEeCCcchH--Hh------------------HHhhcCCCeEEEeCcHHHHHHHhcC----C----ccCCCccEEEEecc
Q 018574          133 HACVGGKSVG--ED------------------IRKLEHGVHVVSGTPGRVCDMIKRK----T----LRTRAIKLLVLDES  184 (354)
Q Consensus       133 ~~~~~~~~~~--~~------------------~~~~~~~~~iiv~T~~~l~~~~~~~----~----~~~~~~~~vvvDE~  184 (354)
                      ..+.|....+  ..                  ......++.|+++||+.+..+++..    .    ....++++||+||+
T Consensus        75 ~~~~g~~~~d~~~~~~~~~~~~~g~~~~~~~r~~~~~~~p~illT~p~~l~~llr~~~~~~~~~~~~~~~~~~~iV~DE~  154 (357)
T TIGR03158        75 LHVSKATLKDIKEYANDKVGSSKGEKLYNLLRNPIGTSTPIILLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFDEF  154 (357)
T ss_pred             EEecCCchHHHHHhhhhhcccCccchhhhhHHHHHhcCCCCEEEecHHHHHHHHhhhccCcccchhhhhcCCCEEEEecc
Confidence            5555542211  00                  0011236789999999997655431    1    02368899999999


Q ss_pred             hhhhccCc-----HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhc--cCCCeEEEecCCcc----------------
Q 018574          185 DEMLSRGF-----KDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKF--MTDPVKILVKRDEL----------------  241 (354)
Q Consensus       185 h~~~~~~~-----~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~--~~~~~~~~~~~~~~----------------  241 (354)
                      |.+...+.     ......+++......+++++|||+++.....+...  .+.+..........                
T Consensus       155 H~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~lSAT~~~~~~~~l~~~~~~~~~~~~v~g~~~~~~~~~~~~~~~~~~~~  234 (357)
T TIGR03158       155 HLYDAKQLVGMLFLLAYMQLIRFFECRRKFVFLSATPDPALILRLQNAKQAGVKIAPIDGEKYQFPDNPELEADNKTQSF  234 (357)
T ss_pred             cccCcccchhhhhhhHHHHHHHhhhcCCcEEEEecCCCHHHHHHHHhccccCceeeeecCcccccCCChhhhcccccccc
Confidence            99754331     11233333433445799999999998877777654  34333222111000                


Q ss_pred             --cccCceeEEEEeccccchHHHHHHH-------HhhCCCCcEEEEcCchhhHHHHHHHHhcCC--CeEEEeecCCCHHH
Q 018574          242 --TLEGIKQFFVAVEREEWKFDTLCDL-------YDTLTITQAVIFCNTKRKVDWLTEKMRGYN--FTVSSMHGDMPQKE  310 (354)
Q Consensus       242 --~~~~~~~~~~~~~~~~~~~~~l~~~-------l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~--~~~~~~~~~~~~~~  310 (354)
                        ..+.+.+.+..  ....+...+..+       ++...++++||||++++.++.++..|++.+  ..+..+||.+++.+
T Consensus       235 ~~~~~~i~~~~~~--~~~~~~~~l~~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~  312 (357)
T TIGR03158       235 RPVLPPVELELIP--APDFKEEELSELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKD  312 (357)
T ss_pred             ceeccceEEEEEe--CCchhHHHHHHHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHH
Confidence              01234443333  222233333222       222356799999999999999999999764  57888999999888


Q ss_pred             HHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          311 RDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       311 r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |.+.      ++.+|||||+++++|+|+|.. +|| ++ |.++
T Consensus       313 R~~~------~~~~iLVaTdv~~rGiDi~~~-~vi-~~-p~~~  346 (357)
T TIGR03158       313 RERA------MQFDILLGTSTVDVGVDFKRD-WLI-FS-ARDA  346 (357)
T ss_pred             HHHh------ccCCEEEEecHHhcccCCCCc-eEE-EC-CCCH
Confidence            8654      478999999999999999987 666 44 6553

subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.

>KOG0354 consensus DEAD-box like helicase [General function prediction only]

Probab=100.00  E-value=5.5e-32  Score=243.26  Aligned_cols=297  Identities=19%  Similarity=0.265  Sum_probs=207.5

Q ss_pred             CCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEE
Q 018574           53 FEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQA  132 (354)
Q Consensus        53 ~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~  132 (354)
                      ...++.||.+++...+ |++++|.+|||+|||++++..+..++..... .++++++|++-|+.|....+..++..  ..+
T Consensus        60 ~~~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~-~KiVF~aP~~pLv~QQ~a~~~~~~~~--~~~  135 (746)
T KOG0354|consen   60 NLELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK-GKVVFLAPTRPLVNQQIACFSIYLIP--YSV  135 (746)
T ss_pred             cccccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCc-ceEEEeeCCchHHHHHHHHHhhccCc--ccc
Confidence            3489999999999999 9999999999999999999998888765544 67999999999999999888877755  455


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccC-CCccEEEEecchhhhcc-CcHHHHHHHHhhCCCCCcEE
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRT-RAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQVV  210 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~-~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~~~~~i  210 (354)
                      ....+|.........+-...+|+|.||+.+.+.+....... +.|.++||||||+.... .+...+..++..-....|++
T Consensus       136 T~~l~~~~~~~~r~~i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~kn~~Y~~Vmr~~l~~k~~~~qIL  215 (746)
T KOG0354|consen  136 TGQLGDTVPRSNRGEIVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSKNHPYNNIMREYLDLKNQGNQIL  215 (746)
T ss_pred             eeeccCccCCCchhhhhcccceEEeChHhhhhhcccccccccceEEEEEEcccccccccccHHHHHHHHHHhhhccccEE
Confidence            55555544333333455568999999999998887755544 88999999999998765 45666666666665666999


Q ss_pred             EEEeeCchhHHHHHHhccCC-------------------------C------------------------------eEEE
Q 018574          211 LISATLPHEILEMTTKFMTD-------------------------P------------------------------VKIL  235 (354)
Q Consensus       211 ~lSaT~~~~~~~~~~~~~~~-------------------------~------------------------------~~~~  235 (354)
                      +||||+..............                         +                              ..+.
T Consensus       216 gLTASpG~~~~~v~~~I~~L~asldvr~~ssi~~~y~~lr~~~~i~v~~~~~~~~~~~~f~~~i~p~l~~l~~~~l~~~~  295 (746)
T KOG0354|consen  216 GLTASPGSKLEQVQNVIDNLCASLDVRTESSIKSNYEELREHVQIPVDLSLCERDIEDPFGMIIEPLLQQLQEEGLIEIS  295 (746)
T ss_pred             EEecCCCccHHHHHHHHHhhheecccchhhhhhhhHHHHhccCcccCcHHHhhhhhhhhHHHHHHHHHHHHHhcCccccc
Confidence            99999875432221110000                         0                              0000


Q ss_pred             ----------ecCCccccc--------------------------Cce---------eEEEEe-----------------
Q 018574          236 ----------VKRDELTLE--------------------------GIK---------QFFVAV-----------------  253 (354)
Q Consensus       236 ----------~~~~~~~~~--------------------------~~~---------~~~~~~-----------------  253 (354)
                                ........+                          +++         .++...                 
T Consensus       296 ~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~~ll~~~gir~~~~l~~~~~f~~e~~~~k~~~~~~e~~~~~~  375 (746)
T KOG0354|consen  296 DKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNLALLISDGIRFVDALDYLEDFYEEVALKKYLKLELEARLIRN  375 (746)
T ss_pred             cccccccchhhhhhhhhccCCCccchhhHHHHHHHHHHHHHHhhcchhhHHHHhhhhhhccccchhHHHHHHhcchhhHH
Confidence                      000000000                          000         000000                 


Q ss_pred             ---------------ccccchHHHHHHHHh----hCCCCcEEEEcCchhhHHHHHHHHhc---CCCeEEEee--------
Q 018574          254 ---------------EREEWKFDTLCDLYD----TLTITQAVIFCNTKRKVDWLTEKMRG---YNFTVSSMH--------  303 (354)
Q Consensus       254 ---------------~~~~~~~~~l~~~l~----~~~~~~~lvf~~~~~~~~~l~~~l~~---~~~~~~~~~--------  303 (354)
                                     +....++..+..++.    ..++.++|||+.+++.|..+...|..   .+++...+.        
T Consensus       376 ~~~~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~~~~ir~~~fiGq~~s~~~  455 (746)
T KOG0354|consen  376 FTENMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLHELGIKAEIFIGQGKSTQS  455 (746)
T ss_pred             HHHHHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhhhhcccccceeeeccccccc
Confidence                           000012222222221    22345899999999999999999973   244444443        


Q ss_pred             cCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          304 GDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       304 ~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+|++.++.+++++|++|+++|||||+++++|+|++.|+.||=||.-.|+
T Consensus       456 ~gmtqk~Q~evl~~Fr~G~~NvLVATSV~EEGLDI~ec~lVIcYd~~snp  505 (746)
T KOG0354|consen  456 TGMTQKEQKEVLDKFRDGEINVLVATSVAEEGLDIGECNLVICYDYSSNP  505 (746)
T ss_pred             cccCHHHHHHHHHHHhCCCccEEEEecchhccCCcccccEEEEecCCccH
Confidence            36889999999999999999999999999999999999999999998774

>PRK12898 secA preprotein translocase subunit SecA; Reviewed

Probab=100.00  E-value=2.5e-31  Score=240.74  Aligned_cols=290  Identities=16%  Similarity=0.191  Sum_probs=219.3

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+ .|++.|...+..+++|+  +..+.||+|||.++++|++.....+   +.++|++|++.|+.|.++.+..+...+++
T Consensus       100 lg~-~p~~VQ~~~~~~ll~G~--Iae~~TGeGKTla~~lp~~~~al~G---~~v~VvTptreLA~qdae~~~~l~~~lGl  173 (656)
T PRK12898        100 LGQ-RHFDVQLMGGLALLSGR--LAEMQTGEGKTLTATLPAGTAALAG---LPVHVITVNDYLAERDAELMRPLYEALGL  173 (656)
T ss_pred             hCC-CCChHHHHHHHHHhCCC--eeeeeCCCCcHHHHHHHHHHHhhcC---CeEEEEcCcHHHHHHHHHHHHHHHhhcCC
Confidence            465 89999999999999998  9999999999999999999876544   56999999999999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcCC-------------------------ccCCCccEEEEecc
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRKT-------------------------LRTRAIKLLVLDES  184 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~~-------------------------~~~~~~~~vvvDE~  184 (354)
                      ++..+.++.+..  ..+...+++|+++|...| .++++...                         .....+.+.||||+
T Consensus       174 sv~~i~gg~~~~--~r~~~y~~dIvygT~~e~~FDyLrd~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~r~~~~aIvDEv  251 (656)
T PRK12898        174 TVGCVVEDQSPD--ERRAAYGADITYCTNKELVFDYLRDRLALGQRASDARLALESLHGRSSRSTQLLLRGLHFAIVDEA  251 (656)
T ss_pred             EEEEEeCCCCHH--HHHHHcCCCEEEECCCchhhhhccccccccccccchhhhhhhhccccCchhhhcccccceeEeecc
Confidence            999999987643  334456799999999877 44444321                         11256789999999


Q ss_pred             hhhhcc-C-----------------cHHHHHHHHhhCCC-----------------------------------------
Q 018574          185 DEMLSR-G-----------------FKDQIYDVYRYLPP-----------------------------------------  205 (354)
Q Consensus       185 h~~~~~-~-----------------~~~~~~~i~~~~~~-----------------------------------------  205 (354)
                      |.++-. .                 +......+...+..                                         
T Consensus       252 DSiLiDeartpliis~~~~~~~~~~~y~~~~~~~~~l~~~~~y~~d~~~~~v~lt~~g~~~~e~~~~~l~~~~~~~~~~~  331 (656)
T PRK12898        252 DSVLIDEARTPLIISAPAKEADEAEVYRQALELAAQLKEGEDYTIDAAEKRIELTEAGRARIAELAESLPPAWRGAVRRE  331 (656)
T ss_pred             cceeeccCCCceEEECCCCCCchhHHHHHHHHHHHhcCCCCceEEECCCCeEEEcHHHHHHHHHHhCcchhhcccchHHH
Confidence            985311 0                 11111111111110                                         


Q ss_pred             ---------------C-------------------------------------------------------------CcE
Q 018574          206 ---------------D-------------------------------------------------------------LQV  209 (354)
Q Consensus       206 ---------------~-------------------------------------------------------------~~~  209 (354)
                                     +                                                             .++
T Consensus       332 ~~i~~Al~A~~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~w~~GLhQaieaKE~v~i~~e~~t~a~It~q~~Fr~Y~kl  411 (656)
T PRK12898        332 ELVRQALSALHLFRRDEHYIVRDGKVVIVDEFTGRVMPDRSWEDGLHQMIEAKEGCELTDPRETLARITYQRFFRRYLRL  411 (656)
T ss_pred             HHHHHHHHHHHHHhcCCceEEECCeEEEEECCCCeECCCCCcChHHHHHHHHhcCCCCCcCceeeeeehHHHHHHhhHHH
Confidence                           0                                                             478


Q ss_pred             EEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCC--CCcEEEEcCchhhHHH
Q 018574          210 VLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT--ITQAVIFCNTKRKVDW  287 (354)
Q Consensus       210 i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~--~~~~lvf~~~~~~~~~  287 (354)
                      .+||||.+....++...+..++..+........  ...+.+..... ..+...+.+.+....  +.++||||++++.++.
T Consensus       412 ~GmTGTa~~~~~El~~~y~l~vv~IPt~kp~~r--~~~~~~v~~t~-~~K~~aL~~~i~~~~~~~~pvLIft~t~~~se~  488 (656)
T PRK12898        412 AGMTGTAREVAGELWSVYGLPVVRIPTNRPSQR--RHLPDEVFLTA-AAKWAAVAARVRELHAQGRPVLVGTRSVAASER  488 (656)
T ss_pred             hcccCcChHHHHHHHHHHCCCeEEeCCCCCccc--eecCCEEEeCH-HHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHH
Confidence            899999988877888888777765554444322  22333333333 337778888876542  5689999999999999


Q ss_pred             HHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcC---CCc-----EEEecCCCCCC
Q 018574          288 LTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQ---QAI-----LFFFLFLFCNV  353 (354)
Q Consensus       288 l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~---~~~-----~Vi~~~~p~s~  353 (354)
                      ++..|.+.|+++..+||+++  +|+..+..|..++..|+|||+++++|+||+   ++.     +||++|+|.|.
T Consensus       489 L~~~L~~~gi~~~~Lhg~~~--~rE~~ii~~ag~~g~VlVATdmAgRGtDI~l~~~V~~~GGLhVI~~d~P~s~  560 (656)
T PRK12898        489 LSALLREAGLPHQVLNAKQD--AEEAAIVARAGQRGRITVATNMAGRGTDIKLEPGVAARGGLHVILTERHDSA  560 (656)
T ss_pred             HHHHHHHCCCCEEEeeCCcH--HHHHHHHHHcCCCCcEEEEccchhcccCcCCccchhhcCCCEEEEcCCCCCH
Confidence            99999999999999999854  555666667767778999999999999999   666     99999999984

>TIGR03714 secA2 accessory Sec system translocase SecA2

Probab=100.00  E-value=7.6e-31  Score=240.35  Aligned_cols=290  Identities=14%  Similarity=0.119  Sum_probs=205.5

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .++|+|.+++..+..+++.++.++||+|||+++++|++.....+   ..++|++|+..|+.|+++.+..+...+++++..
T Consensus        68 glrpydVQlig~l~l~~G~Iaem~TGeGKTLta~Lpa~l~aL~g---~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~  144 (762)
T TIGR03714        68 GMFPYDVQVLGAIVLHQGNIAEMKTGEGKTLTATMPLYLNALTG---KGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSL  144 (762)
T ss_pred             CCCccHHHHHHHHHhcCCceeEecCCcchHHHHHHHHHHHhhcC---CceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEE
Confidence            45677777777666666689999999999999999987665544   359999999999999999999999999999988


Q ss_pred             EeCCc---chHHhHHhhcCCCeEEEeCcHHH-HHHHhc------CCccCCCccEEEEecchhhhccC-------------
Q 018574          135 CVGGK---SVGEDIRKLEHGVHVVSGTPGRV-CDMIKR------KTLRTRAIKLLVLDESDEMLSRG-------------  191 (354)
Q Consensus       135 ~~~~~---~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~------~~~~~~~~~~vvvDE~h~~~~~~-------------  191 (354)
                      +.++.   +..........+++|+++||+.| .+++..      .......+.++|+||||+++-..             
T Consensus       145 ~~~~s~~~~~~~~~rr~~y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiDeartpliisg~~~~  224 (762)
T TIGR03714       145 GVVDDPDEEYDANEKRKIYNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLDSAQTPLVISGAPRV  224 (762)
T ss_pred             EECCCCccccCHHHHHHhCCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhccCcCCeeeeCCCcc
Confidence            77652   22223333445799999999999 454432      23345788999999999974221             


Q ss_pred             ---cHHHHHHHHhhCCCC--------------------------------------------------------------
Q 018574          192 ---FKDQIYDVYRYLPPD--------------------------------------------------------------  206 (354)
Q Consensus       192 ---~~~~~~~i~~~~~~~--------------------------------------------------------------  206 (354)
                         ....+..+.+.+..+                                                              
T Consensus       225 ~~~~y~~~~~~v~~l~~~~dy~~d~~~~~v~lt~~G~~~~e~~~~~~~l~~~~~~~~~~~i~~al~A~~~~~~d~dYiV~  304 (762)
T TIGR03714       225 QSNLYHIADTFVRTLKEDVDYIFKKDKKEVWLTDKGIEKAEQYFKIDNLYSEEYFELVRHINLALRAHYLFKRNKDYVVT  304 (762)
T ss_pred             chHHHHHHHHHHHhcCCCCCeEEEcCCCeeeecHhHHHHHHHHcCCCccCChhhHHHHHHHHHHHHHHHHHhcCCceEEE
Confidence               112222222222100                                                              


Q ss_pred             -------------------------------------------------------CcEEEEEeeCchhHHHHHHhccCCC
Q 018574          207 -------------------------------------------------------LQVVLISATLPHEILEMTTKFMTDP  231 (354)
Q Consensus       207 -------------------------------------------------------~~~i~lSaT~~~~~~~~~~~~~~~~  231 (354)
                                                                             .++.+||+|......++.+.|-.+.
T Consensus       305 ~~~v~ivD~~TGr~~~gr~~~~GLhQaieaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~~~~~Ef~~iY~l~v  384 (762)
T TIGR03714       305 NGEVVLLDRITGRLLEGTKLQSGIHQAIEAKEHVELSKETRAMASITYQNLFKMFNKLSGMTGTGKVAEKEFIETYSLSV  384 (762)
T ss_pred             CCEEEEEECCCCcCCCCCCcchHHHHHHHhhcCCCCCCCceeeeeeeHHHHHhhCchhcccCCCChhHHHHHHHHhCCCE
Confidence                                                                   4678888887666666655443333


Q ss_pred             eEEEecCCcccccCceeEEEEeccccchHHHHHHHHhh--CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHH
Q 018574          232 VKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQK  309 (354)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~--~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~  309 (354)
                      ..+..............  ... ....+...+.+.+..  ..+.++||||++++.++.++..|.+.|+++..+||++...
T Consensus       385 ~~IPt~kp~~r~d~~d~--i~~-~~~~K~~ai~~~i~~~~~~~~pvLIft~s~~~se~ls~~L~~~gi~~~~L~a~~~~~  461 (762)
T TIGR03714       385 VKIPTNKPIIRIDYPDK--IYA-TLPEKLMATLEDVKEYHETGQPVLLITGSVEMSEIYSELLLREGIPHNLLNAQNAAK  461 (762)
T ss_pred             EEcCCCCCeeeeeCCCe--EEE-CHHHHHHHHHHHHHHHhhCCCCEEEEECcHHHHHHHHHHHHHCCCCEEEecCCChHH
Confidence            22222221111111111  122 223377777776654  4567999999999999999999999999999999999887


Q ss_pred             HHHHHHHHHhCCCCcEEEEccccccCCCcC---------CCcEEEecCCCCC
Q 018574          310 ERDAIMGEFRSGTTRVLITTDVWARGLDVQ---------QAILFFFLFLFCN  352 (354)
Q Consensus       310 ~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~---------~~~~Vi~~~~p~s  352 (354)
                      ++..+.+.++.|  .|+|||+++++|+|++         ++.+|+++++|++
T Consensus       462 E~~ii~~ag~~g--~VlIATdmAgRGtDI~l~~~v~~~GGL~vIit~~~ps~  511 (762)
T TIGR03714       462 EAQIIAEAGQKG--AVTVATSMAGRGTDIKLGKGVAELGGLAVIGTERMENS  511 (762)
T ss_pred             HHHHHHHcCCCC--eEEEEccccccccCCCCCccccccCCeEEEEecCCCCc
Confidence            776666655544  7999999999999999         9999999999975

Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.

>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]

Probab=99.98  E-value=8.4e-31  Score=233.60  Aligned_cols=279  Identities=20%  Similarity=0.236  Sum_probs=191.2

Q ss_pred             CChHHHHHhHhhhhc----CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPIIK----GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      ++++||.++++.+..    ++.+++.+|||+|||.+++..+....      .++|||||+++|+.||++.+.+..... .
T Consensus        36 ~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~------~~~Lvlv~~~~L~~Qw~~~~~~~~~~~-~  108 (442)
T COG1061          36 ELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK------RSTLVLVPTKELLDQWAEALKKFLLLN-D  108 (442)
T ss_pred             CCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc------CCEEEEECcHHHHHHHHHHHHHhcCCc-c
Confidence            799999999999998    89999999999999977766655442      229999999999999998887766332 1


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEE
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVV  210 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i  210 (354)
                      .+..+.++.....      . ..|.|+|.+.+.+......+..+.+++||||||||+.+..+......+    .....++
T Consensus       109 ~~g~~~~~~~~~~------~-~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~~~~~~~~~~----~~~~~~L  177 (442)
T COG1061         109 EIGIYGGGEKELE------P-AKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPSYRRILELL----SAAYPRL  177 (442)
T ss_pred             ccceecCceeccC------C-CcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcHHHHHHHHhh----hccccee
Confidence            2223333322111      1 469999999997753223444457999999999999766544443333    2222289


Q ss_pred             EEEeeCchhH---HHHHHhccCCCeEEEecCCcc------cccCceeEEEE-----------------------------
Q 018574          211 LISATLPHEI---LEMTTKFMTDPVKILVKRDEL------TLEGIKQFFVA-----------------------------  252 (354)
Q Consensus       211 ~lSaT~~~~~---~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~-----------------------------  252 (354)
                      +||||+....   ........+ +..+.....+.      .+.........                             
T Consensus       178 GLTATp~R~D~~~~~~l~~~~g-~~vy~~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~  256 (442)
T COG1061         178 GLTATPEREDGGRIGDLFDLIG-PIVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGTLRAE  256 (442)
T ss_pred             eeccCceeecCCchhHHHHhcC-CeEeecCHHHHHhCCCccceEEEEEEeccchHHHHHhhhhhhhhhhhhhhhhhhhHH
Confidence            9999975322   111111111 11221111100      00000000000                             


Q ss_pred             ------eccccchHHHHHHHHhhC-CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcE
Q 018574          253 ------VEREEWKFDTLCDLYDTL-TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRV  325 (354)
Q Consensus       253 ------~~~~~~~~~~l~~~l~~~-~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~v  325 (354)
                            ......+...+..++... .+.+++|||.+.+++..++..+...++ +..+++..+..+|..+++.|+.|..++
T Consensus       257 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr~g~~~~  335 (442)
T COG1061         257 NEARRIAIASERKIAAVRGLLLKHARGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFRTGGIKV  335 (442)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhcCCCcEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHHHHHHHHHHcCCCCE
Confidence                  000111334444445444 357999999999999999999998877 889999999999999999999999999


Q ss_pred             EEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          326 LITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       326 lv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+++.++.+|+|+|+++++|...-+.|.
T Consensus       336 lv~~~vl~EGvDiP~~~~~i~~~~t~S~  363 (442)
T COG1061         336 LVTVKVLDEGVDIPDADVLIILRPTGSR  363 (442)
T ss_pred             EEEeeeccceecCCCCcEEEEeCCCCcH
Confidence            9999999999999999999998877663

>PRK09200 preprotein translocase subunit SecA; Reviewed

Probab=99.98  E-value=2.4e-30  Score=239.24  Aligned_cols=291  Identities=15%  Similarity=0.161  Sum_probs=209.8

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+ .|++.|......+.+|+  +..+.||+|||.++++|++.....+   ..+.|++|+..||.|.++.+..+...+++
T Consensus        75 ~g~-~p~~vQl~~~~~l~~G~--Iaem~TGeGKTL~a~lp~~l~al~G---~~v~VvTpt~~LA~qd~e~~~~l~~~lGl  148 (790)
T PRK09200         75 LGM-RPYDVQLIGALVLHEGN--IAEMQTGEGKTLTATMPLYLNALEG---KGVHLITVNDYLAKRDAEEMGQVYEFLGL  148 (790)
T ss_pred             hCC-CCchHHHHhHHHHcCCc--eeeecCCCcchHHHHHHHHHHHHcC---CCeEEEeCCHHHHHHHHHHHHHHHhhcCC
Confidence            466 88888988887777665  9999999999999999998665544   45999999999999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcCC------ccCCCccEEEEecchhhhccC------------
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRKT------LRTRAIKLLVLDESDEMLSRG------------  191 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~~------~~~~~~~~vvvDE~h~~~~~~------------  191 (354)
                      ++..+.++.+...+.. ....++|+++||+.+ .+++....      ...+.+.++|+||+|+++-..            
T Consensus       149 ~v~~i~g~~~~~~~r~-~~y~~dIvygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDEaDsiLiDea~tpliisg~~~  227 (790)
T PRK09200        149 TVGLNFSDIDDASEKK-AIYEADIIYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDEIDSILLDEAQTPLIISGKPR  227 (790)
T ss_pred             eEEEEeCCCCcHHHHH-HhcCCCEEEECCccccchhHHhccccchhhhcccccceEEEeccccceeccCCCceeeeCCCc
Confidence            9999999887322222 234589999999988 44444321      345778999999999864111            


Q ss_pred             ----cHHHHHHHHhhCCCC-------------------------------------------------------------
Q 018574          192 ----FKDQIYDVYRYLPPD-------------------------------------------------------------  206 (354)
Q Consensus       192 ----~~~~~~~i~~~~~~~-------------------------------------------------------------  206 (354)
                          ....+..+...+..+                                                             
T Consensus       228 ~~~~~y~~~~~~~~~l~~~~dy~~d~~~~~~~lt~~g~~~~e~~~~i~~l~~~~~~~~~~~i~~Al~A~~~~~~d~dYiV  307 (790)
T PRK09200        228 VQSNLYHIAAKFVKTLEEDVDYEFDEEKKEVWLTDQGIEKAESYFGIDNLYSLEHQVLYRHIILALRAHVLFKRDVDYIV  307 (790)
T ss_pred             cccHHHHHHHHHHHhcccCCCeEEecCCCeEEecHhHHHHHHHhcCCccccChhhhHHHHHHHHHHHHHHHhhcCCcEEE
Confidence                112222222222100                                                             


Q ss_pred             --------------------------------------------------------CcEEEEEeeCchhHHHHHHhccCC
Q 018574          207 --------------------------------------------------------LQVVLISATLPHEILEMTTKFMTD  230 (354)
Q Consensus       207 --------------------------------------------------------~~~i~lSaT~~~~~~~~~~~~~~~  230 (354)
                                                                              .++.+||+|......++.+.|..+
T Consensus       308 ~~~~v~ivD~~TGr~~~gr~~s~GlhQaieaKe~v~i~~e~~t~a~It~q~~fr~Y~kl~GmTGTa~t~~~e~~~~Y~l~  387 (790)
T PRK09200        308 YDGEIVLVDRFTGRVLPGRKLQDGLHQAIEAKEGVEITEENRTMASITIQNLFRMFPKLSGMTGTAKTEEKEFFEVYNME  387 (790)
T ss_pred             ECCEEEEEECCCCcCCCCCccChHHHHHHHHhcCCCcCCCceehhhhhHHHHHHHhHHHhccCCCChHHHHHHHHHhCCc
Confidence                                                                    467788888766555555444433


Q ss_pred             CeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhh--CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCH
Q 018574          231 PVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQ  308 (354)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~--~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  308 (354)
                      ...+....+. .+...... ..... ..+...+...+..  ..+.++||||++++.++.++..|.+.|+++..+||++..
T Consensus       388 v~~IPt~kp~-~r~d~~~~-i~~~~-~~K~~al~~~i~~~~~~~~pvLIf~~t~~~se~l~~~L~~~gi~~~~L~~~~~~  464 (790)
T PRK09200        388 VVQIPTNRPI-IRIDYPDK-VFVTL-DEKYKAVIEEVKERHETGRPVLIGTGSIEQSETFSKLLDEAGIPHNLLNAKNAA  464 (790)
T ss_pred             EEECCCCCCc-ccccCCCe-EEcCH-HHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEecCCccH
Confidence            3322211111 11111111 12222 3377777777754  356799999999999999999999999999999999887


Q ss_pred             HHHHHHHHHHhCCCCcEEEEccccccCCCc---CCCc-----EEEecCCCCCC
Q 018574          309 KERDAIMGEFRSGTTRVLITTDVWARGLDV---QQAI-----LFFFLFLFCNV  353 (354)
Q Consensus       309 ~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi---~~~~-----~Vi~~~~p~s~  353 (354)
                      .++..+.+.+..|  .|+|||+++++|+|+   |++.     +||++|+|.|.
T Consensus       465 ~e~~~i~~ag~~g--~VlIATdmAgRG~DI~l~~~V~~~GGL~VI~~d~p~s~  515 (790)
T PRK09200        465 KEAQIIAEAGQKG--AVTVATNMAGRGTDIKLGEGVHELGGLAVIGTERMESR  515 (790)
T ss_pred             HHHHHHHHcCCCC--eEEEEccchhcCcCCCcccccccccCcEEEeccCCCCH
Confidence            7777666665544  799999999999999   6998     99999999884

>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]

Probab=99.98  E-value=2.6e-30  Score=229.22  Aligned_cols=294  Identities=21%  Similarity=0.305  Sum_probs=216.0

Q ss_pred             CCCCHHHHHHH-HHCCCCCChHHHHHhHhhhhcC------CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC
Q 018574           38 MGIKDDLLRGI-YQYGFEKPSAIQQRAVMPIIKG------RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT  110 (354)
Q Consensus        38 ~~~~~~~~~~l-~~~~~~~~~~~Q~~~~~~~~~~------~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~  110 (354)
                      ++....+.+.+ ....| ++|..|++++..+...      .+-++++..|||||.+++++++..+.++   .++.+.+||
T Consensus       245 ~~~~~~l~~~~~~~LPF-~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G---~Q~ALMAPT  320 (677)
T COG1200         245 LPANGELLAKFLAALPF-KLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAG---YQAALMAPT  320 (677)
T ss_pred             CCccHHHHHHHHHhCCC-CccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcC---CeeEEeccH
Confidence            44555655554 56788 9999999999998862      3569999999999999999999888665   458999999


Q ss_pred             HHHHHHHHHHHHHhccCcCeEEEEEeCCcch---HHhHHhhcCC-CeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          111 RELATQTEKVILAIGDFINIQAHACVGGKSV---GEDIRKLEHG-VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       111 ~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~-~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      .-||.|.+..+.++...+++.+..++|....   .+....+.++ .+++|||+.-+     +....+.++++||+||=|+
T Consensus       321 EILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALi-----Qd~V~F~~LgLVIiDEQHR  395 (677)
T COG1200         321 EILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALI-----QDKVEFHNLGLVIIDEQHR  395 (677)
T ss_pred             HHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhh-----hcceeecceeEEEEecccc
Confidence            9999999999999999999999999986543   3344455555 99999997544     4466678999999999999


Q ss_pred             hhccCcHHHHHHHHhhCCC-CCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHH
Q 018574          187 MLSRGFKDQIYDVYRYLPP-DLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCD  265 (354)
Q Consensus       187 ~~~~~~~~~~~~i~~~~~~-~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  265 (354)
                      +--.     =+..+..... .+.++.|||||.|....+....-.+.  -.++.-..-+..+.............++.+.+
T Consensus       396 FGV~-----QR~~L~~KG~~~Ph~LvMTATPIPRTLAlt~fgDldv--S~IdElP~GRkpI~T~~i~~~~~~~v~e~i~~  468 (677)
T COG1200         396 FGVH-----QRLALREKGEQNPHVLVMTATPIPRTLALTAFGDLDV--SIIDELPPGRKPITTVVIPHERRPEVYERIRE  468 (677)
T ss_pred             ccHH-----HHHHHHHhCCCCCcEEEEeCCCchHHHHHHHhccccc--hhhccCCCCCCceEEEEeccccHHHHHHHHHH
Confidence            6222     2222333333 57799999999997766654433332  22222222233344443433332223333333


Q ss_pred             HHhhCCCCcEEEEcCchhhH--------HHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccC
Q 018574          266 LYDTLTITQAVIFCNTKRKV--------DWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARG  335 (354)
Q Consensus       266 ~l~~~~~~~~lvf~~~~~~~--------~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~G  335 (354)
                      -+.  .+.++.|.|+-+++.        ..+++.|+..  +.++..+||.|+++++++++++|++|+.+|||+|.+++.|
T Consensus       469 ei~--~GrQaY~VcPLIeESE~l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTVIEVG  546 (677)
T COG1200         469 EIA--KGRQAYVVCPLIEESEKLELQAAEELYEELKSFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVG  546 (677)
T ss_pred             HHH--cCCEEEEEeccccccccchhhhHHHHHHHHHHHcccceeEEEecCCChHHHHHHHHHHHcCCCcEEEEeeEEEec
Confidence            333  456899999976654        4566666643  5669999999999999999999999999999999999999


Q ss_pred             CCcCCCcEEEecCC
Q 018574          336 LDVQQAILFFFLFL  349 (354)
Q Consensus       336 idi~~~~~Vi~~~~  349 (354)
                      +|+|+++++|..+.
T Consensus       547 VdVPnATvMVIe~A  560 (677)
T COG1200         547 VDVPNATVMVIENA  560 (677)
T ss_pred             ccCCCCeEEEEech
Confidence            99999999988764

>TIGR00963 secA preprotein translocase, SecA subunit

Probab=99.98  E-value=5.4e-30  Score=233.37  Aligned_cols=290  Identities=17%  Similarity=0.203  Sum_probs=212.1

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+ .|++.|......+.+|+  +..++||+|||+++.+|++-....+   ..+.|++|+..|+.|.++.+..+...+++
T Consensus        53 lg~-~p~~vQlig~~~l~~G~--Iaem~TGeGKTLva~lpa~l~aL~G---~~V~VvTpt~~LA~qdae~~~~l~~~LGL  126 (745)
T TIGR00963        53 LGM-RPFDVQLIGGIALHKGK--IAEMKTGEGKTLTATLPAYLNALTG---KGVHVVTVNDYLAQRDAEWMGQVYRFLGL  126 (745)
T ss_pred             hCC-CccchHHhhhhhhcCCc--eeeecCCCccHHHHHHHHHHHHHhC---CCEEEEcCCHHHHHHHHHHHHHHhccCCC
Confidence            465 77888887777666665  9999999999999999986444433   34999999999999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcC------CccCCCccEEEEecchhhhc-cC-----------
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRK------TLRTRAIKLLVLDESDEMLS-RG-----------  191 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~------~~~~~~~~~vvvDE~h~~~~-~~-----------  191 (354)
                      ++..+.++.+..+....+  .++|+++||..| .++++..      ...++.+.++|+||+|+++- ..           
T Consensus       127 sv~~i~g~~~~~~r~~~y--~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs~LIDeaRtpLiisg~~~  204 (745)
T TIGR00963       127 SVGLILSGMSPEERREAY--ACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDSILIDEARTPLIISGPAE  204 (745)
T ss_pred             eEEEEeCCCCHHHHHHhc--CCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHHHHhHHhhhhHHhhcCCCC
Confidence            999999988765544443  489999999999 7777664      34568899999999999743 11           


Q ss_pred             ----cHHHHHHHHhhCCCC-------------------------------------------------------------
Q 018574          192 ----FKDQIYDVYRYLPPD-------------------------------------------------------------  206 (354)
Q Consensus       192 ----~~~~~~~i~~~~~~~-------------------------------------------------------------  206 (354)
                          .......+.+.+..+                                                             
T Consensus       205 ~~~~ly~~a~~i~r~L~~~~dy~~de~~k~v~Lt~~G~~~~e~~~~~~~ly~~~~~~~~~~i~~Al~A~~l~~~d~dYiV  284 (745)
T TIGR00963       205 KSTELYLQANRFAKALEKEVHYEVDEKNRAVLLTEKGIKKAEDLLGVDNLYDLENSPLIHYINNALKAKELFEKDVDYIV  284 (745)
T ss_pred             CchHHHHHHHHHHHhhccCCCeEEecCCCceeECHHHHHHHHHHcCCccccChhhhHHHHHHHHHHHHHHHHhcCCcEEE
Confidence                001111111111100                                                             


Q ss_pred             --------------------------------------------------------CcEEEEEeeCchhHHHHHHhccCC
Q 018574          207 --------------------------------------------------------LQVVLISATLPHEILEMTTKFMTD  230 (354)
Q Consensus       207 --------------------------------------------------------~~~i~lSaT~~~~~~~~~~~~~~~  230 (354)
                                                                              .++.+||+|...+..++...|-.+
T Consensus       285 ~d~~V~ivD~~TGR~~~gr~ws~GLhQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY~l~  364 (745)
T TIGR00963       285 RDGEVVIVDEFTGRIMEGRRWSDGLHQAIEAKEGVEIQNENQTLATITYQNFFRLYEKLSGMTGTAKTEEEEFEKIYNLE  364 (745)
T ss_pred             ECCEEEEEECCCCcCCCCCccchHHHHHHHHhcCCCcCCCceeeeeeeHHHHHhhCchhhccCCCcHHHHHHHHHHhCCC
Confidence                                                                    467788888876656655555444


Q ss_pred             CeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh--hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCH
Q 018574          231 PVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD--TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQ  308 (354)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  308 (354)
                      ...+...............   ......+...+.+.+.  ...+.|+||||++++.++.++..|.+.|+++..+|++  .
T Consensus       365 vv~IPtnkp~~R~d~~d~i---~~t~~~k~~ai~~~i~~~~~~grpvLV~t~si~~se~ls~~L~~~gi~~~~Lna~--q  439 (745)
T TIGR00963       365 VVVVPTNRPVIRKDLSDLV---YKTEEEKWKAVVDEIKERHAKGQPVLVGTTSVEKSELLSNLLKERGIPHNVLNAK--N  439 (745)
T ss_pred             EEEeCCCCCeeeeeCCCeE---EcCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHcCCCeEEeeCC--h
Confidence            3333322222111111111   1222225555555442  3356799999999999999999999999999999998  7


Q ss_pred             HHHHHHHHHHhCCCCcEEEEccccccCCCcCC-------CcEEEecCCCCCC
Q 018574          309 KERDAIMGEFRSGTTRVLITTDVWARGLDVQQ-------AILFFFLFLFCNV  353 (354)
Q Consensus       309 ~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~-------~~~Vi~~~~p~s~  353 (354)
                      .+|+..+..|..+...|+|||+++++|+||+.       .-+||+++.|.|.
T Consensus       440 ~~rEa~ii~~ag~~g~VtIATnmAgRGtDI~l~~V~~~GGl~VI~t~~p~s~  491 (745)
T TIGR00963       440 HEREAEIIAQAGRKGAVTIATNMAGRGTDIKLEEVKELGGLYVIGTERHESR  491 (745)
T ss_pred             HHHHHHHHHhcCCCceEEEEeccccCCcCCCccchhhcCCcEEEecCCCCcH
Confidence            78888999999999999999999999999998       5599999999884

The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.

>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]

Probab=99.97  E-value=6.2e-31  Score=216.02  Aligned_cols=311  Identities=15%  Similarity=0.251  Sum_probs=234.4

Q ss_pred             cCcc--cCCCCHHHHHHHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           33 TSFD--AMGIKDDLLRGIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        33 ~~~~--~~~~~~~~~~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      ..|+  ++|++.+..+.+++ +...+++|.|..+++..+.|++.++..|||.||+++|-+|++-.      ...+|+++|
T Consensus        69 aawdkd~fpws~e~~~ilk~~f~lekfrplq~~ain~~ma~ed~~lil~tgggkslcyqlpal~a------dg~alvi~p  142 (695)
T KOG0353|consen   69 AAWDKDDFPWSDEAKDILKEQFHLEKFRPLQLAAINATMAGEDAFLILPTGGGKSLCYQLPALCA------DGFALVICP  142 (695)
T ss_pred             cccccCCCCCchHHHHHHHHHhhHHhcChhHHHHhhhhhccCceEEEEeCCCccchhhhhhHHhc------CCceEeech
Confidence            3454  58899999999887 67889999999999999999999999999999999999997743      234899999


Q ss_pred             CHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhH------HhhcCCCeEEEeCcHHHHHH---Hhc--CCccCCCccE
Q 018574          110 TRELATQTEKVILAIGDFINIQAHACVGGKSVGEDI------RKLEHGVHVVSGTPGRVCDM---IKR--KTLRTRAIKL  178 (354)
Q Consensus       110 ~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~iiv~T~~~l~~~---~~~--~~~~~~~~~~  178 (354)
                      ..+|.+...-.++.++    +....+...++..+..      ..-.....+++.||+++..-   +..  ..+....+.+
T Consensus       143 lislmedqil~lkqlg----i~as~lnansske~~k~v~~~i~nkdse~kliyvtpekiaksk~~mnkleka~~~~~~~~  218 (695)
T KOG0353|consen  143 LISLMEDQILQLKQLG----IDASMLNANSSKEEAKRVEAAITNKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAGFFKL  218 (695)
T ss_pred             hHHHHHHHHHHHHHhC----cchhhccCcccHHHHHHHHHHHcCCCceeEEEEecHHHHHHHHHHHHHHHHHhhcceeEE
Confidence            9999998888887776    5444444444332211      11123478899999987532   111  3344567899


Q ss_pred             EEEecchhhhccC--cHHHH--HHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEec
Q 018574          179 LVLDESDEMLSRG--FKDQI--YDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVE  254 (354)
Q Consensus       179 vvvDE~h~~~~~~--~~~~~--~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (354)
                      |-+||+|+...|+  |+...  ..++++.-++.+++++|||....+....+..+.-.....+.. ..+++++...+..-+
T Consensus       219 iaidevhccsqwghdfr~dy~~l~ilkrqf~~~~iigltatatn~vl~d~k~il~ie~~~tf~a-~fnr~nl~yev~qkp  297 (695)
T KOG0353|consen  219 IAIDEVHCCSQWGHDFRPDYKALGILKRQFKGAPIIGLTATATNHVLDDAKDILCIEAAFTFRA-GFNRPNLKYEVRQKP  297 (695)
T ss_pred             EeecceeehhhhCcccCcchHHHHHHHHhCCCCceeeeehhhhcchhhHHHHHHhHHhhheeec-ccCCCCceeEeeeCC
Confidence            9999999987664  44333  344555557889999999998877766655544322222222 244555544433332


Q ss_pred             -cccchHHHHHHHHh-hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcccc
Q 018574          255 -REEWKFDTLCDLYD-TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVW  332 (354)
Q Consensus       255 -~~~~~~~~l~~~l~-~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~  332 (354)
                       +.+.-++.+.++++ ...++..||||-+.+.+++++..|+..|+..-.||+.+.+.+|.-+-+.|..|++.|+|+|-++
T Consensus       298 ~n~dd~~edi~k~i~~~f~gqsgiiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq~w~a~eiqvivatvaf  377 (695)
T KOG0353|consen  298 GNEDDCIEDIAKLIKGDFAGQSGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIAGEIQVIVATVAF  377 (695)
T ss_pred             CChHHHHHHHHHHhccccCCCcceEEEeccccHHHHHHHHHhcCccccccccccCccccccccccccccceEEEEEEeee
Confidence             22334555555555 4455678999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCcCCCcEEEecCCCCCCC
Q 018574          333 ARGLDVQQAILFFFLFLFCNVF  354 (354)
Q Consensus       333 ~~Gidi~~~~~Vi~~~~p~s~~  354 (354)
                      +.|+|-|+++.|||..+|+|++
T Consensus       378 gmgidkpdvrfvihhsl~ksie  399 (695)
T KOG0353|consen  378 GMGIDKPDVRFVIHHSLPKSIE  399 (695)
T ss_pred             cccCCCCCeeEEEecccchhHH
Confidence            9999999999999999999874

>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]

Probab=99.97  E-value=3.1e-30  Score=242.08  Aligned_cols=297  Identities=16%  Similarity=0.204  Sum_probs=227.5

Q ss_pred             HHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhcc
Q 018574           47 GIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGD  126 (354)
Q Consensus        47 ~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~  126 (354)
                      ....+|...+++.|.+++..++.|+++++.+|||.||+++|-+|++-.      +.-+|||.|-.+|...+...+...  
T Consensus       256 l~~~Fg~~~FR~~Q~eaI~~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~------~gitvVISPL~SLm~DQv~~L~~~--  327 (941)
T KOG0351|consen  256 LKEVFGHKGFRPNQLEAINATLSGKDCFVLMPTGGGKSLCYQLPALLL------GGVTVVISPLISLMQDQVTHLSKK--  327 (941)
T ss_pred             HHHHhccccCChhHHHHHHHHHcCCceEEEeecCCceeeEeecccccc------CCceEEeccHHHHHHHHHHhhhhc--
Confidence            344589999999999999999999999999999999999998886643      225899999999998777666333  


Q ss_pred             CcCeEEEEEeCCcchHHh---HHhhcC---CCeEEEeCcHHHHHHHh--cCCccCCC---ccEEEEecchhhhccC--cH
Q 018574          127 FINIQAHACVGGKSVGED---IRKLEH---GVHVVSGTPGRVCDMIK--RKTLRTRA---IKLLVLDESDEMLSRG--FK  193 (354)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~---~~~~~~---~~~iiv~T~~~l~~~~~--~~~~~~~~---~~~vvvDE~h~~~~~~--~~  193 (354)
                        ++....+.++....+.   .+.+..   ..+|++.||+++.....  .....+..   +.++|+||||+...|+  |+
T Consensus       328 --~I~a~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtPE~v~~~~~l~~~~~~L~~~~~lal~vIDEAHCVSqWgHdFR  405 (941)
T KOG0351|consen  328 --GIPACFLSSIQTAAERLAILQKLANGNPIIKILYVTPEKVVASEGLLESLADLYARGLLALFVIDEAHCVSQWGHDFR  405 (941)
T ss_pred             --CcceeeccccccHHHHHHHHHHHhCCCCeEEEEEeCHHHhhcccchhhHHHhccCCCeeEEEEecHHHHhhhhccccc
Confidence              4777777777655422   233333   37899999998865322  12222333   7899999999998774  66


Q ss_pred             HHHHHHHhhC--CCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCC
Q 018574          194 DQIYDVYRYL--PPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT  271 (354)
Q Consensus       194 ~~~~~i~~~~--~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~  271 (354)
                      +....+....  .+..+++.+|||.+..+..-+-..++..... ......+++++...+..-.........+...-...+
T Consensus       406 p~Yk~l~~l~~~~~~vP~iALTATAT~~v~~DIi~~L~l~~~~-~~~~sfnR~NL~yeV~~k~~~~~~~~~~~~~~~~~~  484 (941)
T KOG0351|consen  406 PSYKRLGLLRIRFPGVPFIALTATATERVREDVIRSLGLRNPE-LFKSSFNRPNLKYEVSPKTDKDALLDILEESKLRHP  484 (941)
T ss_pred             HHHHHHHHHHhhCCCCCeEEeehhccHHHHHHHHHHhCCCCcc-eecccCCCCCceEEEEeccCccchHHHHHHhhhcCC
Confidence            5555443222  2346899999999888877666655544333 233334555555444443333434555555666677


Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFC  351 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~  351 (354)
                      ++.+||||.+++.++.++..|+..++.+..||++|++.+|..+-+.|..++++|+++|=+++.|+|-|+|+.||||.+|+
T Consensus       485 ~~s~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~~~~~VivATVAFGMGIdK~DVR~ViH~~lPk  564 (941)
T KOG0351|consen  485 DQSGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDKIRVIVATVAFGMGIDKPDVRFVIHYSLPK  564 (941)
T ss_pred             CCCeEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHHHhcCCCeEEEEEeeccCCCCCCceeEEEECCCch
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCC
Q 018574          352 NVF  354 (354)
Q Consensus       352 s~~  354 (354)
                      |++
T Consensus       565 s~E  567 (941)
T KOG0351|consen  565 SFE  567 (941)
T ss_pred             hHH
Confidence            975

>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]

Probab=99.97  E-value=1.3e-29  Score=211.40  Aligned_cols=250  Identities=30%  Similarity=0.438  Sum_probs=191.3

Q ss_pred             eEEEEcCCHHHHHHHHHHHHHhccCc---CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEE
Q 018574          103 QALILSPTRELATQTEKVILAIGDFI---NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLL  179 (354)
Q Consensus       103 ~~lil~p~~~l~~q~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~v  179 (354)
                      .++|+-|+++|++|....++++....   .++...+.+|...+.+...+.++.+|+|+||+++...+....+.+..+.++
T Consensus       288 ~avivepsrelaEqt~N~i~~Fk~h~~np~~r~lLmiggv~~r~Q~~ql~~g~~ivvGtpgRl~~~is~g~~~lt~crFl  367 (725)
T KOG0349|consen  288 EAVIVEPSRELAEQTHNQIEEFKMHTSNPEVRSLLMIGGVLKRTQCKQLKDGTHIVVGTPGRLLQPISKGLVTLTHCRFL  367 (725)
T ss_pred             ceeEecCcHHHHHHHHhhHHHHHhhcCChhhhhhhhhhhHHhHHHHHHhhcCceeeecCchhhhhhhhccceeeeeeEEE
Confidence            39999999999999999777665443   344446778888888888999999999999999999999988889999999


Q ss_pred             EEecchhhhccCcHHHHHHHHhhCC------CCCcEEEEEeeCch-hHHHHHHhccCCCeEEEecCCcccccCceeEEEE
Q 018574          180 VLDESDEMLSRGFKDQIYDVYRYLP------PDLQVVLISATLPH-EILEMTTKFMTDPVKILVKRDELTLEGIKQFFVA  252 (354)
Q Consensus       180 vvDE~h~~~~~~~~~~~~~i~~~~~------~~~~~i~lSaT~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  252 (354)
                      ++||++.++..++.+.+..+...++      ...|.+..|||+.. ++..+.+..+.-|.-+........++...+....
T Consensus       368 vlDead~lL~qgy~d~I~r~h~qip~~tsdg~rlq~~vCsatlh~feVkk~~ervmhfptwVdLkgeD~vpetvHhvv~l  447 (725)
T KOG0349|consen  368 VLDEADLLLGQGYDDKIYRFHGQIPHMTSDGFRLQSPVCSATLHIFEVKKVGERVMHFPTWVDLKGEDLVPETVHHVVKL  447 (725)
T ss_pred             EecchhhhhhcccHHHHHHHhccchhhhcCCcccccceeeeEEeEEEeeehhhhhccCceeEecccccccchhhccceee
Confidence            9999999999999999999888876      34789999999742 3333333444444434333333333222222222


Q ss_pred             eccc-cch----------------------------HHHH---------HHHHhhCCCCcEEEEcCchhhHHHHHHHHhc
Q 018574          253 VERE-EWK----------------------------FDTL---------CDLYDTLTITQAVIFCNTKRKVDWLTEKMRG  294 (354)
Q Consensus       253 ~~~~-~~~----------------------------~~~l---------~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~  294 (354)
                      +... ...                            ....         ...++.+...++||||.++..++.+.+++++
T Consensus       448 v~p~~d~sw~~lr~~i~td~vh~kdn~~pg~~Spe~~s~a~kilkgEy~v~ai~~h~mdkaiifcrtk~dcDnLer~~~q  527 (725)
T KOG0349|consen  448 VCPSVDGSWCDLRQFIETDKVHTKDNLLPGQVSPENPSSATKILKGEYGVVAIRRHAMDKAIIFCRTKQDCDNLERMMNQ  527 (725)
T ss_pred             cCCccCccHHHHhhhhccCCcccccccccccCCCCChhhhhHHhcCchhhhhhhhhccCceEEEEeccccchHHHHHHHH
Confidence            1111 001                            1111         1123344557899999999999999999987


Q ss_pred             C---CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCC
Q 018574          295 Y---NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN  352 (354)
Q Consensus       295 ~---~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s  352 (354)
                      .   .+.|+++||+..+.+|.+-++.|+.+..+.||||+++.+|+||..+..+|++-+|.+
T Consensus       528 kgg~~~scvclhgDrkP~Erk~nle~Fkk~dvkflictdvaargldi~g~p~~invtlpd~  588 (725)
T KOG0349|consen  528 KGGKHYSCVCLHGDRKPDERKANLESFKKFDVKFLICTDVAARGLDITGLPFMINVTLPDD  588 (725)
T ss_pred             cCCccceeEEEecCCChhHHHHHHHhhhhcCeEEEEEehhhhccccccCCceEEEEecCcc
Confidence            6   358999999999999999999999999999999999999999999999999999975

>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]

Probab=99.97  E-value=8.4e-29  Score=226.21  Aligned_cols=290  Identities=16%  Similarity=0.253  Sum_probs=211.3

Q ss_pred             CCCCCChHHHHHhHhhhhc-CCcEEEEcCCCCchhhHhHHHHhhcccc-------CCCceeEEEEcCCHHHHHHHHHHHH
Q 018574           51 YGFEKPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALTVCQTVDT-------SSREVQALILSPTRELATQTEKVIL  122 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~-~~~~ii~~~tGsGKT~~~~~~~~~~~~~-------~~~~~~~lil~p~~~l~~q~~~~~~  122 (354)
                      ++|..++..|..+++.+.. ..+.+|+||||+|||-.+++.++..+..       .+.+.+++||+|+++|+..+.+.+.
T Consensus       106 f~f~~fN~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~  185 (1230)
T KOG0952|consen  106 FSFEEFNRIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFS  185 (1230)
T ss_pred             ccHHHHHHHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHh
Confidence            6777899999999998776 6799999999999999999999988764       2345689999999999999999998


Q ss_pred             HhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC---CccCCCccEEEEecchhhhccCcHHHHHHH
Q 018574          123 AIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK---TLRTRAIKLLVLDESDEMLSRGFKDQIYDV  199 (354)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~---~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i  199 (354)
                      +-....|+.+..++|+.......   ...++|+|+||+++--.-+..   .-..+.+++||+||+|.+-+. -+..+..+
T Consensus       186 kkl~~~gi~v~ELTGD~ql~~te---i~~tqiiVTTPEKwDvvTRk~~~d~~l~~~V~LviIDEVHlLhd~-RGpvlEti  261 (1230)
T KOG0952|consen  186 KKLAPLGISVRELTGDTQLTKTE---IADTQIIVTTPEKWDVVTRKSVGDSALFSLVRLVIIDEVHLLHDD-RGPVLETI  261 (1230)
T ss_pred             hhcccccceEEEecCcchhhHHH---HHhcCEEEecccceeeeeeeeccchhhhhheeeEEeeeehhhcCc-ccchHHHH
Confidence            88888899999999998765544   224899999999985433321   223467899999999998654 23444444


Q ss_pred             Hhh-------CCCCCcEEEEEeeCchhHHHHHHhccCC-CeEEEecCCcccccCceeEEEEecccc----------chHH
Q 018574          200 YRY-------LPPDLQVVLISATLPHEILEMTTKFMTD-PVKILVKRDELTLEGIKQFFVAVEREE----------WKFD  261 (354)
Q Consensus       200 ~~~-------~~~~~~~i~lSaT~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~  261 (354)
                      ..+       .....+++++|||+|+- .+....+.-+ +..+........+-.+.+.+.......          ...+
T Consensus       262 VaRtlr~vessqs~IRivgLSATlPN~-eDvA~fL~vn~~~glfsFd~~yRPvpL~~~~iG~k~~~~~~~~~~~d~~~~~  340 (1230)
T KOG0952|consen  262 VARTLRLVESSQSMIRIVGLSATLPNY-EDVARFLRVNPYAGLFSFDQRYRPVPLTQGFIGIKGKKNRQQKKNIDEVCYD  340 (1230)
T ss_pred             HHHHHHHHHhhhhheEEEEeeccCCCH-HHHHHHhcCCCccceeeecccccccceeeeEEeeecccchhhhhhHHHHHHH
Confidence            332       23567899999999874 3333332222 233333333333334444444443331          1123


Q ss_pred             HHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC----C-------------------CeEEEeecCCCHHHHHHHHHHH
Q 018574          262 TLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY----N-------------------FTVSSMHGDMPQKERDAIMGEF  318 (354)
Q Consensus       262 ~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~----~-------------------~~~~~~~~~~~~~~r~~~~~~f  318 (354)
                      .+.+.++  .+.+++|||.++..+.+.|+.|.+.    |                   ....+.|+++...+|..+.+.|
T Consensus       341 kv~e~~~--~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~E~~F  418 (1230)
T KOG0952|consen  341 KVVEFLQ--EGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVEKEF  418 (1230)
T ss_pred             HHHHHHH--cCCeEEEEEecChHHHHHHHHHHHHHHhcCcccccCCChhhHHHHHHHHhhhhhcccccchhhHHHHHHHH
Confidence            3333333  3468999999999999999888643    1                   2256789999999999999999


Q ss_pred             hCCCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          319 RSGTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       319 ~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      .+|.++||+||..++.|+|+|+ .+||.-+
T Consensus       419 ~~G~i~vL~cTaTLAwGVNLPA-~aViIKG  447 (1230)
T KOG0952|consen  419 KEGHIKVLCCTATLAWGVNLPA-YAVIIKG  447 (1230)
T ss_pred             hcCCceEEEecceeeeccCCcc-eEEEecC
Confidence            9999999999999999999994 5555544

>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]

Probab=99.97  E-value=1.7e-29  Score=210.19  Aligned_cols=295  Identities=16%  Similarity=0.231  Sum_probs=207.5

Q ss_pred             HHHHHHHH-CCCCC-ChHHHHHhHhhhhc-CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHH
Q 018574           43 DLLRGIYQ-YGFEK-PSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEK  119 (354)
Q Consensus        43 ~~~~~l~~-~~~~~-~~~~Q~~~~~~~~~-~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~  119 (354)
                      .+.+.|++ +|+.. -++.|..++..+.. .+++.+++|||+||+++|-+|++-.   .  + -++|+.|..+|.....+
T Consensus         6 ~VreaLKK~FGh~kFKs~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~~---~--g-ITIV~SPLiALIkDQiD   79 (641)
T KOG0352|consen    6 KVREALKKLFGHKKFKSRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALVH---G--G-ITIVISPLIALIKDQID   79 (641)
T ss_pred             HHHHHHHHHhCchhhcChHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHHh---C--C-eEEEehHHHHHHHHHHH
Confidence            45667776 67654 47899999998877 4799999999999999999997744   1  2 48999999999998888


Q ss_pred             HHHHhccCcCeEEEEEeCCcchHHh------HHhhcCCCeEEEeCcHHHHHHH----hcCCccCCCccEEEEecchhhhc
Q 018574          120 VILAIGDFINIQAHACVGGKSVGED------IRKLEHGVHVVSGTPGRVCDMI----KRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~iiv~T~~~l~~~~----~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      .+.++.    +.+..+....+..+.      +...+....+++.||+..-.-.    .+....-..+.++|+||+|....
T Consensus        80 HL~~LK----Vp~~SLNSKlSt~ER~ri~~DL~~ekp~~K~LYITPE~AAt~~FQ~lLn~L~~r~~L~Y~vVDEAHCVSQ  155 (641)
T KOG0352|consen   80 HLKRLK----VPCESLNSKLSTVERSRIMGDLAKEKPTIKMLYITPEGAATDGFQKLLNGLANRDVLRYIVVDEAHCVSQ  155 (641)
T ss_pred             HHHhcC----CchhHhcchhhHHHHHHHHHHHHhcCCceeEEEEchhhhhhhhHHHHHHHHhhhceeeeEEechhhhHhh
Confidence            887654    333333332222221      2223345788999998653222    12222335679999999999977


Q ss_pred             cC--cHHHHHHH---HhhCCCCCcEEEEEeeCchhHHHHHHhc--cCCCeEEEecCCcccccCceeEEEEecccc---ch
Q 018574          190 RG--FKDQIYDV---YRYLPPDLQVVLISATLPHEILEMTTKF--MTDPVKILVKRDELTLEGIKQFFVAVEREE---WK  259 (354)
Q Consensus       190 ~~--~~~~~~~i---~~~~~~~~~~i~lSaT~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~  259 (354)
                      |+  |++....+   .+.+ ++...+.+|||.++.+.+.+-..  +..|..+...+..  +.++   ++.....+   +-
T Consensus       156 WGHDFRPDYL~LG~LRS~~-~~vpwvALTATA~~~VqEDi~~qL~L~~PVAiFkTP~F--R~NL---FYD~~~K~~I~D~  229 (641)
T KOG0352|consen  156 WGHDFRPDYLTLGSLRSVC-PGVPWVALTATANAKVQEDIAFQLKLRNPVAIFKTPTF--RDNL---FYDNHMKSFITDC  229 (641)
T ss_pred             hccccCcchhhhhhHHhhC-CCCceEEeecccChhHHHHHHHHHhhcCcHHhccCcch--hhhh---hHHHHHHHHhhhH
Confidence            65  55544443   3333 57789999999998887755433  3455544322221  1111   00000000   01


Q ss_pred             HHHHHHHHhhCC-------------CCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEE
Q 018574          260 FDTLCDLYDTLT-------------ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVL  326 (354)
Q Consensus       260 ~~~l~~~l~~~~-------------~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vl  326 (354)
                      ...|.++.....             .+-.||||.+++++++++-.|...|+...-||+++...+|.++.++|.+++..|+
T Consensus       230 ~~~LaDF~~~~LG~~~~~~~~~K~~~GCGIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~PvI  309 (641)
T KOG0352|consen  230 LTVLADFSSSNLGKHEKASQNKKTFTGCGIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNNEIPVI  309 (641)
T ss_pred             hHhHHHHHHHhcCChhhhhcCCCCcCcceEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHHHhcCCCCEE
Confidence            222222222111             1348999999999999999999999999999999999999999999999999999


Q ss_pred             EEccccccCCCcCCCcEEEecCCCCCC
Q 018574          327 ITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       327 v~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ++|..+++|+|-|+++.|||++.|.|+
T Consensus       310 ~AT~SFGMGVDKp~VRFViHW~~~qn~  336 (641)
T KOG0352|consen  310 AATVSFGMGVDKPDVRFVIHWSPSQNL  336 (641)
T ss_pred             EEEeccccccCCcceeEEEecCchhhh
Confidence            999999999999999999999999885

>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]

Probab=99.96  E-value=1e-27  Score=224.28  Aligned_cols=292  Identities=20%  Similarity=0.249  Sum_probs=226.9

Q ss_pred             CCCCHHHHHHHHH-CCCCCChHHHHHhHhhhhc----C--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC
Q 018574           38 MGIKDDLLRGIYQ-YGFEKPSAIQQRAVMPIIK----G--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT  110 (354)
Q Consensus        38 ~~~~~~~~~~l~~-~~~~~~~~~Q~~~~~~~~~----~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~  110 (354)
                      ++.+......+.. ++| ..|+.|..+++.+.+    +  -+-+|+|..|.|||.+++-++......+   +++.++|||
T Consensus       577 f~~d~~~q~~F~~~FPy-eET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~G---KQVAvLVPT  652 (1139)
T COG1197         577 FPPDTEWQEEFEASFPY-EETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDG---KQVAVLVPT  652 (1139)
T ss_pred             CCCChHHHHHHHhcCCC-cCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCC---CeEEEEccc
Confidence            3445555555555 677 889999999999886    3  3679999999999999999988877655   569999999


Q ss_pred             HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHh---HHhhcCC-CeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          111 RELATQTEKVILAIGDFINIQAHACVGGKSVGED---IRKLEHG-VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       111 ~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~-~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      .-|++|.++.++.-...+++++..+..=....+.   ...+..| .||+|||+.     +-...+.+.+++++||||-|+
T Consensus       653 TlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHr-----LL~kdv~FkdLGLlIIDEEqR  727 (1139)
T COG1197         653 TLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHR-----LLSKDVKFKDLGLLIIDEEQR  727 (1139)
T ss_pred             HHhHHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEEEechH-----hhCCCcEEecCCeEEEechhh
Confidence            9999999999999999999999887654443333   3344444 899999963     334567788999999999999


Q ss_pred             hhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHH
Q 018574          187 MLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDL  266 (354)
Q Consensus       187 ~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  266 (354)
                      +     +-.-++-++.+..+.-++-|||||.|....+.....++...+...+  ..+..+..++....+..-+..++.++
T Consensus       728 F-----GVk~KEkLK~Lr~~VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP--~~R~pV~T~V~~~d~~~ireAI~REl  800 (1139)
T COG1197         728 F-----GVKHKEKLKELRANVDVLTLSATPIPRTLNMSLSGIRDLSVIATPP--EDRLPVKTFVSEYDDLLIREAILREL  800 (1139)
T ss_pred             c-----CccHHHHHHHHhccCcEEEeeCCCCcchHHHHHhcchhhhhccCCC--CCCcceEEEEecCChHHHHHHHHHHH
Confidence            5     3334455555667788999999999999988888777764443222  23333444444444433233333333


Q ss_pred             HhhCCCCcEEEEcCchhhHHHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEE
Q 018574          267 YDTLTITQAVIFCNTKRKVDWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILF  344 (354)
Q Consensus       267 l~~~~~~~~lvf~~~~~~~~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~V  344 (354)
                      .+   +|++....|.++..+++++.|+++  ..++.+.||-|+..+-++++.+|-+|+++|||||.+++.|+|+|+++.+
T Consensus       801 ~R---gGQvfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIPnANTi  877 (1139)
T COG1197         801 LR---GGQVFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANTI  877 (1139)
T ss_pred             hc---CCEEEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcCCCCEEEEeeeeecCcCCCCCceE
Confidence            33   589999999999999999999987  5678999999999999999999999999999999999999999999998


Q ss_pred             EecC
Q 018574          345 FFLF  348 (354)
Q Consensus       345 i~~~  348 (354)
                      |.-+
T Consensus       878 IIe~  881 (1139)
T COG1197         878 IIER  881 (1139)
T ss_pred             EEec
Confidence            8643

>PRK04914 ATP-dependent helicase HepA; Validated

Probab=99.96  E-value=8.2e-28  Score=227.86  Aligned_cols=294  Identities=16%  Similarity=0.129  Sum_probs=191.0

Q ss_pred             CChHHHHHhHhhhhc--CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEE
Q 018574           55 KPSAIQQRAVMPIIK--GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQA  132 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~--~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~  132 (354)
                      .|.|||.+++..++.  ..++++...+|.|||..+.+.+...+..+ ...++|||||. +|..||..++.+..   ++..
T Consensus       152 ~l~pHQl~~~~~vl~~~~~R~LLADEvGLGKTIeAglil~~l~~~g-~~~rvLIVvP~-sL~~QW~~El~~kF---~l~~  226 (956)
T PRK04914        152 SLIPHQLYIAHEVGRRHAPRVLLADEVGLGKTIEAGMIIHQQLLTG-RAERVLILVPE-TLQHQWLVEMLRRF---NLRF  226 (956)
T ss_pred             CCCHHHHHHHHHHhhccCCCEEEEeCCcCcHHHHHHHHHHHHHHcC-CCCcEEEEcCH-HHHHHHHHHHHHHh---CCCe
Confidence            699999999988765  35899999999999988877666655544 34469999996 89999999986533   2333


Q ss_pred             EEEeCCcchHH--hHHhhcCCCeEEEeCcHHHHHHH-hcCCccCCCccEEEEecchhhhcc--CcHHHHHHHHhhCCCCC
Q 018574          133 HACVGGKSVGE--DIRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLSR--GFKDQIYDVYRYLPPDL  207 (354)
Q Consensus       133 ~~~~~~~~~~~--~~~~~~~~~~iiv~T~~~l~~~~-~~~~~~~~~~~~vvvDE~h~~~~~--~~~~~~~~i~~~~~~~~  207 (354)
                      ..+.++.....  .........+++|+|.+.+...- ....+....+++||+||||++...  ........+........
T Consensus       227 ~i~~~~~~~~~~~~~~~pf~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~~~  306 (956)
T PRK04914        227 SLFDEERYAEAQHDADNPFETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEVIP  306 (956)
T ss_pred             EEEcCcchhhhcccccCccccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhccC
Confidence            33332211100  00011124689999998776421 112233457899999999998621  11112222222222345


Q ss_pred             cEEEEEeeCchh-HH------------------HHH-------------H-----------------hccCCCe------
Q 018574          208 QVVLISATLPHE-IL------------------EMT-------------T-----------------KFMTDPV------  232 (354)
Q Consensus       208 ~~i~lSaT~~~~-~~------------------~~~-------------~-----------------~~~~~~~------  232 (354)
                      .++++||||... ..                  .+.             .                 .++.+..      
T Consensus       307 ~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~~~~~a~~v~~l~~~~~~~~~~~~~l~~ll~~~~~~~l~~  386 (956)
T PRK04914        307 GVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQYRPVADAVQALLAGEKLSDDALNALGELLGEQDIEPLLQ  386 (956)
T ss_pred             CEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHhhHHHHHHHHHHhcCCcCCHHHHHHHHHHhcccchhHHHh
Confidence            689999997421 00                  000             0                 0000000      


Q ss_pred             ---------------------------EEEecCCccc----ccCceeEE-EE----------------------------
Q 018574          233 ---------------------------KILVKRDELT----LEGIKQFF-VA----------------------------  252 (354)
Q Consensus       233 ---------------------------~~~~~~~~~~----~~~~~~~~-~~----------------------------  252 (354)
                                                 .+.+......    +....+.+ ..                            
T Consensus       387 ~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~~fp~R~~~~~~l~~~~~y~~~~~~~~~~~~~~~l~pe~~~~  466 (956)
T PRK04914        387 AANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVKGFPKRELHPIPLPLPEQYQTAIKVSLEARARDMLYPEQIYQ  466 (956)
T ss_pred             hhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhcCCCcCceeEeecCCCHHHHHHHHHhHHHHHHhhcCHHHHHH
Confidence                                       0000000000    00000000 00                            


Q ss_pred             -------eccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHH-hcCCCeEEEeecCCCHHHHHHHHHHHhCC--C
Q 018574          253 -------VEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKM-RGYNFTVSSMHGDMPQKERDAIMGEFRSG--T  322 (354)
Q Consensus       253 -------~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l-~~~~~~~~~~~~~~~~~~r~~~~~~f~~g--~  322 (354)
                             ......|.+.+..+++.....|+||||++++.+..+++.| ...|+++..+||+++..+|.++++.|+++  .
T Consensus       467 ~~~~~~~~~~~d~Ki~~L~~~L~~~~~~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~  546 (956)
T PRK04914        467 EFEDNATWWNFDPRVEWLIDFLKSHRSEKVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDG  546 (956)
T ss_pred             HHhhhhhccccCHHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCCCC
Confidence                   0011225566777777777789999999999999999999 46699999999999999999999999974  5


Q ss_pred             CcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          323 TRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       323 ~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+|||||.++++|+|++.+++||+||+|+|+
T Consensus       547 ~~VLIsTdvgseGlNlq~a~~VInfDlP~nP  577 (956)
T PRK04914        547 AQVLLCSEIGSEGRNFQFASHLVLFDLPFNP  577 (956)
T ss_pred             ccEEEechhhccCCCcccccEEEEecCCCCH
Confidence            8999999999999999999999999999997

>PRK05580 primosome assembly protein PriA; Validated

Probab=99.96  E-value=3.8e-27  Score=220.22  Aligned_cols=277  Identities=21%  Similarity=0.243  Sum_probs=186.9

Q ss_pred             CChHHHHHhHhhhhcC---CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeE
Q 018574           55 KPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQ  131 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~---~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~  131 (354)
                      .++++|.++++.+.++   +++++.++||+|||.+|+.++...+..   +.++||++|+++|+.|+.+.+++..   +..
T Consensus       144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~---g~~vLvLvPt~~L~~Q~~~~l~~~f---g~~  217 (679)
T PRK05580        144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQ---GKQALVLVPEIALTPQMLARFRARF---GAP  217 (679)
T ss_pred             CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHc---CCeEEEEeCcHHHHHHHHHHHHHHh---CCC
Confidence            6899999999999874   789999999999999998887776654   3469999999999999999998753   467


Q ss_pred             EEEEeCCcchHHhH---Hhhc-CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-----c-HHHHHHHHh
Q 018574          132 AHACVGGKSVGEDI---RKLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-----F-KDQIYDVYR  201 (354)
Q Consensus       132 ~~~~~~~~~~~~~~---~~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-----~-~~~~~~i~~  201 (354)
                      +..++++.+..+..   .... ..++|+|+|++.+.       .++.++++||+||+|.....+     + .+.+.. ..
T Consensus       218 v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~-------~p~~~l~liVvDEeh~~s~~~~~~p~y~~r~va~-~r  289 (679)
T PRK05580        218 VAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSALF-------LPFKNLGLIIVDEEHDSSYKQQEGPRYHARDLAV-VR  289 (679)
T ss_pred             EEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc-------ccccCCCEEEEECCCccccccCcCCCCcHHHHHH-HH
Confidence            88888886654433   2232 34799999997763       456789999999999764322     1 123322 22


Q ss_pred             hCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCc--ccccCceeEEEEecc------ccchHHHHHHHHh-hC-C
Q 018574          202 YLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE--LTLEGIKQFFVAVER------EEWKFDTLCDLYD-TL-T  271 (354)
Q Consensus       202 ~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~------~~~~~~~l~~~l~-~~-~  271 (354)
                      ....+.+++++|||++.+........  ....+......  ...+.+  .......      ...-...+.+.++ .. .
T Consensus       290 a~~~~~~~il~SATps~~s~~~~~~g--~~~~~~l~~r~~~~~~p~v--~~id~~~~~~~~~~~~ls~~l~~~i~~~l~~  365 (679)
T PRK05580        290 AKLENIPVVLGSATPSLESLANAQQG--RYRLLRLTKRAGGARLPEV--EIIDMRELLRGENGSFLSPPLLEAIKQRLER  365 (679)
T ss_pred             hhccCCCEEEEcCCCCHHHHHHHhcc--ceeEEEeccccccCCCCeE--EEEechhhhhhcccCCCCHHHHHHHHHHHHc
Confidence            33467899999999887655544321  11111111111  111111  1111100      0001122222222 22 2


Q ss_pred             CCcEEEEcCchh------------------------------------------------------------hHHHHHHH
Q 018574          272 ITQAVIFCNTKR------------------------------------------------------------KVDWLTEK  291 (354)
Q Consensus       272 ~~~~lvf~~~~~------------------------------------------------------------~~~~l~~~  291 (354)
                      ++++|||+|.+.                                                            -++++++.
T Consensus       366 g~qvll~~nrrGy~~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~~l~~~g~G~e~~~e~  445 (679)
T PRK05580        366 GEQVLLFLNRRGYAPFLLCRDCGWVAECPHCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGSTDLVPVGPGTERLEEE  445 (679)
T ss_pred             CCeEEEEEcCCCCCCceEhhhCcCccCCCCCCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCCeeEEeeccHHHHHHH
Confidence            346777766421                                                            34577777


Q ss_pred             HhcC--CCeEEEeecCCC--HHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          292 MRGY--NFTVSSMHGDMP--QKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       292 l~~~--~~~~~~~~~~~~--~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      |++.  +.++..+|+++.  .+++++++++|++|+.+|||+|+++++|+|+|++++|+.+|.
T Consensus       446 l~~~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~iakG~d~p~v~lV~il~a  507 (679)
T PRK05580        446 LAELFPEARILRIDRDTTRRKGALEQLLAQFARGEADILIGTQMLAKGHDFPNVTLVGVLDA  507 (679)
T ss_pred             HHHhCCCCcEEEEeccccccchhHHHHHHHHhcCCCCEEEEChhhccCCCCCCcCEEEEEcC
Confidence            7765  678889999875  467889999999999999999999999999999999965544

>PRK11131 ATP-dependent RNA helicase HrpA; Provisional

Probab=99.96  E-value=5.6e-27  Score=225.44  Aligned_cols=272  Identities=18%  Similarity=0.270  Sum_probs=184.1

Q ss_pred             ChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC----HHHHHHHHHHHHH-hccCcCe
Q 018574           56 PSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT----RELATQTEKVILA-IGDFINI  130 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~----~~l~~q~~~~~~~-~~~~~~~  130 (354)
                      .+.+-.+++..+..++.+++.|+||||||+.. .-++.....+.. ..+++.-|.    ++++.++++++.. ++...|+
T Consensus        75 i~~~r~~Il~ai~~~~VviI~GeTGSGKTTql-Pq~lle~g~g~~-g~I~~TQPRRlAArsLA~RVA~El~~~lG~~VGY  152 (1294)
T PRK11131         75 VSQKKQDILEAIRDHQVVIVAGETGSGKTTQL-PKICLELGRGVK-GLIGHTQPRRLAARTVANRIAEELETELGGCVGY  152 (1294)
T ss_pred             HHHHHHHHHHHHHhCCeEEEECCCCCCHHHHH-HHHHHHcCCCCC-CceeeCCCcHHHHHHHHHHHHHHHhhhhcceece
Confidence            35555677778778888999999999999843 223333322221 233444464    5888888888764 4544444


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh-hhccCcHH-HHHHHHhhCCCCCc
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE-MLSRGFKD-QIYDVYRYLPPDLQ  208 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~-~~~~~~~~-~~~~i~~~~~~~~~  208 (354)
                      .+.       ...   .....+.|+++|++.|++.+..... +.++++||+||+|. +++.++.. .+..++.. .++.|
T Consensus       153 ~vr-------f~~---~~s~~t~I~v~TpG~LL~~l~~d~~-Ls~~~~IIIDEAHERsLn~DfLLg~Lk~lL~~-rpdlK  220 (1294)
T PRK11131        153 KVR-------FND---QVSDNTMVKLMTDGILLAEIQQDRL-LMQYDTIIIDEAHERSLNIDFILGYLKELLPR-RPDLK  220 (1294)
T ss_pred             eec-------Ccc---ccCCCCCEEEEChHHHHHHHhcCCc-cccCcEEEecCccccccccchHHHHHHHhhhc-CCCce
Confidence            321       111   1234689999999999998876544 78999999999994 66666543 23344332 24689


Q ss_pred             EEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccc--hHHHHHHHH------hhCCCCcEEEEcC
Q 018574          209 VVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEW--KFDTLCDLY------DTLTITQAVIFCN  280 (354)
Q Consensus       209 ~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~~~l------~~~~~~~~lvf~~  280 (354)
                      ++++|||++.+  .+...+...+. +.+....   ..+...|........  +.+.+..++      .....+++|||++
T Consensus       221 vILmSATid~e--~fs~~F~~apv-I~V~Gr~---~pVei~y~p~~~~~~~~~~d~l~~ll~~V~~l~~~~~GdILVFLp  294 (1294)
T PRK11131        221 VIITSATIDPE--RFSRHFNNAPI-IEVSGRT---YPVEVRYRPIVEEADDTERDQLQAIFDAVDELGREGPGDILIFMS  294 (1294)
T ss_pred             EEEeeCCCCHH--HHHHHcCCCCE-EEEcCcc---ccceEEEeecccccchhhHHHHHHHHHHHHHHhcCCCCCEEEEcC
Confidence            99999999753  44444444443 3333221   124445544432110  122222221      2234578999999


Q ss_pred             chhhHHHHHHHHhcCCCe---EEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          281 TKRKVDWLTEKMRGYNFT---VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       281 ~~~~~~~l~~~l~~~~~~---~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      +.++++.+++.|++.+..   +..+||+++.++|..+++.  .|..+|||||+++++|+|+|++++||++|+
T Consensus       295 g~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~--~g~rkIIVATNIAEtSITIpgI~yVID~Gl  364 (1294)
T PRK11131        295 GEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQS--HSGRRIVLATNVAETSLTVPGIKYVIDPGT  364 (1294)
T ss_pred             CHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhcc--cCCeeEEEeccHHhhccccCcceEEEECCC
Confidence            999999999999987654   6789999999999999875  478899999999999999999999999974

>PRK09694 helicase Cas3; Provisional

Probab=99.96  E-value=1.6e-26  Score=217.80  Aligned_cols=296  Identities=16%  Similarity=0.177  Sum_probs=188.9

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCc--CeE
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI--NIQ  131 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~--~~~  131 (354)
                      ..|+|+|..+......+..+++.+|||+|||.+++.++...+..+ ...+++|..||.++++++++++.++....  ...
T Consensus       285 ~~p~p~Q~~~~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~-~~~gi~~aLPT~Atan~m~~Rl~~~~~~~f~~~~  363 (878)
T PRK09694        285 YQPRQLQTLVDALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQG-LADSIIFALPTQATANAMLSRLEALASKLFPSPN  363 (878)
T ss_pred             CCChHHHHHHHhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhC-CCCeEEEECcHHHHHHHHHHHHHHHHHHhcCCCc
Confidence            489999998865434466789999999999999888776544333 34569999999999999999987643211  234


Q ss_pred             EEEEeCCcchHHhH---------------------Hhhc------CCCeEEEeCcHHHHHHHhc-CCccCC----CccEE
Q 018574          132 AHACVGGKSVGEDI---------------------RKLE------HGVHVVSGTPGRVCDMIKR-KTLRTR----AIKLL  179 (354)
Q Consensus       132 ~~~~~~~~~~~~~~---------------------~~~~------~~~~iiv~T~~~l~~~~~~-~~~~~~----~~~~v  179 (354)
                      +...+|........                     .-+.      --.+|+|+|..+++..... .....+    .-++|
T Consensus       364 v~L~Hg~a~l~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~kr~llapi~V~TiDQlL~a~l~~kh~~lR~~~La~svv  443 (878)
T PRK09694        364 LILAHGNSRFNHLFQSLKSRAATEQGQEEAWVQCCEWLSQSNKRVFLGQIGVCTIDQVLISVLPVKHRFIRGFGLGRSVL  443 (878)
T ss_pred             eEeecCcchhhhhhhhhhcccccccccchhhhHHHHHHhhhhhhhhcCCEEEcCHHHHHHHHHccchHHHHHHhhccCeE
Confidence            55566554321110                     0011      1168999999888743322 111112    23589


Q ss_pred             EEecchhhhccCcHHHHHHHHhhC-CCCCcEEEEEeeCchhHHHHHHhccCCC--e------EEEe--cC---Cccccc-
Q 018574          180 VLDESDEMLSRGFKDQIYDVYRYL-PPDLQVVLISATLPHEILEMTTKFMTDP--V------KILV--KR---DELTLE-  244 (354)
Q Consensus       180 vvDE~h~~~~~~~~~~~~~i~~~~-~~~~~~i~lSaT~~~~~~~~~~~~~~~~--~------~~~~--~~---~~~~~~-  244 (354)
                      ||||+|.+... ....+..+++.+ ....++++||||+|......+...+...  .      ....  ..   ...... 
T Consensus       444 IiDEVHAyD~y-m~~lL~~~L~~l~~~g~~vIllSATLP~~~r~~L~~a~~~~~~~~~~~~YPlvt~~~~~~~~~~~~~~  522 (878)
T PRK09694        444 IVDEVHAYDAY-MYGLLEAVLKAQAQAGGSVILLSATLPATLKQKLLDTYGGHDPVELSSAYPLITWRGVNGAQRFDLSA  522 (878)
T ss_pred             EEechhhCCHH-HHHHHHHHHHHHHhcCCcEEEEeCCCCHHHHHHHHHHhccccccccccccccccccccccceeeeccc
Confidence            99999997332 334455555543 2356799999999987765443322110  0      0000  00   000000 


Q ss_pred             -----CceeEE--EEe--ccccchHHHHHHHHhh-CCCCcEEEEcCchhhHHHHHHHHhcCC---CeEEEeecCCCHHHH
Q 018574          245 -----GIKQFF--VAV--EREEWKFDTLCDLYDT-LTITQAVIFCNTKRKVDWLTEKMRGYN---FTVSSMHGDMPQKER  311 (354)
Q Consensus       245 -----~~~~~~--~~~--~~~~~~~~~l~~~l~~-~~~~~~lvf~~~~~~~~~l~~~l~~~~---~~~~~~~~~~~~~~r  311 (354)
                           .....+  ...  .........+..+++. ..+++++||||+++.++++++.|++.+   ..+..+|+.++..+|
T Consensus       523 ~~~~~~~~~~v~v~~~~~~~~~~~~~~l~~i~~~~~~g~~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llHsrf~~~dR  602 (878)
T PRK09694        523 HPEQLPARFTIQLEPICLADMLPDLTLLQRMIAAANAGAQVCLICNLVDDAQKLYQRLKELNNTQVDIDLFHARFTLNDR  602 (878)
T ss_pred             cccccCcceEEEEEeeccccccCHHHHHHHHHHHHhcCCEEEEEECCHHHHHHHHHHHHhhCCCCceEEEEeCCCCHHHH
Confidence                 001111  111  1111123344444443 345689999999999999999998764   579999999999988


Q ss_pred             ----HHHHHHH-hCCC---CcEEEEccccccCCCcCCCcEEEecCCCCC
Q 018574          312 ----DAIMGEF-RSGT---TRVLITTDVWARGLDVQQAILFFFLFLFCN  352 (354)
Q Consensus       312 ----~~~~~~f-~~g~---~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s  352 (354)
                          .++++.| ++|+   ..|||+|+++++|+|+ +++++|....|.+
T Consensus       603 ~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDI-d~DvlItdlaPid  650 (878)
T PRK09694        603 REKEQRVIENFGKNGKRNQGRILVATQVVEQSLDL-DFDWLITQLCPVD  650 (878)
T ss_pred             HHHHHHHHHHHHhcCCcCCCeEEEECcchhheeec-CCCeEEECCCCHH
Confidence                4567788 5665   4799999999999999 5899999888854

>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases

Probab=99.96  E-value=2.4e-27  Score=186.60  Aligned_cols=164  Identities=27%  Similarity=0.475  Sum_probs=140.6

Q ss_pred             hHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEe
Q 018574           57 SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACV  136 (354)
Q Consensus        57 ~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~  136 (354)
                      ||+|.++++.+.+++++++.+|||+|||++++.+++..+... ...++++++|+++|+.|..+.+..+....+.++..++
T Consensus         1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~~-~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~   79 (169)
T PF00270_consen    1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQEG-KDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLH   79 (169)
T ss_dssp             -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHTT-SSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEES
T ss_pred             CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhccC-CCceEEEEeeccccccccccccccccccccccccccc
Confidence            689999999999999999999999999999999999988776 4457999999999999999999999988788888888


Q ss_pred             CCcchH-HhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCC--CCCcEEEEE
Q 018574          137 GGKSVG-EDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP--PDLQVVLIS  213 (354)
Q Consensus       137 ~~~~~~-~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~--~~~~~i~lS  213 (354)
                      ++.... .....+..+++|+|+||+++.+.+........++++||+||+|.+....+...+..+...+.  .+.+++++|
T Consensus        80 ~~~~~~~~~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~~~~~~~~~~i~~~~~~~~~~~~i~~S  159 (169)
T PF00270_consen   80 GGQSISEDQREVLSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLSDETFRAMLKSILRRLKRFKNIQIILLS  159 (169)
T ss_dssp             TTSCHHHHHHHHHHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHHHTTHHHHHHHHHHHSHTTTTSEEEEEE
T ss_pred             ccccccccccccccccccccccCcchhhccccccccccccceeeccCcccccccccHHHHHHHHHHHhcCCCCCcEEEEe
Confidence            887755 33344456799999999999999887555667799999999999988777888888888873  358999999


Q ss_pred             eeCchhHH
Q 018574          214 ATLPHEIL  221 (354)
Q Consensus       214 aT~~~~~~  221 (354)
                      ||++..+.
T Consensus       160 AT~~~~~~  167 (169)
T PF00270_consen  160 ATLPSNVE  167 (169)
T ss_dssp             SSSTHHHH
T ss_pred             eCCChhHh
Confidence            99985543

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 ....

>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional

Probab=99.95  E-value=3.8e-26  Score=221.19  Aligned_cols=292  Identities=17%  Similarity=0.223  Sum_probs=181.3

Q ss_pred             CChHHHHHhHhhhhc-----CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcC
Q 018574           55 KPSAIQQRAVMPIIK-----GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN  129 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~-----~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~  129 (354)
                      .+++||.+++..+.+     .+++++.+|||+|||.+++..+.. +.......++|||+|+.+|+.|+.+.+..+.....
T Consensus       413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~-L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~~  491 (1123)
T PRK11448        413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYR-LLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEGD  491 (1123)
T ss_pred             CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHH-HHhcCccCeEEEEecHHHHHHHHHHHHHhcccccc
Confidence            589999999987753     367899999999999876554433 33333345799999999999999999988642211


Q ss_pred             eEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC-----CccCCCccEEEEecchhhhcc--------------
Q 018574          130 IQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK-----TLRTRAIKLLVLDESDEMLSR--------------  190 (354)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~-----~~~~~~~~~vvvDE~h~~~~~--------------  190 (354)
                      .....+.+.......  .......|+|+|.+++...+...     ......+++||+||||+....              
T Consensus       492 ~~~~~i~~i~~L~~~--~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs~~~d~~~~~~~~~~~~~  569 (1123)
T PRK11448        492 QTFASIYDIKGLEDK--FPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRGYTLDKEMSEGELQFRDQ  569 (1123)
T ss_pred             cchhhhhchhhhhhh--cccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCCCccccccccchhccchh
Confidence            111111111111111  11234789999999987754321     234578899999999995310              


Q ss_pred             -CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHh--------------ccC---CCeEEEec--CCcccc--c----
Q 018574          191 -GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTK--------------FMT---DPVKILVK--RDELTL--E----  244 (354)
Q Consensus       191 -~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~--------------~~~---~~~~~~~~--~~~~~~--~----  244 (354)
                       ++...+..++..+  +...++|||||..........              ++-   .|..+...  ......  .    
T Consensus       570 ~~~~~~yr~iL~yF--dA~~IGLTATP~r~t~~~FG~pv~~Ysl~eAI~DG~Lv~~~~p~~i~t~~~~~gi~~~~~e~~~  647 (1123)
T PRK11448        570 LDYVSKYRRVLDYF--DAVKIGLTATPALHTTEIFGEPVYTYSYREAVIDGYLIDHEPPIRIETRLSQEGIHFEKGEEVE  647 (1123)
T ss_pred             hhHHHHHHHHHhhc--CccEEEEecCCccchhHHhCCeeEEeeHHHHHhcCCcccCcCCEEEEEEeccccccccccchhh
Confidence             1135566666654  356899999996543322211              111   01111110  000000  0    


Q ss_pred             Ccee---EE--EEecccc-c-------------hH----HHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC------
Q 018574          245 GIKQ---FF--VAVEREE-W-------------KF----DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY------  295 (354)
Q Consensus       245 ~~~~---~~--~~~~~~~-~-------------~~----~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~------  295 (354)
                      ....   .+  ...+... .             ..    ..+.+.+.....+|+||||.++++|+.+.+.|++.      
T Consensus       648 ~~~~~~~~i~~~~l~d~~~~~~~~~~~~vi~~~~~~~i~~~l~~~l~~~~~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~  727 (1123)
T PRK11448        648 VINTQTGEIDLATLEDEVDFEVEDFNRRVITESFNRVVCEELAKYLDPTGEGKTLIFAATDAHADMVVRLLKEAFKKKYG  727 (1123)
T ss_pred             hcchhhhhhhhccCcHHHhhhHHHHHHHHhhHHHHHHHHHHHHHHHhccCCCcEEEEEcCHHHHHHHHHHHHHHHHhhcC
Confidence            0000   00  0000000 0             00    11222222233479999999999999999887653      


Q ss_pred             C---CeEEEeecCCCHHHHHHHHHHHhCCCC-cEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          296 N---FTVSSMHGDMPQKERDAIMGEFRSGTT-RVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       296 ~---~~~~~~~~~~~~~~r~~~~~~f~~g~~-~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +   ..+..++|+.+  ++.+++++|++++. .|+|+++++.+|+|+|.+.+||++..|.|.
T Consensus       728 ~~~~~~v~~itg~~~--~~~~li~~Fk~~~~p~IlVsvdmL~TG~DvP~v~~vVf~rpvkS~  787 (1123)
T PRK11448        728 QVEDDAVIKITGSID--KPDQLIRRFKNERLPNIVVTVDLLTTGIDVPSICNLVFLRRVRSR  787 (1123)
T ss_pred             CcCccceEEEeCCcc--chHHHHHHHhCCCCCeEEEEecccccCCCcccccEEEEecCCCCH
Confidence            1   24566888864  56789999999876 689999999999999999999999999874

>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]

Probab=99.95  E-value=2.1e-26  Score=213.60  Aligned_cols=302  Identities=16%  Similarity=0.255  Sum_probs=224.6

Q ss_pred             CCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcC-CcEEEEcCCCCchhhHhHHHHhhccccCCC--------ceeEEEEc
Q 018574           38 MGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG-RDVIAQAQSGTGKTSMIALTVCQTVDTSSR--------EVQALILS  108 (354)
Q Consensus        38 ~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~--------~~~~lil~  108 (354)
                      ..++.+-..++  .|...+.+.|.++....+.+ .+++++||||+|||..+++-+++.+..+.+        ..+++|++
T Consensus       294 selP~Wnq~aF--~g~~sLNrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIA  371 (1674)
T KOG0951|consen  294 SELPKWNQPAF--FGKQSLNRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIA  371 (1674)
T ss_pred             cCCcchhhhhc--ccchhhhHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEe
Confidence            34455555555  45567999999999998885 689999999999999999999998866543        34799999


Q ss_pred             CCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCC--ccCCCccEEEEecchh
Q 018574          109 PTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKT--LRTRAIKLLVLDESDE  186 (354)
Q Consensus       109 p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~--~~~~~~~~vvvDE~h~  186 (354)
                      |.++|++.|...+.+....+++++...+|+.......   ..+++|+|+||+++--.-+...  --.+.++++|+||.|.
T Consensus       372 PmKaLvqE~VgsfSkRla~~GI~V~ElTgD~~l~~~q---ieeTqVIV~TPEK~DiITRk~gdraY~qlvrLlIIDEIHL  448 (1674)
T KOG0951|consen  372 PMKALVQEMVGSFSKRLAPLGITVLELTGDSQLGKEQ---IEETQVIVTTPEKWDIITRKSGDRAYEQLVRLLIIDEIHL  448 (1674)
T ss_pred             eHHHHHHHHHHHHHhhccccCcEEEEecccccchhhh---hhcceeEEeccchhhhhhcccCchhHHHHHHHHhhhhhhh
Confidence            9999999999999998899999999999987654432   2358999999999843333211  1124578999999999


Q ss_pred             hhccCcHHHHHHHHh----hC---CCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccch
Q 018574          187 MLSRGFKDQIYDVYR----YL---PPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK  259 (354)
Q Consensus       187 ~~~~~~~~~~~~i~~----~~---~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (354)
                      +-+. -+..+..+..    ..   ....+++++|||+|+. .....-+.-++..+........+-.+.+.+..+.....-
T Consensus       449 LhDd-RGpvLESIVaRt~r~ses~~e~~RlVGLSATLPNy-~DV~~Fl~v~~~glf~fd~syRpvPL~qq~Igi~ek~~~  526 (1674)
T KOG0951|consen  449 LHDD-RGPVLESIVARTFRRSESTEEGSRLVGLSATLPNY-EDVASFLRVDPEGLFYFDSSYRPVPLKQQYIGITEKKPL  526 (1674)
T ss_pred             cccc-cchHHHHHHHHHHHHhhhcccCceeeeecccCCch-hhhHHHhccCcccccccCcccCcCCccceEeccccCCch
Confidence            8443 1233332222    11   2467899999999885 222222233333444444455555667777766554321


Q ss_pred             -------HHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhc-------------------------------------C
Q 018574          260 -------FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRG-------------------------------------Y  295 (354)
Q Consensus       260 -------~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~-------------------------------------~  295 (354)
                             .....++++....+++|||+.+++++.+.|+.++.                                     +
T Consensus       527 ~~~qamNe~~yeKVm~~agk~qVLVFVHsRkET~ktA~aIRd~~le~dtls~fmre~s~s~eilrtea~~~kn~dLkdLL  606 (1674)
T KOG0951|consen  527 KRFQAMNEACYEKVLEHAGKNQVLVFVHSRKETAKTARAIRDKALEEDTLSRFMREDSASREILRTEAGQAKNPDLKDLL  606 (1674)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCcEEEEEEechHHHHHHHHHHHHHhhhhHHHHHHhcccchhhhhhhhhhcccChhHHHHh
Confidence                   14556778888889999999999999988888872                                     1


Q ss_pred             CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          296 NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       296 ~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      .+.+.++|++|+..+|..+...|..|+++|+++|..+++|+|+|.-+++|-
T Consensus       607 pygfaIHhAGl~R~dR~~~EdLf~~g~iqvlvstatlawgvnlpahtViik  657 (1674)
T KOG0951|consen  607 PYGFAIHHAGLNRKDRELVEDLFADGHIQVLVSTATLAWGVNLPAHTVIIK  657 (1674)
T ss_pred             hccceeeccCCCcchHHHHHHHHhcCceeEEEeehhhhhhcCCCcceEEec
Confidence            245889999999999999999999999999999999999999997776663

>TIGR00595 priA primosomal protein N'

Probab=99.95  E-value=4.4e-26  Score=205.77  Aligned_cols=260  Identities=19%  Similarity=0.220  Sum_probs=169.1

Q ss_pred             EEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHh---HHhhc-
Q 018574           74 IAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED---IRKLE-  149 (354)
Q Consensus        74 ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~-  149 (354)
                      ++.+|||+|||.+|+..+...+..   +.++||++|+.+|+.|+.+.+++..   +..+..++++.+..+.   +..+. 
T Consensus         1 LL~g~TGsGKT~v~l~~i~~~l~~---g~~vLvlvP~i~L~~Q~~~~l~~~f---~~~v~vlhs~~~~~er~~~~~~~~~   74 (505)
T TIGR00595         1 LLFGVTGSGKTEVYLQAIEKVLAL---GKSVLVLVPEIALTPQMIQRFKYRF---GSQVAVLHSGLSDSEKLQAWRKVKN   74 (505)
T ss_pred             CccCCCCCCHHHHHHHHHHHHHHc---CCeEEEEeCcHHHHHHHHHHHHHHh---CCcEEEEECCCCHHHHHHHHHHHHc
Confidence            478999999999998776666543   3469999999999999999998754   3567777777654433   23333 


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-----c-HHHHHHHHhhCCCCCcEEEEEeeCchhHHHH
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-----F-KDQIYDVYRYLPPDLQVVLISATLPHEILEM  223 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-----~-~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~  223 (354)
                      ...+|+|+|+..+.       .++.++++|||||.|.....+     + .+.+..+.... .+.+++++|||++.+....
T Consensus        75 g~~~IVVGTrsalf-------~p~~~l~lIIVDEeh~~sykq~~~p~y~ar~~a~~ra~~-~~~~vil~SATPsles~~~  146 (505)
T TIGR00595        75 GEILVVIGTRSALF-------LPFKNLGLIIVDEEHDSSYKQEEGPRYHARDVAVYRAKK-FNCPVVLGSATPSLESYHN  146 (505)
T ss_pred             CCCCEEECChHHHc-------CcccCCCEEEEECCCccccccccCCCCcHHHHHHHHHHh-cCCCEEEEeCCCCHHHHHH
Confidence            34799999998663       346789999999999875322     1 22333333333 5788999999988765544


Q ss_pred             HHhccCCCeEEEecCCcccccCceeEEEEecccc---chHHHHHHHH-hhC-CCCcEEEEcCchhh--------------
Q 018574          224 TTKFMTDPVKILVKRDELTLEGIKQFFVAVEREE---WKFDTLCDLY-DTL-TITQAVIFCNTKRK--------------  284 (354)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~l~~~l-~~~-~~~~~lvf~~~~~~--------------  284 (354)
                      ....  ....+...............+.......   .-...+.+.+ +.. .++++|||+|.+..              
T Consensus       147 ~~~g--~~~~~~l~~r~~~~~~p~v~vid~~~~~~~~~ls~~l~~~i~~~l~~g~qvLvflnrrGya~~~~C~~Cg~~~~  224 (505)
T TIGR00595       147 AKQK--AYRLLVLTRRVSGRKPPEVKLIDMRKEPRQSFLSPELITAIEQTLAAGEQSILFLNRRGYSKNLLCRSCGYILC  224 (505)
T ss_pred             HhcC--CeEEeechhhhcCCCCCeEEEEecccccccCCccHHHHHHHHHHHHcCCcEEEEEeCCcCCCeeEhhhCcCccC
Confidence            4321  1111111111111111111111111111   1112222222 222 23578998665443              


Q ss_pred             ----------------------------------------------HHHHHHHHhcC--CCeEEEeecCCCHHHH--HHH
Q 018574          285 ----------------------------------------------VDWLTEKMRGY--NFTVSSMHGDMPQKER--DAI  314 (354)
Q Consensus       285 ----------------------------------------------~~~l~~~l~~~--~~~~~~~~~~~~~~~r--~~~  314 (354)
                                                                    .+++.+.|++.  +.++..+|+++....+  ..+
T Consensus       225 C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~~l~~~g~Gte~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~  304 (505)
T TIGR00595       225 CPNCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSEDLVYKGYGTEQVEEELAKLFPGARIARIDSDTTSRKGAHEAL  304 (505)
T ss_pred             CCCCCCceEEecCCCeEEcCCCcCcCCCCCCCCCCCCCeeEeecccHHHHHHHHHhhCCCCcEEEEecccccCccHHHHH
Confidence                                                          47778888776  6788999999876555  889


Q ss_pred             HHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          315 MGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       315 ~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      ++.|++|+.+|||+|+++++|+|+|++++|+.+|.
T Consensus       305 l~~f~~g~~~ILVgT~~i~kG~d~~~v~lV~vl~a  339 (505)
T TIGR00595       305 LNQFANGKADILIGTQMIAKGHHFPNVTLVGVLDA  339 (505)
T ss_pred             HHHHhcCCCCEEEeCcccccCCCCCcccEEEEEcC
Confidence            99999999999999999999999999999864443

All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK12904 preprotein translocase subunit SecA; Reviewed

Probab=99.95  E-value=1.1e-25  Score=208.01  Aligned_cols=277  Identities=18%  Similarity=0.234  Sum_probs=202.1

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+ .|++.|.-..-.+.+|  -+..+.||+|||+++.+|++.....+.   .+-|++|+..||.|.++.+..+...+++
T Consensus        78 lg~-~~~dvQlig~l~L~~G--~Iaem~TGeGKTLva~lpa~l~aL~G~---~V~IvTpn~yLA~rd~e~~~~l~~~LGl  151 (830)
T PRK12904         78 LGM-RHFDVQLIGGMVLHEG--KIAEMKTGEGKTLVATLPAYLNALTGK---GVHVVTVNDYLAKRDAEWMGPLYEFLGL  151 (830)
T ss_pred             hCC-CCCccHHHhhHHhcCC--chhhhhcCCCcHHHHHHHHHHHHHcCC---CEEEEecCHHHHHHHHHHHHHHHhhcCC
Confidence            455 6677676555444444  588999999999999999964433333   3779999999999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcCC------ccCCCccEEEEecchhhhccC------------
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRKT------LRTRAIKLLVLDESDEMLSRG------------  191 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~~------~~~~~~~~vvvDE~h~~~~~~------------  191 (354)
                      ++..+.++.+..+....+  .++|+++|+..| .++++...      ...+.+.++|+||+|+++-..            
T Consensus       152 sv~~i~~~~~~~er~~~y--~~dI~ygT~~elgfDyLrd~~~~~~~~~~~r~~~~aIvDEaDsiLIDeArtpLiiSg~~~  229 (830)
T PRK12904        152 SVGVILSGMSPEERREAY--AADITYGTNNEFGFDYLRDNMVFSLEERVQRGLNYAIVDEVDSILIDEARTPLIISGPAE  229 (830)
T ss_pred             eEEEEcCCCCHHHHHHhc--CCCeEEECCcchhhhhhhcccccchhhhcccccceEEEechhhheeccCCCceeeECCCC
Confidence            999999988777665554  489999999999 77777643      235778999999999964111            


Q ss_pred             ----cHHHHHHHHhhCCCC-------------------------------------------------------------
Q 018574          192 ----FKDQIYDVYRYLPPD-------------------------------------------------------------  206 (354)
Q Consensus       192 ----~~~~~~~i~~~~~~~-------------------------------------------------------------  206 (354)
                          ....+..+...+..+                                                             
T Consensus       230 ~~~~~y~~~~~~v~~l~~~~dy~vde~~~~v~lte~G~~~~e~~~~~~~ly~~~~~~~~~~i~~AL~A~~l~~~d~dYiV  309 (830)
T PRK12904        230 DSSELYKRANKIVPTLEKEGDYTVDEKSRTVGLTEEGIEKAEKLLGIENLYDPENIALVHHLNQALRAHELFKRDVDYIV  309 (830)
T ss_pred             cccHHHHHHHHHHHhcCCCCCeEEEcCCCeeeECHHHHHHHHHHhCCccccChhhhHHHHHHHHHHHHHHHHhcCCcEEE
Confidence                122233333333110                                                             


Q ss_pred             --------------------------------------------------------CcEEEEEeeCchhHHHHHHhccCC
Q 018574          207 --------------------------------------------------------LQVVLISATLPHEILEMTTKFMTD  230 (354)
Q Consensus       207 --------------------------------------------------------~~~i~lSaT~~~~~~~~~~~~~~~  230 (354)
                                                                              .++.+||+|...+..++...|-.+
T Consensus       310 ~dg~V~ivDe~TGR~~~gr~ws~GLHQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~te~~E~~~iY~l~  389 (830)
T PRK12904        310 KDGEVVIVDEFTGRLMPGRRYSDGLHQAIEAKEGVKIQNENQTLASITFQNYFRMYEKLAGMTGTADTEAEEFREIYNLD  389 (830)
T ss_pred             ECCEEEEEECCCCccCCCCccchHHHHHHHHhcCCCCCCCceeeeeeeHHHHHHhcchhcccCCCcHHHHHHHHHHhCCC
Confidence                                                                    467788888876666666555554


Q ss_pred             CeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhh--CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCH
Q 018574          231 PVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQ  308 (354)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~--~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  308 (354)
                      ...+....+....+...   ........+...+.+.+..  ..+.|+||||+|++.++.++..|.+.++++..+|+.  .
T Consensus       390 vv~IPtnkp~~r~d~~d---~i~~t~~~K~~aI~~~I~~~~~~grpVLIft~Si~~se~Ls~~L~~~gi~~~vLnak--q  464 (830)
T PRK12904        390 VVVIPTNRPMIRIDHPD---LIYKTEKEKFDAVVEDIKERHKKGQPVLVGTVSIEKSELLSKLLKKAGIPHNVLNAK--N  464 (830)
T ss_pred             EEEcCCCCCeeeeeCCC---eEEECHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCceEeccCc--h
Confidence            43333222211111111   1122233377777777754  566799999999999999999999999999999996  6


Q ss_pred             HHHHHHHHHHhCCCCcEEEEccccccCCCcCC
Q 018574          309 KERDAIMGEFRSGTTRVLITTDVWARGLDVQQ  340 (354)
Q Consensus       309 ~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~  340 (354)
                      .+|+..+..|..++..|+|||+++++|+||+=
T Consensus       465 ~eREa~Iia~Ag~~g~VtIATNmAGRGtDI~L  496 (830)
T PRK12904        465 HEREAEIIAQAGRPGAVTIATNMAGRGTDIKL  496 (830)
T ss_pred             HHHHHHHHHhcCCCceEEEecccccCCcCccC
Confidence            78899999999999999999999999999973

>PRK13104 secA preprotein translocase subunit SecA; Reviewed

Probab=99.95  E-value=6.3e-26  Score=209.86  Aligned_cols=273  Identities=17%  Similarity=0.226  Sum_probs=191.2

Q ss_pred             hHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEe
Q 018574           57 SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACV  136 (354)
Q Consensus        57 ~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~  136 (354)
                      ++|-.+++-.+.-.+.-+..++||+|||+++.+|++..+..+.   .++|++|+..|+.|.++.+..+...+++++..+.
T Consensus        82 ~~ydvQliGg~~Lh~G~Iaem~TGeGKTL~a~Lpa~~~al~G~---~V~VvTpn~yLA~qd~e~m~~l~~~lGLtv~~i~  158 (896)
T PRK13104         82 RHFDVQLIGGMVLHEGNIAEMRTGEGKTLVATLPAYLNAISGR---GVHIVTVNDYLAKRDSQWMKPIYEFLGLTVGVIY  158 (896)
T ss_pred             CcchHHHhhhhhhccCccccccCCCCchHHHHHHHHHHHhcCC---CEEEEcCCHHHHHHHHHHHHHHhcccCceEEEEe
Confidence            3444444444444566789999999999999999997766543   4899999999999999999999999999999999


Q ss_pred             CCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcC-CccC-----CCccEEEEecchhhhccC----------------cH
Q 018574          137 GGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRK-TLRT-----RAIKLLVLDESDEMLSRG----------------FK  193 (354)
Q Consensus       137 ~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~-~~~~-----~~~~~vvvDE~h~~~~~~----------------~~  193 (354)
                      ++.+.......+  .++|+++||+.| .++++.. .+..     ..+.++|+||+|+++-..                ..
T Consensus       159 gg~~~~~r~~~y--~~dIvygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsiLIDeArtPLIISg~~~~~~~~y  236 (896)
T PRK13104        159 PDMSHKEKQEAY--KADIVYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSILIDEARTPLIISGAAEDSSELY  236 (896)
T ss_pred             CCCCHHHHHHHh--CCCEEEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhhhhhccCCceeeeCCCccchHHH
Confidence            998776654444  589999999999 8887765 2323     578999999999864111                11


Q ss_pred             HHHHHHHhhCCC--------------C-----------------------------------------------------
Q 018574          194 DQIYDVYRYLPP--------------D-----------------------------------------------------  206 (354)
Q Consensus       194 ~~~~~i~~~~~~--------------~-----------------------------------------------------  206 (354)
                      ..+..+...+..              .                                                     
T Consensus       237 ~~~~~~v~~l~~~~~~~~~~dy~idek~~~v~Lte~G~~~~e~~~~~~~il~~~~~l~~~~~~~~~~~i~~aL~A~~lf~  316 (896)
T PRK13104        237 IKINSLIPQLKKQEEEGDEGDYTIDEKQKQAHLTDAGHLHIEELLTKAKLLDPGESLYHASNIMLMHHVNAALKAHAMFH  316 (896)
T ss_pred             HHHHHHHHHHHhccccCCCCCEEEEcCCCceEEchHHHHHHHHHHHhCCccCCcccccCchhhhHHHHHHHHHHHHHHhc
Confidence            111111111100              0                                                     


Q ss_pred             ---------------------------------------------------------------CcEEEEEeeCchhHHHH
Q 018574          207 ---------------------------------------------------------------LQVVLISATLPHEILEM  223 (354)
Q Consensus       207 ---------------------------------------------------------------~~~i~lSaT~~~~~~~~  223 (354)
                                                                                     .++-+||+|...+..++
T Consensus       317 ~d~dYiV~dg~V~iVDe~TGR~m~grr~s~GLHQaiEaKE~v~i~~e~~t~AsIT~Qn~Fr~Y~kLsGMTGTa~te~~Ef  396 (896)
T PRK13104        317 RDIDYIVKDNQVVIVDEHTGRTMPGRRWSEGLHQAVEAKEGVPIQNENQTLASITFQNFFRMYNKLSGMTGTADTEAYEF  396 (896)
T ss_pred             CCCceEEECCEEEEEECCCCCcCCCCCcChHHHHHHHHHcCCCCCCCceeeeeehHHHHHHhcchhccCCCCChhHHHHH
Confidence                                                                           34556666665555555


Q ss_pred             HHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh--hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEE
Q 018574          224 TTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD--TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSS  301 (354)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~  301 (354)
                      ...|-.+...+.........+.-...|   .....+...+.+.+.  ...+.|+||||+|++.++.++..|.+.|+++.+
T Consensus       397 ~~iY~l~Vv~IPtnkp~~R~d~~d~v~---~t~~~k~~av~~~i~~~~~~g~PVLVgt~Sie~sE~ls~~L~~~gi~h~v  473 (896)
T PRK13104        397 QQIYNLEVVVIPTNRSMIRKDEADLVY---LTQADKFQAIIEDVRECGVRKQPVLVGTVSIEASEFLSQLLKKENIKHQV  473 (896)
T ss_pred             HHHhCCCEEECCCCCCcceecCCCeEE---cCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHcCCCeEe
Confidence            444444333222222211111111111   112225555555443  335679999999999999999999999999999


Q ss_pred             eecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcC
Q 018574          302 MHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       302 ~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~  339 (354)
                      +|+.+...++..+.+.|+.|  .|+|||+++++|+||.
T Consensus       474 Lnak~~q~Ea~iia~Ag~~G--~VtIATNmAGRGtDI~  509 (896)
T PRK13104        474 LNAKFHEKEAQIIAEAGRPG--AVTIATNMAGRGTDIV  509 (896)
T ss_pred             ecCCCChHHHHHHHhCCCCC--cEEEeccCccCCccee
Confidence            99999999999999999998  4999999999999986

>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]

Probab=99.95  E-value=2.8e-25  Score=180.33  Aligned_cols=269  Identities=19%  Similarity=0.197  Sum_probs=190.9

Q ss_pred             CChHHHHHhHhhhhc----CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPIIK----GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      +++++|+.+-+.+.+    .++.+++|-||+|||.+....+.+.+.++.   ++.+.+|+...+...+.++++...  +.
T Consensus        97 ~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~---~vciASPRvDVclEl~~Rlk~aF~--~~  171 (441)
T COG4098          97 TLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGG---RVCIASPRVDVCLELYPRLKQAFS--NC  171 (441)
T ss_pred             ccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcCC---eEEEecCcccchHHHHHHHHHhhc--cC
Confidence            789999988776654    689999999999999988888777776554   599999999999999999987553  35


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEE
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVV  210 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i  210 (354)
                      .+..++|+++...      . .+++|+|...|+++..       .|+++|+||+|.+.-..-...-..+-+........+
T Consensus       172 ~I~~Lyg~S~~~f------r-~plvVaTtHQLlrFk~-------aFD~liIDEVDAFP~~~d~~L~~Av~~ark~~g~~I  237 (441)
T COG4098         172 DIDLLYGDSDSYF------R-APLVVATTHQLLRFKQ-------AFDLLIIDEVDAFPFSDDQSLQYAVKKARKKEGATI  237 (441)
T ss_pred             CeeeEecCCchhc------c-ccEEEEehHHHHHHHh-------hccEEEEeccccccccCCHHHHHHHHHhhcccCceE
Confidence            5667777765432      1 6788888888877665       689999999998753322222233333344566789


Q ss_pred             EEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchH------HHHHHHHhhC--CCCcEEEEcCch
Q 018574          211 LISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKF------DTLCDLYDTL--TITQAVIFCNTK  282 (354)
Q Consensus       211 ~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~l~~~l~~~--~~~~~lvf~~~~  282 (354)
                      .+|||++..+..-+...-  ...+......-..+-....+....+...++      ..+..+++..  .+.+++||++++
T Consensus       238 ylTATp~k~l~r~~~~g~--~~~~klp~RfH~~pLpvPkf~w~~~~~k~l~r~kl~~kl~~~lekq~~~~~P~liF~p~I  315 (441)
T COG4098         238 YLTATPTKKLERKILKGN--LRILKLPARFHGKPLPVPKFVWIGNWNKKLQRNKLPLKLKRWLEKQRKTGRPVLIFFPEI  315 (441)
T ss_pred             EEecCChHHHHHHhhhCC--eeEeecchhhcCCCCCCCceEEeccHHHHhhhccCCHHHHHHHHHHHhcCCcEEEEecch
Confidence            999999987666443321  112222222222233333344433333222      2455555533  346899999999


Q ss_pred             hhHHHHHHHHh-cCCC-eEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          283 RKVDWLTEKMR-GYNF-TVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       283 ~~~~~l~~~l~-~~~~-~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      +.++++++.|+ ..+. ....+|+.  +..|.+.+++|++|+.++||+|.++++|+.+|++++.+.
T Consensus       316 ~~~eq~a~~lk~~~~~~~i~~Vhs~--d~~R~EkV~~fR~G~~~lLiTTTILERGVTfp~vdV~Vl  379 (441)
T COG4098         316 ETMEQVAAALKKKLPKETIASVHSE--DQHRKEKVEAFRDGKITLLITTTILERGVTFPNVDVFVL  379 (441)
T ss_pred             HHHHHHHHHHHhhCCccceeeeecc--CccHHHHHHHHHcCceEEEEEeehhhcccccccceEEEe
Confidence            99999999994 4433 44778886  568889999999999999999999999999999998765

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA

Probab=99.94  E-value=2e-24  Score=208.70  Aligned_cols=276  Identities=18%  Similarity=0.204  Sum_probs=183.1

Q ss_pred             hHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHH-hccCcCeEEEEE
Q 018574           57 SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILA-IGDFINIQAHAC  135 (354)
Q Consensus        57 ~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~-~~~~~~~~~~~~  135 (354)
                      +.+..+++..+..++.++|.|+||||||+..-..++. ...+. ...+++.-|.+--+..++..+.. ++...+-.+..-
T Consensus        69 ~~~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle-~~~~~-~~~I~~tQPRRlAA~svA~RvA~elg~~lG~~VGY~  146 (1283)
T TIGR01967        69 SAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLE-LGRGS-HGLIGHTQPRRLAARTVAQRIAEELGTPLGEKVGYK  146 (1283)
T ss_pred             HHHHHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHH-cCCCC-CceEecCCccHHHHHHHHHHHHHHhCCCcceEEeeE
Confidence            3344577777777889999999999999854333332 22222 23456666888767766666544 333333333322


Q ss_pred             eCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh-hhccCcHHH-HHHHHhhCCCCCcEEEEE
Q 018574          136 VGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE-MLSRGFKDQ-IYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~-~~~~~~~~~-~~~i~~~~~~~~~~i~lS  213 (354)
                      ....+   .   ....+.|.++|++.|++.+.... .+.++++||+||+|. .++.++.-. +..++... ++.++++||
T Consensus       147 vR~~~---~---~s~~T~I~~~TdGiLLr~l~~d~-~L~~~~~IIIDEaHERsL~~D~LL~lLk~il~~r-pdLKlIlmS  218 (1283)
T TIGR01967       147 VRFHD---Q---VSSNTLVKLMTDGILLAETQQDR-FLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRR-PDLKIIITS  218 (1283)
T ss_pred             EcCCc---c---cCCCceeeeccccHHHHHhhhCc-ccccCcEEEEcCcchhhccchhHHHHHHHHHhhC-CCCeEEEEe
Confidence            11111   1   23457899999999998877644 367899999999994 666665543 55554443 578999999


Q ss_pred             eeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccc-----cchHHH----HHHHHhhCCCCcEEEEcCchhh
Q 018574          214 ATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVERE-----EWKFDT----LCDLYDTLTITQAVIFCNTKRK  284 (354)
Q Consensus       214 aT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~----l~~~l~~~~~~~~lvf~~~~~~  284 (354)
                      ||+..  ..+...+...+. +.+.....   .+..+|......     ......    +..++.. ..+.+|||+++.++
T Consensus       219 ATld~--~~fa~~F~~apv-I~V~Gr~~---PVev~Y~~~~~~~~~~~~~~~~~i~~~I~~l~~~-~~GdILVFLpg~~E  291 (1283)
T TIGR01967       219 ATIDP--ERFSRHFNNAPI-IEVSGRTY---PVEVRYRPLVEEQEDDDLDQLEAILDAVDELFAE-GPGDILIFLPGERE  291 (1283)
T ss_pred             CCcCH--HHHHHHhcCCCE-EEECCCcc---cceeEEecccccccchhhhHHHHHHHHHHHHHhh-CCCCEEEeCCCHHH
Confidence            99975  344444444443 33332211   223344333211     112222    2223322 45889999999999


Q ss_pred             HHHHHHHHhcCC---CeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCC
Q 018574          285 VDWLTEKMRGYN---FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFC  351 (354)
Q Consensus       285 ~~~l~~~l~~~~---~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~  351 (354)
                      ++.+++.|++.+   ..+..+||.++.++|.++++.+  +..+|+|||+++++|+|+|++++||++|+++
T Consensus       292 I~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~--~~rkIVLATNIAEtSLTIpgV~yVIDsGl~r  359 (1283)
T TIGR01967       292 IRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH--SGRRIVLATNVAETSLTVPGIHYVIDTGTAR  359 (1283)
T ss_pred             HHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC--CCceEEEeccHHHhccccCCeeEEEeCCCcc
Confidence            999999998764   4588899999999999887653  3479999999999999999999999999876

This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.

>COG1110 Reverse gyrase [DNA replication, recombination, and repair]

Probab=99.94  E-value=6.7e-25  Score=200.92  Aligned_cols=288  Identities=18%  Similarity=0.266  Sum_probs=203.6

Q ss_pred             HHHHHHHC-CCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHH
Q 018574           44 LLRGIYQY-GFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVIL  122 (354)
Q Consensus        44 ~~~~l~~~-~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~  122 (354)
                      +.+.+++. |+ .||..|+-....+..|+.+.+.||||.|||+.-++..+.....   +.++++++||..|+.|.++.+.
T Consensus        71 ~~~fF~k~~G~-~~ws~QR~WakR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~k---gkr~yii~PT~~Lv~Q~~~kl~  146 (1187)
T COG1110          71 FEEFFKKATGF-RPWSAQRVWAKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAKK---GKRVYIIVPTTTLVRQVYERLK  146 (1187)
T ss_pred             HHHHHHHhhCC-CchHHHHHHHHHHHcCCceEEEcCCCCchhHHHHHHHHHHHhc---CCeEEEEecCHHHHHHHHHHHH
Confidence            34445553 55 9999999999999999999999999999997655554444333   3569999999999999999999


Q ss_pred             HhccCcC-eEEEE-EeCCcch---HHhHHhhcC-CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-----
Q 018574          123 AIGDFIN-IQAHA-CVGGKSV---GEDIRKLEH-GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-----  191 (354)
Q Consensus       123 ~~~~~~~-~~~~~-~~~~~~~---~~~~~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-----  191 (354)
                      ++....+ ..+.. .|+.-..   .+...++.+ +.+|+|+|.+.|......  +...+|++|++|++|.++..+     
T Consensus       147 ~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~e~--L~~~kFdfifVDDVDA~LkaskNvDr  224 (1187)
T COG1110         147 KFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQFLSKRFEE--LSKLKFDFIFVDDVDAILKASKNVDR  224 (1187)
T ss_pred             HHHhhcCCcceeeeeccccchHHHHHHHHHHhcCCccEEEEeHHHHHhhHHH--hcccCCCEEEEccHHHHHhccccHHH
Confidence            9886655 33333 3443222   223334444 589999999888766553  223578999999999875433     


Q ss_pred             ------cHH-----------------------HHHHHHhh--------CCCCCcEEEEEeeCchhH--HHHHHhccCCCe
Q 018574          192 ------FKD-----------------------QIYDVYRY--------LPPDLQVVLISATLPHEI--LEMTTKFMTDPV  232 (354)
Q Consensus       192 ------~~~-----------------------~~~~i~~~--------~~~~~~~i~lSaT~~~~~--~~~~~~~~~~~~  232 (354)
                            |..                       .+.++.+.        -.+..++++.|||..+.-  ..+...+++   
T Consensus       225 iL~LlGf~eE~i~~a~~~~~lr~~~~~~~~~~~~~e~~~~~e~~~~~~r~k~g~LvvsSATg~~rg~R~~LfReLlg---  301 (1187)
T COG1110         225 LLRLLGFSEEVIESAYELIKLRRKLYGEKRAERVREELREVEREREKKRRKLGILVVSSATGKPRGSRLKLFRELLG---  301 (1187)
T ss_pred             HHHHcCCCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhccCCceEEEeeccCCCCCchHHHHHHHhC---
Confidence                  111                       11111111        113468999999985532  223333332   


Q ss_pred             EEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCc---hhhHHHHHHHHhcCCCeEEEeecCCCHH
Q 018574          233 KILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNT---KRKVDWLTEKMRGYNFTVSSMHGDMPQK  309 (354)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~---~~~~~~l~~~l~~~~~~~~~~~~~~~~~  309 (354)
                       ...........++...|...    .....+..+++.... -.|||++.   ++.++++++.|+..|+++..+|++    
T Consensus       302 -FevG~~~~~LRNIvD~y~~~----~~~e~~~elvk~lG~-GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a~~~~a~----  371 (1187)
T COG1110         302 -FEVGSGGEGLRNIVDIYVES----ESLEKVVELVKKLGD-GGLIFVPIDYGREKAEELAEYLRSHGINAELIHAE----  371 (1187)
T ss_pred             -CccCccchhhhheeeeeccC----ccHHHHHHHHHHhCC-CeEEEEEcHHhHHHHHHHHHHHHhcCceEEEeecc----
Confidence             22233334455566555554    255666666666653 68999999   999999999999999999999985    


Q ss_pred             HHHHHHHHHhCCCCcEEEEcc----ccccCCCcC-CCcEEEecCCCC
Q 018574          310 ERDAIMGEFRSGTTRVLITTD----VWARGLDVQ-QAILFFFLFLFC  351 (354)
Q Consensus       310 ~r~~~~~~f~~g~~~vlv~T~----~~~~Gidi~-~~~~Vi~~~~p~  351 (354)
                       ..+.++.|..|++++||++.    .+-+|+|+| .++.+||+|.|+
T Consensus       372 -~~~~le~F~~GeidvLVGvAsyYG~lVRGlDLP~rirYaIF~GvPk  417 (1187)
T COG1110         372 -KEEALEDFEEGEVDVLVGVASYYGVLVRGLDLPHRIRYAVFYGVPK  417 (1187)
T ss_pred             -chhhhhhhccCceeEEEEecccccceeecCCchhheeEEEEecCCc
Confidence             26778999999999999974    889999999 678999999995

>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional

Probab=99.93  E-value=7.1e-24  Score=201.98  Aligned_cols=291  Identities=15%  Similarity=0.167  Sum_probs=192.6

Q ss_pred             CChHHHHHhHhhhh----cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPII----KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~----~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      ++++||.+.+.++.    .|.++|+...+|.|||+..+..+...........++|||||. ++..||.+++.++...  +
T Consensus       169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~-SlL~nW~~Ei~kw~p~--l  245 (1033)
T PLN03142        169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPK-STLGNWMNEIRRFCPV--L  245 (1033)
T ss_pred             chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeCh-HHHHHHHHHHHHHCCC--C
Confidence            78999999999876    477899999999999987665554332222233458999995 7788899999998753  4


Q ss_pred             EEEEEeCCcchHHhHH---hhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCC
Q 018574          131 QAHACVGGKSVGEDIR---KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDL  207 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~---~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~  207 (354)
                      .+..++|.........   ......+|+|+|++.+.....  .+....+++||+||+|.+-...  ......+..+. ..
T Consensus       246 ~v~~~~G~~~eR~~~~~~~~~~~~~dVvITSYe~l~~e~~--~L~k~~W~~VIvDEAHrIKN~~--Sklskalr~L~-a~  320 (1033)
T PLN03142        246 RAVKFHGNPEERAHQREELLVAGKFDVCVTSFEMAIKEKT--ALKRFSWRYIIIDEAHRIKNEN--SLLSKTMRLFS-TN  320 (1033)
T ss_pred             ceEEEeCCHHHHHHHHHHHhcccCCCcceecHHHHHHHHH--HhccCCCCEEEEcCccccCCHH--HHHHHHHHHhh-cC
Confidence            5556666544322221   112357899999998865432  2333468999999999986543  23334444443 34


Q ss_pred             cEEEEEeeCchh-HHHH---HHhc-------------------------------------------------cCCCeEE
Q 018574          208 QVVLISATLPHE-ILEM---TTKF-------------------------------------------------MTDPVKI  234 (354)
Q Consensus       208 ~~i~lSaT~~~~-~~~~---~~~~-------------------------------------------------~~~~~~~  234 (354)
                      ..+++||||-+. ..++   +..+                                                 +......
T Consensus       321 ~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~~~e~i~~L~~~L~pf~LRR~KsdV~~~LPpK~e~  400 (1033)
T PLN03142        321 YRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGENDQQEVVQQLHKVLRPFLLRRLKSDVEKGLPPKKET  400 (1033)
T ss_pred             cEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHccccccchHHHHHHHHHHhhHHHhhhhHHHHhhhCCCceeE
Confidence            468899997321 1111   0000                                                 0000000


Q ss_pred             Ee--cCCcc--c--------------ccC-------c-e-------eEEE-----E---------eccccchHHHHHHHH
Q 018574          235 LV--KRDEL--T--------------LEG-------I-K-------QFFV-----A---------VEREEWKFDTLCDLY  267 (354)
Q Consensus       235 ~~--~~~~~--~--------------~~~-------~-~-------~~~~-----~---------~~~~~~~~~~l~~~l  267 (354)
                      .+  .-...  .              ...       + .       +-+.     .         +-....++..+.+++
T Consensus       401 iv~v~LS~~Qk~lY~~ll~k~~~~l~~g~~~~~LlnilmqLRk~cnHP~L~~~~ep~~~~~~~e~lie~SgKl~lLdkLL  480 (1033)
T PLN03142        401 ILKVGMSQMQKQYYKALLQKDLDVVNAGGERKRLLNIAMQLRKCCNHPYLFQGAEPGPPYTTGEHLVENSGKMVLLDKLL  480 (1033)
T ss_pred             EEeeCCCHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhCCHHhhhcccccCcccchhHHhhhhhHHHHHHHHH
Confidence            00  00000  0              000       0 0       0000     0         000123555666666


Q ss_pred             hhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCC---CcEEEEccccccCCCcCCCc
Q 018574          268 DTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT---TRVLITTDVWARGLDVQQAI  342 (354)
Q Consensus       268 ~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~---~~vlv~T~~~~~Gidi~~~~  342 (354)
                      ...  .+.++|||++.......+...|...++.+..++|.++..+|..+++.|++..   ..+|++|.+.+.|+|+..++
T Consensus       481 ~~Lk~~g~KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAGGlGINLt~Ad  560 (1033)
T PLN03142        481 PKLKERDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLGINLATAD  560 (1033)
T ss_pred             HHHHhcCCeEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEeccccccCCchhhCC
Confidence            543  3569999999999999999999989999999999999999999999997643   35688999999999999999


Q ss_pred             EEEecCCCCCC
Q 018574          343 LFFFLFLFCNV  353 (354)
Q Consensus       343 ~Vi~~~~p~s~  353 (354)
                      +||+||.||||
T Consensus       561 ~VIiyD~dWNP  571 (1033)
T PLN03142        561 IVILYDSDWNP  571 (1033)
T ss_pred             EEEEeCCCCCh
Confidence            99999999997

>PRK12906 secA preprotein translocase subunit SecA; Reviewed

Probab=99.92  E-value=9.8e-24  Score=194.39  Aligned_cols=290  Identities=15%  Similarity=0.167  Sum_probs=200.0

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+ .|++.|.-..-.+.+|  -+..+.||+|||+++.++++.....+..   +-+++|+.-||.|-++.+..+...+|+
T Consensus        77 ~g~-~~~dvQlig~l~l~~G--~iaEm~TGEGKTLvA~l~a~l~al~G~~---v~vvT~neyLA~Rd~e~~~~~~~~LGl  150 (796)
T PRK12906         77 LGL-RPFDVQIIGGIVLHEG--NIAEMKTGEGKTLTATLPVYLNALTGKG---VHVVTVNEYLSSRDATEMGELYRWLGL  150 (796)
T ss_pred             hCC-CCchhHHHHHHHHhcC--CcccccCCCCCcHHHHHHHHHHHHcCCC---eEEEeccHHHHHhhHHHHHHHHHhcCC
Confidence            455 6777776555444444  4899999999999999988877776654   899999999999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHH-HHHhcC------CccCCCccEEEEecchhhhccC------------
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVC-DMIKRK------TLRTRAIKLLVLDESDEMLSRG------------  191 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~-~~~~~~------~~~~~~~~~vvvDE~h~~~~~~------------  191 (354)
                      ++..+.++....+....+  .++|+++|...|- ++++..      ....+.+.+.||||+|.++-..            
T Consensus       151 ~vg~i~~~~~~~~r~~~y--~~dI~Y~t~~e~gfDyLRD~m~~~~~~~v~r~~~~aIvDEvDSiLiDeartPLiisg~~~  228 (796)
T PRK12906        151 TVGLNLNSMSPDEKRAAY--NCDITYSTNSELGFDYLRDNMVVYKEQMVQRPLNYAIVDEVDSILIDEARTPLIISGQAE  228 (796)
T ss_pred             eEEEeCCCCCHHHHHHHh--cCCCeecCCccccccchhhccccchhhhhccCcceeeeccchheeeccCCCceecCCCCC
Confidence            999998876655544333  4899999987763 333331      1123568899999999863111            


Q ss_pred             ----cHHHHHHHHhhCCC-------------C------------------------------------------------
Q 018574          192 ----FKDQIYDVYRYLPP-------------D------------------------------------------------  206 (354)
Q Consensus       192 ----~~~~~~~i~~~~~~-------------~------------------------------------------------  206 (354)
                          ....+..+...+..             +                                                
T Consensus       229 ~~~~~y~~~~~~v~~l~~~~~~~~~~~~~~~dy~id~~~k~v~lte~G~~~~e~~~~i~~l~~~~~~~~~~~i~~Al~A~  308 (796)
T PRK12906        229 KATDLYIRADRFVKTLIKDEAEDGDDDEDTGDYKIDEKTKTISLTEQGIRKAEKLFGLDNLYDSENTALAHHIDQALRAN  308 (796)
T ss_pred             cchHHHHHHHHHHHHHHhhhhccccccCCCCceEEEcccCceeecHHHHHHHHHHcCCccccCchhhhHHHHHHHHHHHH
Confidence                11111111111000             0                                                


Q ss_pred             -------------------------------------------------------------------CcEEEEEeeCchh
Q 018574          207 -------------------------------------------------------------------LQVVLISATLPHE  219 (354)
Q Consensus       207 -------------------------------------------------------------------~~~i~lSaT~~~~  219 (354)
                                                                                         .++.+||+|...+
T Consensus       309 ~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~ws~GLHQaieaKe~v~i~~e~~t~a~It~qnfFr~Y~kl~GmTGTa~~e  388 (796)
T PRK12906        309 YIMLKDIDYVVQDGEVLIVDEFTGRVMEGRRYSDGLHQAIEAKEGVKIQEENQTLATITYQNFFRMYKKLSGMTGTAKTE  388 (796)
T ss_pred             HHHhcCCcEEEECCEEEEEeCCCCCcCCCCccChHHHHHHHHhcCCCcCCCceeeeeehHHHHHHhcchhhccCCCCHHH
Confidence                                                                               4667777777665


Q ss_pred             HHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhh--CCCCcEEEEcCchhhHHHHHHHHhcCCC
Q 018574          220 ILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMRGYNF  297 (354)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~--~~~~~~lvf~~~~~~~~~l~~~l~~~~~  297 (354)
                      ..++.+.|..+...+....+....   ...-..+.....+...+.+.+..  ..+.|+||||++++.++.++..|.+.++
T Consensus       389 ~~Ef~~iY~l~vv~IPtnkp~~r~---d~~d~i~~t~~~K~~al~~~i~~~~~~g~pvLI~t~si~~se~ls~~L~~~gi  465 (796)
T PRK12906        389 EEEFREIYNMEVITIPTNRPVIRK---DSPDLLYPTLDSKFNAVVKEIKERHAKGQPVLVGTVAIESSERLSHLLDEAGI  465 (796)
T ss_pred             HHHHHHHhCCCEEEcCCCCCeeee---eCCCeEEcCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHCCC
Confidence            555554444443322221111111   11111122223367777777643  3667999999999999999999999999


Q ss_pred             eEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcC---CCc-----EEEecCCCCCC
Q 018574          298 TVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQ---QAI-----LFFFLFLFCNV  353 (354)
Q Consensus       298 ~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~---~~~-----~Vi~~~~p~s~  353 (354)
                      ++..+|+++...++..+.+.++.|.  |+|||+++++|+||+   ++.     |||++++|.|.
T Consensus       466 ~~~~Lna~~~~~Ea~ii~~ag~~g~--VtIATnmAGRGtDI~l~~~V~~~GGLhVI~te~pes~  527 (796)
T PRK12906        466 PHAVLNAKNHAKEAEIIMNAGQRGA--VTIATNMAGRGTDIKLGPGVKELGGLAVIGTERHESR  527 (796)
T ss_pred             CeeEecCCcHHHHHHHHHhcCCCce--EEEEeccccCCCCCCCCcchhhhCCcEEEeeecCCcH
Confidence            9999999987666666656555554  999999999999994   889     99999999874

>PRK12899 secA preprotein translocase subunit SecA; Reviewed

Probab=99.92  E-value=4.6e-23  Score=190.79  Aligned_cols=148  Identities=18%  Similarity=0.308  Sum_probs=128.2

Q ss_pred             ccCCCCHHHHHHHH-----HCCCCCC---hHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEE
Q 018574           36 DAMGIKDDLLRGIY-----QYGFEKP---SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALIL  107 (354)
Q Consensus        36 ~~~~~~~~~~~~l~-----~~~~~~~---~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil  107 (354)
                      +.+++..++.+.+.     ..|+..|   +|+|.+++..+..+++++..++||+|||++|++|++..+..+.   .++||
T Consensus        65 eafal~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~i~l~~gvIAeaqTGeGKTLAf~LP~l~~aL~g~---~v~IV  141 (970)
T PRK12899         65 EAYGVVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGAIAMHKGFITEMQTGEGKTLTAVMPLYLNALTGK---PVHLV  141 (970)
T ss_pred             HHhCCCHHHHHHHhccccccccccCCCCCChHHHHHhhhhhcCCCeEEEeCCCCChHHHHHHHHHHHHhhcC---CeEEE
Confidence            45678888888776     5788877   9999999999999999999999999999999999998776543   38999


Q ss_pred             cCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcCCccCC-------CccEE
Q 018574          108 SPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRKTLRTR-------AIKLL  179 (354)
Q Consensus       108 ~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~~~~~~-------~~~~v  179 (354)
                      +|++.|+.|.++.+..+...+++++..+.||.+..++...+  .++|+|+||++| .++++...+..+       .+.++
T Consensus       142 TpTrELA~Qdae~m~~L~k~lGLsV~~i~GG~~~~eq~~~y--~~DIVygTPgRLgfDyLrd~~~~~~~~~~vqr~~~~~  219 (970)
T PRK12899        142 TVNDYLAQRDCEWVGSVLRWLGLTTGVLVSGSPLEKRKEIY--QCDVVYGTASEFGFDYLRDNSIATRKEEQVGRGFYFA  219 (970)
T ss_pred             eCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHHc--CCCEEEECCChhHHHHhhCCCCCcCHHHhhcccccEE
Confidence            99999999999999999999999999999999888776555  489999999999 888887655544       45899


Q ss_pred             EEecchhhh
Q 018574          180 VLDESDEML  188 (354)
Q Consensus       180 vvDE~h~~~  188 (354)
                      |+||||+++
T Consensus       220 IIDEADsmL  228 (970)
T PRK12899        220 IIDEVDSIL  228 (970)
T ss_pred             EEechhhhh
Confidence            999999864

>PRK13107 preprotein translocase subunit SecA; Reviewed

Probab=99.91  E-value=4.8e-23  Score=190.37  Aligned_cols=273  Identities=17%  Similarity=0.224  Sum_probs=189.5

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .|++.|.  +-.+.-.+.-+..++||.|||+++.+|++..+..+..   +.||+|+..|+.|.++.+..+...+++++..
T Consensus        82 ~~ydVQl--iGgl~L~~G~IaEm~TGEGKTL~a~lp~~l~al~g~~---VhIvT~ndyLA~RD~e~m~~l~~~lGlsv~~  156 (908)
T PRK13107         82 RHFDVQL--LGGMVLDSNRIAEMRTGEGKTLTATLPAYLNALTGKG---VHVITVNDYLARRDAENNRPLFEFLGLTVGI  156 (908)
T ss_pred             CcCchHH--hcchHhcCCccccccCCCCchHHHHHHHHHHHhcCCC---EEEEeCCHHHHHHHHHHHHHHHHhcCCeEEE
Confidence            4444444  4344445667899999999999999999877765543   9999999999999999999999999999999


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcC-CccC-----CCccEEEEecchhhhccC----------------
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRK-TLRT-----RAIKLLVLDESDEMLSRG----------------  191 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~-~~~~-----~~~~~vvvDE~h~~~~~~----------------  191 (354)
                      +.++.+..+...  ...++|+++|+..| .++++.. .+..     ..+.+.|+||+|.++...                
T Consensus       157 i~~~~~~~~r~~--~Y~~dI~YgT~~e~gfDyLrdnm~~~~~~~vqr~~~~aIvDEvDsiLiDEArtPLIISg~~~~~~~  234 (908)
T PRK13107        157 NVAGLGQQEKKA--AYNADITYGTNNEFGFDYLRDNMAFSPQERVQRPLHYALIDEVDSILIDEARTPLIISGAAEDSSE  234 (908)
T ss_pred             ecCCCCHHHHHh--cCCCCeEEeCCCcccchhhhccCccchhhhhccccceeeecchhhhccccCCCceeecCCCccchH
Confidence            988877643322  23589999999998 7777664 2222     678899999999864221                


Q ss_pred             cHH----HHHHHHhh------------------------------------C------------C---------------
Q 018574          192 FKD----QIYDVYRY------------------------------------L------------P---------------  204 (354)
Q Consensus       192 ~~~----~~~~i~~~------------------------------------~------------~---------------  204 (354)
                      ...    .+..+...                                    +            .               
T Consensus       235 ~y~~~~~~v~~L~~~~~~~~~~~~~~~dy~idek~~~v~LTe~G~~~~e~~l~~~~~~~~~~~l~~~~~~~~~~~i~~aL  314 (908)
T PRK13107        235 LYIKINTLIPNLIRQDKEDTEEYVGEGDYSIDEKAKQVHFTERGQEKVENLLIERGMLAEGDSLYSAANISLLHHVNAAL  314 (908)
T ss_pred             HHHHHHHHHHHHHhhhhccccccCCCCCEEEecCCCeeeechHHHHHHHHHHHhCCcccCcccccCchhhHHHHHHHHHH
Confidence            001    11111100                                    0            0               


Q ss_pred             -------CC-------------------------------------------------------------CcEEEEEeeC
Q 018574          205 -------PD-------------------------------------------------------------LQVVLISATL  216 (354)
Q Consensus       205 -------~~-------------------------------------------------------------~~~i~lSaT~  216 (354)
                             .+                                                             .++.+||+|.
T Consensus       315 ~A~~lf~~d~dYiV~dg~V~IVDe~TGRim~grrwsdGLHQaIEaKE~v~I~~e~~t~AsIT~QnfFr~Y~kL~GMTGTa  394 (908)
T PRK13107        315 RAHTLFEKDVDYIVQDNEVIIVDEHTGRTMPGRRWSEGLHQAVEAKEGVHIQNENQTLASITFQNYFRQYEKLAGMTGTA  394 (908)
T ss_pred             HHHHHHhcCCceEEECCEEEEEECCCCCCCCCCccchHHHHHHHHhcCCCCCCCceeeeeehHHHHHHhhhHhhcccCCC
Confidence                   00                                                             3566677776


Q ss_pred             chhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh--hCCCCcEEEEcCchhhHHHHHHHHhc
Q 018574          217 PHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD--TLTITQAVIFCNTKRKVDWLTEKMRG  294 (354)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~~~~lvf~~~~~~~~~l~~~l~~  294 (354)
                      ..+..++.+.|-.+...+.........+.....| . .... +...+.+.+.  ...+.|+||||.|++.++.++..|.+
T Consensus       395 ~te~~Ef~~iY~l~Vv~IPTnkp~~R~d~~d~iy-~-t~~~-K~~Aii~ei~~~~~~GrpVLV~t~sv~~se~ls~~L~~  471 (908)
T PRK13107        395 DTEAFEFQHIYGLDTVVVPTNRPMVRKDMADLVY-L-TADE-KYQAIIKDIKDCRERGQPVLVGTVSIEQSELLARLMVK  471 (908)
T ss_pred             hHHHHHHHHHhCCCEEECCCCCCccceeCCCcEE-e-CHHH-HHHHHHHHHHHHHHcCCCEEEEeCcHHHHHHHHHHHHH
Confidence            6655555555444433333222221111111222 1 1122 4444444333  23457899999999999999999999


Q ss_pred             CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcC
Q 018574          295 YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       295 ~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~  339 (354)
                      .++++..+|+.+...++..+.+.|+.|.  |+|||+++++|+||.
T Consensus       472 ~gi~~~vLnak~~~~Ea~ii~~Ag~~G~--VtIATnmAGRGTDIk  514 (908)
T PRK13107        472 EKIPHEVLNAKFHEREAEIVAQAGRTGA--VTIATNMAGRGTDIV  514 (908)
T ss_pred             CCCCeEeccCcccHHHHHHHHhCCCCCc--EEEecCCcCCCccee
Confidence            9999999999999999999999999888  999999999999996

>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]

Probab=99.91  E-value=9.8e-23  Score=185.10  Aligned_cols=281  Identities=17%  Similarity=0.271  Sum_probs=204.1

Q ss_pred             HCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcC
Q 018574           50 QYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN  129 (354)
Q Consensus        50 ~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~  129 (354)
                      .++| .+-.+|++++.++.+|..+++.|+|.+|||.++-.++.-.-   ....+++|..|-++|.+|-+..++......+
T Consensus       293 ~~pF-elD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAialaq---~h~TR~iYTSPIKALSNQKfRDFk~tF~Dvg  368 (1248)
T KOG0947|consen  293 IYPF-ELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIALAQ---KHMTRTIYTSPIKALSNQKFRDFKETFGDVG  368 (1248)
T ss_pred             hCCC-CccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHHHHH---hhccceEecchhhhhccchHHHHHHhccccc
Confidence            3456 89999999999999999999999999999987766554332   2234699999999999999999887664433


Q ss_pred             eEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcE
Q 018574          130 IQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV  209 (354)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~  209 (354)
                          .++|+....       ..+..+|.|.+.|..++.++.-..+++..|||||+|-+.+..-+-.+.+++-.+|++.++
T Consensus       369 ----LlTGDvqin-------PeAsCLIMTTEILRsMLYrgadliRDvE~VIFDEVHYiND~eRGvVWEEViIMlP~HV~~  437 (1248)
T KOG0947|consen  369 ----LLTGDVQIN-------PEASCLIMTTEILRSMLYRGADLIRDVEFVIFDEVHYINDVERGVVWEEVIIMLPRHVNF  437 (1248)
T ss_pred             ----eeecceeeC-------CCcceEeehHHHHHHHHhcccchhhccceEEEeeeeecccccccccceeeeeeccccceE
Confidence                667776543       347899999999999998877777889999999999998887788999999999999999


Q ss_pred             EEEEeeCchhHHHHHHhc---cCCCeEEEecCCcccccCceeE-------------------------------------
Q 018574          210 VLISATLPHEILEMTTKF---MTDPVKILVKRDELTLEGIKQF-------------------------------------  249 (354)
Q Consensus       210 i~lSaT~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~-------------------------------------  249 (354)
                      |++|||.|+.. ++..+.   ....+.+....  ..+-.+.++                                     
T Consensus       438 IlLSATVPN~~-EFA~WIGRtK~K~IyViST~--kRPVPLEh~l~t~~~l~kiidq~g~fl~~~~~~a~~~~~~~ak~~~  514 (1248)
T KOG0947|consen  438 ILLSATVPNTL-EFADWIGRTKQKTIYVISTS--KRPVPLEHYLYTKKSLFKIIDQNGIFLLKGIKDAKDSLKKEAKFVD  514 (1248)
T ss_pred             EEEeccCCChH-HHHHHhhhccCceEEEEecC--CCccceEEEEEeccceehhhcccchhhhhcchhhhhhhcccccccc
Confidence            99999997753 222221   11111111110  000000000                                     


Q ss_pred             --------------------EEEe-------ccccc---hHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCC--
Q 018574          250 --------------------FVAV-------EREEW---KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNF--  297 (354)
Q Consensus       250 --------------------~~~~-------~~~~~---~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~--  297 (354)
                                          +...       .....   .+-.+...++...--|++|||-+++.+++.++.|...+.  
T Consensus       515 ~~~~~~~~~rgs~~~ggk~~~~~g~~r~~~~~~nrr~~~~~l~lin~L~k~~lLP~VvFvFSkkrCde~a~~L~~~nL~~  594 (1248)
T KOG0947|consen  515 VEKSDARGGRGSQKRGGKTNYHNGGSRGSGIGKNRRKQPTWLDLINHLRKKNLLPVVVFVFSKKRCDEYADYLTNLNLTD  594 (1248)
T ss_pred             cccccccccccccccCCcCCCCCCCcccccccccccccchHHHHHHHHhhcccCceEEEEEccccHHHHHHHHhccCccc
Confidence                                0000       00000   133333444444446899999999999999999976421  


Q ss_pred             -------------------------------------eEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCC
Q 018574          298 -------------------------------------TVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ  340 (354)
Q Consensus       298 -------------------------------------~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~  340 (354)
                                                           ...++||++=+--++-+...|..|-++||++|..++.|+|.| 
T Consensus       595 ~~EKseV~lfl~k~~~rLk~~DR~LPQvl~m~~ll~RGiaVHH~GlLPivKE~VE~LFqrGlVKVLFATETFAMGVNMP-  673 (1248)
T KOG0947|consen  595 SKEKSEVHLFLSKAVARLKGEDRNLPQVLSMRSLLLRGIAVHHGGLLPIVKEVVELLFQRGLVKVLFATETFAMGVNMP-  673 (1248)
T ss_pred             chhHHHHHHHHHHHHHhcChhhccchHHHHHHHHHhhcchhhcccchHHHHHHHHHHHhcCceEEEeehhhhhhhcCCC-
Confidence                                                 166789998888888888899999999999999999999999 


Q ss_pred             CcEEEecCC
Q 018574          341 AILFFFLFL  349 (354)
Q Consensus       341 ~~~Vi~~~~  349 (354)
                      +++|||-.+
T Consensus       674 ARtvVF~Sl  682 (1248)
T KOG0947|consen  674 ARTVVFSSL  682 (1248)
T ss_pred             ceeEEeeeh
Confidence            455555443

>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]

Probab=99.91  E-value=2.8e-22  Score=188.05  Aligned_cols=289  Identities=18%  Similarity=0.284  Sum_probs=208.0

Q ss_pred             HHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           45 LRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        45 ~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      ......++| .|-++|++++..+.++.+++++||||+|||.+...++...+..+.+   ++|.+|.++|.+|.+..+...
T Consensus       110 ~~~~~~~~F-~LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~al~~~qr---viYTsPIKALsNQKyrdl~~~  185 (1041)
T COG4581         110 APPAREYPF-ELDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALALRDGQR---VIYTSPIKALSNQKYRDLLAK  185 (1041)
T ss_pred             CcHHHhCCC-CcCHHHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHHHHHcCCc---eEeccchhhhhhhHHHHHHHH
Confidence            344455777 8999999999999999999999999999999888888777765543   999999999999999887754


Q ss_pred             ccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCC
Q 018574          125 GDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP  204 (354)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~  204 (354)
                      .....-.+..++|+...+       .++.++|.|.+.|.+++.+.......+..|||||+|.+.+..-+-.+..++-.+|
T Consensus       186 fgdv~~~vGL~TGDv~IN-------~~A~clvMTTEILRnMlyrg~~~~~~i~~ViFDEvHyi~D~eRG~VWEE~Ii~lP  258 (1041)
T COG4581         186 FGDVADMVGLMTGDVSIN-------PDAPCLVMTTEILRNMLYRGSESLRDIEWVVFDEVHYIGDRERGVVWEEVIILLP  258 (1041)
T ss_pred             hhhhhhhccceecceeeC-------CCCceEEeeHHHHHHHhccCcccccccceEEEEeeeeccccccchhHHHHHHhcC
Confidence            432222234556665443       3478999999999999998878888999999999999998888889999999999


Q ss_pred             CCCcEEEEEeeCchhH--HHHHHhccCCCeEEEecCCcccccCceeEEEE-------ecccc------------------
Q 018574          205 PDLQVVLISATLPHEI--LEMTTKFMTDPVKILVKRDELTLEGIKQFFVA-------VEREE------------------  257 (354)
Q Consensus       205 ~~~~~i~lSaT~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~------------------  257 (354)
                      .+.++++||||.++..  ...++.....+.++........+  +.+++..       +....                  
T Consensus       259 ~~v~~v~LSATv~N~~EF~~Wi~~~~~~~~~vv~t~~RpvP--L~~~~~~~~~l~~lvde~~~~~~~~~~~a~~~l~~~~  336 (1041)
T COG4581         259 DHVRFVFLSATVPNAEEFAEWIQRVHSQPIHVVSTEHRPVP--LEHFVYVGKGLFDLVDEKKKFNAENFPSANRSLSCFS  336 (1041)
T ss_pred             CCCcEEEEeCCCCCHHHHHHHHHhccCCCeEEEeecCCCCC--eEEEEecCCceeeeecccccchhhcchhhhhhhhccc
Confidence            9999999999997642  22233223344444333221111  1111110       00000                  


Q ss_pred             ----------------------------chHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC--------------
Q 018574          258 ----------------------------WKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY--------------  295 (354)
Q Consensus       258 ----------------------------~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~--------------  295 (354)
                                                  .....+...+.....-++|+|+-++..|+..+..+...              
T Consensus       337 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~iv~~l~~~~~lP~I~F~FSr~~Ce~~a~~~~~ldl~~~~~~e~~i~~  416 (1041)
T COG4581         337 EKVRETDDGDVGRYARRTKALRGSAKGPAGRPEIVNKLDKDNLLPAIVFSFSRRGCEEAAQILSTLDLVLTEEKERAIRE  416 (1041)
T ss_pred             hhccccCccccccccccccccCCcccccccchHHHhhhhhhcCCceEEEEEchhhHHHHHHHhcccccccCCcHHHHHHH
Confidence                                        00011222222233357999999999998888777521              


Q ss_pred             --------------CCe-------------EEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEec
Q 018574          296 --------------NFT-------------VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFL  347 (354)
Q Consensus       296 --------------~~~-------------~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~  347 (354)
                                    +++             ..+.|+++=+.-|..+.+.|..|-.+|+++|..++.|+|.|. +.|++.
T Consensus       417 ii~~~i~~L~~ed~~lp~~~~~~~~~L~RGiavHH~GlLP~~K~~vE~Lfq~GLvkvvFaTeT~s~GiNmPa-rtvv~~  494 (1041)
T COG4581         417 IIDHAIGDLAEEDRELPLQILEISALLLRGIAVHHAGLLPAIKELVEELFQEGLVKVVFATETFAIGINMPA-RTVVFT  494 (1041)
T ss_pred             HHHHHHhhcChhhhcCcccHHHHHHHHhhhhhhhccccchHHHHHHHHHHhccceeEEeehhhhhhhcCCcc-cceeee
Confidence                          111             336789999999999999999999999999999999999995 444443

>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative

Probab=99.90  E-value=3.3e-21  Score=185.85  Aligned_cols=307  Identities=15%  Similarity=0.150  Sum_probs=187.2

Q ss_pred             CCHHHHHHHHHCCCCCChHHHHHhHh----hhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHH
Q 018574           40 IKDDLLRGIYQYGFEKPSAIQQRAVM----PIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT  115 (354)
Q Consensus        40 ~~~~~~~~l~~~~~~~~~~~Q~~~~~----~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~  115 (354)
                      +++.+.+.+...|| ++++.|.+.++    .+.+++++++.||||+|||.+|++|++..+.   .+.+++|.+||++|..
T Consensus       231 ~~~~~~~~~~~~~~-~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~---~~~~vvi~t~t~~Lq~  306 (850)
T TIGR01407       231 LSSLFSKNIDRLGL-EYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI---TEKPVVISTNTKVLQS  306 (850)
T ss_pred             ccHHHHHhhhhcCC-ccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc---CCCeEEEEeCcHHHHH
Confidence            45577778888888 68999998665    4556889999999999999999999987765   2347999999999999


Q ss_pred             HHHH-HHHHhccCcC--eEEEEEeCCcchH-------------------------------------Hh----------H
Q 018574          116 QTEK-VILAIGDFIN--IQAHACVGGKSVG-------------------------------------ED----------I  145 (354)
Q Consensus       116 q~~~-~~~~~~~~~~--~~~~~~~~~~~~~-------------------------------------~~----------~  145 (354)
                      |+.. .+..+.+.++  +++..+.|+.+.-                                     .+          +
T Consensus       307 Ql~~~~~~~l~~~~~~~~~~~~~kG~~~ylcl~k~~~~l~~~~~~~~~~~~~~~~~~wl~~T~tGD~~el~~~~~~~~~~  386 (850)
T TIGR01407       307 QLLEKDIPLLNEILNFKINAALIKGKSNYLSLGKFSQILKDNTDNYEFNIFKMQVLVWLTETETGDLDELNLKGGNKMFF  386 (850)
T ss_pred             HHHHHHHHHHHHHcCCCceEEEEEcchhhccHHHHHHHHhcCCCcHHHHHHHHHHHHHhccCCccCHhhccCCCcchhhH
Confidence            9865 4554443333  5555555432210                                     00          0


Q ss_pred             H------------------------hhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-------c--
Q 018574          146 R------------------------KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-------F--  192 (354)
Q Consensus       146 ~------------------------~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-------~--  192 (354)
                      .                        .....++|+|+++..|...+......+...+++||||||++.+..       +  
T Consensus       387 ~~i~~~~~l~~~c~~~~~Cf~~~ar~~a~~AdivItNHa~L~~~~~~~~~ilp~~~~lIiDEAH~L~d~a~~~~~~~ls~  466 (850)
T TIGR01407       387 AQVRHDGNLSKKDLFYEVDFYNRAQKNAEQAQILITNHAYLITRLVDNPELFPSFRDLIIDEAHHLPDIAENQLQEELDY  466 (850)
T ss_pred             HHhhcCCCCCCCCCCccccHHHHHHHHHhcCCEEEecHHHHHHHhhcccccCCCCCEEEEECcchHHHHHHHHhcceeCH
Confidence            0                        001236799999998877654432223455799999999974211       0  


Q ss_pred             ---HHH----------------------------------------------------------------HHHHHhh---
Q 018574          193 ---KDQ----------------------------------------------------------------IYDVYRY---  202 (354)
Q Consensus       193 ---~~~----------------------------------------------------------------~~~i~~~---  202 (354)
                         ...                                                                +...+..   
T Consensus       467 ~~~~~~l~~l~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~  546 (850)
T TIGR01407       467 ADIKYQIDLIGKGENEQLLKRIQQLEKQEILEKLFDFETKDILKDLQAILDKLNKLLQIFSELSHKTVDQLRKFDLALKD  546 (850)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence               000                                                                0000000   


Q ss_pred             --------C-------------------------------------CCCCcEEEEEeeCchh-HHHHHHhccCCC--eEE
Q 018574          203 --------L-------------------------------------PPDLQVVLISATLPHE-ILEMTTKFMTDP--VKI  234 (354)
Q Consensus       203 --------~-------------------------------------~~~~~~i~lSaT~~~~-~~~~~~~~~~~~--~~~  234 (354)
                              +                                     +....++++|||+... -.......++-.  ...
T Consensus       547 ~~~~l~~~~~~~~~~wi~~~~~~~~~~~~l~~~pl~~~~~l~~~~~~~~~~~il~SATL~~~~~~~~~~~~lGl~~~~~~  626 (850)
T TIGR01407       547 DFKNIEQSLKEGHTSWISIENLQQKSTIRLYIKDYEVGDVLTKRLLPKFKSLIFTSATLKFSHSFESFPQLLGLTDVHFN  626 (850)
T ss_pred             HHHHHHHHhccCCeEEEEecCCCCCceEEEEeeeCcHHHHHHHHHhccCCeEEEEecccccCCChHHHHHhcCCCccccc
Confidence                    0                                     0124688999998632 123333333321  111


Q ss_pred             EecCCcccccCceeEEEE--ecc-----ccch----HHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCC--CeEEE
Q 018574          235 LVKRDELTLEGIKQFFVA--VER-----EEWK----FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYN--FTVSS  301 (354)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~--~~~-----~~~~----~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~--~~~~~  301 (354)
                      ...............+..  .+.     ....    ...+.+++.. ..++++|||+|.+.++.++..|....  ....+
T Consensus       627 ~~~~spf~~~~~~~l~v~~d~~~~~~~~~~~~~~~ia~~i~~l~~~-~~g~~LVlftS~~~l~~v~~~L~~~~~~~~~~~  705 (850)
T TIGR01407       627 TIEPTPLNYAENQRVLIPTDAPAIQNKSLEEYAQEIASYIIEITAI-TSPKILVLFTSYEMLHMVYDMLNELPEFEGYEV  705 (850)
T ss_pred             eecCCCCCHHHcCEEEecCCCCCCCCCChHHHHHHHHHHHHHHHHh-cCCCEEEEeCCHHHHHHHHHHHhhhccccCceE
Confidence            111111111111111211  110     0111    1222333333 44799999999999999999997521  11223


Q ss_pred             eecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCc--EEEecCCCCC
Q 018574          302 MHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAI--LFFFLFLFCN  352 (354)
Q Consensus       302 ~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~--~Vi~~~~p~s  352 (354)
                      +..+.. .+|.++++.|++++..||++|+.+++|+|+|+..  +||...+|..
T Consensus       706 l~q~~~-~~r~~ll~~F~~~~~~iLlgt~sf~EGVD~~g~~l~~viI~~LPf~  757 (850)
T TIGR01407       706 LAQGIN-GSRAKIKKRFNNGEKAILLGTSSFWEGVDFPGNGLVCLVIPRLPFA  757 (850)
T ss_pred             EecCCC-ccHHHHHHHHHhCCCeEEEEcceeecccccCCCceEEEEEeCCCCC
Confidence            333333 5788899999999999999999999999999766  6888888853

This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.

>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family

Probab=99.90  E-value=6.6e-22  Score=185.08  Aligned_cols=282  Identities=13%  Similarity=0.097  Sum_probs=167.1

Q ss_pred             CChHHHHHhHhhhhc----------CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           55 KPSAIQQRAVMPIIK----------GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----------~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      -++++|.+++..+..          ++..+++.|||||||.+++..+...+ .....+++|+|+|+.+|..|+.+.+..+
T Consensus       238 ~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~-~~~~~~~vl~lvdR~~L~~Q~~~~f~~~  316 (667)
T TIGR00348       238 YQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKAL-ELLKNPKVFFVVDRRELDYQLMKEFQSL  316 (667)
T ss_pred             ehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHH-hhcCCCeEEEEECcHHHHHHHHHHHHhh
Confidence            379999999887642          25789999999999988777665544 3334568999999999999999999987


Q ss_pred             ccCcCeEEEEEeCCcchHHhHHhhc-CCCeEEEeCcHHHHHHHhc--CCccCCCc-cEEEEecchhhhccCcHHHHHHHH
Q 018574          125 GDFINIQAHACVGGKSVGEDIRKLE-HGVHVVSGTPGRVCDMIKR--KTLRTRAI-KLLVLDESDEMLSRGFKDQIYDVY  200 (354)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~iiv~T~~~l~~~~~~--~~~~~~~~-~~vvvDE~h~~~~~~~~~~~~~i~  200 (354)
                      +....      ....+.......+. ....|+|+|.+++......  ..+..... .+||+||||+.....+...+.   
T Consensus       317 ~~~~~------~~~~s~~~L~~~l~~~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~~~~~~~~l~---  387 (667)
T TIGR00348       317 QKDCA------ERIESIAELKRLLEKDDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQYGELAKNLK---  387 (667)
T ss_pred             CCCCC------cccCCHHHHHHHHhCCCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCccccchHHHHHHH---
Confidence            63210      11112222222222 2368999999999764322  12222122 389999999975443333332   


Q ss_pred             hhCCCCCcEEEEEeeCchhH----HHHHHhccCCCeEEEecCCcccccCcee--EEEEec--------------------
Q 018574          201 RYLPPDLQVVLISATLPHEI----LEMTTKFMTDPVKILVKRDELTLEGIKQ--FFVAVE--------------------  254 (354)
Q Consensus       201 ~~~~~~~~~i~lSaT~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~--------------------  254 (354)
                      +.+ ++...+++||||....    ........+++.... .-.+.-.++...  .|....                    
T Consensus       388 ~~~-p~a~~lGfTaTP~~~~d~~t~~~f~~~fg~~i~~Y-~~~~AI~dG~~~~i~Y~~~~~~~~~~~~~l~~~~~~~~~~  465 (667)
T TIGR00348       388 KAL-KNASFFGFTGTPIFKKDRDTSLTFAYVFGRYLHRY-FITDAIRDGLTVKIDYEDRLPEDHLDRKKLDAFFDEIFEL  465 (667)
T ss_pred             hhC-CCCcEEEEeCCCcccccccccccccCCCCCeEEEe-eHHHHhhcCCeeeEEEEecchhhccChHHHHHHHHHHHHh
Confidence            334 4567999999995321    111111111222111 111110111000  000000                    


Q ss_pred             --c--ccc---------------------hHHHHHHHHhh----C--CCCcEEEEcCchhhHHHHHHHHhcC-----CCe
Q 018574          255 --R--EEW---------------------KFDTLCDLYDT----L--TITQAVIFCNTKRKVDWLTEKMRGY-----NFT  298 (354)
Q Consensus       255 --~--~~~---------------------~~~~l~~~l~~----~--~~~~~lvf~~~~~~~~~l~~~l~~~-----~~~  298 (354)
                        .  ...                     .......+++.    .  ..+|++|+|.++++|..+++.|.+.     +..
T Consensus       466 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ia~~i~~h~~~~~~~~~~kamvv~~sr~~a~~~~~~l~~~~~~~~~~~  545 (667)
T TIGR00348       466 LPERIREITKESLKEKLQKTKKILFNEDRLESIAKDIAEHYAKFKELFKFKAMVVAISRYACVEEKNALDEELNEKFEAS  545 (667)
T ss_pred             hhccccHHHHHHHHHHHHHHHhhhcChHHHHHHHHHHHHHHHHhhhcccCceeEEEecHHHHHHHHHHHHhhcccccCCe
Confidence              0  000                     00001111111    1  2379999999999999999998664     234


Q ss_pred             EEEeecCCCHH---------------------HHHHHHHHHhC-CCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          299 VSSMHGDMPQK---------------------ERDAIMGEFRS-GTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       299 ~~~~~~~~~~~---------------------~r~~~~~~f~~-g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      ..++++..+..                     ....+++.|++ ++.+|||+++++.+|+|.|.+++++..-
T Consensus       546 ~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~~~~~ilIVvdmllTGFDaP~l~tLyldK  617 (667)
T TIGR00348       546 AIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKEENPKLLIVVDMLLTGFDAPILNTLYLDK  617 (667)
T ss_pred             eEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCCCCceEEEEEcccccccCCCccceEEEec
Confidence            55565543322                     12367888876 6889999999999999999999987643

Members of this family are assumed to differ from each other in DNA site specificity.

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=99.89  E-value=2.6e-21  Score=156.60  Aligned_cols=187  Identities=35%  Similarity=0.595  Sum_probs=150.0

Q ss_pred             HCCCCCChHHHHHhHhhhhcC-CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCc
Q 018574           50 QYGFEKPSAIQQRAVMPIIKG-RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI  128 (354)
Q Consensus        50 ~~~~~~~~~~Q~~~~~~~~~~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~  128 (354)
                      ..++..++++|.+++..+... +.+++.+|||+|||.+++.+++..+.... ..+++|++|+.+++.|+.+.+.......
T Consensus         3 ~~~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~-~~~~l~~~p~~~~~~~~~~~~~~~~~~~   81 (201)
T smart00487        3 KFGFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGK-GKRVLVLVPTRELAEQWAEELKKLGPSL   81 (201)
T ss_pred             ccCCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccC-CCcEEEEeCCHHHHHHHHHHHHHHhccC
Confidence            356678999999999999998 99999999999999989888888776553 3469999999999999999998877654


Q ss_pred             CeEEEEEeCCcchHHhHHhhcCCC-eEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCC
Q 018574          129 NIQAHACVGGKSVGEDIRKLEHGV-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDL  207 (354)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~-~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~  207 (354)
                      ........++............+. +++++|++.+.+...........++++|+||+|.+....+...+..++..+++..
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~  161 (201)
T smart00487       82 GLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNV  161 (201)
T ss_pred             CeEEEEEeCCcchHHHHHHHhcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhcCCcHHHHHHHHHhCCccc
Confidence            433334444444344444455555 9999999999998887666677889999999999986567788888888887889


Q ss_pred             cEEEEEeeCchhHHHHHHhccCCCeEEEec
Q 018574          208 QVVLISATLPHEILEMTTKFMTDPVKILVK  237 (354)
Q Consensus       208 ~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~  237 (354)
                      +++++|||++.........+......+...
T Consensus       162 ~~v~~saT~~~~~~~~~~~~~~~~~~~~~~  191 (201)
T smart00487      162 QLLLLSATPPEEIENLLELFLNDPVFIDVG  191 (201)
T ss_pred             eEEEEecCCchhHHHHHHHhcCCCEEEeCC
Confidence            999999999988888888877765555433

>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]

Probab=99.88  E-value=2.1e-21  Score=183.57  Aligned_cols=290  Identities=17%  Similarity=0.181  Sum_probs=187.5

Q ss_pred             CChHHHHHhHhhhhc---CC-cEEEEcCCCCchhhHhHHHHhhcccc-CCCceeEEEEcCCHHHHHHHHHHHHHhccCcC
Q 018574           55 KPSAIQQRAVMPIIK---GR-DVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQALILSPTRELATQTEKVILAIGDFIN  129 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~---~~-~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~  129 (354)
                      ..++.|..+++.+.+   .. .+++.+|||.|||.+.+.++...+.. .....+++++.|++++.++++++++.+....+
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~~  274 (733)
T COG1203         195 EGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLFS  274 (733)
T ss_pred             hhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhcccc
Confidence            458999999988776   34 78999999999999999999888776 34556899999999999999999998775544


Q ss_pred             eEEEEEeCCcchHHhHHh-----h---------cCCCeEEEeCcHHHHHHHh-cCCcc---CCCccEEEEecchhhhccC
Q 018574          130 IQAHACVGGKSVGEDIRK-----L---------EHGVHVVSGTPGRVCDMIK-RKTLR---TRAIKLLVLDESDEMLSRG  191 (354)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~-----~---------~~~~~iiv~T~~~l~~~~~-~~~~~---~~~~~~vvvDE~h~~~~~~  191 (354)
                      ......++..........     .         ..-..++++|+........ ...+.   .-..+.+|+||+|.+....
T Consensus       275 ~~~~~~h~~~~~~~~~~~~~~~~~~~~~~ds~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~vIlDE~h~~~~~~  354 (733)
T COG1203         275 VIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVHLYADET  354 (733)
T ss_pred             cccccccccccchhhhccccccceeEEecccccceeccccccCHhHhhhhhccccchHHHHHHHhhchhhccHHhhcccc
Confidence            333322332221111000     0         0012233444433333111 11111   1134789999999997763


Q ss_pred             cHHHHHHHHhhC-CCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcc---cccCcee-EEEEeccccchHHHHHHH
Q 018574          192 FKDQIYDVYRYL-PPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL---TLEGIKQ-FFVAVEREEWKFDTLCDL  266 (354)
Q Consensus       192 ~~~~~~~i~~~~-~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~-~~~~~~~~~~~~~~l~~~  266 (354)
                      ....+..++..+ ..+..++++|||+|+.....+.........+.......   ....... ......... ........
T Consensus       355 ~~~~l~~~i~~l~~~g~~ill~SATlP~~~~~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~-~~~~~~~~  433 (733)
T COG1203         355 MLAALLALLEALAEAGVPVLLMSATLPPFLKEKLKKALGKGREVVENAKFCPKEDEPGLKRKERVDVEDGP-QEELIELI  433 (733)
T ss_pred             hHHHHHHHHHHHHhCCCCEEEEecCCCHHHHHHHHHHHhcccceeccccccccccccccccccchhhhhhh-hHhhhhcc
Confidence            233333333332 34778999999999999998888777655444332200   1111111 111111100 01112222


Q ss_pred             Hh-hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHH----hCCCCcEEEEccccccCCCcCCC
Q 018574          267 YD-TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEF----RSGTTRVLITTDVWARGLDVQQA  341 (354)
Q Consensus       267 l~-~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f----~~g~~~vlv~T~~~~~Gidi~~~  341 (354)
                      .. ...+++++|.|||++.|.+++..|+..+..+..+|+.+...+|.+.++.+    +.++..|+|+|++++.|+|+. .
T Consensus       434 ~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQVIEagvDid-f  512 (733)
T COG1203         434 SEEVKEGKKVLVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQVIEAGVDID-F  512 (733)
T ss_pred             hhhhccCCcEEEEEecHHHHHHHHHHHHhcCCCEEEEecccchhhHHHHHHHHHHHHhccCCeEEEEeeEEEEEeccc-c
Confidence            22 23457899999999999999999999877899999999999998887654    457889999999999999996 6


Q ss_pred             cEEEe
Q 018574          342 ILFFF  346 (354)
Q Consensus       342 ~~Vi~  346 (354)
                      +++|-
T Consensus       513 d~mIT  517 (733)
T COG1203         513 DVLIT  517 (733)
T ss_pred             Ceeee
Confidence            66653

>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]

Probab=99.88  E-value=1.7e-20  Score=167.34  Aligned_cols=291  Identities=16%  Similarity=0.180  Sum_probs=195.2

Q ss_pred             CChHHHHHhHhhhhc----CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPIIK----GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .+++||.+-++++.+    |-++|+...+|.|||+..+..+.+...........||++|...| ..|..+++++...  +
T Consensus       167 ~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL-~NW~~Ef~rf~P~--l  243 (971)
T KOG0385|consen  167 ELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTL-DNWMNEFKRFTPS--L  243 (971)
T ss_pred             ccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhhH-HHHHHHHHHhCCC--c
Confidence            789999999999875    67899999999999977666555444433323348999996554 5588888888765  6


Q ss_pred             EEEEEeCCcchHHhHHh-h--cCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCC
Q 018574          131 QAHACVGGKSVGEDIRK-L--EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDL  207 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~-~--~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~  207 (354)
                      ++..++|+......... +  ....+|+++|++...+-  ...+...++.++||||+|++-...  ..+..+++.+....
T Consensus       244 ~~~~~~Gdk~eR~~~~r~~~~~~~fdV~iTsYEi~i~d--k~~lk~~~W~ylvIDEaHRiKN~~--s~L~~~lr~f~~~n  319 (971)
T KOG0385|consen  244 NVVVYHGDKEERAALRRDIMLPGRFDVCITSYEIAIKD--KSFLKKFNWRYLVIDEAHRIKNEK--SKLSKILREFKTDN  319 (971)
T ss_pred             ceEEEeCCHHHHHHHHHHhhccCCCceEeehHHHHHhh--HHHHhcCCceEEEechhhhhcchh--hHHHHHHHHhcccc
Confidence            77788888755444332 1  23589999999988654  223444578999999999996654  34445666664444


Q ss_pred             cEEEEEeeCchhHH-HHHH------------------hc----------------------------------cCCCeEE
Q 018574          208 QVVLISATLPHEIL-EMTT------------------KF----------------------------------MTDPVKI  234 (354)
Q Consensus       208 ~~i~lSaT~~~~~~-~~~~------------------~~----------------------------------~~~~~~~  234 (354)
                       .+++|+||-+... +++.                  .+                                  +.....+
T Consensus       320 -rLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~~e~v~~Lh~vL~pFlLRR~K~dVe~sLppKkE~  398 (971)
T KOG0385|consen  320 -RLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEGDQELVSRLHKVLRPFLLRRIKSDVEKSLPPKKEL  398 (971)
T ss_pred             -eeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHcccccccCHHHHHHHHhhhhHHHHHHHHHhHhhcCCCccee
Confidence             5788999632210 0000                  00                                  0000000


Q ss_pred             EecCCc---------------------------ccccCc--------eeEEEE--ecc------------ccchHHHHHH
Q 018574          235 LVKRDE---------------------------LTLEGI--------KQFFVA--VER------------EEWKFDTLCD  265 (354)
Q Consensus       235 ~~~~~~---------------------------~~~~~~--------~~~~~~--~~~------------~~~~~~~l~~  265 (354)
                      .+-.+.                           ..+.++        .+-|..  ..+            ...|+..|.+
T Consensus       399 ~iyvgms~mQkk~Y~~iL~kdl~~~n~~~~~~k~kL~NI~mQLRKccnHPYLF~g~ePg~pyttdehLv~nSGKm~vLDk  478 (971)
T KOG0385|consen  399 IIYVGMSSMQKKWYKAILMKDLDALNGEGKGEKTKLQNIMMQLRKCCNHPYLFDGAEPGPPYTTDEHLVTNSGKMLVLDK  478 (971)
T ss_pred             eEeccchHHHHHHHHHHHHhcchhhcccccchhhHHHHHHHHHHHhcCCccccCCCCCCCCCCcchHHHhcCcceehHHH
Confidence            000000                           000000        000000  000            0125566666


Q ss_pred             HHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCC---CcEEEEccccccCCCcCC
Q 018574          266 LYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT---TRVLITTDVWARGLDVQQ  340 (354)
Q Consensus       266 ~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~---~~vlv~T~~~~~Gidi~~  340 (354)
                      ++...  .++++|||.+.....+-+..++.-+++....++|.++.++|...++.|...+   +-.|++|.+.+.|||+..
T Consensus       479 LL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~a  558 (971)
T KOG0385|consen  479 LLPKLKEQGHRVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLTA  558 (971)
T ss_pred             HHHHHHhCCCeEEEeHHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEecccccccccccc
Confidence            66543  3579999999999988888888777899999999999999999999998754   335889999999999999


Q ss_pred             CcEEEecCCCCCC
Q 018574          341 AILFFFLFLFCNV  353 (354)
Q Consensus       341 ~~~Vi~~~~p~s~  353 (354)
                      ++.||+||--|||
T Consensus       559 ADtVIlyDSDWNP  571 (971)
T KOG0385|consen  559 ADTVILYDSDWNP  571 (971)
T ss_pred             ccEEEEecCCCCc
Confidence            9999999999987

>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]

Probab=99.88  E-value=6.2e-21  Score=172.42  Aligned_cols=275  Identities=19%  Similarity=0.240  Sum_probs=173.8

Q ss_pred             CChHHHHHhHhhhhc----C-CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcC
Q 018574           55 KPSAIQQRAVMPIIK----G-RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN  129 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~  129 (354)
                      .+++||..++..+.+    | +.+++.++||+|||.+++..+ ..+.....-+++|+|+.+++|+.|.+..++.+.....
T Consensus       165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii-~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~~  243 (875)
T COG4096         165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAII-DRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPFGT  243 (875)
T ss_pred             cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHH-HHHHhcchhheeeEEechHHHHHHHHHHHHHhCCCcc
Confidence            689999999877654    3 569999999999998766554 4455555567899999999999999999888775422


Q ss_pred             -eEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC-----CccCCCccEEEEecchhhhccCcHHHHHHHHhhC
Q 018574          130 -IQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK-----TLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL  203 (354)
Q Consensus       130 -~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~-----~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~  203 (354)
                       .+......+.          ..+.|.++|.+.+.......     .+....|++||+||||+-...    ....++.++
T Consensus       244 ~~n~i~~~~~~----------~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRgi~~----~~~~I~dYF  309 (875)
T COG4096         244 KMNKIEDKKGD----------TSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRGIYS----EWSSILDYF  309 (875)
T ss_pred             ceeeeecccCC----------cceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhhhHHh----hhHHHHHHH
Confidence             2221111111          13799999999998877654     344566999999999986433    344555555


Q ss_pred             CCCCcEEEEEeeCchhHHHHHHhcc-CCCeEEEe----------------------cCCcccccCc--------------
Q 018574          204 PPDLQVVLISATLPHEILEMTTKFM-TDPVKILV----------------------KRDELTLEGI--------------  246 (354)
Q Consensus       204 ~~~~~~i~lSaT~~~~~~~~~~~~~-~~~~~~~~----------------------~~~~~~~~~~--------------  246 (354)
                      ..-  .+++||||........-.++ +.|.....                      ....+.+...              
T Consensus       310 dA~--~~gLTATP~~~~d~~T~~~F~g~Pt~~YsleeAV~DGfLvpy~vi~i~~~~~~~G~~~~~~serek~~g~~i~~d  387 (875)
T COG4096         310 DAA--TQGLTATPKETIDRSTYGFFNGEPTYAYSLEEAVEDGFLVPYKVIRIDTDFDLDGWKPDAGSEREKLQGEAIDED  387 (875)
T ss_pred             HHH--HHhhccCcccccccccccccCCCcceeecHHHHhhccccCCCCceEEeeeccccCcCcCccchhhhhhccccCcc
Confidence            332  35569998664333222222 22221110                      0111111100              


Q ss_pred             eeEEEEec---------cccchHHHHHHHHhh--CC--CCcEEEEcCchhhHHHHHHHHhcC-----CCeEEEeecCCCH
Q 018574          247 KQFFVAVE---------REEWKFDTLCDLYDT--LT--ITQAVIFCNTKRKVDWLTEKMRGY-----NFTVSSMHGDMPQ  308 (354)
Q Consensus       247 ~~~~~~~~---------~~~~~~~~l~~~l~~--~~--~~~~lvf~~~~~~~~~l~~~l~~~-----~~~~~~~~~~~~~  308 (354)
                      .+.+....         ........+...+..  ..  .+|+||||.+..+|+.+...|.+.     +--+..++++.. 
T Consensus       388 d~~~~~~d~dr~~v~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~a~~IT~d~~-  466 (875)
T COG4096         388 DQNFEARDFDRTLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPEYNGRYAMKITGDAE-  466 (875)
T ss_pred             cccccccccchhccccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCccccCceEEEEeccch-
Confidence            00000000         000112344444444  11  368999999999999999999765     234666777643 


Q ss_pred             HHHHHHHHHHhC--CCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          309 KERDAIMGEFRS--GTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       309 ~~r~~~~~~f~~--g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                       +-...+..|..  .-..|.++.+++.+|+|+|.|.+++++-
T Consensus       467 -~~q~~Id~f~~ke~~P~IaitvdlL~TGiDvpev~nlVF~r  507 (875)
T COG4096         467 -QAQALIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNLVFDR  507 (875)
T ss_pred             -hhHHHHHHHHhcCCCCceEEehhhhhcCCCchheeeeeehh
Confidence             33344566654  3467888889999999999999999864

>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]

Probab=99.87  E-value=1.9e-21  Score=172.74  Aligned_cols=277  Identities=17%  Similarity=0.275  Sum_probs=203.9

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .+-|+|..++.-+-+++.+++.|.|.+|||.++-.++...+...   .+++|..|-++|.+|-+.++..-...    +..
T Consensus       129 ~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~k---QRVIYTSPIKALSNQKYREl~~EF~D----VGL  201 (1041)
T KOG0948|consen  129 TLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLREK---QRVIYTSPIKALSNQKYRELLEEFKD----VGL  201 (1041)
T ss_pred             ccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHHHHHhc---CeEEeeChhhhhcchhHHHHHHHhcc----cce
Confidence            78999999999988999999999999999988888877776544   35999999999999999988765433    334


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEe
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISA  214 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSa  214 (354)
                      .+|+...+       ..+--+|.|.+.|..++.++.--...+..|||||+|-|-+..-+-.|.+-+-.+|.+.+.+++||
T Consensus       202 MTGDVTIn-------P~ASCLVMTTEILRsMLYRGSEvmrEVaWVIFDEIHYMRDkERGVVWEETIIllP~~vr~VFLSA  274 (1041)
T KOG0948|consen  202 MTGDVTIN-------PDASCLVMTTEILRSMLYRGSEVMREVAWVIFDEIHYMRDKERGVVWEETIILLPDNVRFVFLSA  274 (1041)
T ss_pred             eecceeeC-------CCCceeeeHHHHHHHHHhccchHhheeeeEEeeeehhccccccceeeeeeEEeccccceEEEEec
Confidence            45554433       23567899999999998887777788999999999999887766666666777889999999999


Q ss_pred             eCchhH--HHHHHhccCCCeEEEecCCccccc-------CceeEEEEecccc-c--------------------------
Q 018574          215 TLPHEI--LEMTTKFMTDPVKILVKRDELTLE-------GIKQFFVAVEREE-W--------------------------  258 (354)
Q Consensus       215 T~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~-~--------------------------  258 (354)
                      |+|+..  .+.+......|.++.+.....++-       +-...|..+.... .                          
T Consensus       275 TiPNA~qFAeWI~~ihkQPcHVVYTdyRPTPLQHyifP~ggdGlylvVDek~~FrednF~~am~~l~~~~~~~~~~~~~~  354 (1041)
T KOG0948|consen  275 TIPNARQFAEWICHIHKQPCHVVYTDYRPTPLQHYIFPAGGDGLYLVVDEKGKFREDNFQKAMSVLRKAGESDGKKKANK  354 (1041)
T ss_pred             cCCCHHHHHHHHHHHhcCCceEEeecCCCCcceeeeecCCCCeeEEEEecccccchHHHHHHHHHhhccCCCcccccccc
Confidence            998752  233344455676666555432211       1111112111110 0                          


Q ss_pred             ---------------hHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCe-------------------------
Q 018574          259 ---------------KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT-------------------------  298 (354)
Q Consensus       259 ---------------~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~-------------------------  298 (354)
                                     .+..+.+.+-.....|+|||+-++++++.+|-.+.++...                         
T Consensus       355 k~~kG~~~~~~~~~s~i~kiVkmi~~~~~~PVIvFSFSkkeCE~~Alqm~kldfN~deEk~~V~~iF~nAi~~LseeDr~  434 (1041)
T KOG0948|consen  355 KGRKGGTGGKGPGDSDIYKIVKMIMERNYLPVIVFSFSKKECEAYALQMSKLDFNTDEEKELVETIFNNAIDQLSEEDRE  434 (1041)
T ss_pred             ccccCCcCCCCCCcccHHHHHHHHHhhcCCceEEEEecHhHHHHHHHhhccCcCCChhHHHHHHHHHHHHHHhcChhhcc
Confidence                           1112222333334468999999999999999888764211                         


Q ss_pred             --------------EEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEE
Q 018574          299 --------------VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFF  345 (354)
Q Consensus       299 --------------~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi  345 (354)
                                    ..++|+++=+--++.+.-.|.+|-+++|+||...+.|+|.|.-++|+
T Consensus       435 LPqie~iLPLL~RGIGIHHsGLLPIlKE~IEILFqEGLvKvLFATETFsiGLNMPAkTVvF  495 (1041)
T KOG0948|consen  435 LPQIENILPLLRRGIGIHHSGLLPILKEVIEILFQEGLVKVLFATETFSIGLNMPAKTVVF  495 (1041)
T ss_pred             chHHHHHHHHHHhccccccccchHHHHHHHHHHHhccHHHHHHhhhhhhhccCCcceeEEE
Confidence                          56789999888888888889999999999999999999999655543

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=99.87  E-value=7e-20  Score=170.80  Aligned_cols=282  Identities=15%  Similarity=0.212  Sum_probs=195.8

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHH-hccCcCeEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILA-IGDFINIQAH  133 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~-~~~~~~~~~~  133 (354)
                      ..+....+++..+.+++.++|.++||+|||+..-..+++.-.  ..+..+.+.=|.+--+..+++++.. ++...|-.+.
T Consensus        50 Pv~~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~--~~~g~I~~tQPRRlAArsvA~RvAeel~~~~G~~VG  127 (845)
T COG1643          50 PVTAVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGL--GIAGKIGCTQPRRLAARSVAERVAEELGEKLGETVG  127 (845)
T ss_pred             CcHHHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhc--ccCCeEEecCchHHHHHHHHHHHHHHhCCCcCceee
Confidence            457777888888899999999999999999877766666554  2233566667888666666666544 3333333332


Q ss_pred             EEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhh-ccC-cHHHHHHHHhhCCCCCcEEE
Q 018574          134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRG-FKDQIYDVYRYLPPDLQVVL  211 (354)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~-~~~-~~~~~~~i~~~~~~~~~~i~  211 (354)
                      +-.-..+      .....+.|-+.|.+.|.+.+.+... ++.+++||+||+|+=. +.+ ....+..++...+.+.++|.
T Consensus       128 Y~iRfe~------~~s~~Trik~mTdGiLlrei~~D~~-Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLKiIi  200 (845)
T COG1643         128 YSIRFES------KVSPRTRIKVMTDGILLREIQNDPL-LSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLKLII  200 (845)
T ss_pred             EEEEeec------cCCCCceeEEeccHHHHHHHhhCcc-cccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcCCCceEEE
Confidence            2211111      1223478999999999998886554 6789999999999742 222 23455666777777899999


Q ss_pred             EEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccc-hHHHHH---HHHhhCCCCcEEEEcCchhhHHH
Q 018574          212 ISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEW-KFDTLC---DLYDTLTITQAVIFCNTKRKVDW  287 (354)
Q Consensus       212 lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~---~~l~~~~~~~~lvf~~~~~~~~~  287 (354)
                      ||||+..+..   +.++.+.-.+.+....   ..+..+|......+. ..+.+.   ........|.+|||.+..++.+.
T Consensus       201 mSATld~~rf---s~~f~~apvi~i~GR~---fPVei~Y~~~~~~d~~l~~ai~~~v~~~~~~~~GdILvFLpG~~EI~~  274 (845)
T COG1643         201 MSATLDAERF---SAYFGNAPVIEIEGRT---YPVEIRYLPEAEADYILLDAIVAAVDIHLREGSGSILVFLPGQREIER  274 (845)
T ss_pred             EecccCHHHH---HHHcCCCCEEEecCCc---cceEEEecCCCCcchhHHHHHHHHHHHhccCCCCCEEEECCcHHHHHH
Confidence            9999977432   3455543333333331   122333322222222 223333   33334456889999999999999


Q ss_pred             HHHHHhc--C--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCC
Q 018574          288 LTEKMRG--Y--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFC  351 (354)
Q Consensus       288 l~~~l~~--~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~  351 (354)
                      +.+.|++  .  ...+..+||.++.+++.++++--..|+-+|+++|+++++++.||+++.||.-+.-+
T Consensus       275 ~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~rvF~p~~~~~RKVVlATNIAETSLTI~gIr~VIDsG~ak  342 (845)
T COG1643         275 TAEWLEKAELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLAK  342 (845)
T ss_pred             HHHHHHhccccCCcEEeeccccCCHHHHHhhcCCCCCCcceEEEEccccccceeeCCeEEEecCCccc
Confidence            9999987  3  47788999999999999998877777778999999999999999999999977643

>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]

Probab=99.86  E-value=2.9e-20  Score=170.77  Aligned_cols=280  Identities=20%  Similarity=0.229  Sum_probs=181.6

Q ss_pred             CChHHHHHhHhhhhcC----CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPIIKG----RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~----~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .+++-|..+++.+...    ...++.+.||||||.+|+-.+...+..++   .+|+++|-.+|..|+.++++...   +.
T Consensus       198 ~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~Gk---qvLvLVPEI~Ltpq~~~rf~~rF---g~  271 (730)
T COG1198         198 ALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGK---QVLVLVPEIALTPQLLARFKARF---GA  271 (730)
T ss_pred             ccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcCC---EEEEEeccccchHHHHHHHHHHh---CC
Confidence            5788999999988765    67899999999999999999988887664   59999999999999999998755   35


Q ss_pred             EEEEEeCCcchH---HhHHhhc-CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC------cHHHHHHHH
Q 018574          131 QAHACVGGKSVG---EDIRKLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG------FKDQIYDVY  200 (354)
Q Consensus       131 ~~~~~~~~~~~~---~~~~~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~------~~~~~~~i~  200 (354)
                      ++..++.+-+..   ..+.+.. ....|+|||-..+       ..++.++++||+||-|.-.-.+      ..+.+-.+.
T Consensus       272 ~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAl-------F~Pf~~LGLIIvDEEHD~sYKq~~~prYhARdvA~~R  344 (730)
T COG1198         272 KVAVLHSGLSPGERYRVWRRARRGEARVVIGTRSAL-------FLPFKNLGLIIVDEEHDSSYKQEDGPRYHARDVAVLR  344 (730)
T ss_pred             ChhhhcccCChHHHHHHHHHHhcCCceEEEEechhh-------cCchhhccEEEEeccccccccCCcCCCcCHHHHHHHH
Confidence            666666654433   3333443 5589999997665       4466799999999999753221      234444444


Q ss_pred             hhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEecccc------chHHHHHHHHhhC-CCC
Q 018574          201 RYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREE------WKFDTLCDLYDTL-TIT  273 (354)
Q Consensus       201 ~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~l~~~l~~~-~~~  273 (354)
                      ... .+.++++-|||+.-+..............+.-.......+.+.  +..+..+.      .....+..+-+.. .+.
T Consensus       345 a~~-~~~pvvLgSATPSLES~~~~~~g~y~~~~L~~R~~~a~~p~v~--iiDmr~e~~~~~~~lS~~Ll~~i~~~l~~ge  421 (730)
T COG1198         345 AKK-ENAPVVLGSATPSLESYANAESGKYKLLRLTNRAGRARLPRVE--IIDMRKEPLETGRSLSPALLEAIRKTLERGE  421 (730)
T ss_pred             HHH-hCCCEEEecCCCCHHHHHhhhcCceEEEEccccccccCCCcce--EEeccccccccCccCCHHHHHHHHHHHhcCC
Confidence            443 5778999999998766555533211111111111111122211  11111111      0122222222211 223


Q ss_pred             cEEEEcCchhhH------------------------------------------------------------HHHHHHHh
Q 018574          274 QAVIFCNTKRKV------------------------------------------------------------DWLTEKMR  293 (354)
Q Consensus       274 ~~lvf~~~~~~~------------------------------------------------------------~~l~~~l~  293 (354)
                      ++|+|.|.+..+                                                            +++.+.|+
T Consensus       422 Q~llflnRRGys~~l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~~L~~~G~GterieeeL~  501 (730)
T COG1198         422 QVLLFLNRRGYAPLLLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSEHLRAVGPGTERIEEELK  501 (730)
T ss_pred             eEEEEEccCCccceeecccCCCcccCCCCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCCeeEEecccHHHHHHHHH
Confidence            555555533322                                                            44444444


Q ss_pred             cC--CCeEEEeecCCCH--HHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCC
Q 018574          294 GY--NFTVSSMHGDMPQ--KERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       294 ~~--~~~~~~~~~~~~~--~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      +.  +.++..++++...  ..-+..++.|.+|+.+|||+|+++..|.|+|+++.|..+|.-
T Consensus       502 ~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD  562 (730)
T COG1198         502 RLFPGARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDAD  562 (730)
T ss_pred             HHCCCCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcCCCcccceEEEEEech
Confidence            43  4567777777654  334577899999999999999999999999999998877653

>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]

Probab=99.86  E-value=1.1e-20  Score=161.14  Aligned_cols=271  Identities=19%  Similarity=0.211  Sum_probs=182.3

Q ss_pred             CChHHHHHhHhhhhcC---CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeE
Q 018574           55 KPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQ  131 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~---~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~  131 (354)
                      +++|||.+.+.....+   +..+|..|+|+|||++-+.+++..      +..+|++|.+..-+.||.++++.+...-+-.
T Consensus       302 ~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~ti------kK~clvLcts~VSVeQWkqQfk~wsti~d~~  375 (776)
T KOG1123|consen  302 QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAACTI------KKSCLVLCTSAVSVEQWKQQFKQWSTIQDDQ  375 (776)
T ss_pred             ccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeeeee------cccEEEEecCccCHHHHHHHHHhhcccCccc
Confidence            6899999999887653   578999999999997665443322      2359999999999999999999998666666


Q ss_pred             EEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc--------CCccCCCccEEEEecchhhhccCcHHHHHHHHhhC
Q 018574          132 AHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR--------KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL  203 (354)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~--------~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~  203 (354)
                      ++.++.+...     ....++.|+|+|..++-.-..+        ..+....++++++||+|.+.+.-|++.+..+..++
T Consensus       376 i~rFTsd~Ke-----~~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEVHvvPA~MFRRVlsiv~aHc  450 (776)
T KOG1123|consen  376 ICRFTSDAKE-----RFPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHVVPAKMFRRVLSIVQAHC  450 (776)
T ss_pred             eEEeeccccc-----cCCCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEeehhccchHHHHHHHHHHHHHHh
Confidence            6666655432     2456789999999776532221        12234678999999999987777887777775554


Q ss_pred             CCCCcEEEEEeeCchhHHHHHH-hccCCCe---------------EEEecCC-------ccc----ccCc--eeEEEEec
Q 018574          204 PPDLQVVLISATLPHEILEMTT-KFMTDPV---------------KILVKRD-------ELT----LEGI--KQFFVAVE  254 (354)
Q Consensus       204 ~~~~~~i~lSaT~~~~~~~~~~-~~~~~~~---------------~~~~~~~-------~~~----~~~~--~~~~~~~~  254 (354)
                           .+++|||+-.+...+.. .|+-.|.               .-.....       +..    ....  +.....+.
T Consensus       451 -----KLGLTATLvREDdKI~DLNFLIGPKlYEAnWmdL~~kGhIA~VqCaEVWCpMt~eFy~eYL~~~t~kr~lLyvMN  525 (776)
T KOG1123|consen  451 -----KLGLTATLVREDDKITDLNFLIGPKLYEANWMDLQKKGHIAKVQCAEVWCPMTPEFYREYLRENTRKRMLLYVMN  525 (776)
T ss_pred             -----hccceeEEeeccccccccceeecchhhhccHHHHHhCCceeEEeeeeeecCCCHHHHHHHHhhhhhhhheeeecC
Confidence                 48999997433211111 0111110               0000000       000    0011  11111111


Q ss_pred             cccchHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhC-CCCcEEEEccc
Q 018574          255 REEWKFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRS-GTTRVLITTDV  331 (354)
Q Consensus       255 ~~~~~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~-g~~~vlv~T~~  331 (354)
                      +.  |.....-+++.+  .++|+|||..+.-...+++-.|.+     ..++|.+++.+|.++++.|+. ..++.++.+.+
T Consensus       526 P~--KFraCqfLI~~HE~RgDKiIVFsDnvfALk~YAikl~K-----pfIYG~Tsq~ERm~ILqnFq~n~~vNTIFlSKV  598 (776)
T KOG1123|consen  526 PN--KFRACQFLIKFHERRGDKIIVFSDNVFALKEYAIKLGK-----PFIYGPTSQNERMKILQNFQTNPKVNTIFLSKV  598 (776)
T ss_pred             cc--hhHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHcCC-----ceEECCCchhHHHHHHHhcccCCccceEEEeec
Confidence            11  343333333322  457999999998888888877754     567899999999999999985 46788999999


Q ss_pred             cccCCCcCCCcEEEecC
Q 018574          332 WARGLDVQQAILFFFLF  348 (354)
Q Consensus       332 ~~~Gidi~~~~~Vi~~~  348 (354)
                      ....+|+|.++++|...
T Consensus       599 gDtSiDLPEAnvLIQIS  615 (776)
T KOG1123|consen  599 GDTSIDLPEANVLIQIS  615 (776)
T ss_pred             cCccccCCcccEEEEEc
Confidence            99999999999999864

>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]

Probab=99.85  E-value=2.6e-19  Score=160.37  Aligned_cols=291  Identities=17%  Similarity=0.155  Sum_probs=190.3

Q ss_pred             CChHHHHHhHhhhhc----CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPIIK----GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .+.+||++.++++.+    +...|+-..+|.|||...+..+...........++|||||. ++..||..++..+...  +
T Consensus       205 ~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~-Tii~qW~~E~~~w~p~--~  281 (923)
T KOG0387|consen  205 KLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPA-TIIHQWMKEFQTWWPP--F  281 (923)
T ss_pred             HhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcccccCceEEEccH-HHHHHHHHHHHHhCcc--e
Confidence            579999999999875    56789999999999976655544444332333569999995 7889999999998765  5


Q ss_pred             EEEEEeCCcch--------HHhHH-----hhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHH
Q 018574          131 QAHACVGGKSV--------GEDIR-----KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIY  197 (354)
Q Consensus       131 ~~~~~~~~~~~--------~~~~~-----~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~  197 (354)
                      ++..+++....        .....     ....+..|+++|.+.+.-.  ...+....++++|+||.|.+-++.  ..+.
T Consensus       282 rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~--~d~l~~~~W~y~ILDEGH~IrNpn--s~is  357 (923)
T KOG0387|consen  282 RVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQ--GDDLLGILWDYVILDEGHRIRNPN--SKIS  357 (923)
T ss_pred             EEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhccc--CcccccccccEEEecCcccccCCc--cHHH
Confidence            55555554331        00111     1123467899998766332  234455678999999999997664  2222


Q ss_pred             HHHhhCCCCCcEEEEEeeCchhH-HHHHH---------------------------------------------------
Q 018574          198 DVYRYLPPDLQVVLISATLPHEI-LEMTT---------------------------------------------------  225 (354)
Q Consensus       198 ~i~~~~~~~~~~i~lSaT~~~~~-~~~~~---------------------------------------------------  225 (354)
                      .....+ +..+.+++|+||.+.. .++++                                                   
T Consensus       358 lackki-~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~~~f~~pI~~GgyaNAs~~qv~~aykca~~Lr~lI  436 (923)
T KOG0387|consen  358 LACKKI-RTVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQQNFEHPINRGGYANASPRQVQTAYKCAVALRDLI  436 (923)
T ss_pred             HHHHhc-cccceEEeeCccccchHHHHHHHhhhccCCcccchHHHHhhhhhheeccccCCCCHHHHHHHHHHHHHHHHHh
Confidence            223333 3445677888853321 11110                                                   


Q ss_pred             -hc-------------cCC-CeEEEecCC------------------------cc------------cccCcee------
Q 018574          226 -KF-------------MTD-PVKILVKRD------------------------EL------------TLEGIKQ------  248 (354)
Q Consensus       226 -~~-------------~~~-~~~~~~~~~------------------------~~------------~~~~~~~------  248 (354)
                       .|             +.. ...+.+..-                        ..            ..+.+..      
T Consensus       437 ~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~~fl~s~~v~~i~ng~~~~l~Gi~iLrkICnHPdll~~~~~~~  516 (923)
T KOG0387|consen  437 SPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQRFLNSSEVNKILNGKRNCLSGIDILRKICNHPDLLDRRDEDE  516 (923)
T ss_pred             HHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHHHHHHhhhHHHHHHHcCCccceechHHHHhhcCCcccccCccccc
Confidence             00             000 000000000                        00            0000000      


Q ss_pred             ----EEEEeccccchHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHh-cCCCeEEEeecCCCHHHHHHHHHHHhCC
Q 018574          249 ----FFVAVEREEWKFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMR-GYNFTVSSMHGDMPQKERDAIMGEFRSG  321 (354)
Q Consensus       249 ----~~~~~~~~~~~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~-~~~~~~~~~~~~~~~~~r~~~~~~f~~g  321 (354)
                          -+........++..+.++++.+  .+.++++|.+++....-+...|. .-++.+..++|.++...|..+++.|+++
T Consensus       517 ~~~~D~~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fne~  596 (923)
T KOG0387|consen  517 KQGPDYEGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFNED  596 (923)
T ss_pred             ccCCCcCCChhhcchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhhcCC
Confidence                0001111123677777777654  34689999999999999999998 4689999999999999999999999987


Q ss_pred             C-CcE-EEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          322 T-TRV-LITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       322 ~-~~v-lv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      + +.| |++|.+.+-|+|+..++.||.||.-|||
T Consensus       597 ~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNP  630 (923)
T KOG0387|consen  597 ESIFVFLLTTRVGGLGLNLTGANRVIIFDPDWNP  630 (923)
T ss_pred             CceEEEEEEecccccccccccCceEEEECCCCCC
Confidence            5 444 7778999999999999999999999987

>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]

Probab=99.84  E-value=7e-19  Score=155.60  Aligned_cols=275  Identities=14%  Similarity=0.209  Sum_probs=186.7

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHH-----HhccCcC
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVIL-----AIGDFIN  129 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~-----~~~~~~~  129 (354)
                      ..+.+-.+++..+.+++-+++.|+||+|||+..-..+...-... .+. +-+.=|++--+..++++..     .+++..+
T Consensus        51 PI~~~r~~il~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~-~g~-I~~TQPRRVAavslA~RVAeE~~~~lG~~VG  128 (674)
T KOG0922|consen   51 PIYKYRDQILYAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFAS-SGK-IACTQPRRVAAVSLAKRVAEEMGCQLGEEVG  128 (674)
T ss_pred             CHHHHHHHHHHHHHHCCEEEEEcCCCCCccccHhHHHHhccccc-CCc-EEeecCchHHHHHHHHHHHHHhCCCcCceee
Confidence            55677778999999999999999999999976655555443333 233 6666688755554444432     2333344


Q ss_pred             eEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc--CcHHHHHHHHhhCCCCC
Q 018574          130 IQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR--GFKDQIYDVYRYLPPDL  207 (354)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~--~~~~~~~~i~~~~~~~~  207 (354)
                      ..+.+-....          ..+.|.+.|.+.|++.+..... ++++++||+||||.-.-.  -....++.+.+. +++.
T Consensus       129 Y~IRFed~ts----------~~TrikymTDG~LLRE~l~Dp~-LskYsvIIlDEAHERsl~TDiLlGlLKki~~~-R~~L  196 (674)
T KOG0922|consen  129 YTIRFEDSTS----------KDTRIKYMTDGMLLREILKDPL-LSKYSVIILDEAHERSLHTDILLGLLKKILKK-RPDL  196 (674)
T ss_pred             eEEEecccCC----------CceeEEEecchHHHHHHhcCCc-cccccEEEEechhhhhhHHHHHHHHHHHHHhc-CCCc
Confidence            4443322111          1378999999999987765443 578999999999963211  122344444443 3567


Q ss_pred             cEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccch---HHHHHHHHhhCCCCcEEEEcCchhh
Q 018574          208 QVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK---FDTLCDLYDTLTITQAVIFCNTKRK  284 (354)
Q Consensus       208 ~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~l~~~l~~~~~~~~lvf~~~~~~  284 (354)
                      +++.+|||+..+.   .+.|+.....+.+....   ..+...|..-+..++-   +..+.++....+.+.+|||....++
T Consensus       197 klIimSATlda~k---fS~yF~~a~i~~i~GR~---fPVei~y~~~p~~dYv~a~~~tv~~Ih~~E~~GDILvFLtGqeE  270 (674)
T KOG0922|consen  197 KLIIMSATLDAEK---FSEYFNNAPILTIPGRT---FPVEILYLKEPTADYVDAALITVIQIHLTEPPGDILVFLTGQEE  270 (674)
T ss_pred             eEEEEeeeecHHH---HHHHhcCCceEeecCCC---CceeEEeccCCchhhHHHHHHHHHHHHccCCCCCEEEEeCCHHH
Confidence            8999999997543   33455543233333321   1233444443333333   3334444445667899999999999


Q ss_pred             HHHHHHHHhcC----C----CeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          285 VDWLTEKMRGY----N----FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       285 ~~~l~~~l~~~----~----~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      .+.+.+.|.+.    +    ..+..+||.++.+++.++++.-..|.-+|+++|+++++.+.||.+..||+-|+
T Consensus       271 Ie~~~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rvF~p~p~g~RKvIlsTNIAETSlTI~GI~YVVDsG~  343 (674)
T KOG0922|consen  271 IEAACELLRERAKSLPEDCPELILPLYGALPSEEQSRVFDPAPPGKRKVILSTNIAETSLTIDGIRYVVDSGF  343 (674)
T ss_pred             HHHHHHHHHHHhhhccccCcceeeeecccCCHHHhhccccCCCCCcceEEEEcceeeeeEEecceEEEEcCCc
Confidence            99999999765    1    12467999999999999998888899999999999999999999999998775

>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated

Probab=99.83  E-value=4.3e-18  Score=162.25  Aligned_cols=287  Identities=16%  Similarity=0.184  Sum_probs=174.4

Q ss_pred             CCCCCChHHHHHhHhhhh----cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHH-HHHHHHhc
Q 018574           51 YGFEKPSAIQQRAVMPII----KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQT-EKVILAIG  125 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~----~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~-~~~~~~~~  125 (354)
                      -|| +.|+.|.+....+.    .++.+++.|+||+|||++|++|++...    .+.+++|.+||++|+.|. .+.+..+.
T Consensus       242 ~~~-e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~----~~~~vvI~t~T~~Lq~Ql~~~~i~~l~  316 (820)
T PRK07246        242 LGL-EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS----DQRQIIVSVPTKILQDQIMAEEVKAIQ  316 (820)
T ss_pred             CCC-ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc----CCCcEEEEeCcHHHHHHHHHHHHHHHH
Confidence            455 78999998555443    478899999999999999999988754    245799999999999999 46677666


Q ss_pred             cCcCeEEEEEeCCcchH-----------------------------------------------HhHHh-----------
Q 018574          126 DFINIQAHACVGGKSVG-----------------------------------------------EDIRK-----------  147 (354)
Q Consensus       126 ~~~~~~~~~~~~~~~~~-----------------------------------------------~~~~~-----------  147 (354)
                      ...++++..+.|+.+.-                                               ..+..           
T Consensus       317 ~~~~~~~~~~kg~~~ylcl~k~~~~l~~~~~~~~~~~~~~~il~Wl~~T~tGD~~El~~~~~~~~~w~~i~~~~~~~~~c  396 (820)
T PRK07246        317 EVFHIDCHSLKGPQNYLKLDAFYDSLQQNDDNRLVNRYKMQLLVWLTETETGDLDEIKQKQRYAAYFDQLKHDGNLSQSS  396 (820)
T ss_pred             HhcCCcEEEEECCcccccHHHHHHHhhccCcchHHHHHHHHHHHHHhcCCCCCHhhccCCccccHHHHHhhccCCCCCCC
Confidence            66666666555542210                                               00000           


Q ss_pred             -------------hcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-----c-------HHH-------
Q 018574          148 -------------LEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-----F-------KDQ-------  195 (354)
Q Consensus       148 -------------~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-----~-------~~~-------  195 (354)
                                   -...++|+|+++..|...+..... +...+.+||||||++.+..     .       ...       
T Consensus       397 p~~~~cf~~~ar~~a~~AdivItNHall~~~~~~~~~-~p~~~~lIiDEAH~l~~~~~~~~~~~~~~~~~~~~l~~~~~~  475 (820)
T PRK07246        397 LFYDYDFWKRSYEKAKTARLLITNHAYFLTRVQDDKD-FARNKVLVFDEAQKLMLQLEQLSRHQLNITSFLQTIQKALSG  475 (820)
T ss_pred             CcchhhHHHHHHHHHHhCCEEEEchHHHHHHHhhccC-CCCCCEEEEECcchhHHHHHHHhcceecHHHHHHHHHHHHHH
Confidence                         011367999999888775543322 3568999999999974211     0       000       


Q ss_pred             -------------------------------------------H-----------HHHHhh------C------------
Q 018574          196 -------------------------------------------I-----------YDVYRY------L------------  203 (354)
Q Consensus       196 -------------------------------------------~-----------~~i~~~------~------------  203 (354)
                                                                 +           ..++..      +            
T Consensus       476 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~~~~~~~~~~~~~~~~~~W~e~~~~~~~~~~~  555 (820)
T PRK07246        476 PLPLLQKRLLESISFELLQLSEQFYQGKERQLIHDSLSRLHQYFSELEVAGFQELQAFFATAEGDYWLESEKQSEKRVTY  555 (820)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEecCCCCcceeE
Confidence                                                       0           000000      0            


Q ss_pred             ---------------CCCCcEEEEEeeCc--hhHHHHHHhccCCCeEEEecCCcccccCceeEEEE--eccc-----cch
Q 018574          204 ---------------PPDLQVVLISATLP--HEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVA--VERE-----EWK  259 (354)
Q Consensus       204 ---------------~~~~~~i~lSaT~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~-----~~~  259 (354)
                                     +....++++|||+.  +.. .+ ...++-......... .....-...+..  .+..     ...
T Consensus       556 l~~~pl~v~~~~~~~~~~~~~i~tSATL~v~~~f-~~-~~~lGl~~~~~~~~~-~~~~~~~~~~i~~~~p~~~~~~~~~~  632 (820)
T PRK07246        556 LNSASKAFTHFSQLLPETCKTYFVSATLQISPRV-SL-ADLLGFEEYLFHKIE-KDKKQDQLVVVDQDMPLVTETSDEVY  632 (820)
T ss_pred             EEeeeCcHHHHHHHHhcCCeEEEEecccccCCCC-cH-HHHcCCCccceecCC-CChHHccEEEeCCCCCCCCCCChHHH
Confidence                           01146788888884  222 22 222221111110000 111111111111  1110     111


Q ss_pred             ----HHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccC
Q 018574          260 ----FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARG  335 (354)
Q Consensus       260 ----~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~G  335 (354)
                          .+.+..+.  ...++++|+++|.+..+.+++.|....... ..-|...  .+..+++.|++++..||++|..+++|
T Consensus       633 ~~~~~~~i~~~~--~~~g~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~~~vLlG~~sFwEG  707 (820)
T PRK07246        633 AEEIAKRLEELK--QLQQPILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGEQQILLGLGSFWEG  707 (820)
T ss_pred             HHHHHHHHHHHH--hcCCCEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCCCeEEEecchhhCC
Confidence                12222333  346899999999999999999997654444 3334222  35668999999989999999999999


Q ss_pred             CCcC--CCcEEEecCCCC
Q 018574          336 LDVQ--QAILFFFLFLFC  351 (354)
Q Consensus       336 idi~--~~~~Vi~~~~p~  351 (354)
                      +|+|  ....||...+|-
T Consensus       708 VD~p~~~~~~viI~kLPF  725 (820)
T PRK07246        708 VDFVQADRMIEVITRLPF  725 (820)
T ss_pred             CCCCCCCeEEEEEecCCC
Confidence            9997  466778888884

>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]

Probab=99.83  E-value=3.2e-19  Score=163.13  Aligned_cols=288  Identities=16%  Similarity=0.232  Sum_probs=194.4

Q ss_pred             HHHHCCCCCChHHHHHhH--hhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           47 GIYQYGFEKPSAIQQRAV--MPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        47 ~l~~~~~~~~~~~Q~~~~--~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      ..+..|...++.||.+.+  +.++++++.+..+||+.|||+++-+.++..+....  +.++.+.|..+.+..-...+..+
T Consensus       215 ~~~~kgi~~~fewq~ecls~~~~~e~~nliys~Pts~gktlvaeilml~~~l~~r--r~~llilp~vsiv~Ek~~~l~~~  292 (1008)
T KOG0950|consen  215 YAKDKGILKLFEWQAECLSLPRLLERKNLIYSLPTSAGKTLVAEILMLREVLCRR--RNVLLILPYVSIVQEKISALSPF  292 (1008)
T ss_pred             HHHhhhHHHHHHHHHHHhcchhhhcccceEEeCCCccchHHHHHHHHHHHHHHHh--hceeEecceeehhHHHHhhhhhh
Confidence            445578889999998876  46778999999999999999999988887776543  35899999999999888888888


Q ss_pred             ccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc--CCccCCCccEEEEecchhhhccCcHHHHHHHHhh
Q 018574          125 GDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR--KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY  202 (354)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~--~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~  202 (354)
                      ....|+.+....|......    ..+.-.+.|+|.++-..+...  ..-....+++|||||.|.+.+.+-+..+..++..
T Consensus       293 ~~~~G~~ve~y~g~~~p~~----~~k~~sv~i~tiEkanslin~lie~g~~~~~g~vvVdElhmi~d~~rg~~lE~~l~k  368 (1008)
T KOG0950|consen  293 SIDLGFPVEEYAGRFPPEK----RRKRESVAIATIEKANSLINSLIEQGRLDFLGMVVVDELHMIGDKGRGAILELLLAK  368 (1008)
T ss_pred             ccccCCcchhhcccCCCCC----cccceeeeeeehHhhHhHHHHHHhcCCccccCcEEEeeeeeeeccccchHHHHHHHH
Confidence            8888888876665443322    223357999998876544332  2223457899999999999888766666655543


Q ss_pred             C-----CCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccc-cCc--eeEEEEeccccchHHHHHHHH-------
Q 018574          203 L-----PPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTL-EGI--KQFFVAVEREEWKFDTLCDLY-------  267 (354)
Q Consensus       203 ~-----~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~--~~~~~~~~~~~~~~~~l~~~l-------  267 (354)
                      +     ....|+++||||+++.  .....++....... ....... +.+  ........    +...+..+-       
T Consensus       369 ~~y~~~~~~~~iIGMSATi~N~--~lL~~~L~A~~y~t-~fRPv~L~E~ik~G~~i~~~~----r~~~lr~ia~l~~~~~  441 (1008)
T KOG0950|consen  369 ILYENLETSVQIIGMSATIPNN--SLLQDWLDAFVYTT-RFRPVPLKEYIKPGSLIYESS----RNKVLREIANLYSSNL  441 (1008)
T ss_pred             HHHhccccceeEeeeecccCCh--HHHHHHhhhhheec-ccCcccchhccCCCcccccch----hhHHHHHhhhhhhhhc
Confidence            3     2345799999999762  22222222111110 0000000 000  00000000    111111111       


Q ss_pred             -------------hhCCC-CcEEEEcCchhhHHHHHHHHhcC--------------------------------------
Q 018574          268 -------------DTLTI-TQAVIFCNTKRKVDWLTEKMRGY--------------------------------------  295 (354)
Q Consensus       268 -------------~~~~~-~~~lvf~~~~~~~~~l~~~l~~~--------------------------------------  295 (354)
                                   +..+. ..+||||++++.++.++..+...                                      
T Consensus       442 g~~dpD~~v~L~tet~~e~~~~lvfc~sk~~ce~~a~~~~~~vpk~~~~e~~~~~~~~~s~s~~lr~~~~~ld~Vl~~ti  521 (1008)
T KOG0950|consen  442 GDEDPDHLVGLCTETAPEGSSVLVFCPSKKNCENVASLIAKKVPKHIKSEKRLGLWELLSISNLLRRIPGILDPVLAKTI  521 (1008)
T ss_pred             ccCCCcceeeehhhhhhcCCeEEEEcCcccchHHHHHHHHHHhhHhhhhhhhhhHHHHHHHHhHhhcCCcccchHHheec
Confidence                         11112 35999999999998887655320                                      


Q ss_pred             CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEec
Q 018574          296 NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFL  347 (354)
Q Consensus       296 ~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~  347 (354)
                      ...+..+|++++.++|+.+...|++|...|+.+|+.+..|+++|..+++|-.
T Consensus       522 ~~GvAyHhaGLT~eER~~iE~afr~g~i~vl~aTSTlaaGVNLPArRVIira  573 (1008)
T KOG0950|consen  522 PYGVAYHHAGLTSEEREIIEAAFREGNIFVLVATSTLAAGVNLPARRVIIRA  573 (1008)
T ss_pred             cccceecccccccchHHHHHHHHHhcCeEEEEecchhhccCcCCcceeEEeC
Confidence            1337788999999999999999999999999999999999999988877753

>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]

Probab=99.82  E-value=2.4e-18  Score=148.26  Aligned_cols=138  Identities=22%  Similarity=0.250  Sum_probs=103.6

Q ss_pred             CcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhh--CCCCcEEEEcCchhh
Q 018574          207 LQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT--LTITQAVIFCNTKRK  284 (354)
Q Consensus       207 ~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~--~~~~~~lvf~~~~~~  284 (354)
                      .|++++||||.+...+...   +......+.+...-.+.     ..+.+....++.|..-++.  ..+.+++|-+-|++.
T Consensus       387 ~q~i~VSATPg~~E~e~s~---~~vveQiIRPTGLlDP~-----ievRp~~~QvdDL~~EI~~r~~~~eRvLVTtLTKkm  458 (663)
T COG0556         387 PQTIYVSATPGDYELEQSG---GNVVEQIIRPTGLLDPE-----IEVRPTKGQVDDLLSEIRKRVAKNERVLVTTLTKKM  458 (663)
T ss_pred             CCEEEEECCCChHHHHhcc---CceeEEeecCCCCCCCc-----eeeecCCCcHHHHHHHHHHHHhcCCeEEEEeehHHH
Confidence            6999999999876444322   11222222222221121     2222333355555554443  345799999999999


Q ss_pred             HHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCC
Q 018574          285 VDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN  352 (354)
Q Consensus       285 ~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s  352 (354)
                      |+.+.++|.+.|+++..+|++...-+|.+++++++.|.++|||+.+.+.+|+|+|.|..|..+|.-+-
T Consensus       459 AEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G~~DvLVGINLLREGLDiPEVsLVAIlDADKe  526 (663)
T COG0556         459 AEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKE  526 (663)
T ss_pred             HHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhcCCccEEEeehhhhccCCCcceeEEEEeecCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999987553

>COG4889 Predicted helicase [General function prediction only]

Probab=99.81  E-value=9.3e-20  Score=164.73  Aligned_cols=317  Identities=17%  Similarity=0.204  Sum_probs=192.0

Q ss_pred             cccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcC----CcEEEEcCCCCchhhHhHHHHhhccccCCCceeE
Q 018574           29 VEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG----RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQA  104 (354)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~----~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~  104 (354)
                      .++--.|+.+.. .++..++.-..-.+|+|||+.++++..+|    .+.=+.++||+|||+..+-..-+...     .++
T Consensus       136 ~es~IDW~~f~p-~e~~~nl~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala~-----~~i  209 (1518)
T COG4889         136 AESPIDWDIFDP-TELQDNLPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALAA-----ARI  209 (1518)
T ss_pred             hcCCCChhhcCc-cccccccccCCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHhh-----hhe
Confidence            344456666543 35556666666668999999999988764    56677899999999888765544332     469


Q ss_pred             EEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHH-----------------------hHHhh--cCCCeEEEeCc
Q 018574          105 LILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE-----------------------DIRKL--EHGVHVVSGTP  159 (354)
Q Consensus       105 lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~~~~--~~~~~iiv~T~  159 (354)
                      |+++|+.+|..|...+...-. ...++...++.+.....                       .+...  ..+--|+++|.
T Consensus       210 L~LvPSIsLLsQTlrew~~~~-~l~~~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTY  288 (1518)
T COG4889         210 LFLVPSISLLSQTLREWTAQK-ELDFRASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTY  288 (1518)
T ss_pred             EeecchHHHHHHHHHHHhhcc-CccceeEEEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEEEcc
Confidence            999999999999888776543 33444444333322110                       11111  12346899999


Q ss_pred             HHHHHHHhcCCccCCCccEEEEecchhhhccCcH-HHHHHHHhhCC-----CCCcEEEEEeeCchhHHHHHH--------
Q 018574          160 GRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFK-DQIYDVYRYLP-----PDLQVVLISATLPHEILEMTT--------  225 (354)
Q Consensus       160 ~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~-~~~~~i~~~~~-----~~~~~i~lSaT~~~~~~~~~~--------  225 (354)
                      +++....+....-+..+++||.||||+....... ..-..+ ..+.     +..+.+.|||||.-..+....        
T Consensus       289 QSl~~i~eAQe~G~~~fDliicDEAHRTtGa~~a~dd~saF-t~vHs~~niKa~kRlYmTATPkiy~eS~K~kAkd~s~~  367 (1518)
T COG4889         289 QSLPRIKEAQEAGLDEFDLIICDEAHRTTGATLAGDDKSAF-TRVHSDQNIKAAKRLYMTATPKIYSESSKAKAKDHSAE  367 (1518)
T ss_pred             cchHHHHHHHHcCCCCccEEEecchhccccceecccCcccc-eeecCcchhHHHHhhhcccCchhhchhhhhhhhhccce
Confidence            9999888877777788999999999986422111 000001 1110     234568899997422111111        


Q ss_pred             -------------------------hccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCC---------
Q 018574          226 -------------------------KFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT---------  271 (354)
Q Consensus       226 -------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~---------  271 (354)
                                               -++.+...+....++.......+....-+......+...+++..+.         
T Consensus       368 l~SMDDe~~fGeef~rl~FgeAv~rdlLTDYKVmvlaVd~~~i~~~~~~~~~~~~~~L~~dd~~kIvG~wnGlakr~g~~  447 (1518)
T COG4889         368 LSSMDDELTFGEEFHRLGFGEAVERDLLTDYKVMVLAVDKEVIAGVLQSVLSGPSKGLALDDVSKIVGCWNGLAKRNGED  447 (1518)
T ss_pred             eeccchhhhhchhhhcccHHHHHHhhhhccceEEEEEechhhhhhhhhhhccCcccccchhhhhhhhhhhhhhhhhcccc
Confidence                                     0111121122111111111111111111111223344433332221         


Q ss_pred             ------------CCcEEEEcCchhhHHHHHHHHhc---------------CCCeEEEeecCCCHHHHHHHHH---HHhCC
Q 018574          272 ------------ITQAVIFCNTKRKVDWLTEKMRG---------------YNFTVSSMHGDMPQKERDAIMG---EFRSG  321 (354)
Q Consensus       272 ------------~~~~lvf~~~~~~~~~l~~~l~~---------------~~~~~~~~~~~~~~~~r~~~~~---~f~~g  321 (354)
                                  ..+.|-||.++++..++++.+..               +.+.+..++|.|+..+|....+   .|...
T Consensus       448 n~~~~~~~d~ap~~RAIaF~k~I~tSK~i~~sFe~Vve~Y~~Elk~d~~nL~iSi~HvDGtmNal~R~~l~~l~~~~~~n  527 (1518)
T COG4889         448 NDLKNIKADTAPMQRAIAFAKDIKTSKQIAESFETVVEAYDEELKKDFKNLKISIDHVDGTMNALERLDLLELKNTFEPN  527 (1518)
T ss_pred             ccccCCcCCchHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEeecccccccHHHHHHHHhccCCCCcc
Confidence                        13689999999998888876642               2345667789999999865543   34556


Q ss_pred             CCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          322 TTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       322 ~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +.+||-....+++|+|+|.++.|||||.-+|+
T Consensus       528 eckIlSNaRcLSEGVDVPaLDsViFf~pr~sm  559 (1518)
T COG4889         528 ECKILSNARCLSEGVDVPALDSVIFFDPRSSM  559 (1518)
T ss_pred             hheeeccchhhhcCCCccccceEEEecCchhH
Confidence            78888888999999999999999999977664

>PRK12326 preprotein translocase subunit SecA; Reviewed

Probab=99.80  E-value=2.7e-17  Score=149.24  Aligned_cols=275  Identities=14%  Similarity=0.201  Sum_probs=185.3

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+ .|++.|.-..-.+++|  -+..+.||.|||+++.+++......+.   .+-+++|+.-|+.|-++.+..+...+++
T Consensus        75 lg~-r~ydvQlig~l~Ll~G--~VaEM~TGEGKTLvA~l~a~l~AL~G~---~VhvvT~NdyLA~RDae~m~~ly~~LGL  148 (764)
T PRK12326         75 LGL-RPFDVQLLGALRLLAG--DVIEMATGEGKTLAGAIAAAGYALQGR---RVHVITVNDYLARRDAEWMGPLYEALGL  148 (764)
T ss_pred             cCC-CcchHHHHHHHHHhCC--CcccccCCCCHHHHHHHHHHHHHHcCC---CeEEEcCCHHHHHHHHHHHHHHHHhcCC
Confidence            455 7888888777777766  477999999999999998887776554   4999999999999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHH-HHHhcC------CccCCCccEEEEecchhhhccC------------
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVC-DMIKRK------TLRTRAIKLLVLDESDEMLSRG------------  191 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~-~~~~~~------~~~~~~~~~vvvDE~h~~~~~~------------  191 (354)
                      ++..+.++.+..+....+  .++|+++|...+- ++++..      ......+.+.||||+|.++-..            
T Consensus       149 svg~i~~~~~~~err~aY--~~DItYgTn~e~gFDyLRDnm~~~~~~~v~R~~~faIVDEvDSiLIDeArtPLiISg~~~  226 (764)
T PRK12326        149 TVGWITEESTPEERRAAY--ACDVTYASVNEIGFDVLRDQLVTDVADLVSPNPDVAIIDEADSVLVDEALVPLVLAGSTP  226 (764)
T ss_pred             EEEEECCCCCHHHHHHHH--cCCCEEcCCcccccccchhhhccChHhhcCCccceeeecchhhheeccccCceeeeCCCc
Confidence            999988877655544444  4899999987652 333321      2233568899999999863111            


Q ss_pred             ---cHHHHHHHHhhCCCC--------------------------------------------------------------
Q 018574          192 ---FKDQIYDVYRYLPPD--------------------------------------------------------------  206 (354)
Q Consensus       192 ---~~~~~~~i~~~~~~~--------------------------------------------------------------  206 (354)
                         ....+..+...+..+                                                              
T Consensus       227 ~~~~y~~~~~~v~~L~~~~dy~ide~~k~v~LTe~G~~~~e~~l~~~~ly~~~~~~~~~~~i~~AL~A~~l~~~d~dYiV  306 (764)
T PRK12326        227 GEAPRGEIAELVRRLREGKDYEIDDDGRNVHLTDKGARKVEKALGGIDLYSEEHVGTTLTQVNVALHAHALLQRDVHYIV  306 (764)
T ss_pred             chhHHHHHHHHHHhcCcCCcEEEEcCCCeeEecHHHHHHHHHHcCCccccCcchhHHHHHHHHHHHHHHHHHhcCCcEEE
Confidence               111122222222100                                                              


Q ss_pred             --------------------------------------------------------CcEEEEEeeCchhHHHHHHhccCC
Q 018574          207 --------------------------------------------------------LQVVLISATLPHEILEMTTKFMTD  230 (354)
Q Consensus       207 --------------------------------------------------------~~~i~lSaT~~~~~~~~~~~~~~~  230 (354)
                                                                              .++.+||+|......++.+.|-.+
T Consensus       307 ~dgeV~iVDe~TGRvm~grrwsdGLHQaIEaKE~v~i~~e~~t~AsIT~QnfFr~Y~kLsGMTGTa~t~~~Ef~~iY~l~  386 (764)
T PRK12326        307 RDGKVHLINASRGRIAQLQRWPDGLQAAVEAKEGLETTETGEVLDTITVQALIGRYPTVCGMTGTAVAAGEQLRQFYDLG  386 (764)
T ss_pred             ECCEEEEEECCCCCcCCCCccChHHHHHHHHHcCCCCCCCceeeehhhHHHHHHhcchheeecCCChhHHHHHHHHhCCc
Confidence                                                                    467788888876666666555544


Q ss_pred             CeEEEecCCcccccCceeEEEEeccccchHHHHHHHH-hh-CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCH
Q 018574          231 PVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY-DT-LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQ  308 (354)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l-~~-~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  308 (354)
                      ...+....+..........|..   ...+...+.+-+ +. ..+.|+||.|.+++.++.++..|.+.++++.++++....
T Consensus       387 Vv~IPtnkp~~R~d~~d~iy~t---~~~k~~Aii~ei~~~~~~GrPVLVgt~sI~~SE~ls~~L~~~gI~h~vLNAk~~~  463 (764)
T PRK12326        387 VSVIPPNKPNIREDEADRVYAT---AAEKNDAIVEHIAEVHETGQPVLVGTHDVAESEELAERLRAAGVPAVVLNAKNDA  463 (764)
T ss_pred             EEECCCCCCceeecCCCceEeC---HHHHHHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHhCCCcceeeccCchH
Confidence            3332222221111111122221   222444444443 32 356799999999999999999999999999999987443


Q ss_pred             HHHHHHHHHHhCC-CCcEEEEccccccCCCcC
Q 018574          309 KERDAIMGEFRSG-TTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       309 ~~r~~~~~~f~~g-~~~vlv~T~~~~~Gidi~  339 (354)
                      .+ .+++.  ..| ...|-|+|+++++|.||.
T Consensus       464 ~E-A~IIa--~AG~~gaVTIATNMAGRGTDIk  492 (764)
T PRK12326        464 EE-ARIIA--EAGKYGAVTVSTQMAGRGTDIR  492 (764)
T ss_pred             hH-HHHHH--hcCCCCcEEEEecCCCCccCee
Confidence            22 33333  345 467999999999999996

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=99.80  E-value=3.6e-18  Score=130.25  Aligned_cols=144  Identities=35%  Similarity=0.523  Sum_probs=111.7

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      +++++.+|||+|||..++..+.+..... ...+++|++|+..++.|+.+.+...... +..+..+.+.............
T Consensus         1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~-~~~~~lv~~p~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~   78 (144)
T cd00046           1 RDVLLAAPTGSGKTLAALLPILELLDSL-KGGQVLVLAPTRELANQVAERLKELFGE-GIKVGYLIGGTSIKQQEKLLSG   78 (144)
T ss_pred             CCEEEECCCCCchhHHHHHHHHHHHhcc-cCCCEEEEcCcHHHHHHHHHHHHHHhhC-CcEEEEEecCcchhHHHHHhcC
Confidence            4689999999999999998888776653 3457999999999999999999887765 5677777776655555444566


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeC
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATL  216 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~  216 (354)
                      ..+++++|++.+.............++++|+||+|.+....................+++++|||+
T Consensus        79 ~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~~~~~~~~~~~~~~~~~~~i~~saTp  144 (144)
T cd00046          79 KTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKDRQVLLLSATP  144 (144)
T ss_pred             CCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcchHHHHHHHHhhCCccceEEEEeccC
Confidence            789999999999887776655566789999999999977654443222334445678899999996

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>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=99.80  E-value=1.1e-18  Score=139.38  Aligned_cols=152  Identities=19%  Similarity=0.175  Sum_probs=103.3

Q ss_pred             CChHHHHHhHhhhhc-------CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccC
Q 018574           55 KPSAIQQRAVMPIIK-------GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDF  127 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~-------~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~  127 (354)
                      +|+++|.+++..+..       .+++++.+|||+|||.+++..+.....      ++++++|+.+|..|+.+.+..+...
T Consensus         3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~------~~l~~~p~~~l~~Q~~~~~~~~~~~   76 (184)
T PF04851_consen    3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR------KVLIVAPNISLLEQWYDEFDDFGSE   76 (184)
T ss_dssp             EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC------EEEEEESSHHHHHHHHHHHHHHSTT
T ss_pred             CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc------ceeEecCHHHHHHHHHHHHHHhhhh
Confidence            689999999999884       589999999999999888865555543      6999999999999999999766643


Q ss_pred             cCeEEEE-----------EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC-----------CccCCCccEEEEecch
Q 018574          128 INIQAHA-----------CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK-----------TLRTRAIKLLVLDESD  185 (354)
Q Consensus       128 ~~~~~~~-----------~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~-----------~~~~~~~~~vvvDE~h  185 (354)
                      .......           ..................+++++|.+.+.......           ......+++||+||||
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEaH  156 (184)
T PF04851_consen   77 KYNFFEKSIKPAYDSKEFISIQDDISDKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEAH  156 (184)
T ss_dssp             SEEEEE--GGGCCE-SEEETTTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETGG
T ss_pred             hhhhcccccccccccccccccccccccccccccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehhh
Confidence            2211110           01111111222233456789999999998765431           1223567899999999


Q ss_pred             hhhccCcHHHHHHHHhhCCCCCcEEEEEeeCc
Q 018574          186 EMLSRGFKDQIYDVYRYLPPDLQVVLISATLP  217 (354)
Q Consensus       186 ~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~  217 (354)
                      ++.....   +..+..  .....+++|||||.
T Consensus       157 ~~~~~~~---~~~i~~--~~~~~~l~lTATp~  183 (184)
T PF04851_consen  157 HYPSDSS---YREIIE--FKAAFILGLTATPF  183 (184)
T ss_dssp             CTHHHHH---HHHHHH--SSCCEEEEEESS-S
T ss_pred             hcCCHHH---HHHHHc--CCCCeEEEEEeCcc
Confidence            9865441   334444  46777999999985

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 ....

>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4

Probab=99.79  E-value=1.2e-16  Score=145.99  Aligned_cols=89  Identities=8%  Similarity=0.022  Sum_probs=65.7

Q ss_pred             HHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhC----CCCcEEEEccccccCC
Q 018574          261 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRS----GTTRVLITTDVWARGL  336 (354)
Q Consensus       261 ~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~----g~~~vlv~T~~~~~Gi  336 (354)
                      +.+..++.. ..|+++|.+.|...++.+++.|+..-.....+.|+.+  .+...+++|++    |...||++|..+++|+
T Consensus       460 ~~~~~~~~~-~~G~~lvLfTS~~~~~~~~~~l~~~l~~~~l~qg~~~--~~~~l~~~f~~~~~~~~~~vL~gt~sfweGv  536 (636)
T TIGR03117       460 LSTAAILRK-AQGGTLVLTTAFSHISAIGQLVELGIPAEIVIQSEKN--RLASAEQQFLALYANGIQPVLIAAGGAWTGI  536 (636)
T ss_pred             HHHHHHHHH-cCCCEEEEechHHHHHHHHHHHHhhcCCCEEEeCCCc--cHHHHHHHHHHhhcCCCCcEEEeCCcccccc
Confidence            334444443 3479999999999999999999753223344445432  45667888887    4789999999999999


Q ss_pred             Cc----------CCCcEEEecCCCCC
Q 018574          337 DV----------QQAILFFFLFLFCN  352 (354)
Q Consensus       337 di----------~~~~~Vi~~~~p~s  352 (354)
                      |+          ..+++||..-+|..
T Consensus       537 Dv~~~~~~p~~G~~Ls~ViI~kLPF~  562 (636)
T TIGR03117       537 DLTHKPVSPDKDNLLTDLIITCAPFG  562 (636)
T ss_pred             ccCCccCCCCCCCcccEEEEEeCCCC
Confidence            99          35889999888853

Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.

>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]

Probab=99.79  E-value=7.7e-17  Score=137.59  Aligned_cols=288  Identities=15%  Similarity=0.152  Sum_probs=187.6

Q ss_pred             CCChHHHHHhHhhhh-cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEE
Q 018574           54 EKPSAIQQRAVMPII-KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQA  132 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~-~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~  132 (354)
                      ..+-|+|++-+...+ +|.++++...+|.|||..++..+..+....    ..||+||. ++...|++.++++...... +
T Consensus       197 s~LlPFQreGv~faL~RgGR~llADeMGLGKTiQAlaIA~yyraEw----plliVcPA-svrftWa~al~r~lps~~p-i  270 (689)
T KOG1000|consen  197 SRLLPFQREGVIFALERGGRILLADEMGLGKTIQALAIARYYRAEW----PLLIVCPA-SVRFTWAKALNRFLPSIHP-I  270 (689)
T ss_pred             HhhCchhhhhHHHHHhcCCeEEEecccccchHHHHHHHHHHHhhcC----cEEEEecH-HHhHHHHHHHHHhcccccc-e
Confidence            456899999887655 578999999999999987776655554333    38999995 7778899999998755433 2


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEE
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLI  212 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~l  212 (354)
                      ....++.+.-.   .+.....|.|.+.+.+..+..  -+.-..+++||+||+|.+-+.. ....+.+...+.....++++
T Consensus       271 ~vv~~~~D~~~---~~~t~~~v~ivSye~ls~l~~--~l~~~~~~vvI~DEsH~Lk~sk-tkr~Ka~~dllk~akhvILL  344 (689)
T KOG1000|consen  271 FVVDKSSDPLP---DVCTSNTVAIVSYEQLSLLHD--ILKKEKYRVVIFDESHMLKDSK-TKRTKAATDLLKVAKHVILL  344 (689)
T ss_pred             EEEecccCCcc---ccccCCeEEEEEHHHHHHHHH--HHhcccceEEEEechhhhhccc-hhhhhhhhhHHHHhhheEEe
Confidence            22333322211   122235788888887754332  2223458999999999986554 33355555555566789999


Q ss_pred             EeeCc----h---------------hHHHHHHhccCC---CeEEEecCCcc-----------------------cccCce
Q 018574          213 SATLP----H---------------EILEMTTKFMTD---PVKILVKRDEL-----------------------TLEGIK  247 (354)
Q Consensus       213 SaT~~----~---------------~~~~~~~~~~~~---~~~~~~~~~~~-----------------------~~~~~~  247 (354)
                      |+|+.    .               +..++...|+..   +..+.+.....                       .++.-+
T Consensus       345 SGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~Dykg~tnl~EL~~lL~k~lMIRRlK~dvL~qLPpKr  424 (689)
T KOG1000|consen  345 SGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCFDYKGCTNLEELAALLFKRLMIRRLKADVLKQLPPKR  424 (689)
T ss_pred             cCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCccccceeeecCCCCCHHHHHHHHHHHHHHHHHHHHHHhhCCccc
Confidence            99972    1               112222222221   11111111000                       000001


Q ss_pred             eEEEE-ecccc------------------------------------chHHHHHHHHhh------CCCCcEEEEcCchhh
Q 018574          248 QFFVA-VEREE------------------------------------WKFDTLCDLYDT------LTITQAVIFCNTKRK  284 (354)
Q Consensus       248 ~~~~~-~~~~~------------------------------------~~~~~l~~~l~~------~~~~~~lvf~~~~~~  284 (354)
                      +.+.. .+...                                    .|...+.+.+..      .++.|.+|||.....
T Consensus       425 r~Vv~~~~gr~da~~~~lv~~a~~~t~~~~~e~~~~~l~l~y~~tgiaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~v  504 (689)
T KOG1000|consen  425 REVVYVSGGRIDARMDDLVKAAADYTKVNSMERKHESLLLFYSLTGIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIV  504 (689)
T ss_pred             eEEEEEcCCccchHHHHHHHHhhhcchhhhhhhhhHHHHHHHHHhcccccHHHHHHHHhCcccccCCCceEEEEehhHHH
Confidence            11111 11110                                    122333333322      234689999999999


Q ss_pred             HHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCC-CCcE-EEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          285 VDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSG-TTRV-LITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       285 ~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g-~~~v-lv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+.+...+.+.++....++|..+..+|....+.|+.. +..| +++..+.+.|+++..++.|+|..+|+|+
T Consensus       505 Ld~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt~tAa~~VVFaEL~wnP  575 (689)
T KOG1000|consen  505 LDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVVFAELHWNP  575 (689)
T ss_pred             HHHHHHHHHHcCCCeEEecCCCCchhHHHHHHHhccccceEEEEEEEeecccceeeeccceEEEEEecCCC
Confidence            9999999999999999999999999999999999865 5665 4555889999999999999999999997

>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]

Probab=99.79  E-value=9.2e-17  Score=147.25  Aligned_cols=293  Identities=15%  Similarity=0.136  Sum_probs=185.3

Q ss_pred             CChHHHHHhHhhhhc----------CCcEEEEcCCCCchhhHhHHHHhhccccCCC----ceeEEEEcCCHHHHHHHHHH
Q 018574           55 KPSAIQQRAVMPIIK----------GRDVIAQAQSGTGKTSMIALTVCQTVDTSSR----EVQALILSPTRELATQTEKV  120 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----------~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~----~~~~lil~p~~~l~~q~~~~  120 (354)
                      .++|||++.+.-+-+          ...+|+.-.+|+|||+..+..+...+.....    -.+.|||+| .+|+..|+.+
T Consensus       238 ~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P-~sLv~nWkkE  316 (776)
T KOG0390|consen  238 ILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAP-SSLVNNWKKE  316 (776)
T ss_pred             hcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEcc-HHHHHHHHHH
Confidence            569999999976543          2367899999999998777766665554432    157899999 5899999999


Q ss_pred             HHHhccCcCeEEEEEeCCcch-HHhHH------hhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcH
Q 018574          121 ILAIGDFINIQAHACVGGKSV-GEDIR------KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFK  193 (354)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~-~~~~~------~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~  193 (354)
                      +.++.....+....+.+..+. .....      .-.....|.+.+.+.+.+...  .+....++++|+||.|.+-+..  
T Consensus       317 F~KWl~~~~i~~l~~~~~~~~~w~~~~sil~~~~~~~~~~vli~sye~~~~~~~--~il~~~~glLVcDEGHrlkN~~--  392 (776)
T KOG0390|consen  317 FGKWLGNHRINPLDFYSTKKSSWIKLKSILFLGYKQFTTPVLIISYETASDYCR--KILLIRPGLLVCDEGHRLKNSD--  392 (776)
T ss_pred             HHHhccccccceeeeecccchhhhhhHHHHHhhhhheeEEEEeccHHHHHHHHH--HHhcCCCCeEEECCCCCccchh--
Confidence            999886556777777776653 11000      011125677888888865544  4445678999999999975443  


Q ss_pred             HHHHHHHhhCCCCCcEEEEEeeCchh-HHHHHHhc-------c----------CCCeE----------------------
Q 018574          194 DQIYDVYRYLPPDLQVVLISATLPHE-ILEMTTKF-------M----------TDPVK----------------------  233 (354)
Q Consensus       194 ~~~~~i~~~~~~~~~~i~lSaT~~~~-~~~~~~~~-------~----------~~~~~----------------------  233 (354)
                      ..+...+..+ ...+.+++|+|+-+. +.+...-+       +          ..++.                      
T Consensus       393 s~~~kaL~~l-~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs~~sf~k~~~~~i~~~~~~~~s~e~~~~~~rl~eL~  471 (776)
T KOG0390|consen  393 SLTLKALSSL-KTPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGSISSFKKKFEIPILRGRDADASEEDREREERLQELR  471 (776)
T ss_pred             hHHHHHHHhc-CCCceEEeeCCcccccHHHHHHHHhhcChhhccchHHHHHHhhcccccccCCCcchhhhhhHHHHHHHH
Confidence            2333334444 455568899997432 11111100       0          00000                      


Q ss_pred             --------EEe-cCCcccccCceeEEEEeccccchHHHHHHHHhh-----------------------------------
Q 018574          234 --------ILV-KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT-----------------------------------  269 (354)
Q Consensus       234 --------~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-----------------------------------  269 (354)
                              ... ......++....+...+.....+...+.+++..                                   
T Consensus       472 ~~t~~fi~rrt~~il~k~LP~k~e~vv~~n~t~~Q~~~~~~l~~~~~~~~~~~~~l~~~~~L~k~cnhP~L~~~~~~~~~  551 (776)
T KOG0390|consen  472 ELTNKFILRRTGDILLKYLPGKYEYVVFCNPTPIQKELYKKLLDSMKMRTLKGYALELITKLKKLCNHPSLLLLCEKTEK  551 (776)
T ss_pred             HHHHhheeecccchhhhhCCCceeEEEEeCCcHHHHHHHHHHHHHHHhhhhhcchhhHHHHHHHHhcCHHhhcccccccc
Confidence                    000 001112333444444444443232222222221                                   


Q ss_pred             -----------------------------------------CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCH
Q 018574          270 -----------------------------------------LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQ  308 (354)
Q Consensus       270 -----------------------------------------~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  308 (354)
                                                               ....++.+..|.+...+.+....+-.|..+..++|.++.
T Consensus       552 e~~~~~~~~~~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~tldl~e~~~~~~g~~~~rLdG~~~~  631 (776)
T KOG0390|consen  552 EKAFKNPALLLDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQTLDLFEQLCRWRGYEVLRLDGKTSI  631 (776)
T ss_pred             cccccChHhhhcccccccccccchhhhHHHHHHHHHHHHhhhcceEEEEeccHHHHHHHHHHHHhhcCceEEEEcCCCch
Confidence                                                     011245555566666666666666669999999999999


Q ss_pred             HHHHHHHHHHhCC--CCcEEE-EccccccCCCcCCCcEEEecCCCCCC
Q 018574          309 KERDAIMGEFRSG--TTRVLI-TTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       309 ~~r~~~~~~f~~g--~~~vlv-~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+|..+++.|++-  ...|++ ++-+.++||++-+++.||.||.+|||
T Consensus       632 ~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~dWNP  679 (776)
T KOG0390|consen  632 KQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDPDWNP  679 (776)
T ss_pred             HHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCCCCCc
Confidence            9999999999864  335654 56899999999999999999999997

>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]

Probab=99.79  E-value=5.1e-17  Score=151.44  Aligned_cols=306  Identities=15%  Similarity=0.183  Sum_probs=204.6

Q ss_pred             CcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHH
Q 018574           34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTREL  113 (354)
Q Consensus        34 ~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l  113 (354)
                      .+.....++...+.+....-...+..+.++++.+.+++.++|.|.||+|||+.....+++....++...++++--|++--
T Consensus       152 ~~~~~~~s~~~~~~~~~R~~LPa~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIs  231 (924)
T KOG0920|consen  152 RQSEPKKSESYKEMLRFRESLPAYKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRIS  231 (924)
T ss_pred             hhchhhhhhHHHHHHHHHHhCccHHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHH
Confidence            34433444555555554444477999999999999999999999999999999998888877665566677777798876


Q ss_pred             HHHHHHHHHH-hccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhh-ccC
Q 018574          114 ATQTEKVILA-IGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRG  191 (354)
Q Consensus       114 ~~q~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~-~~~  191 (354)
                      |..++++..+ .+...+-.+..-....+.      ......+.++|.+.|++.+.. .-.+....+||+||+|.-. ..+
T Consensus       232 AIsvAeRVa~ER~~~~g~~VGYqvrl~~~------~s~~t~L~fcTtGvLLr~L~~-~~~l~~vthiivDEVHER~i~~D  304 (924)
T KOG0920|consen  232 AISVAERVAKERGESLGEEVGYQVRLESK------RSRETRLLFCTTGVLLRRLQS-DPTLSGVTHIIVDEVHERSINTD  304 (924)
T ss_pred             HHHHHHHHHHHhccccCCeeeEEEeeecc------cCCceeEEEecHHHHHHHhcc-CcccccCceeeeeeEEEccCCcc
Confidence            7666666543 233333223222211111      223378999999999998876 4445788999999999743 334


Q ss_pred             cHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccc----------------cCceeEE-----
Q 018574          192 FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTL----------------EGIKQFF-----  250 (354)
Q Consensus       192 ~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~-----  250 (354)
                      |.-.+.+.+-..+++.++++||||+..+   ..+.|++....+.+.......                ....+..     
T Consensus       305 flLi~lk~lL~~~p~LkvILMSAT~dae---~fs~YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~  381 (924)
T KOG0920|consen  305 FLLILLKDLLPRNPDLKVILMSATLDAE---LFSDYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERS  381 (924)
T ss_pred             cHHHHHHHHhhhCCCceEEEeeeecchH---HHHHHhCCCceEeecCCCcchHHHHHHHHHHHhcccccccccccccccC
Confidence            4444444444445899999999998743   223333333233322211100                0000000     


Q ss_pred             ------EEeccccchHHHHHHHH----hhCCCCcEEEEcCchhhHHHHHHHHhcC-------CCeEEEeecCCCHHHHHH
Q 018574          251 ------VAVEREEWKFDTLCDLY----DTLTITQAVIFCNTKRKVDWLTEKMRGY-------NFTVSSMHGDMPQKERDA  313 (354)
Q Consensus       251 ------~~~~~~~~~~~~l~~~l----~~~~~~~~lvf~~~~~~~~~l~~~l~~~-------~~~~~~~~~~~~~~~r~~  313 (354)
                            ..+...+-..+.+..++    .....+.+|||.+...+...+.+.|...       ..-+..+|+.++..++..
T Consensus       382 ~~~~~~~~~~~~~id~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~  461 (924)
T KOG0920|consen  382 QLRLARLKLWEPEIDYDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQA  461 (924)
T ss_pred             ccccccchhccccccHHHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHH
Confidence                  00000011223333333    3333578999999999999999999642       356778999999999999


Q ss_pred             HHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          314 IMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       314 ~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      +++.-..|..+|+++|++++.++.|+++-.||..+.
T Consensus       462 VF~~pp~g~RKIIlaTNIAETSITIdDVvyVIDsG~  497 (924)
T KOG0920|consen  462 VFKRPPKGTRKIILATNIAETSITIDDVVYVIDSGL  497 (924)
T ss_pred             hcCCCCCCcchhhhhhhhHhhcccccCeEEEEecCe
Confidence            999888999999999999999999999999998664

>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]

Probab=99.78  E-value=7.3e-18  Score=151.11  Aligned_cols=293  Identities=14%  Similarity=0.196  Sum_probs=188.5

Q ss_pred             CChHHHHHhHhhhh----cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPII----KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~----~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      ++.+||.--++|+.    ++-+.|+.-.+|.|||...+..+......+.+|+ -|||||+..| +.|..++.+++..  +
T Consensus       399 ~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gp-HLVVvPsSTl-eNWlrEf~kwCPs--l  474 (941)
T KOG0389|consen  399 QLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGP-HLVVVPSSTL-ENWLREFAKWCPS--L  474 (941)
T ss_pred             cccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCCCCC-cEEEecchhH-HHHHHHHHHhCCc--e
Confidence            68999999888865    2557799999999999766554443334444444 7999998665 5578888888865  5


Q ss_pred             EEEEEeCCcchHHhHHhh----cCCCeEEEeCcHHHHHHH-hcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCC
Q 018574          131 QAHACVGGKSVGEDIRKL----EHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPP  205 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~----~~~~~iiv~T~~~l~~~~-~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~  205 (354)
                      ++...+|....+.+....    ..+++|+++|+.....-- .+..+...+|+++|+||.|.+-+.. ...+..+...  +
T Consensus       475 ~Ve~YyGSq~ER~~lR~~i~~~~~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmLKN~~-SeRy~~LM~I--~  551 (941)
T KOG0389|consen  475 KVEPYYGSQDERRELRERIKKNKDDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHMLKNRT-SERYKHLMSI--N  551 (941)
T ss_pred             EEEeccCcHHHHHHHHHHHhccCCCccEEEEEeecccCChHHHHHHHhccccEEEecchhhhhccc-hHHHHHhccc--c
Confidence            555566665444443322    236899999986553211 1223445688999999999986654 3344444443  3


Q ss_pred             CCcEEEEEeeCchh-HHHHHHhc---c-----------------------------------------------------
Q 018574          206 DLQVVLISATLPHE-ILEMTTKF---M-----------------------------------------------------  228 (354)
Q Consensus       206 ~~~~i~lSaT~~~~-~~~~~~~~---~-----------------------------------------------------  228 (354)
                      ....+++|+||-+. +.++++.+   +                                                     
T Consensus       552 An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~~~d~d~e~~~l~qerIsrAK~im~PFILRR~K~q  631 (941)
T KOG0389|consen  552 ANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKKTSDGDIENALLSQERISRAKTIMKPFILRRLKSQ  631 (941)
T ss_pred             ccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccCCccchhhHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            55678999997332 11111100   0                                                     


Q ss_pred             ------CCCeEEEec---CCcc-------------------c--ccC--c--------------eeEEEE----------
Q 018574          229 ------TDPVKILVK---RDEL-------------------T--LEG--I--------------KQFFVA----------  252 (354)
Q Consensus       229 ------~~~~~~~~~---~~~~-------------------~--~~~--~--------------~~~~~~----------  252 (354)
                            .....+...   ....                   .  ..+  +              +.+|..          
T Consensus       632 VL~~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~~ns~~~~~~vlmqlRK~AnHPLL~R~~Y~de~L~~mak~i  711 (941)
T KOG0389|consen  632 VLKQLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNEVSKNSELKSGNVLMQLRKAANHPLLFRSIYTDEKLRKMAKRI  711 (941)
T ss_pred             HHHhcCCccceeEeeecchHHHHHHHHHHHHHhhhccccccccccccchHHHHHHHHhcChhHHHHhccHHHHHHHHHHH
Confidence                  000000000   0000                   0  000  0              000000          


Q ss_pred             ----------------------------------------ec----cccchHHHHHHHHhhC--CCCcEEEEcCchhhHH
Q 018574          253 ----------------------------------------VE----REEWKFDTLCDLYDTL--TITQAVIFCNTKRKVD  286 (354)
Q Consensus       253 ----------------------------------------~~----~~~~~~~~l~~~l~~~--~~~~~lvf~~~~~~~~  286 (354)
                                                              +.    ....|+..|..++...  .+++++||.+.....+
T Consensus       712 l~e~ay~~~n~qyIfEDm~~msDfelHqLc~~f~~~~~f~L~d~~~mdSgK~r~L~~LLp~~k~~G~RVLiFSQFTqmLD  791 (941)
T KOG0389|consen  712 LNEPAYKKANEQYIFEDMEVMSDFELHQLCCQFRHLSKFQLKDDLWMDSGKCRKLKELLPKIKKKGDRVLIFSQFTQMLD  791 (941)
T ss_pred             hCchhhhhcCHHHHHHHHHhhhHHHHHHHHHhcCCCcccccCCchhhhhhhHhHHHHHHHHHhhcCCEEEEeeHHHHHHH
Confidence                                                    00    0000233333333322  2368999999999999


Q ss_pred             HHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCC-Cc-EEEEccccccCCCcCCCcEEEecCCCCCCC
Q 018574          287 WLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT-TR-VLITTDVWARGLDVQQAILFFFLFLFCNVF  354 (354)
Q Consensus       287 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~-~~-vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~~  354 (354)
                      -+...|..+++....++|.+.-.+|..++.+|..++ +. .|++|.+.+-|||+..+++||.+|+..|||
T Consensus       792 ILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKAGG~GINLt~An~VIihD~dFNP~  861 (941)
T KOG0389|consen  792 ILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKAGGFGINLTCANTVIIHDIDFNPY  861 (941)
T ss_pred             HHHHHHHhcCceEEeecCCccchHHHHHHHhhccCCceEEEEEeeccCcceecccccceEEEeecCCCCc
Confidence            999999999999999999999999999999998764 44 488899999999999999999999999986

>PRK12900 secA preprotein translocase subunit SecA; Reviewed

Probab=99.78  E-value=9.7e-18  Score=156.34  Aligned_cols=94  Identities=14%  Similarity=0.120  Sum_probs=81.4

Q ss_pred             chHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccC
Q 018574          258 WKFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARG  335 (354)
Q Consensus       258 ~~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~G  335 (354)
                      .+...+...+...  .+.|+||||+|++.++.++..|+..++++..+|+  .+.+|+..+..|..+...|+|||+++++|
T Consensus       582 eK~~Ali~~I~~~~~~grpVLIft~Sve~sE~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG~~g~VtIATNMAGRG  659 (1025)
T PRK12900        582 EKYNAIVLKVEELQKKGQPVLVGTASVEVSETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAGQKGAVTIATNMAGRG  659 (1025)
T ss_pred             HHHHHHHHHHHHHhhCCCCEEEEeCcHHHHHHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCCCCeEEEeccCcCCC
Confidence            3777777777543  5679999999999999999999999999999997  47789999999999999999999999999


Q ss_pred             CCcC---CCc-----EEEecCCCCCC
Q 018574          336 LDVQ---QAI-----LFFFLFLFCNV  353 (354)
Q Consensus       336 idi~---~~~-----~Vi~~~~p~s~  353 (354)
                      +||+   .+.     +||..+.|.|.
T Consensus       660 tDIkl~~~V~~vGGL~VIgterhes~  685 (1025)
T PRK12900        660 TDIKLGEGVRELGGLFILGSERHESR  685 (1025)
T ss_pred             CCcCCccchhhhCCceeeCCCCCchH
Confidence            9999   454     34888888864

>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated

Probab=99.77  E-value=2.7e-16  Score=152.78  Aligned_cols=81  Identities=10%  Similarity=0.123  Sum_probs=65.5

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcCCC--eEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCC--CcEEEe
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGYNF--TVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ--AILFFF  346 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~~~--~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~--~~~Vi~  346 (354)
                      ..++++|+++|.+..+.+++.|+....  ...++.-+++...|.++++.|++++..||++|..+++|+|+|+  +++||.
T Consensus       751 ~~g~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~~~iLlG~~sFwEGVD~pg~~l~~viI  830 (928)
T PRK08074        751 TKGRMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFDKAILLGTSSFWEGIDIPGDELSCLVI  830 (928)
T ss_pred             CCCCEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcCCeEEEecCcccCccccCCCceEEEEE
Confidence            457999999999999999999975422  1333443444456788999999998999999999999999996  488999


Q ss_pred             cCCCC
Q 018574          347 LFLFC  351 (354)
Q Consensus       347 ~~~p~  351 (354)
                      ..+|.
T Consensus       831 ~kLPF  835 (928)
T PRK08074        831 VRLPF  835 (928)
T ss_pred             ecCCC
Confidence            99886

>PRK13103 secA preprotein translocase subunit SecA; Reviewed

Probab=99.76  E-value=4.6e-17  Score=151.25  Aligned_cols=272  Identities=16%  Similarity=0.192  Sum_probs=178.2

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .+++.|.  +-.+.-.+.-+..+.||.|||+++.+|++.....+.   .+-+++|+.-|+.|-++.+..+...+++++..
T Consensus        82 ~~ydVQl--iGg~~Lh~G~iaEM~TGEGKTLvA~l~a~l~al~G~---~VhvvT~ndyLA~RD~e~m~~l~~~lGl~v~~  156 (913)
T PRK13103         82 RHFDVQL--IGGMTLHEGKIAEMRTGEGKTLVGTLAVYLNALSGK---GVHVVTVNDYLARRDANWMRPLYEFLGLSVGI  156 (913)
T ss_pred             CcchhHH--HhhhHhccCccccccCCCCChHHHHHHHHHHHHcCC---CEEEEeCCHHHHHHHHHHHHHHhcccCCEEEE
Confidence            4555554  444444566788999999999999998887666554   48999999999999999999999999999999


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcC------CccCCCccEEEEecchhhhccC----------------
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRK------TLRTRAIKLLVLDESDEMLSRG----------------  191 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~------~~~~~~~~~vvvDE~h~~~~~~----------------  191 (354)
                      +.++.+..+....+.  ++|+++|...+ .++++..      ......+.++||||+|+++-..                
T Consensus       157 i~~~~~~~err~~Y~--~dI~YGT~~e~gFDYLrD~~~~~~~~~vqr~l~~aIVDEvDsiLIDEArtPLIISg~~~~~~~  234 (913)
T PRK13103        157 VTPFQPPEEKRAAYA--ADITYGTNNEFGFDYLRDNMAFSLDDKFQRELNFAVIDEVDSILIDEARTPLIISGQAEDSSK  234 (913)
T ss_pred             ECCCCCHHHHHHHhc--CCEEEEcccccccchhhccceechhhhcccccceeEechhhheeccccCCceeecCCCccchH
Confidence            888776655444443  89999999876 2333322      1223788999999999853111                


Q ss_pred             cHHHHHHHHhhC----------------------------------------------------C---------------
Q 018574          192 FKDQIYDVYRYL----------------------------------------------------P---------------  204 (354)
Q Consensus       192 ~~~~~~~i~~~~----------------------------------------------------~---------------  204 (354)
                      ....+..+...+                                                    .               
T Consensus       235 ~y~~~~~~v~~L~~~~~~~~~~~~~~~~y~idek~~~v~LTe~G~~~~e~~~~~~~i~~~~~~ly~~~~~~~~~~i~~AL  314 (913)
T PRK13103        235 LYIEINRLIPRLKQHIEEVEGQVTQEGHFTIDEKTRQVELNEAGHQFIEEMLTQAGLLAEGESLYSAHNLGLLTHVYAGL  314 (913)
T ss_pred             HHHHHHHHHHHHHhhhhccccccCCCCCeEEEcCCCeeeechHHHHHHHHHhhhCCCcccchhccChhhhHHHHHHHHHH
Confidence            000111111100                                                    0               


Q ss_pred             -------CC-------------------------------------------------------------CcEEEEEeeC
Q 018574          205 -------PD-------------------------------------------------------------LQVVLISATL  216 (354)
Q Consensus       205 -------~~-------------------------------------------------------------~~~i~lSaT~  216 (354)
                             .+                                                             .++.+||+|.
T Consensus       315 ~A~~lf~~d~dYiV~dg~V~IVDe~TGR~m~grrwsdGLHQaIEaKE~v~I~~e~~t~AsIT~QnfFr~Y~kLsGMTGTa  394 (913)
T PRK13103        315 RAHKLFHRNVEYIVQDGQVLLIDEHTGRTMPGRRLSEGLHQAIEAKENLNIQAESQTLASTTFQNYFRLYNKLSGMTGTA  394 (913)
T ss_pred             HHHHHHhcCCcEEEECCEEEEEECCCCCcCCCCccchHHHHHHHHHcCCCcCCCceeEEeehHHHHHHhcchhccCCCCC
Confidence                   00                                                             3566777777


Q ss_pred             chhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh-h-CCCCcEEEEcCchhhHHHHHHHHhc
Q 018574          217 PHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD-T-LTITQAVIFCNTKRKVDWLTEKMRG  294 (354)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~-~-~~~~~~lvf~~~~~~~~~l~~~l~~  294 (354)
                      ..+..++...|-.+...+.........+.-...|  ..... +...+.+-+. . ..+.|+||-+.|++.++.++..|++
T Consensus       395 ~te~~Ef~~iY~l~Vv~IPTnkP~~R~D~~d~vy--~t~~e-K~~Ai~~ei~~~~~~GrPVLVGT~SVe~SE~ls~~L~~  471 (913)
T PRK13103        395 DTEAFEFRQIYGLDVVVIPPNKPLARKDFNDLVY--LTAEE-KYAAIITDIKECMALGRPVLVGTATIETSEHMSNLLKK  471 (913)
T ss_pred             HHHHHHHHHHhCCCEEECCCCCCcccccCCCeEE--cCHHH-HHHHHHHHHHHHHhCCCCEEEEeCCHHHHHHHHHHHHH
Confidence            6665555555544433333222221111111121  12222 4555544444 2 2467999999999999999999999


Q ss_pred             CCCeEEEeecCCCHHHHHHHHHHHhCC-CCcEEEEccccccCCCcC
Q 018574          295 YNFTVSSMHGDMPQKERDAIMGEFRSG-TTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       295 ~~~~~~~~~~~~~~~~r~~~~~~f~~g-~~~vlv~T~~~~~Gidi~  339 (354)
                      .+++..++++.....+ .+++.  ..| ...|-|+|+++++|.||.
T Consensus       472 ~gi~h~VLNAk~~~~E-A~IIa--~AG~~GaVTIATNMAGRGTDIk  514 (913)
T PRK13103        472 EGIEHKVLNAKYHEKE-AEIIA--QAGRPGALTIATNMAGRGTDIL  514 (913)
T ss_pred             cCCcHHHhccccchhH-HHHHH--cCCCCCcEEEeccCCCCCCCEe
Confidence            9999988888744222 23333  456 567999999999999994

>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]

Probab=99.76  E-value=1.2e-17  Score=156.19  Aligned_cols=290  Identities=16%  Similarity=0.147  Sum_probs=192.8

Q ss_pred             CCChHHHHHhHhhhhc----CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcC
Q 018574           54 EKPSAIQQRAVMPIIK----GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN  129 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~----~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~  129 (354)
                      .+++.||.+-+++++.    ++++|+.-.+|.|||...+..+-.......-....|+|+|...+. .|..++..+.   .
T Consensus       369 ~~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~fl~~l~~~~~~~gpflvvvplst~~-~W~~ef~~w~---~  444 (1373)
T KOG0384|consen  369 NELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTITFLSYLFHSLQIHGPFLVVVPLSTIT-AWEREFETWT---D  444 (1373)
T ss_pred             chhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHHHHHHHHHhhhccCCeEEEeehhhhH-HHHHHHHHHh---h
Confidence            5899999999998775    789999999999999755554444333332223489999975554 5778888777   6


Q ss_pred             eEEEEEeCCcchHHhHHhhc----C-----CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHH
Q 018574          130 IQAHACVGGKSVGEDIRKLE----H-----GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVY  200 (354)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~----~-----~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~  200 (354)
                      +++...+|+....+.++.+.    .     ..+++++|.+.++.--  ..+..-.+.++++||||++-+.. ...+.. +
T Consensus       445 mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~LkDk--~~L~~i~w~~~~vDeahrLkN~~-~~l~~~-l  520 (1373)
T KOG0384|consen  445 MNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVLKDK--AELSKIPWRYLLVDEAHRLKNDE-SKLYES-L  520 (1373)
T ss_pred             hceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHhccH--hhhccCCcceeeecHHhhcCchH-HHHHHH-H
Confidence            88888888877666555432    1     3789999998875422  23334478999999999986443 222322 4


Q ss_pred             hhCCCCCcEEEEEeeCchh-HHHHHHh--ccCCCeEEEec--------------------------------CCcccccC
Q 018574          201 RYLPPDLQVVLISATLPHE-ILEMTTK--FMTDPVKILVK--------------------------------RDELTLEG  245 (354)
Q Consensus       201 ~~~~~~~~~i~lSaT~~~~-~~~~~~~--~~~~~~~~~~~--------------------------------~~~~~~~~  245 (354)
                      ..+. ....+++|+||-+. +.+++..  |+. |......                                .-+..++.
T Consensus       521 ~~f~-~~~rllitgTPlQNsikEL~sLl~Fl~-P~kf~~~~~f~~~~~~~~e~~~~~L~~~L~P~~lRr~kkdvekslp~  598 (1373)
T KOG0384|consen  521 NQFK-MNHRLLITGTPLQNSLKELWSLLHFLM-PGKFDSWDEFLEEFDEETEEQVRKLQQILKPFLLRRLKKDVEKSLPP  598 (1373)
T ss_pred             HHhc-ccceeeecCCCccccHHHHHHHhcccC-CCCCCcHHHHHHhhcchhHHHHHHHHHHhhHHHHHHHHhhhccCCCC
Confidence            4443 23358889997542 2222211  110 0000000                                00001111


Q ss_pred             ceeEEEEecccc--------------------------------------------------c---------hHHHHHHH
Q 018574          246 IKQFFVAVEREE--------------------------------------------------W---------KFDTLCDL  266 (354)
Q Consensus       246 ~~~~~~~~~~~~--------------------------------------------------~---------~~~~l~~~  266 (354)
                      -...+..+....                                                  .         ....+..+
T Consensus       599 k~E~IlrVels~lQk~yYk~ILtkN~~~LtKG~~g~~~~lLNimmELkKccNHpyLi~gaee~~~~~~~~~~~d~~L~~l  678 (1373)
T KOG0384|consen  599 KEETILRVELSDLQKQYYKAILTKNFSALTKGAKGSTPSLLNIMMELKKCCNHPYLIKGAEEKILGDFRDKMRDEALQAL  678 (1373)
T ss_pred             CcceEEEeehhHHHHHHHHHHHHhhHHHHhccCCCCCchHHHHHHHHHHhcCCccccCcHHHHHHHhhhhcchHHHHHHH
Confidence            111111111000                                                  0         00233333


Q ss_pred             HhhC---------------CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhC---CCCcEEEE
Q 018574          267 YDTL---------------TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRS---GTTRVLIT  328 (354)
Q Consensus       267 l~~~---------------~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~---g~~~vlv~  328 (354)
                      ++..               .++++|||.+-+...+-++++|..++++.-.++|....+-|...+..|..   ..+..|+|
T Consensus       679 I~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLS  758 (1373)
T KOG0384|consen  679 IQSSGKLVLLDKLLPRLKEGGHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLS  758 (1373)
T ss_pred             HHhcCcEEeHHHHHHHHhcCCceEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCCCceEEEEe
Confidence            3322               23689999999999999999999999999999999999999999999975   45778999


Q ss_pred             ccccccCCCcCCCcEEEecCCCCCC
Q 018574          329 TDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       329 T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |.+.+-|||+..++.||.||--|||
T Consensus       759 TRAGGLGINLatADTVIIFDSDWNP  783 (1373)
T KOG0384|consen  759 TRAGGLGINLATADTVIIFDSDWNP  783 (1373)
T ss_pred             cccCcccccccccceEEEeCCCCCc
Confidence            9999999999999999999999987

>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=99.75  E-value=4.3e-16  Score=137.45  Aligned_cols=281  Identities=13%  Similarity=0.195  Sum_probs=192.4

Q ss_pred             CCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHH-----hcc
Q 018574           52 GFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILA-----IGD  126 (354)
Q Consensus        52 ~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~-----~~~  126 (354)
                      .....+++-.+++.++..++-++|.|.||||||+..-..+... .-...+.++-+.-|.+.-+-.++.+..+     ++.
T Consensus       262 ksLPVy~ykdell~av~e~QVLiI~GeTGSGKTTQiPQyL~Ea-Gytk~gk~IgcTQPRRVAAmSVAaRVA~EMgvkLG~  340 (902)
T KOG0923|consen  262 KSLPVYPYKDELLKAVKEHQVLIIVGETGSGKTTQIPQYLYEA-GYTKGGKKIGCTQPRRVAAMSVAARVAEEMGVKLGH  340 (902)
T ss_pred             hcCCchhhHHHHHHHHHhCcEEEEEcCCCCCccccccHHHHhc-ccccCCceEeecCcchHHHHHHHHHHHHHhCccccc
Confidence            4456788888999999999999999999999997655544433 3333444566666888766666555432     223


Q ss_pred             CcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc-C-cHHHHHHHHhhCC
Q 018574          127 FINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-G-FKDQIYDVYRYLP  204 (354)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~-~-~~~~~~~i~~~~~  204 (354)
                      ..|..+..-...+          ...-+=+.|.++|++-+.. ..++..+++|||||||.-.-. + ....+..|.+. +
T Consensus       341 eVGYsIRFEdcTS----------ekTvlKYMTDGmLlREfL~-epdLasYSViiiDEAHERTL~TDILfgLvKDIar~-R  408 (902)
T KOG0923|consen  341 EVGYSIRFEDCTS----------EKTVLKYMTDGMLLREFLS-EPDLASYSVIIVDEAHERTLHTDILFGLVKDIARF-R  408 (902)
T ss_pred             ccceEEEeccccC----------cceeeeeecchhHHHHHhc-cccccceeEEEeehhhhhhhhhhHHHHHHHHHHhh-C
Confidence            3343333222211          2256678999999886654 345678999999999974211 1 22344444443 4


Q ss_pred             CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh---hCCCCcEEEEcCc
Q 018574          205 PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD---TLTITQAVIFCNT  281 (354)
Q Consensus       205 ~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~---~~~~~~~lvf~~~  281 (354)
                      ++.++++.|||+..+..   +.|+.+.-.+.+...   +..+..+|...+..++....+..+++   ..+.+.+|||...
T Consensus       409 pdLKllIsSAT~DAekF---S~fFDdapIF~iPGR---RyPVdi~Yt~~PEAdYldAai~tVlqIH~tqp~GDILVFltG  482 (902)
T KOG0923|consen  409 PDLKLLISSATMDAEKF---SAFFDDAPIFRIPGR---RYPVDIFYTKAPEADYLDAAIVTVLQIHLTQPLGDILVFLTG  482 (902)
T ss_pred             CcceEEeeccccCHHHH---HHhccCCcEEeccCc---ccceeeecccCCchhHHHHHHhhheeeEeccCCccEEEEecc
Confidence            78999999999976432   244444322222221   23456666666666655555555554   3455789999999


Q ss_pred             hhhHHHHHHHHhcC---------CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCC
Q 018574          282 KRKVDWLTEKMRGY---------NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFC  351 (354)
Q Consensus       282 ~~~~~~l~~~l~~~---------~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~  351 (354)
                      .++.+...+.|.++         .+-+..+++.++.+.+..+++--..|-.+|+++|+++++.+.|+++..||.-++-+
T Consensus       483 QeEIEt~~e~l~~~~~~LGski~eliv~PiYaNLPselQakIFePtP~gaRKVVLATNIAETSlTIdgI~yViDpGf~K  561 (902)
T KOG0923|consen  483 QEEIETVKENLKERCRRLGSKIRELIVLPIYANLPSELQAKIFEPTPPGARKVVLATNIAETSLTIDGIKYVIDPGFVK  561 (902)
T ss_pred             HHHHHHHHHHHHHHHHHhccccceEEEeeccccCChHHHHhhcCCCCCCceeEEEeecchhhceeecCeEEEecCcccc
Confidence            99888887777543         34577889999999999998888889999999999999999999999999877654

>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]

Probab=99.74  E-value=1.4e-16  Score=148.89  Aligned_cols=292  Identities=20%  Similarity=0.232  Sum_probs=186.2

Q ss_pred             CChHHHHHhHhhhhc----CCcEEEEcCCCCchhhHhHHHHhhccccCC------CceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           55 KPSAIQQRAVMPIIK----GRDVIAQAQSGTGKTSMIALTVCQTVDTSS------REVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~------~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      ++|.||++-++|+.-    +=+.|++..+|.|||+..+-.+......++      .....|||||+ +|+.-|..+++++
T Consensus       975 ~LRkYQqEGVnWLaFLnky~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPs-TLtGHW~~E~~kf 1053 (1549)
T KOG0392|consen  975 KLRKYQQEGVNWLAFLNKYKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPS-TLTGHWKSEVKKF 1053 (1549)
T ss_pred             HHHHHHHhccHHHHHHHHhcccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCc-hhhhHHHHHHHHh
Confidence            689999999998753    458899999999999877666554433321      12348999996 7888899999999


Q ss_pred             ccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCC
Q 018574          125 GDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP  204 (354)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~  204 (354)
                      ...  +++....|+...+...+.-.+.++|+|++++.+.+-..  .+.-..+.++|+||-|-+-+..  ..+.+..+.+.
T Consensus      1054 ~pf--L~v~~yvg~p~~r~~lR~q~~~~~iiVtSYDv~RnD~d--~l~~~~wNYcVLDEGHVikN~k--tkl~kavkqL~ 1127 (1549)
T KOG0392|consen 1054 FPF--LKVLQYVGPPAERRELRDQYKNANIIVTSYDVVRNDVD--YLIKIDWNYCVLDEGHVIKNSK--TKLTKAVKQLR 1127 (1549)
T ss_pred             cch--hhhhhhcCChHHHHHHHhhccccceEEeeHHHHHHHHH--HHHhcccceEEecCcceecchH--HHHHHHHHHHh
Confidence            877  44544555544444444334458999999988864322  1222467899999999875432  33344444443


Q ss_pred             CCCcEEEEEeeCchh-HHHHHH----------------------------------------------------------
Q 018574          205 PDLQVVLISATLPHE-ILEMTT----------------------------------------------------------  225 (354)
Q Consensus       205 ~~~~~i~lSaT~~~~-~~~~~~----------------------------------------------------------  225 (354)
                       ....+.+|+||.+. +.++++                                                          
T Consensus      1128 -a~hRLILSGTPIQNnvleLWSLFdFLMPGfLGtEKqFqsrf~kpI~asRd~K~Sske~EaG~lAleaLHKqVLPF~LRR 1206 (1549)
T KOG0392|consen 1128 -ANHRLILSGTPIQNNVLELWSLFDFLMPGFLGTEKQFQSRFGKPILASRDPKSSSKEQEAGVLALEALHKQVLPFLLRR 1206 (1549)
T ss_pred             -hcceEEeeCCCcccCHHHHHHHHHHhcccccCcHHHHHHHhcchhhhhcCcccchhHHHhhHHHHHHHHHHHHHHHHHH
Confidence             33457889995321 011000                                                          


Q ss_pred             ------------------------------hccCC---CeEEEecCCcccccC--------c-------eeEEEEecc--
Q 018574          226 ------------------------------KFMTD---PVKILVKRDELTLEG--------I-------KQFFVAVER--  255 (354)
Q Consensus       226 ------------------------------~~~~~---~~~~~~~~~~~~~~~--------~-------~~~~~~~~~--  255 (354)
                                                    .+...   ......+........        +       .+--....+  
T Consensus      1207 lKedVL~DLPpKIIQDyyCeLs~lQ~kLY~df~~~~k~~~~~~~d~~~~S~gt~~~HvFqaLqYlrKLcnHpaLvlt~~h 1286 (1549)
T KOG0392|consen 1207 LKEDVLKDLPPKIIQDYYCELSPLQKKLYRDFVKKAKQCVSSQIDGGEESLGTDKTHVFQALQYLRKLCNHPALVLTPVH 1286 (1549)
T ss_pred             HHHHHHhhCChhhhhheeeccCHHHHHHHHHHHHHhccccccccccchhccCcchHHHHHHHHHHHHhcCCcceeeCCCc
Confidence                                          00000   000000000000000        0       000000000  


Q ss_pred             ---------------------ccchHHHHHHHHhhC----------------CCCcEEEEcCchhhHHHHHHHHhcC---
Q 018574          256 ---------------------EEWKFDTLCDLYDTL----------------TITQAVIFCNTKRKVDWLTEKMRGY---  295 (354)
Q Consensus       256 ---------------------~~~~~~~l~~~l~~~----------------~~~~~lvf~~~~~~~~~l~~~l~~~---  295 (354)
                                           ...|+..|..++..=                .+++++|||+-+...+-+.+.|.+.   
T Consensus      1287 p~la~i~~~l~~~~~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekDL~k~~mp 1366 (1549)
T KOG0392|consen 1287 PDLAAIVSHLAHFNSSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKDLFKKYMP 1366 (1549)
T ss_pred             chHHHHHHHHHHhhhhHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHHHHHHHHHHHhhhhcC
Confidence                                 012455666655421                2358999999999999888887543   


Q ss_pred             CCeEEEeecCCCHHHHHHHHHHHhCC-CCcEE-EEccccccCCCcCCCcEEEecCCCCCCC
Q 018574          296 NFTVSSMHGDMPQKERDAIMGEFRSG-TTRVL-ITTDVWARGLDVQQAILFFFLFLFCNVF  354 (354)
Q Consensus       296 ~~~~~~~~~~~~~~~r~~~~~~f~~g-~~~vl-v~T~~~~~Gidi~~~~~Vi~~~~p~s~~  354 (354)
                      .+....++|..++.+|.++.++|+++ .++|| ++|.+.+-|+|+.+++.|||++=-|||+
T Consensus      1367 sVtymRLDGSVpp~~R~kiV~~FN~DptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPM 1427 (1549)
T KOG0392|consen 1367 SVTYMRLDGSVPPGDRQKIVERFNEDPTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPM 1427 (1549)
T ss_pred             ceeEEEecCCCCcHHHHHHHHHhcCCCceeEEEEeeeccccccccCCCceEEEEecCCCch
Confidence            33455899999999999999999999 67875 5568999999999999999999988874

>CHL00122 secA preprotein translocase subunit SecA; Validated

Probab=99.74  E-value=2.6e-16  Score=145.62  Aligned_cols=276  Identities=18%  Similarity=0.226  Sum_probs=179.3

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+ .|++.|.-.  .+.-.+.-+..+.||.|||+++.+|+.-....+   ..+-|++++..|+.+-++.+..+...+|+
T Consensus        73 lG~-r~ydvQlig--~l~L~~G~IaEm~TGEGKTL~a~l~ayl~aL~G---~~VhVvT~NdyLA~RD~e~m~pvy~~LGL  146 (870)
T CHL00122         73 LGL-RHFDVQLIG--GLVLNDGKIAEMKTGEGKTLVATLPAYLNALTG---KGVHIVTVNDYLAKRDQEWMGQIYRFLGL  146 (870)
T ss_pred             hCC-CCCchHhhh--hHhhcCCccccccCCCCchHHHHHHHHHHHhcC---CceEEEeCCHHHHHHHHHHHHHHHHHcCC
Confidence            455 566666544  344456789999999999999998886444433   34899999999999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHH-HHHhcC------CccCCCccEEEEecchhhhccC------------
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVC-DMIKRK------TLRTRAIKLLVLDESDEMLSRG------------  191 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~-~~~~~~------~~~~~~~~~vvvDE~h~~~~~~------------  191 (354)
                      ++..+.++.+..+....+  .++|+++|...+- ++++..      ......+.+.||||+|.++-..            
T Consensus       147 svg~i~~~~~~~err~aY--~~DItYgTn~e~gFDyLRDnm~~~~~~~v~r~~~faIVDEvDSiLIDeArTPLiISg~~~  224 (870)
T CHL00122        147 TVGLIQEGMSSEERKKNY--LKDITYVTNSELGFDYLRDNMALSLSDVVQRPFNYCIIDEVDSILIDEARTPLIISGQSK  224 (870)
T ss_pred             ceeeeCCCCChHHHHHhc--CCCCEecCCccccccchhhccCcChHHhhccccceeeeecchhheeccCCCceeccCCCc
Confidence            999888777765554444  3799999987552 333322      1123668899999999863111            


Q ss_pred             ----cHHHHHHHHhhCCCC-------------------------------------------------------------
Q 018574          192 ----FKDQIYDVYRYLPPD-------------------------------------------------------------  206 (354)
Q Consensus       192 ----~~~~~~~i~~~~~~~-------------------------------------------------------------  206 (354)
                          .......+.+.+..+                                                             
T Consensus       225 ~~~~~y~~~~~~v~~L~~~~dy~vdek~k~v~LTe~G~~~~e~~l~i~~ly~~~~~~~~~i~~AL~A~~lf~~d~dYiV~  304 (870)
T CHL00122        225 TNIDKYIVADELAKYLEKNVHYEVDEKNKNVILTEQGILFIEKILKIEDLYSANDPWIPYILNALKAKELFFKNVHYIVR  304 (870)
T ss_pred             cchHHHHHHHHHHHhcCcCCCeEEEcCCCceEecHHHHHHHHHHcCCccccccccHHHHHHHHHHHHHHHHhcCCcEEEE
Confidence                111111111111100                                                             


Q ss_pred             -------------------------------------------------------CcEEEEEeeCchhHHHHHHhccCCC
Q 018574          207 -------------------------------------------------------LQVVLISATLPHEILEMTTKFMTDP  231 (354)
Q Consensus       207 -------------------------------------------------------~~~i~lSaT~~~~~~~~~~~~~~~~  231 (354)
                                                                             .++.+||+|...+..++...|-.+.
T Consensus       305 dgeV~iVDe~TGR~m~grrws~GLHQaiEaKEgv~It~e~~tlAsIT~QnfFr~Y~kL~GMTGTa~te~~Ef~~iY~l~v  384 (870)
T CHL00122        305 NNEIIIVDEFTGRIMPGRRWSDGLHQAIEAKENLPIRQETETLASITYQNFFLLYPKLSGMTGTAKTEELEFEKIYNLEV  384 (870)
T ss_pred             CCEEEEEECCCCcCCCCCccchHHHHHHHhhcCCCCCCCceeeeeeeHHHHHHhCchhcccCCCCHHHHHHHHHHhCCCE
Confidence                                                                   4678888888776556555554443


Q ss_pred             eEEEecCCcccccCceeEEEEeccccchHH-HHHHHHhh-CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCH-
Q 018574          232 VKILVKRDELTLEGIKQFFVAVEREEWKFD-TLCDLYDT-LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQ-  308 (354)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~l~~~l~~-~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~-  308 (354)
                      ..+....+....+ ....+..  ....+.. ++..+... ..+.|+||-|.|++..+.++..|.+.|++..++++.... 
T Consensus       385 v~IPtnkp~~R~d-~~d~v~~--t~~~K~~AI~~ei~~~~~~grPVLIgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~~~  461 (870)
T CHL00122        385 VCIPTHRPMLRKD-LPDLIYK--DELSKWRAIADECLQMHQTGRPILIGTTTIEKSELLSQLLKEYRLPHQLLNAKPENV  461 (870)
T ss_pred             EECCCCCCcccee-CCCeEEe--CHHHHHHHHHHHHHHHHhcCCCEEEeeCCHHHHHHHHHHHHHcCCccceeeCCCccc
Confidence            3332222211111 1111111  2222333 33333433 345699999999999999999999999999999987422 


Q ss_pred             HHHHHHHHHHhCC-CCcEEEEccccccCCCcC
Q 018574          309 KERDAIMGEFRSG-TTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       309 ~~r~~~~~~f~~g-~~~vlv~T~~~~~Gidi~  339 (354)
                      ..-.+++..  .| ...|-|+|+++++|.||.
T Consensus       462 ~~EA~IIA~--AG~~G~VTIATNMAGRGTDI~  491 (870)
T CHL00122        462 RRESEIVAQ--AGRKGSITIATNMAGRGTDII  491 (870)
T ss_pred             hhHHHHHHh--cCCCCcEEEeccccCCCcCee
Confidence            222334443  45 567999999999999984

>TIGR00631 uvrb excinuclease ABC, B subunit

Probab=99.72  E-value=6.8e-15  Score=136.72  Aligned_cols=94  Identities=21%  Similarity=0.313  Sum_probs=84.6

Q ss_pred             hHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCC
Q 018574          259 KFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGL  336 (354)
Q Consensus       259 ~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  336 (354)
                      +++.+...+...  .+.+++|||++++.++.+++.|.+.|+.+..+|++++..+|.++++.|+.|++.|+|||+.+++|+
T Consensus       427 qi~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~G~i~VLV~t~~L~rGf  506 (655)
T TIGR00631       427 QVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGINLLREGL  506 (655)
T ss_pred             hHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhcCCceEEEEcChhcCCe
Confidence            555666655543  356899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcCCCcEEEecC-----CCCC
Q 018574          337 DVQQAILFFFLF-----LFCN  352 (354)
Q Consensus       337 di~~~~~Vi~~~-----~p~s  352 (354)
                      |+|++++||++|     .|.|
T Consensus       507 DiP~v~lVvi~DadifG~p~~  527 (655)
T TIGR00631       507 DLPEVSLVAILDADKEGFLRS  527 (655)
T ss_pred             eeCCCcEEEEeCcccccCCCC
Confidence            999999999998     6766

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)

>PRK12902 secA preprotein translocase subunit SecA; Reviewed

Probab=99.72  E-value=1.4e-15  Score=140.79  Aligned_cols=273  Identities=16%  Similarity=0.180  Sum_probs=177.5

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .|++.|.  +-.+.-.+.-+..+.||.|||+++.+|++-....++.   +-||+++.-|+.+-++.+..+...+|+++..
T Consensus        85 r~ydVQl--iGgl~Lh~G~IAEM~TGEGKTL~atlpaylnAL~Gkg---VhVVTvNdYLA~RDae~m~~vy~~LGLtvg~  159 (939)
T PRK12902         85 RHFDVQL--IGGMVLHEGQIAEMKTGEGKTLVATLPSYLNALTGKG---VHVVTVNDYLARRDAEWMGQVHRFLGLSVGL  159 (939)
T ss_pred             CcchhHH--HhhhhhcCCceeeecCCCChhHHHHHHHHHHhhcCCC---eEEEeCCHHHHHhHHHHHHHHHHHhCCeEEE
Confidence            4555554  4444446678899999999999999888876665544   8999999999999999999999999999998


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHH-----HHHHhc--CCccCCCccEEEEecchhhhccC----------------
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRV-----CDMIKR--KTLRTRAIKLLVLDESDEMLSRG----------------  191 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l-----~~~~~~--~~~~~~~~~~vvvDE~h~~~~~~----------------  191 (354)
                      ..++.+..+..  ....++|+++|+..|     .+.+..  .......+.+.||||+|+++-..                
T Consensus       160 i~~~~~~~err--~aY~~DItYgTn~e~gFDYLRDnm~~~~~~~vqR~~~faIVDEvDSILIDEArTPLIISg~~~~~~~  237 (939)
T PRK12902        160 IQQDMSPEERK--KNYACDITYATNSELGFDYLRDNMATDISEVVQRPFNYCVIDEVDSILIDEARTPLIISGQVERPQE  237 (939)
T ss_pred             ECCCCChHHHH--HhcCCCeEEecCCcccccchhhhhcccccccccCccceEEEecccceeeccCCCcccccCCCccchH
Confidence            87766554433  334689999999877     333221  22334678999999999863111                


Q ss_pred             cHHHHHHHHhhCCC--------C---------------------------------------------------------
Q 018574          192 FKDQIYDVYRYLPP--------D---------------------------------------------------------  206 (354)
Q Consensus       192 ~~~~~~~i~~~~~~--------~---------------------------------------------------------  206 (354)
                      .......+...+..        +                                                         
T Consensus       238 ~y~~~~~~~~~L~~~~~~~~~~dy~idek~~~v~LTe~G~~~~e~~~~i~nLy~~~~~~~~~i~~AL~A~~lf~~d~dYi  317 (939)
T PRK12902        238 KYQKAAEVAAALQRKDGIDPEGDYEVDEKQRNVLLTDEGFAKAEQLLGVSDLFDPQDPWAHYIFNALKAKELFIKDVNYI  317 (939)
T ss_pred             HHHHHHHHHHHhhhhcccCCCCCeEEecCCCeeeEcHHHHHHHHHHhCchhhcCcccHHHHHHHHHHHHHHHHhcCCeEE
Confidence            11111111111110        0                                                         


Q ss_pred             ---------------------------------------------------------CcEEEEEeeCchhHHHHHHhccC
Q 018574          207 ---------------------------------------------------------LQVVLISATLPHEILEMTTKFMT  229 (354)
Q Consensus       207 ---------------------------------------------------------~~~i~lSaT~~~~~~~~~~~~~~  229 (354)
                                                                               .++.+||+|...+..++.+.|-.
T Consensus       318 V~dg~V~IVDe~TGR~m~grrws~GLHQaIEaKE~v~it~e~~tlAsIT~QnfFr~Y~kLsGMTGTa~te~~Ef~~iY~l  397 (939)
T PRK12902        318 VRNGEVVIVDEFTGRVMPGRRWSDGLHQAIEAKEGVEIQPETQTLASITYQNFFLLYPKLAGMTGTAKTEEVEFEKTYKL  397 (939)
T ss_pred             EECCEEEEEECCCCCCCCCCccchHHHHHHHhhcCCCCCCCceeeeeeeHHHHHhhCchhcccCCCCHHHHHHHHHHhCC
Confidence                                                                     46677777776655555555444


Q ss_pred             CCeEEEecCCcccccCceeEEEEeccccchHHHHHHHH-hh-CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCC
Q 018574          230 DPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLY-DT-LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMP  307 (354)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l-~~-~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~  307 (354)
                      +...+...............|.   ....+...+.+-+ .. ..+.|+||-+.|++.++.++..|.+.|+++.++++.-.
T Consensus       398 ~Vv~IPTnkP~~R~d~~d~vy~---t~~~K~~Ai~~ei~~~~~~GrPVLIgT~SVe~SE~ls~~L~~~gi~h~vLNAk~~  474 (939)
T PRK12902        398 EVTVIPTNRPRRRQDWPDQVYK---TEIAKWRAVANETAEMHKQGRPVLVGTTSVEKSELLSALLQEQGIPHNLLNAKPE  474 (939)
T ss_pred             cEEEcCCCCCeeeecCCCeEEc---CHHHHHHHHHHHHHHHHhCCCCEEEeeCCHHHHHHHHHHHHHcCCchheeeCCCc
Confidence            4333332222221111111211   1122444444433 33 34679999999999999999999999999999998732


Q ss_pred             H-HHHHHHHHHHhCC-CCcEEEEccccccCCCcC
Q 018574          308 Q-KERDAIMGEFRSG-TTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       308 ~-~~r~~~~~~f~~g-~~~vlv~T~~~~~Gidi~  339 (354)
                      . +.-.+++..  .| ...|-|+|+++++|.||.
T Consensus       475 ~~~~EA~IIa~--AG~~GaVTIATNMAGRGTDIk  506 (939)
T PRK12902        475 NVEREAEIVAQ--AGRKGAVTIATNMAGRGTDII  506 (939)
T ss_pred             chHhHHHHHHh--cCCCCcEEEeccCCCCCcCEe
Confidence            2 222334443  45 467999999999999985

>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=99.70  E-value=6e-16  Score=132.01  Aligned_cols=298  Identities=14%  Similarity=0.179  Sum_probs=195.1

Q ss_pred             CcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEE
Q 018574           28 GVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALIL  107 (354)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil  107 (354)
                      ..+.++.|...+.++...+.+++..-...|.++.+.++.+.+++-+++.+.||+|||...-.+.+.......  ..+...
T Consensus        20 ~~k~~Npf~~~p~s~rY~~ilk~R~~LPvw~~k~~F~~~l~~nQ~~v~vGetgsGKttQiPq~~~~~~~~~~--~~v~CT   97 (699)
T KOG0925|consen   20 NAKAINPFNGKPYSQRYYDILKKRRELPVWEQKEEFLKLLLNNQIIVLVGETGSGKTTQIPQFVLEYELSHL--TGVACT   97 (699)
T ss_pred             hhhhcCCCCCCcCcHHHHHHHHHHhcCchHHhHHHHHHHHhcCceEEEEecCCCCccccCcHHHHHHHHhhc--cceeec
Confidence            334489999999999999999997766889999999999999999999999999999988888877665543  224555


Q ss_pred             cCCHHHHHHHHHHHHH-----hccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEe
Q 018574          108 SPTRELATQTEKVILA-----IGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLD  182 (354)
Q Consensus       108 ~p~~~l~~q~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvD  182 (354)
                      -|.+.-+-+++.+...     ++...|..+..-.+..+          ..-+-++|.++|++......+ +.++++||+|
T Consensus        98 Qprrvaamsva~RVadEMDv~lG~EVGysIrfEdC~~~----------~T~Lky~tDgmLlrEams~p~-l~~y~viiLD  166 (699)
T KOG0925|consen   98 QPRRVAAMSVAQRVADEMDVTLGEEVGYSIRFEDCTSP----------NTLLKYCTDGMLLREAMSDPL-LGRYGVIILD  166 (699)
T ss_pred             CchHHHHHHHHHHHHHHhccccchhccccccccccCCh----------hHHHHHhcchHHHHHHhhCcc-cccccEEEec
Confidence            5887766666665433     22222222211111110          012224677777665544333 4689999999


Q ss_pred             cchhh--hccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccch-
Q 018574          183 ESDEM--LSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK-  259 (354)
Q Consensus       183 E~h~~--~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  259 (354)
                      |+|.-  ........++.+.... ++.+++.+|||+.....   +.++.++-.+.+..  ..  ....+|..-...++- 
T Consensus       167 eahERtlATDiLmGllk~v~~~r-pdLk~vvmSatl~a~Kf---q~yf~n~Pll~vpg--~~--PvEi~Yt~e~erDylE  238 (699)
T KOG0925|consen  167 EAHERTLATDILMGLLKEVVRNR-PDLKLVVMSATLDAEKF---QRYFGNAPLLAVPG--TH--PVEIFYTPEPERDYLE  238 (699)
T ss_pred             hhhhhhHHHHHHHHHHHHHHhhC-CCceEEEeecccchHHH---HHHhCCCCeeecCC--CC--ceEEEecCCCChhHHH
Confidence            99973  2222445666666665 59999999999865433   34555443333332  11  122244433333322 


Q ss_pred             --HHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC---------CCeEEEeecCCCHHHHHHHHHHHhC---C--CC
Q 018574          260 --FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY---------NFTVSSMHGDMPQKERDAIMGEFRS---G--TT  323 (354)
Q Consensus       260 --~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~---------~~~~~~~~~~~~~~~r~~~~~~f~~---g--~~  323 (354)
                        +..+..+......|.++||....++.+...+.+.+.         ..++..++    ++++..+++-...   |  ..
T Consensus       239 aairtV~qih~~ee~GDilvFLtgeeeIe~aC~~i~re~~~L~~~~g~l~v~PLy----P~~qq~iFep~p~~~~~~~~R  314 (699)
T KOG0925|consen  239 AAIRTVLQIHMCEEPGDILVFLTGEEEIEDACRKISREVDNLGPQVGPLKVVPLY----PAQQQRIFEPAPEKRNGAYGR  314 (699)
T ss_pred             HHHHHHHHHHhccCCCCEEEEecCHHHHHHHHHHHHHHHHhhccccCCceEEecC----chhhccccCCCCcccCCCccc
Confidence              334444444556788999999999998888877632         34566666    3444444443321   2  35


Q ss_pred             cEEEEccccccCCCcCCCcEEEecCCC
Q 018574          324 RVLITTDVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       324 ~vlv~T~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      +|+|+|++++..+.++.+.+||.-++-
T Consensus       315 kvVvstniaetsltidgiv~VIDpGf~  341 (699)
T KOG0925|consen  315 KVVVSTNIAETSLTIDGIVFVIDPGFS  341 (699)
T ss_pred             eEEEEecchheeeeeccEEEEecCchh
Confidence            799999999999999999999998764

>PRK12903 secA preprotein translocase subunit SecA; Reviewed

Probab=99.70  E-value=3.1e-15  Score=137.97  Aligned_cols=288  Identities=14%  Similarity=0.146  Sum_probs=187.4

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|. .|++.|.-.--.+.  +.-+..+.||-|||+++.+|++-....++.   +-|++.+.-|+..-++.+..+...+|+
T Consensus        75 lG~-r~ydVQliGglvLh--~G~IAEMkTGEGKTLvAtLpayLnAL~Gkg---VhVVTvNdYLA~RDae~mg~vy~fLGL  148 (925)
T PRK12903         75 LGK-RPYDVQIIGGIILD--LGSVAEMKTGEGKTITSIAPVYLNALTGKG---VIVSTVNEYLAERDAEEMGKVFNFLGL  148 (925)
T ss_pred             hCC-CcCchHHHHHHHHh--cCCeeeecCCCCccHHHHHHHHHHHhcCCc---eEEEecchhhhhhhHHHHHHHHHHhCC
Confidence            355 56666655443333  446899999999999999888755555433   788888899999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcC------CccCCCccEEEEecchhhhccC------------
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRK------TLRTRAIKLLVLDESDEMLSRG------------  191 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~------~~~~~~~~~vvvDE~h~~~~~~------------  191 (354)
                      ++.....+....+....+  .++|+++|...| .++++..      ....+.+.+.||||+|.++-..            
T Consensus       149 svG~i~~~~~~~~rr~aY--~~DItYgTn~E~gFDYLRDnm~~~~~~~vqR~~~faIVDEVDSILIDEArTPLIISg~~~  226 (925)
T PRK12903        149 SVGINKANMDPNLKREAY--ACDITYSVHSELGFDYLRDNMVSSKEEKVQRGLNFCLIDEVDSILIDEAKTPLIISGGQS  226 (925)
T ss_pred             ceeeeCCCCChHHHHHhc--cCCCeeecCcccchhhhhhcccccHHHhcCcccceeeeccchheeecccCCcccccCCCc
Confidence            998887765555444433  489999998776 3444432      1223678899999999863111            


Q ss_pred             ----cHHHHHHHHhhCCCC-------------------------------------------------------------
Q 018574          192 ----FKDQIYDVYRYLPPD-------------------------------------------------------------  206 (354)
Q Consensus       192 ----~~~~~~~i~~~~~~~-------------------------------------------------------------  206 (354)
                          ....+..+...+...                                                             
T Consensus       227 ~~~~~Y~~~~~~v~~L~~~dy~iDek~k~v~LTe~G~~~~E~~l~i~nLy~~~n~~l~h~i~~AL~A~~lf~rd~dYiV~  306 (925)
T PRK12903        227 NDSNLYLAADQFVRTLKEDDYKIDEETKAISLTEKGIKKANKFFKLKNLYDIENSELVHRIQNALRAHKVMKEDVEYIVR  306 (925)
T ss_pred             cchHHHHHHHHHHHhccccceEEecccceEEECHhHHHHHHHHcCCCcccChhhHHHHHHHHHHHHHHHHHhcCCceEEE
Confidence                112222222222100                                                             


Q ss_pred             -------------------------------------------------------CcEEEEEeeCchhHHHHHHhccCCC
Q 018574          207 -------------------------------------------------------LQVVLISATLPHEILEMTTKFMTDP  231 (354)
Q Consensus       207 -------------------------------------------------------~~~i~lSaT~~~~~~~~~~~~~~~~  231 (354)
                                                                             .++.+||+|...+..++.+.|-.+.
T Consensus       307 dg~V~IVDefTGR~m~gRrwsdGLHQaIEAKEgv~I~~e~~TlAsIT~QnfFr~Y~kLsGMTGTA~te~~Ef~~iY~l~V  386 (925)
T PRK12903        307 DGKIELVDQFTGRIMEGRSYSEGLQQAIQAKEMVEIEPETKTLATITYQNFFRLFKKLSGMTGTAKTEEQEFIDIYNMRV  386 (925)
T ss_pred             CCEEEEEECCCCCCCCCCccchHHHHHHHHHcCCCCCCCceeeeeehHHHHHHhcchhhccCCCCHHHHHHHHHHhCCCE
Confidence                                                                   4677788887666666665554443


Q ss_pred             eEEEecCCcccccCceeEEEEeccccchHHHHHHHHh-h-CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHH
Q 018574          232 VKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD-T-LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQK  309 (354)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~-~-~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~  309 (354)
                      ..+....+....+.....|.  .... +...+.+.+. . ..+.|+||.|.|++.++.++..|.+.|++..++++.....
T Consensus       387 v~IPTnkP~~R~D~~d~iy~--t~~~-K~~Aii~ei~~~~~~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~e~  463 (925)
T PRK12903        387 NVVPTNKPVIRKDEPDSIFG--TKHA-KWKAVVKEVKRVHKKGQPILIGTAQVEDSETLHELLLEANIPHTVLNAKQNAR  463 (925)
T ss_pred             EECCCCCCeeeeeCCCcEEE--cHHH-HHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCceeecccchhh
Confidence            33332222111111111222  1222 4444444333 2 3467999999999999999999999999999999874322


Q ss_pred             HHHHHHHHHhCC-CCcEEEEccccccCCCcCCCc--------EEEecCCCCC
Q 018574          310 ERDAIMGEFRSG-TTRVLITTDVWARGLDVQQAI--------LFFFLFLFCN  352 (354)
Q Consensus       310 ~r~~~~~~f~~g-~~~vlv~T~~~~~Gidi~~~~--------~Vi~~~~p~s  352 (354)
                      + .+++.  ..| ...|.|+|+++++|.||.--.        |||....|+|
T Consensus       464 E-A~IIa--~AG~~GaVTIATNMAGRGTDI~Lg~~V~~~GGLhVIgTerheS  512 (925)
T PRK12903        464 E-AEIIA--KAGQKGAITIATNMAGRGTDIKLSKEVLELGGLYVLGTDKAES  512 (925)
T ss_pred             H-HHHHH--hCCCCCeEEEecccccCCcCccCchhHHHcCCcEEEecccCch
Confidence            2 22333  456 567999999999999997333        8888887776

>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]

Probab=99.70  E-value=2.7e-15  Score=135.05  Aligned_cols=281  Identities=18%  Similarity=0.192  Sum_probs=178.9

Q ss_pred             HHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC---CceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           58 AIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS---REVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        58 ~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~---~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .-.+++++++..+.-+||+|.||||||+..-..++..=....   .+.-+=|.-|++.-+..++++...-...++-.+..
T Consensus       259 aeEq~IMEaIn~n~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAkRVa~EL~~~~~eVsY  338 (1172)
T KOG0926|consen  259 AEEQRIMEAINENPVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAKRVAFELGVLGSEVSY  338 (1172)
T ss_pred             HHHHHHHHHhhcCCeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHHHHHHHHHhccCccceeE
Confidence            344578888888999999999999999766666554433222   12235556688866666655543222122333322


Q ss_pred             Ee-CCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc-----CcHHHHHHHHhhCCC---
Q 018574          135 CV-GGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-----GFKDQIYDVYRYLPP---  205 (354)
Q Consensus       135 ~~-~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~-----~~~~~~~~i~~~~~~---  205 (354)
                      .. -+.       .....+.|-+.|.+.|++.+++ .+.+.+++.||+||||.-.-.     +....+..+......   
T Consensus       339 qIRfd~-------ti~e~T~IkFMTDGVLLrEi~~-DflL~kYSvIIlDEAHERSvnTDILiGmLSRiV~LR~k~~ke~~  410 (1172)
T KOG0926|consen  339 QIRFDG-------TIGEDTSIKFMTDGVLLREIEN-DFLLTKYSVIILDEAHERSVNTDILIGMLSRIVPLRQKYYKEQC  410 (1172)
T ss_pred             EEEecc-------ccCCCceeEEecchHHHHHHHH-hHhhhhceeEEechhhhccchHHHHHHHHHHHHHHHHHHhhhhc
Confidence            11 111       1223478999999999998886 555789999999999973211     111222222233323   


Q ss_pred             ---CCcEEEEEeeCchhHHHHHHhccCCCe-EEEecCCcccccCceeEEEEeccccc---hHHHHHHHHhhCCCCcEEEE
Q 018574          206 ---DLQVVLISATLPHEILEMTTKFMTDPV-KILVKRDELTLEGIKQFFVAVEREEW---KFDTLCDLYDTLTITQAVIF  278 (354)
Q Consensus       206 ---~~~~i~lSaT~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~l~~~l~~~~~~~~lvf  278 (354)
                         ..++|+||||+.-....-.+.++..+- .+.++...   ..+..++......++   ......++.+..+.|-+|||
T Consensus       411 ~~kpLKLIIMSATLRVsDFtenk~LFpi~pPlikVdARQ---fPVsIHF~krT~~DYi~eAfrKtc~IH~kLP~G~ILVF  487 (1172)
T KOG0926|consen  411 QIKPLKLIIMSATLRVSDFTENKRLFPIPPPLIKVDARQ---FPVSIHFNKRTPDDYIAEAFRKTCKIHKKLPPGGILVF  487 (1172)
T ss_pred             ccCceeEEEEeeeEEecccccCceecCCCCceeeeeccc---CceEEEeccCCCchHHHHHHHHHHHHhhcCCCCcEEEE
Confidence               678999999996543333333333222 22222221   122233333333332   34455566778888999999


Q ss_pred             cCchhhHHHHHHHHhcCC--------------------------------------------------------------
Q 018574          279 CNTKRKVDWLTEKMRGYN--------------------------------------------------------------  296 (354)
Q Consensus       279 ~~~~~~~~~l~~~l~~~~--------------------------------------------------------------  296 (354)
                      +...+++.++.+.|++.-                                                              
T Consensus       488 vTGQqEV~qL~~kLRK~~p~~f~~~k~~k~~k~~~e~k~~~s~~~~~~k~~dfe~Ed~~~~~ed~d~~~~~~~~~~~raa  567 (1172)
T KOG0926|consen  488 VTGQQEVDQLCEKLRKRFPESFGGVKMKKNVKAFKELKENPSDIGDSNKTDDFEEEDMYESDEDIDQELVDSGFASLRAA  567 (1172)
T ss_pred             EeChHHHHHHHHHHHhhCccccccchhhhhhhhccccccchhhhccCcccccchhcccccchhhhhhhhhcccchhhhhh
Confidence            999999999999998630                                                              


Q ss_pred             -------------------------------------CeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcC
Q 018574          297 -------------------------------------FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       297 -------------------------------------~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~  339 (354)
                                                           ..|..+++-++.+++.+++..-..|..-++|+|+++++.+.||
T Consensus       568 ~~~~~De~~~~nge~e~d~~e~~~E~~~~~~~~~~~pLyvLPLYSLLs~~~Q~RVF~~~p~g~RLcVVaTNVAETSLTIP  647 (1172)
T KOG0926|consen  568 FNALADENGSVNGEPEKDESEEGQEAEQGKGKFSPGPLYVLPLYSLLSTEKQMRVFDEVPKGERLCVVATNVAETSLTIP  647 (1172)
T ss_pred             hhccccccccccCCcccchhhhchhhhhccCCCCCCceEEeehhhhcCHHHhhhhccCCCCCceEEEEeccchhcccccC
Confidence                                                 0044555556777777777777778888999999999999999


Q ss_pred             CCcEEEecCC
Q 018574          340 QAILFFFLFL  349 (354)
Q Consensus       340 ~~~~Vi~~~~  349 (354)
                      +++.||..+.
T Consensus       648 gIkYVVD~Gr  657 (1172)
T KOG0926|consen  648 GIKYVVDCGR  657 (1172)
T ss_pred             CeeEEEeccc
Confidence            9999998764

>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]

Probab=99.69  E-value=2e-15  Score=138.49  Aligned_cols=159  Identities=14%  Similarity=0.164  Sum_probs=115.8

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhcc-CcCeEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGD-FINIQAH  133 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~-~~~~~~~  133 (354)
                      .|-.||.+....+=+++..+|.|||.+|||++....+-..+.... ...++++.|+++|+.|.......... ..-....
T Consensus       511 ~Pd~WQ~elLDsvDr~eSavIVAPTSaGKTfisfY~iEKVLResD-~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~rg~  589 (1330)
T KOG0949|consen  511 CPDEWQRELLDSVDRNESAVIVAPTSAGKTFISFYAIEKVLRESD-SDVVIYVAPTKALVNQVSANVYARFDTKTFLRGV  589 (1330)
T ss_pred             CCcHHHHHHhhhhhcccceEEEeeccCCceeccHHHHHHHHhhcC-CCEEEEecchHHHhhhhhHHHHHhhccCccccch
Confidence            688899999999888999999999999999877777666665544 34599999999999999988776442 2222333


Q ss_pred             EEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc---CCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEE
Q 018574          134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR---KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVV  210 (354)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~---~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i  210 (354)
                      .+.|.-..+....  .-.|+|+|+-|+.+..++..   ......+++++|+||+|.+....-...+..++...  .++++
T Consensus       590 sl~g~ltqEYsin--p~nCQVLITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll~li--~CP~L  665 (1330)
T KOG0949|consen  590 SLLGDLTQEYSIN--PWNCQVLITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNEEDGLLWEQLLLLI--PCPFL  665 (1330)
T ss_pred             hhHhhhhHHhcCC--chhceEEEEchHHHHHHhcCchhhhhhhhcceEEEechhhhccccccchHHHHHHHhc--CCCee
Confidence            3333333332222  22499999999999887765   34445789999999999997665445555555543  45689


Q ss_pred             EEEeeCch
Q 018574          211 LISATLPH  218 (354)
Q Consensus       211 ~lSaT~~~  218 (354)
                      ++|||..+
T Consensus       666 ~LSATigN  673 (1330)
T KOG0949|consen  666 VLSATIGN  673 (1330)
T ss_pred             EEecccCC
Confidence            99999854

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=99.68  E-value=9.4e-15  Score=129.54  Aligned_cols=277  Identities=13%  Similarity=0.167  Sum_probs=180.5

Q ss_pred             CCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHH-h----cc
Q 018574           52 GFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILA-I----GD  126 (354)
Q Consensus        52 ~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~-~----~~  126 (354)
                      .+......+.+++..+..++-++|.+.||||||+.....++..=+.. .+ -+-+.-|.+.-+..++.+... .    +.
T Consensus       353 q~LPvf~~R~~ll~~ir~n~vvvivgETGSGKTTQl~QyL~edGY~~-~G-mIGcTQPRRvAAiSVAkrVa~EM~~~lG~  430 (1042)
T KOG0924|consen  353 QYLPVFACRDQLLSVIRENQVVVIVGETGSGKTTQLAQYLYEDGYAD-NG-MIGCTQPRRVAAISVAKRVAEEMGVTLGD  430 (1042)
T ss_pred             hhcchHHHHHHHHHHHhhCcEEEEEecCCCCchhhhHHHHHhccccc-CC-eeeecCchHHHHHHHHHHHHHHhCCcccc
Confidence            34466778888888888999999999999999987665554432222 11 234444888777777766543 3    22


Q ss_pred             CcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc-C-cHHHHHHHHhhCC
Q 018574          127 FINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-G-FKDQIYDVYRYLP  204 (354)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~-~-~~~~~~~i~~~~~  204 (354)
                      ..|+.+..-...          .....|=+.|.+.|++..... -.+.++++||+||||.-.-+ + ....++.++.. +
T Consensus       431 ~VGYsIRFEdvT----------~~~T~IkymTDGiLLrEsL~d-~~L~kYSviImDEAHERslNtDilfGllk~~lar-R  498 (1042)
T KOG0924|consen  431 TVGYSIRFEDVT----------SEDTKIKYMTDGILLRESLKD-RDLDKYSVIIMDEAHERSLNTDILFGLLKKVLAR-R  498 (1042)
T ss_pred             ccceEEEeeecC----------CCceeEEEeccchHHHHHhhh-hhhhheeEEEechhhhcccchHHHHHHHHHHHHh-h
Confidence            233333221111          112577889999988754432 23568999999999974322 1 12233333333 3


Q ss_pred             CCCcEEEEEeeCchhHHHHHHhccC-CCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh---hCCCCcEEEEcC
Q 018574          205 PDLQVVLISATLPHEILEMTTKFMT-DPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD---TLTITQAVIFCN  280 (354)
Q Consensus       205 ~~~~~i~lSaT~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~---~~~~~~~lvf~~  280 (354)
                      .+.++|..|||+.....   ..|++ -|.. .+....   ..+...|...+.+++....+...+.   ....|.++||..
T Consensus       499 rdlKliVtSATm~a~kf---~nfFgn~p~f-~IpGRT---yPV~~~~~k~p~eDYVeaavkq~v~Ihl~~~~GdilIfmt  571 (1042)
T KOG0924|consen  499 RDLKLIVTSATMDAQKF---SNFFGNCPQF-TIPGRT---YPVEIMYTKTPVEDYVEAAVKQAVQIHLSGPPGDILIFMT  571 (1042)
T ss_pred             ccceEEEeeccccHHHH---HHHhCCCcee-eecCCc---cceEEEeccCchHHHHHHHHhhheEeeccCCCCCEEEecC
Confidence            58899999999976432   24444 3432 222221   1234444444444444444444443   224478999999


Q ss_pred             chhhHHHHHHHHh----cC------CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          281 TKRKVDWLTEKMR----GY------NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       281 ~~~~~~~l~~~l~----~~------~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      ..+..+.....+.    +.      ++.+..+++-++.+-+.++++....|..+++|+|+++++.+.+|++.+||.-++
T Consensus       572 GqediE~t~~~i~~~l~ql~~~~~~~L~vlpiYSQLp~dlQ~kiFq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy  650 (1042)
T KOG0924|consen  572 GQEDIECTCDIIKEKLEQLDSAPTTDLAVLPIYSQLPADLQAKIFQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGY  650 (1042)
T ss_pred             CCcchhHHHHHHHHHHHhhhcCCCCceEEEeehhhCchhhhhhhcccCCCCceeEEEeccchhhceeecceEEEEecCc
Confidence            8877665554443    22      567889999999999899988888899999999999999999999999998765

>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional

Probab=99.66  E-value=9.6e-14  Score=131.01  Aligned_cols=84  Identities=15%  Similarity=0.305  Sum_probs=62.8

Q ss_pred             HHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC-CCeEEEeecCCCHHHHHHHHHHHh----CCCCcEEEEccccccCCC
Q 018574          263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY-NFTVSSMHGDMPQKERDAIMGEFR----SGTTRVLITTDVWARGLD  337 (354)
Q Consensus       263 l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~-~~~~~~~~~~~~~~~r~~~~~~f~----~g~~~vlv~T~~~~~Gid  337 (354)
                      +..++.  ..+.++|+++|.+..++++..|... +.. ....|.   ..+..+++.|+    .++..||++|..+++|+|
T Consensus       527 i~~l~~--~~gg~LVlFtSy~~l~~v~~~l~~~~~~~-ll~Q~~---~~~~~ll~~f~~~~~~~~~~VL~g~~sf~EGVD  600 (697)
T PRK11747        527 LPELLE--KHKGSLVLFASRRQMQKVADLLPRDLRLM-LLVQGD---QPRQRLLEKHKKRVDEGEGSVLFGLQSFAEGLD  600 (697)
T ss_pred             HHHHHh--cCCCEEEEeCcHHHHHHHHHHHHHhcCCc-EEEeCC---chHHHHHHHHHHHhccCCCeEEEEecccccccc
Confidence            334444  3456999999999999999999743 333 334443   34667776665    467889999999999999


Q ss_pred             cCC--CcEEEecCCCCC
Q 018574          338 VQQ--AILFFFLFLFCN  352 (354)
Q Consensus       338 i~~--~~~Vi~~~~p~s  352 (354)
                      +|+  +++||...+|-.
T Consensus       601 ~pGd~l~~vII~kLPF~  617 (697)
T PRK11747        601 LPGDYLTQVIITKIPFA  617 (697)
T ss_pred             CCCCceEEEEEEcCCCC
Confidence            985  789999999853

>TIGR00604 rad3 DNA repair helicase (rad3)

Probab=99.65  E-value=5.7e-14  Score=133.55  Aligned_cols=75  Identities=19%  Similarity=0.203  Sum_probs=63.6

Q ss_pred             CCCCCChHHHHHhHhhhh----cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           51 YGFEKPSAIQQRAVMPII----KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~----~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      +.|..++|.|.+.+..+.    .+++.++.+|||+|||.+.+.+++++........+++|++.|.+-..|..+++++..
T Consensus         6 FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~~   84 (705)
T TIGR00604         6 FPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKLM   84 (705)
T ss_pred             cCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhhh
Confidence            567667999998887655    488999999999999999999999887655444689999999999999999998843

All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]

Probab=99.64  E-value=2.8e-14  Score=135.50  Aligned_cols=87  Identities=14%  Similarity=0.240  Sum_probs=65.6

Q ss_pred             HHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCe-EEEeecCCCHHHHHHHHHHHhCCCC-cEEEEccccccCCCc
Q 018574          261 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT-VSSMHGDMPQKERDAIMGEFRSGTT-RVLITTDVWARGLDV  338 (354)
Q Consensus       261 ~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~-~~~~~~~~~~~~r~~~~~~f~~g~~-~vlv~T~~~~~Gidi  338 (354)
                      ..+..++...+ ++++||++|.+.++.+++.++..... .....|..   .+.+.++.|+++.- .++|++..+++|+|+
T Consensus       469 ~~i~~~~~~~~-~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~---~~~~~l~~f~~~~~~~~lv~~gsf~EGVD~  544 (654)
T COG1199         469 AYLREILKASP-GGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGED---EREELLEKFKASGEGLILVGGGSFWEGVDF  544 (654)
T ss_pred             HHHHHHHhhcC-CCEEEEeccHHHHHHHHHHHhhcCccceeeecCCC---cHHHHHHHHHHhcCCeEEEeeccccCcccC
Confidence            33444444444 59999999999999999999876542 33444443   34478888887655 899999999999999


Q ss_pred             CCC--cEEEecCCCC
Q 018574          339 QQA--ILFFFLFLFC  351 (354)
Q Consensus       339 ~~~--~~Vi~~~~p~  351 (354)
                      |+-  ++||.+++|-
T Consensus       545 ~g~~l~~vvI~~lPf  559 (654)
T COG1199         545 PGDALRLVVIVGLPF  559 (654)
T ss_pred             CCCCeeEEEEEecCC
Confidence            854  7899999885

>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=99.61  E-value=2.8e-14  Score=126.97  Aligned_cols=84  Identities=20%  Similarity=0.301  Sum_probs=74.3

Q ss_pred             CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhC--CCCcEEEEc-cccccCCCcCCCcEEEe
Q 018574          270 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRS--GTTRVLITT-DVWARGLDVQQAILFFF  346 (354)
Q Consensus       270 ~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~--g~~~vlv~T-~~~~~Gidi~~~~~Vi~  346 (354)
                      ....+++|..+-.....-+...+.+.|.....++|....++|..+++.|..  |..+|++-. .+.+.|+|+-..+|+|.
T Consensus       744 ~skeK~viVSQwtsvLniv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlil  823 (901)
T KOG4439|consen  744 SSKEKVVIVSQWTSVLNIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLIL  823 (901)
T ss_pred             cccceeeehhHHHHHHHHHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEE
Confidence            345789999998888899999999999999999999999999999999974  556776655 88999999999999999


Q ss_pred             cCCCCCC
Q 018574          347 LFLFCNV  353 (354)
Q Consensus       347 ~~~p~s~  353 (354)
                      +|+.||+
T Consensus       824 vDlHWNP  830 (901)
T KOG4439|consen  824 VDLHWNP  830 (901)
T ss_pred             EecccCH
Confidence            9999996

>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]

Probab=99.57  E-value=2.5e-13  Score=121.20  Aligned_cols=83  Identities=13%  Similarity=0.234  Sum_probs=76.7

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcE-EEEccccccCCCcCCCcEEEecCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRV-LITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~v-lv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      .++++|+|++-.+..+-+.++|...++....++|.....+|..++++|+..++.| |++|.+.+-||++..++.|||||-
T Consensus      1043 egHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~sdiFvFLLSTRAGGLGINLTAADTViFYdS 1122 (1185)
T KOG0388|consen 1043 EGHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQASDIFVFLLSTRAGGLGINLTAADTVIFYDS 1122 (1185)
T ss_pred             CCceEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccCCceEEEEEecccCcccccccccceEEEecC
Confidence            3579999999999999999999999999999999999999999999999876665 778999999999999999999999


Q ss_pred             CCCC
Q 018574          350 FCNV  353 (354)
Q Consensus       350 p~s~  353 (354)
                      -|||
T Consensus      1123 DWNP 1126 (1185)
T KOG0388|consen 1123 DWNP 1126 (1185)
T ss_pred             CCCc
Confidence            9886

>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]

Probab=99.55  E-value=6.6e-14  Score=121.61  Aligned_cols=241  Identities=16%  Similarity=0.169  Sum_probs=154.1

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE  149 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (354)
                      ++-++-.|||.||||.-++    +++...+   ..++.-|.+-|+..+++++++.+    +.+..++|.......-.  .
T Consensus       191 RkIi~H~GPTNSGKTy~AL----qrl~~ak---sGvycGPLrLLA~EV~~r~na~g----ipCdL~TGeE~~~~~~~--~  257 (700)
T KOG0953|consen  191 RKIIMHVGPTNSGKTYRAL----QRLKSAK---SGVYCGPLRLLAHEVYDRLNALG----IPCDLLTGEERRFVLDN--G  257 (700)
T ss_pred             heEEEEeCCCCCchhHHHH----HHHhhhc---cceecchHHHHHHHHHHHhhhcC----CCccccccceeeecCCC--C
Confidence            3457788999999996544    3443333   37999999999999999998776    77777776543322111  2


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHH-HHhhCCCCCcEEEEEeeCchhHHHHHHhcc
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYD-VYRYLPPDLQVVLISATLPHEILEMTTKFM  228 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~-i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~  228 (354)
                      .++..+-+|.++..        ....+++.|+||++.|.+++-+-.+.. ++........+.+     .+.+..+.+..+
T Consensus       258 ~~a~hvScTVEM~s--------v~~~yeVAViDEIQmm~Dp~RGwAWTrALLGl~AdEiHLCG-----epsvldlV~~i~  324 (700)
T KOG0953|consen  258 NPAQHVSCTVEMVS--------VNTPYEVAVIDEIQMMRDPSRGWAWTRALLGLAADEIHLCG-----EPSVLDLVRKIL  324 (700)
T ss_pred             CcccceEEEEEEee--------cCCceEEEEehhHHhhcCcccchHHHHHHHhhhhhhhhccC-----CchHHHHHHHHH
Confidence            34677777876541        124678999999999987653222222 2222112222221     122333333333


Q ss_pred             CCCeEEEecCCcccccCc-eeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCe-EEEeecCC
Q 018574          229 TDPVKILVKRDELTLEGI-KQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT-VSSMHGDM  306 (354)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~-~~~~~~~~  306 (354)
                      ...           .+.+ ...|..+.+-. ..+.+..-+.....|.++| |-|++....+...+.+.+.. +.+++|.+
T Consensus       325 k~T-----------Gd~vev~~YeRl~pL~-v~~~~~~sl~nlk~GDCvV-~FSkk~I~~~k~kIE~~g~~k~aVIYGsL  391 (700)
T KOG0953|consen  325 KMT-----------GDDVEVREYERLSPLV-VEETALGSLSNLKPGDCVV-AFSKKDIFTVKKKIEKAGNHKCAVIYGSL  391 (700)
T ss_pred             hhc-----------CCeeEEEeecccCcce-ehhhhhhhhccCCCCCeEE-EeehhhHHHHHHHHHHhcCcceEEEecCC
Confidence            211           0111 12222222221 2223333444444455554 55678888899999887665 99999999


Q ss_pred             CHHHHHHHHHHHhC--CCCcEEEEccccccCCCcCCCcEEEecCCC
Q 018574          307 PQKERDAIMGEFRS--GTTRVLITTDVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       307 ~~~~r~~~~~~f~~--g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      +++.|.+.-..|++  ++.+|||+|+++++|+|+ +++.|||+++-
T Consensus       392 PPeTr~aQA~~FNd~~~e~dvlVAsDAIGMGLNL-~IrRiiF~sl~  436 (700)
T KOG0953|consen  392 PPETRLAQAALFNDPSNECDVLVASDAIGMGLNL-NIRRIIFYSLI  436 (700)
T ss_pred             CCchhHHHHHHhCCCCCccceEEeeccccccccc-ceeEEEEeecc
Confidence            99999999999987  889999999999999999 59999998874

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=99.54  E-value=1.5e-12  Score=111.79  Aligned_cols=81  Identities=19%  Similarity=0.359  Sum_probs=72.7

Q ss_pred             CcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCC-CCcEEEEc-cccccCCCcCCCcEEEecCCC
Q 018574          273 TQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSG-TTRVLITT-DVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       273 ~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g-~~~vlv~T-~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      -|.|||.+.....+-+.-.|.+.|+.|+-+.|+|++..|...++.|.++ +..|++.+ .+.+.-+|+..+.+|+++|.=
T Consensus       639 ~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~vfLvSLkAGGVALNLteASqVFmmDPW  718 (791)
T KOG1002|consen  639 AKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCRVFLVSLKAGGVALNLTEASQVFMMDPW  718 (791)
T ss_pred             hhhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeEEEEEEeccCceEeeechhceeEeeccc
Confidence            4799999999999999999999999999999999999999999999986 45565544 899999999999999999987


Q ss_pred             CCC
Q 018574          351 CNV  353 (354)
Q Consensus       351 ~s~  353 (354)
                      ||+
T Consensus       719 WNp  721 (791)
T KOG1002|consen  719 WNP  721 (791)
T ss_pred             ccH
Confidence            765

>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]

Probab=99.52  E-value=5.3e-14  Score=129.74  Aligned_cols=292  Identities=16%  Similarity=0.172  Sum_probs=183.2

Q ss_pred             CChHHHHHhHhhhhc----CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPIIK----GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .+.+||.+.+++...    +-+.|+.-.+|.|||...+..+.+.+.........||+||...|.. |..++..+...  +
T Consensus       394 ~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIsLitYLmE~K~~~GP~LvivPlstL~N-W~~Ef~kWaPS--v  470 (1157)
T KOG0386|consen  394 ELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTISLITYLMEHKQMQGPFLIIVPLSTLVN-WSSEFPKWAPS--V  470 (1157)
T ss_pred             CCchhhhhhhHHHhhccCCCcccccchhcccchHHHHHHHHHHHHHHcccCCCeEEeccccccCC-chhhccccccc--e
Confidence            789999999998775    3478999999999998887777776655444445899999988776 66667666533  3


Q ss_pred             EEEEEeCCcchHHhHH--hhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCc
Q 018574          131 QAHACVGGKSVGEDIR--KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ  208 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~--~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~  208 (354)
                      ......|.........  ......+|+++|.+.+..  ....+.--++.++||||.|+|-...  ..+...+........
T Consensus       471 ~~i~YkGtp~~R~~l~~qir~gKFnVLlTtyEyiik--dk~lLsKI~W~yMIIDEGHRmKNa~--~KLt~~L~t~y~~q~  546 (1157)
T KOG0386|consen  471 QKIQYKGTPQQRSGLTKQQRHGKFNVLLTTYEYIIK--DKALLSKISWKYMIIDEGHRMKNAI--CKLTDTLNTHYRAQR  546 (1157)
T ss_pred             eeeeeeCCHHHHhhHHHHHhcccceeeeeeHHHhcC--CHHHHhccCCcceeecccccccchh--hHHHHHhhccccchh
Confidence            3333344333222211  122458999999887754  1122233467899999999985432  122222332223444


Q ss_pred             EEEEEeeCchhHHH----HH--------------Hhc-------------------------------------------
Q 018574          209 VVLISATLPHEILE----MT--------------TKF-------------------------------------------  227 (354)
Q Consensus       209 ~i~lSaT~~~~~~~----~~--------------~~~-------------------------------------------  227 (354)
                      .+++|+|+.+....    ++              ..|                                           
T Consensus       547 RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqWFN~PFantGek~eLteEEtlLIIrRLHkVLRPFlLRRlKkeVE  626 (1157)
T KOG0386|consen  547 RLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQWFNQPFANTGEKVELTEEETLLIIRRLHKVLRPFLLRRLKKEVE  626 (1157)
T ss_pred             hhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHHhhhhhhhcCCcccccchHHHHHHHHHHHhhhHHHHHhhhHHHh
Confidence            56667774211000    00              000                                           


Q ss_pred             --cCCCeEE-----------------------EecC-----Cccc-----------------ccCceeEEE------Eec
Q 018574          228 --MTDPVKI-----------------------LVKR-----DELT-----------------LEGIKQFFV------AVE  254 (354)
Q Consensus       228 --~~~~~~~-----------------------~~~~-----~~~~-----------------~~~~~~~~~------~~~  254 (354)
                        +.+....                       ..+.     ....                 ..++...+.      .+-
T Consensus       627 ~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~d~~~g~~g~k~L~N~imqLRKiCNHP~lf~~ve~~~~~~~~~~dL~  706 (1157)
T KOG0386|consen  627 QELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLKDTAKGKKGYKPLFNTIMQLRKLCNHPYLFANVENSYTLHYDIKDLV  706 (1157)
T ss_pred             hhCchhhhHhhheehhhhhHhhhHHHHhCCCCCcCchhccccchhhhhHhHHHHHhcCCchhhhhhccccccccChhHHH
Confidence              0000000                       0000     0000                 000000000      000


Q ss_pred             cccchHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCC---CcEEEEc
Q 018574          255 REEWKFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT---TRVLITT  329 (354)
Q Consensus       255 ~~~~~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~---~~vlv~T  329 (354)
                      ....+...+.+++-..  .+++++.||.-.....-+..+|.-.++....++|....++|...++.|..-.   ...|++|
T Consensus       707 R~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~Fllst  786 (1157)
T KOG0386|consen  707 RVSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLST  786 (1157)
T ss_pred             HhccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeee
Confidence            1112455555555432  4589999999999999999999888899999999999999999999998644   3457889


Q ss_pred             cccccCCCcCCCcEEEecCCCCCC
Q 018574          330 DVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       330 ~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+.+.|+|+..++.||.||--||+
T Consensus       787 ragglglNlQtadtviifdsdwnp  810 (1157)
T KOG0386|consen  787 RAGGLGLNLQTADTVIIFDSDWNP  810 (1157)
T ss_pred             cccccccchhhcceEEEecCCCCc
Confidence            999999999999999999998876

>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]

Probab=99.52  E-value=1.8e-13  Score=119.42  Aligned_cols=300  Identities=11%  Similarity=0.048  Sum_probs=193.1

Q ss_pred             HCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccC--
Q 018574           50 QYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDF--  127 (354)
Q Consensus        50 ~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~--  127 (354)
                      .+.-.....+|.++++.+.+|++.++.-.+.+||.+++-......+... .....+++.|+.++++....-+.-....  
T Consensus       281 ~~~~E~~~~~~~~~~~~~~~G~~~~~~~~~~~GK~~~~~~~s~~~~~~~-~~s~~~~~~~~~~~~~~~~~~~~V~~~~I~  359 (1034)
T KOG4150|consen  281 KNTGESGIAISLELLKFASEGRADGGNEARQAGKGTCPTSGSRKFQTLC-HATNSLLPSEMVEHLRNGSKGQVVHVEVIK  359 (1034)
T ss_pred             cccccchhhhhHHHHhhhhhcccccccchhhcCCccCcccchhhhhhcC-cccceecchhHHHHhhccCCceEEEEEehh
Confidence            3444567899999999999999999999999999988877766554332 2345899999999887654432211111  


Q ss_pred             --cCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCC----ccCCCccEEEEecchhhhccC---cHHHHHH
Q 018574          128 --INIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKT----LRTRAIKLLVLDESDEMLSRG---FKDQIYD  198 (354)
Q Consensus       128 --~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~----~~~~~~~~vvvDE~h~~~~~~---~~~~~~~  198 (354)
                        .+-.+.+..+.+ ..++......+..++++.|+..........    .++....++++||+|......   ....++.
T Consensus       360 ~~K~A~V~~~D~~s-E~~~~A~~R~~~~~~~s~~~~~~s~~L~~~~~~~~~~~~~~~~~~~~~~~Y~~~~~~~~~~~~R~  438 (1034)
T KOG4150|consen  360 ARKSAYVEMSDKLS-ETTKSALKRIGLNTLYSHQAEAISAALAKSLCYNVPVFEELCKDTNSCALYLFPTKALAQDQLRA  438 (1034)
T ss_pred             hhhcceeecccCCC-chhHHHHHhcCcceeecCHHHHHHHHhhhccccccHHHHHHHhcccceeeeecchhhHHHHHHHH
Confidence              111222222222 223333345568899999887755433221    222345678999999864331   2233444


Q ss_pred             HHhhC-----CCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccc--------cchHHHHHH
Q 018574          199 VYRYL-----PPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVERE--------EWKFDTLCD  265 (354)
Q Consensus       199 i~~~~-----~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~l~~  265 (354)
                      +++.+     ..+.|++-.++|+......+...+-..-..+....+...  +-.+.+.+.++-        +.++....+
T Consensus       439 L~~L~~~F~~~~~~~~~~~~~~~K~~~~~~~~~~~~~E~~Li~~DGSPs--~~K~~V~WNP~~~P~~~~~~~~~i~E~s~  516 (1034)
T KOG4150|consen  439 LSDLIKGFEASINMGVYDGDTPYKDRTRLRSELANLSELELVTIDGSPS--SEKLFVLWNPSAPPTSKSEKSSKVVEVSH  516 (1034)
T ss_pred             HHHHHHHHHhhcCcceEeCCCCcCCHHHHHHHhcCCcceEEEEecCCCC--ccceEEEeCCCCCCcchhhhhhHHHHHHH
Confidence            43333     246788989999877766655544444333333333222  223333332211        123444444


Q ss_pred             HHhhC--CCCcEEEEcCchhhHHHHHHHHhcC----C----CeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccC
Q 018574          266 LYDTL--TITQAVIFCNTKRKVDWLTEKMRGY----N----FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARG  335 (354)
Q Consensus       266 ~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~----~----~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~G  335 (354)
                      ++...  .+-++|.||.+++.++-+....++.    +    -.+..|.|+...++|..+..+.--|+.+-+|+|++++-|
T Consensus       517 ~~~~~i~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G~L~giIaTNALELG  596 (1034)
T KOG4150|consen  517 LFAEMVQHGLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALELG  596 (1034)
T ss_pred             HHHHHHHcCCcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhCCeeeEEEecchhhhc
Confidence            43322  2458999999999988776655542    1    124568899999999999988888999999999999999


Q ss_pred             CCcCCCcEEEecCCCCCC
Q 018574          336 LDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       336 idi~~~~~Vi~~~~p~s~  353 (354)
                      +|+..++.|++.++|-|+
T Consensus       597 IDIG~LDAVl~~GFP~S~  614 (1034)
T KOG4150|consen  597 IDIGHLDAVLHLGFPGSI  614 (1034)
T ss_pred             cccccceeEEEccCchhH
Confidence            999999999999999875

>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]

Probab=99.52  E-value=1.1e-12  Score=122.69  Aligned_cols=95  Identities=20%  Similarity=0.265  Sum_probs=83.7

Q ss_pred             hHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCC--CcEEEEcccccc
Q 018574          259 KFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT--TRVLITTDVWAR  334 (354)
Q Consensus       259 ~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~--~~vlv~T~~~~~  334 (354)
                      |+..|.-+++..  .++++|||++..+..+-+..+|.-.|+....++|..+-++|...++.|+.+.  ++.|++|...+.
T Consensus      1261 KLQtLAiLLqQLk~eghRvLIfTQMtkmLDVLeqFLnyHgylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSggv 1340 (1958)
T KOG0391|consen 1261 KLQTLAILLQQLKSEGHRVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSGGV 1340 (1958)
T ss_pred             hHHHHHHHHHHHHhcCceEEehhHHHHHHHHHHHHHhhcceEEEEecCCccHHHHHHHHHHhcCCCceEEEEEeccCCcc
Confidence            566666666643  4579999999999999999999998999999999999999999999999764  567888999999


Q ss_pred             CCCcCCCcEEEecCCCCCC
Q 018574          335 GLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       335 Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+|+..++.|||||--||+
T Consensus      1341 GiNLtgADTVvFYDsDwNP 1359 (1958)
T KOG0391|consen 1341 GINLTGADTVVFYDSDWNP 1359 (1958)
T ss_pred             ccccccCceEEEecCCCCc
Confidence            9999999999999999886

>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process

Probab=99.51  E-value=3.8e-13  Score=100.84  Aligned_cols=96  Identities=32%  Similarity=0.505  Sum_probs=88.8

Q ss_pred             chHHHHHHHHhhCC--CCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccC
Q 018574          258 WKFDTLCDLYDTLT--ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARG  335 (354)
Q Consensus       258 ~~~~~l~~~l~~~~--~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~G  335 (354)
                      .+...+..++....  ++++||||++.+.++.+++.|.+.+..+..+||++++.+|..+++.|.++...+|++|+++++|
T Consensus        12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~ili~t~~~~~G   91 (131)
T cd00079          12 EKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATDVIARG   91 (131)
T ss_pred             HHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCCCcEEEEcChhhcC
Confidence            47777777777664  6899999999999999999999888899999999999999999999999999999999999999


Q ss_pred             CCcCCCcEEEecCCCCCC
Q 018574          336 LDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       336 idi~~~~~Vi~~~~p~s~  353 (354)
                      +|+|.+++||+++.|+|+
T Consensus        92 ~d~~~~~~vi~~~~~~~~  109 (131)
T cd00079          92 IDLPNVSVVINYDLPWSP  109 (131)
T ss_pred             cChhhCCEEEEeCCCCCH
Confidence            999999999999999885

>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain

Probab=99.50  E-value=1.1e-13  Score=100.71  Aligned_cols=136  Identities=15%  Similarity=0.220  Sum_probs=83.4

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL  148 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (354)
                      +|+-.++-..||+|||.-.+.-++......  +.++|+|.||+.++..+.+.++..    ++.+.....+.       ..
T Consensus         3 kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~--~~rvLvL~PTRvva~em~~aL~~~----~~~~~t~~~~~-------~~   69 (148)
T PF07652_consen    3 KGELTVLDLHPGAGKTRRVLPEIVREAIKR--RLRVLVLAPTRVVAEEMYEALKGL----PVRFHTNARMR-------TH   69 (148)
T ss_dssp             TTEEEEEE--TTSSTTTTHHHHHHHHHHHT--T--EEEEESSHHHHHHHHHHTTTS----SEEEESTTSS----------
T ss_pred             CCceeEEecCCCCCCcccccHHHHHHHHHc--cCeEEEecccHHHHHHHHHHHhcC----CcccCceeeec-------cc
Confidence            466678999999999987777666554433  346999999999999999888533    33332211110       12


Q ss_pred             cCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC--cHHHHHHHHhhCCCCCcEEEEEeeCchhH
Q 018574          149 EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG--FKDQIYDVYRYLPPDLQVVLISATLPHEI  220 (354)
Q Consensus       149 ~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~--~~~~~~~i~~~~~~~~~~i~lSaT~~~~~  220 (354)
                      ..+..|-+.|...+.+++.+ .....++++||+||||-....+  +...+......  ....++++|||+|-..
T Consensus        70 ~g~~~i~vMc~at~~~~~~~-p~~~~~yd~II~DEcH~~Dp~sIA~rg~l~~~~~~--g~~~~i~mTATPPG~~  140 (148)
T PF07652_consen   70 FGSSIIDVMCHATYGHFLLN-PCRLKNYDVIIMDECHFTDPTSIAARGYLRELAES--GEAKVIFMTATPPGSE  140 (148)
T ss_dssp             -SSSSEEEEEHHHHHHHHHT-SSCTTS-SEEEECTTT--SHHHHHHHHHHHHHHHT--TS-EEEEEESS-TT--
T ss_pred             cCCCcccccccHHHHHHhcC-cccccCccEEEEeccccCCHHHHhhheeHHHhhhc--cCeeEEEEeCCCCCCC
Confidence            23467888999988777665 5556799999999999853222  22333333221  3457999999998654

The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....

>PF06862 DUF1253: Protein of unknown function (DUF1253); InterPro: IPR010678 This family is defined by a C-terminal region of approximately 500 residues, Digestive organ expansion factor (DEF) is thought to Regulate the p53 pathway to control the expansion growth of digestive organs and is required for the expansion growth of intestine, liver and exocrine pancreas, but not endocrine pancreas [, ]

Probab=99.50  E-value=1.4e-11  Score=107.72  Aligned_cols=258  Identities=16%  Similarity=0.187  Sum_probs=176.2

Q ss_pred             ccCCCceeEEEEcCCHHHHHHHHHHHHHhccC-------------cCeE------EEEEeCCcchHHhHHhh--------
Q 018574           96 DTSSREVQALILSPTRELATQTEKVILAIGDF-------------INIQ------AHACVGGKSVGEDIRKL--------  148 (354)
Q Consensus        96 ~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~-------------~~~~------~~~~~~~~~~~~~~~~~--------  148 (354)
                      .++-.++++|||+|++..|.++.+.+-++...             ++..      ...-........+...+        
T Consensus        32 DQGftRPkVLIL~P~R~~A~~~V~~Li~l~~~~~~~~nk~RF~~efg~~~~~~~~~~~~~~~~~kP~D~~~~F~GN~DD~  111 (442)
T PF06862_consen   32 DQGFTRPKVLILLPFRNSALRIVETLISLLPPGKQVENKKRFEEEFGLPEDEDDDEEPPEFKKSKPEDFKALFSGNNDDC  111 (442)
T ss_pred             ccCCCCceEEEEcccHHHHHHHHHHHHHHcCccchHHHHHHHHHHcCCCccccchhhhccccCCCchhHHHhcCCCccce
Confidence            34455789999999999999998888766533             1100      00000000000111111        


Q ss_pred             -----------------cCCCeEEEeCcHHHHHHHhc------CCccCCCccEEEEecchhhhccCcH--HHHHHHHhhC
Q 018574          149 -----------------EHGVHVVSGTPGRVCDMIKR------KTLRTRAIKLLVLDESDEMLSRGFK--DQIYDVYRYL  203 (354)
Q Consensus       149 -----------------~~~~~iiv~T~~~l~~~~~~------~~~~~~~~~~vvvDE~h~~~~~~~~--~~~~~i~~~~  203 (354)
                                       ...+||||++|=-|...+..      ..-.++.+.++|+|.+|.+....|.  ..+...+...
T Consensus       112 FrlGik~trk~ikLys~Fy~SDIIiASPLGLr~~i~~~~~~~~d~DFLSSIEv~iiD~ad~l~MQNW~Hv~~v~~~lN~~  191 (442)
T PF06862_consen  112 FRLGIKFTRKSIKLYSDFYSSDIIIASPLGLRMIIGEEGEKKRDYDFLSSIEVLIIDQADVLLMQNWEHVLHVFEHLNLQ  191 (442)
T ss_pred             EEEeEEEecCeeeeecccccCCEEEEChHHHHHHhccccccccccchhheeeeEeechhhHHHHhhHHHHHHHHHHhccC
Confidence                             12479999999888776663      2334578899999999998655433  3333334444


Q ss_pred             CCC---------------------CcEEEEEeeCchhHHHHHHhccCCC-eEEEec--CC-----cccccCceeEEEEec
Q 018574          204 PPD---------------------LQVVLISATLPHEILEMTTKFMTDP-VKILVK--RD-----ELTLEGIKQFFVAVE  254 (354)
Q Consensus       204 ~~~---------------------~~~i~lSaT~~~~~~~~~~~~~~~~-~~~~~~--~~-----~~~~~~~~~~~~~~~  254 (354)
                      |.+                     +|.+++|+...++...+....+.+. ..+...  ..     ......+.|.+...+
T Consensus       192 P~~~~~~DfsRVR~w~Ldg~a~~~RQtii~S~~~~pe~~slf~~~~~N~~G~v~~~~~~~~~g~i~~v~~~v~Q~F~r~~  271 (442)
T PF06862_consen  192 PKKSHDTDFSRVRPWYLDGQAKYYRQTIIFSSFQTPEINSLFNRHCQNYAGKVRLKPPYEASGVISQVVVQVRQVFQRFD  271 (442)
T ss_pred             CCCCCCCCHHHHHHHHHcCcchheeEeEEecCCCCHHHHHHHHhhCcCccceEEEeeccccceeeeccccCCceEEEEec
Confidence            422                     6999999999999999888855442 122211  11     122345677777655


Q ss_pred             cccc------h-----HHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCC
Q 018574          255 REEW------K-----FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTT  323 (354)
Q Consensus       255 ~~~~------~-----~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~  323 (354)
                      ....      .     ...+-.+.+....+.+|||++|.-+--.+.+.|++.++.+..++...+..+..+.-..|..|+.
T Consensus       272 ~~s~~~~~d~Rf~yF~~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G~~  351 (442)
T PF06862_consen  272 CSSPADDPDARFKYFTKKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFHGRK  351 (442)
T ss_pred             CCCcchhhhHHHHHHHHHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcCCc
Confidence            4431      1     1222223324455789999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEcc--ccccCCCcCCCcEEEecCCCCCC
Q 018574          324 RVLITTD--VWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       324 ~vlv~T~--~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ++|+.|.  -.-+-..+.++++||+|++|..+
T Consensus       352 ~iLL~TER~HFfrRy~irGi~~viFY~~P~~p  383 (442)
T PF06862_consen  352 PILLYTERFHFFRRYRIRGIRHVIFYGPPENP  383 (442)
T ss_pred             eEEEEEhHHhhhhhceecCCcEEEEECCCCCh
Confidence            9999995  66778889999999999999986

; GO: 0005634 nucleus

>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein

Probab=99.49  E-value=3.4e-12  Score=117.47  Aligned_cols=251  Identities=12%  Similarity=0.130  Sum_probs=160.7

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      .-.++.+|+|+|||.+..-|+...+..  +..++|++..+++|+.+...+++..+-. ++....-..+....      ..
T Consensus        50 ~V~vVRSpMGTGKTtaLi~wLk~~l~~--~~~~VLvVShRrSL~~sL~~rf~~~~l~-gFv~Y~d~~~~~i~------~~  120 (824)
T PF02399_consen   50 GVLVVRSPMGTGKTTALIRWLKDALKN--PDKSVLVVSHRRSLTKSLAERFKKAGLS-GFVNYLDSDDYIID------GR  120 (824)
T ss_pred             CeEEEECCCCCCcHHHHHHHHHHhccC--CCCeEEEEEhHHHHHHHHHHHHhhcCCC-cceeeecccccccc------cc
Confidence            446999999999998888877766542  3456999999999999999999765421 22211111111110      12


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcH-------HHHHHHHhhCCCCCcEEEEEeeCchhHHHH
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFK-------DQIYDVYRYLPPDLQVVLISATLPHEILEM  223 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~-------~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~  223 (354)
                      ..+-++...++|.+...   -...++++||+||+-..+..-+.       ..+..+...+.....+|++.|+++....++
T Consensus       121 ~~~rLivqIdSL~R~~~---~~l~~yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~lI~~ak~VI~~DA~ln~~tvdF  197 (824)
T PF02399_consen  121 PYDRLIVQIDSLHRLDG---SLLDRYDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKELIRNAKTVIVMDADLNDQTVDF  197 (824)
T ss_pred             ccCeEEEEehhhhhccc---ccccccCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHHHHHhCCeEEEecCCCCHHHHHH
Confidence            35667777777755432   23456899999999987544222       222334444567788999999999999999


Q ss_pred             HHhccCCC-eEEEecCCcccccCceeEEEEe-c-----------------------------------cccchHHHHHHH
Q 018574          224 TTKFMTDP-VKILVKRDELTLEGIKQFFVAV-E-----------------------------------REEWKFDTLCDL  266 (354)
Q Consensus       224 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~-~-----------------------------------~~~~~~~~l~~~  266 (354)
                      +..+.++. +.+.......  ++...+...+ +                                   ...........+
T Consensus       198 l~~~Rp~~~i~vI~n~y~~--~~fs~R~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tF~~~L  275 (824)
T PF02399_consen  198 LASCRPDENIHVIVNTYAS--PGFSNRRCTFLRSLGTDTLAAALNPEDENADTSPTPKHSPDPTATAAISNDETTFFSEL  275 (824)
T ss_pred             HHHhCCCCcEEEEEeeeec--CCcccceEEEecccCcHHHHHHhCCcccccccCCCcCCCCccccccccccchhhHHHHH
Confidence            99977653 3333222111  1100000000 0                                   000112333333


Q ss_pred             HhhCC-CCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCC
Q 018574          267 YDTLT-ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQA  341 (354)
Q Consensus       267 l~~~~-~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~  341 (354)
                      ..... ++++.||+.|...++.+++..+....++..+++.-+..+.    +.|  ++.+|++-|+.+..|+++...
T Consensus       276 ~~~L~~gknIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~dv----~~W--~~~~VviYT~~itvG~Sf~~~  345 (824)
T PF02399_consen  276 LARLNAGKNICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLEDV----ESW--KKYDVVIYTPVITVGLSFEEK  345 (824)
T ss_pred             HHHHhCCCcEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCcccc----ccc--cceeEEEEeceEEEEeccchh
Confidence            33333 4578899999999999999998888889999887654422    333  689999999999999999644

It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication

>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e

Probab=99.49  E-value=1.2e-13  Score=119.11  Aligned_cols=155  Identities=17%  Similarity=0.112  Sum_probs=94.4

Q ss_pred             HHHHhHhhhh-------------cCCcEEEEcCCCCchhhHhHHHHhhccccCCCc--eeEEEEcCCHHHHHHHHHHHHH
Q 018574           59 IQQRAVMPII-------------KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSRE--VQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        59 ~Q~~~~~~~~-------------~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~--~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      ||.+++.+++             ..+++++...+|+|||...+..+..........  ..+||+||. ++..||..++.+
T Consensus         1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~   79 (299)
T PF00176_consen    1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEK   79 (299)
T ss_dssp             HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhcc
Confidence            5777776653             346789999999999977776665333222221  259999999 888999999999


Q ss_pred             hccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHH---hcCCccCCCccEEEEecchhhhccCcHHHHHHHH
Q 018574          124 IGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMI---KRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVY  200 (354)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~---~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~  200 (354)
                      +......++....++..............+++++|++.+....   ....+...++++||+||+|.+-+.. ......+.
T Consensus        80 ~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~~-s~~~~~l~  158 (299)
T PF00176_consen   80 WFDPDSLRVIIYDGDSERRRLSKNQLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNKD-SKRYKALR  158 (299)
T ss_dssp             HSGT-TS-EEEESSSCHHHHTTSSSCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTTT-SHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccceeeeccccccccccccccccccccccceeEEEeccccccccc-cccccccc
Confidence            9865456666666665233333334456899999999987110   0011222458999999999984433 23333333


Q ss_pred             hhCCCCCcEEEEEeeCc
Q 018574          201 RYLPPDLQVVLISATLP  217 (354)
Q Consensus       201 ~~~~~~~~~i~lSaT~~  217 (354)
                      . +. ....+++||||.
T Consensus       159 ~-l~-~~~~~lLSgTP~  173 (299)
T PF00176_consen  159 K-LR-ARYRWLLSGTPI  173 (299)
T ss_dssp             C-CC-ECEEEEE-SS-S
T ss_pred             c-cc-cceEEeeccccc
Confidence            3 54 666789999983

g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.

>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]

Probab=99.47  E-value=7.3e-12  Score=121.56  Aligned_cols=140  Identities=16%  Similarity=0.174  Sum_probs=95.9

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      +..+|+--+|||||+..+..+-..+.. ...+++++||.++.|-.|+.+.+..+........    ...+.......+..
T Consensus       274 ~~G~IWHtqGSGKTlTm~~~A~~l~~~-~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~~~~----~~~s~~~Lk~~l~~  348 (962)
T COG0610         274 KGGYIWHTQGSGKTLTMFKLARLLLEL-PKNPKVLFVVDRKDLDDQTSDEFQSFGKVAFNDP----KAESTSELKELLED  348 (962)
T ss_pred             CceEEEeecCCchHHHHHHHHHHHHhc-cCCCeEEEEechHHHHHHHHHHHHHHHHhhhhcc----cccCHHHHHHHHhc
Confidence            568999999999997776655544443 6678899999999999999999998885433322    22333333333443


Q ss_pred             C-CeEEEeCcHHHHHHHhcC--CccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchh
Q 018574          151 G-VHVVSGTPGRVCDMIKRK--TLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHE  219 (354)
Q Consensus       151 ~-~~iiv~T~~~l~~~~~~~--~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~  219 (354)
                      . ..|+|+|.++|.......  .....+--+||+||||+.-   ++..-..+...+ ++...+++|+||...
T Consensus       349 ~~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaHRSQ---~G~~~~~~~~~~-~~a~~~gFTGTPi~~  416 (962)
T COG0610         349 GKGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHRSQ---YGELAKLLKKAL-KKAIFIGFTGTPIFK  416 (962)
T ss_pred             CCCcEEEEEecccchhhhcccccccCCCcEEEEEechhhcc---ccHHHHHHHHHh-ccceEEEeeCCcccc
Confidence            3 589999999998776553  1122344578999999863   333333333333 347789999999543

>PRK14873 primosome assembly protein PriA; Provisional

Probab=99.46  E-value=1e-11  Score=115.58  Aligned_cols=139  Identities=14%  Similarity=0.128  Sum_probs=97.5

Q ss_pred             EEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHh---HHhhcC
Q 018574           74 IAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED---IRKLEH  150 (354)
Q Consensus        74 ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~  150 (354)
                      +..+.+|||||.+|+-.+...+..++   .+|+++|..+|..|+.+.++....  +..+..++.+.+..+.   +.....
T Consensus       164 i~~~~~GSGKTevyl~~i~~~l~~Gk---~vLvLvPEi~lt~q~~~rl~~~f~--~~~v~~lhS~l~~~~R~~~w~~~~~  238 (665)
T PRK14873        164 VWQALPGEDWARRLAAAAAATLRAGR---GALVVVPDQRDVDRLEAALRALLG--AGDVAVLSAGLGPADRYRRWLAVLR  238 (665)
T ss_pred             HhhcCCCCcHHHHHHHHHHHHHHcCC---eEEEEecchhhHHHHHHHHHHHcC--CCcEEEECCCCCHHHHHHHHHHHhC
Confidence            33444699999999998888876553   499999999999999999987653  1456677776554433   333444


Q ss_pred             C-CeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC------cHHHHHHHHhhCCCCCcEEEEEeeCchhHHHH
Q 018574          151 G-VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG------FKDQIYDVYRYLPPDLQVVLISATLPHEILEM  223 (354)
Q Consensus       151 ~-~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~------~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~  223 (354)
                      + ..|+|||...+       ..++.++++||+||-|.-.-.+      ..+.+-...... .+..+++.|||++-+....
T Consensus       239 G~~~IViGtRSAv-------FaP~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~-~~~~lvLgSaTPSles~~~  310 (665)
T PRK14873        239 GQARVVVGTRSAV-------FAPVEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQ-HGCALLIGGHARTAEAQAL  310 (665)
T ss_pred             CCCcEEEEcceeE-------EeccCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHH-cCCcEEEECCCCCHHHHHH
Confidence            4 78999997555       4566799999999999653221      223343343333 5778999999998776554


Q ss_pred             HH
Q 018574          224 TT  225 (354)
Q Consensus       224 ~~  225 (354)
                      ..
T Consensus       311 ~~  312 (665)
T PRK14873        311 VE  312 (665)
T ss_pred             Hh
Confidence            43

>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins

Probab=99.43  E-value=3.4e-13  Score=90.96  Aligned_cols=64  Identities=36%  Similarity=0.533  Sum_probs=61.0

Q ss_pred             HHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          290 EKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       290 ~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +.|+..++.+..+||+++..+|..+++.|++++..|||+|+++++|+|+|++++||+++.|+|+
T Consensus         1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gid~~~~~~vi~~~~~~~~   64 (78)
T PF00271_consen    1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGEIRVLIATDILGEGIDLPDASHVIFYDPPWSP   64 (78)
T ss_dssp             HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESCGGTTSSTSTTESEEEESSSESSH
T ss_pred             CChHHCCCcEEEEECCCCHHHHHHHHHHhhccCceEEEeeccccccccccccccccccccCCCH
Confidence            3678889999999999999999999999999999999999999999999999999999999985

It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....

>PRK05298 excinuclease ABC subunit B; Provisional

Probab=99.38  E-value=7.6e-12  Score=117.42  Aligned_cols=91  Identities=24%  Similarity=0.323  Sum_probs=81.6

Q ss_pred             hHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCC
Q 018574          259 KFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGL  336 (354)
Q Consensus       259 ~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  336 (354)
                      ++..+...+...  .+.+++|||++++.++.+++.|.+.|+++..+||+++..+|..+++.|+.|+..|+|||+.+++|+
T Consensus       431 q~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~g~i~vlV~t~~L~rGf  510 (652)
T PRK05298        431 QVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGL  510 (652)
T ss_pred             cHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHcCCceEEEEeCHHhCCc
Confidence            455555555432  356899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcCCCcEEEecCC
Q 018574          337 DVQQAILFFFLFL  349 (354)
Q Consensus       337 di~~~~~Vi~~~~  349 (354)
                      |+|++++||++|.
T Consensus       511 dlp~v~lVii~d~  523 (652)
T PRK05298        511 DIPEVSLVAILDA  523 (652)
T ss_pred             cccCCcEEEEeCC
Confidence            9999999999886

>smart00489 DEXDc3 DEAD-like helicases superfamily

Probab=99.35  E-value=9.7e-12  Score=105.20  Aligned_cols=73  Identities=18%  Similarity=0.236  Sum_probs=58.2

Q ss_pred             CCCCCChHHHHHhHhh----hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCC---ceeEEEEcCCHHHHHHHHHHHHH
Q 018574           51 YGFEKPSAIQQRAVMP----IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSR---EVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~----~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~---~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      +.| .+++.|.+.+..    +.+|+++++.+|||+|||++++.+++..+.....   +.+++|.++|.++..|....+++
T Consensus         5 FPy-~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~   83 (289)
T smart00489        5 FPY-EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK   83 (289)
T ss_pred             CCC-CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence            455 579999995554    4458899999999999999999999876654332   23799999999999998877776


Q ss_pred             h
Q 018574          124 I  124 (354)
Q Consensus       124 ~  124 (354)
                      .
T Consensus        84 ~   84 (289)
T smart00489       84 L   84 (289)
T ss_pred             c
Confidence            5

>smart00488 DEXDc2 DEAD-like helicases superfamily

Probab=99.35  E-value=9.7e-12  Score=105.20  Aligned_cols=73  Identities=18%  Similarity=0.236  Sum_probs=58.2

Q ss_pred             CCCCCChHHHHHhHhh----hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCC---ceeEEEEcCCHHHHHHHHHHHHH
Q 018574           51 YGFEKPSAIQQRAVMP----IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSR---EVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~----~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~---~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      +.| .+++.|.+.+..    +.+|+++++.+|||+|||++++.+++..+.....   +.+++|.++|.++..|....+++
T Consensus         5 FPy-~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~   83 (289)
T smart00488        5 FPY-EPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK   83 (289)
T ss_pred             CCC-CCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence            455 579999995554    4458899999999999999999999876654332   23799999999999998877776


Q ss_pred             h
Q 018574          124 I  124 (354)
Q Consensus       124 ~  124 (354)
                      .
T Consensus        84 ~   84 (289)
T smart00488       84 L   84 (289)
T ss_pred             c
Confidence            5

>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3

Probab=99.33  E-value=1.6e-10  Score=109.59  Aligned_cols=181  Identities=19%  Similarity=0.149  Sum_probs=104.5

Q ss_pred             CHHHHHHHHHCCCCCChHHHHHhHhhhhc--------CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           41 KDDLLRGIYQYGFEKPSAIQQRAVMPIIK--------GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~--------~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      ...-.+.+.+..-..-+.+|.++++.+..        |--++--|.||+|||++=+-.+ +.+.....+.+..|..--++
T Consensus       394 ~~~~hk~~~~r~~~~rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNARIm-yaLsd~~~g~RfsiALGLRT  472 (1110)
T TIGR02562       394 AIQTHKYFCQRSAHPRFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANARAM-YALRDDKQGARFAIALGLRS  472 (1110)
T ss_pred             chhchhhhccCCCCCCcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHHHHH-HHhCCCCCCceEEEEccccc
Confidence            33334445443334567899999987654        2235667899999997555444 34445556667777777777


Q ss_pred             HHHHHHHHHHHhccCcCeEEEEEeCCcchHHh-------------------------------------------HHhhc
Q 018574          113 LATQTEKVILAIGDFINIQAHACVGGKSVGED-------------------------------------------IRKLE  149 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------------------------------~~~~~  149 (354)
                      |-.|+-+.+++-...-+-....+.|+....+.                                           ...+.
T Consensus       473 LTLQTGda~r~rL~L~~ddLAVlIGs~Av~~L~e~~~~~~~~~~~~GSeS~e~l~~e~~~~~~~~~~g~l~~~~l~~~l~  552 (1110)
T TIGR02562       473 LTLQTGHALKTRLNLSDDDLAVLIGGTAVQTLFDLSKEKIEQVDEDGSESAPIFLAEGQDCNLPDWDGPLDTIELLGRLS  552 (1110)
T ss_pred             eeccchHHHHHhcCCCccceEEEECHHHHHHHHHHHhhhccccccCCCccchhhhcccCcCCeeeccCCccchhhhhhhc
Confidence            77777666665443333333333333111100                                           00000


Q ss_pred             --------CCCeEEEeCcHHHHHHHhcC---Ccc----CCCccEEEEecchhhhccCcHHHHHHHHhhC-CCCCcEEEEE
Q 018574          150 --------HGVHVVSGTPGRVCDMIKRK---TLR----TRAIKLLVLDESDEMLSRGFKDQIYDVYRYL-PPDLQVVLIS  213 (354)
Q Consensus       150 --------~~~~iiv~T~~~l~~~~~~~---~~~----~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~-~~~~~~i~lS  213 (354)
                              -..+++|+|++.++......   ...    .-.-+.|||||+|.+....+ ..+..++... ..+.++++||
T Consensus       553 ~~~k~~rll~apv~V~TIDQlL~a~~~~r~~~~~l~ll~La~svlVlDEVHaYD~~~~-~~L~rlL~w~~~lG~~VlLmS  631 (1110)
T TIGR02562       553 LDDKEKTLLAAPVLVCTIDHLIPATESHRGGHHIAPMLRLMSSDLILDEPDDYEPEDL-PALLRLVQLAGLLGSRVLLSS  631 (1110)
T ss_pred             cChhhhhhhcCCeEEecHHHHHHHhhhcccchhHHHHHHhcCCCEEEECCccCCHHHH-HHHHHHHHHHHHcCCCEEEEe
Confidence                    02579999999998765321   111    12246799999998743332 2233333321 1356799999


Q ss_pred             eeCchhHHHH
Q 018574          214 ATLPHEILEM  223 (354)
Q Consensus       214 aT~~~~~~~~  223 (354)
                      ||+|+.....
T Consensus       632 ATLP~~l~~~  641 (1110)
T TIGR02562       632 ATLPPALVKT  641 (1110)
T ss_pred             CCCCHHHHHH
Confidence            9999876553

The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.

>PRK12901 secA preprotein translocase subunit SecA; Reviewed

Probab=99.33  E-value=7.8e-11  Score=111.08  Aligned_cols=128  Identities=17%  Similarity=0.226  Sum_probs=92.1

Q ss_pred             ChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEE
Q 018574           56 PSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHAC  135 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~  135 (354)
                      +++|-.+++-.+.-++.-|..+.||-|||+++.+|+.-....++.   +-+|+.+--|+..-++.+..+...+|+++.++
T Consensus       168 m~~yDVQliGgivLh~G~IAEM~TGEGKTLvAtlp~yLnAL~Gkg---VHvVTVNDYLA~RDaewmgply~fLGLsvg~i  244 (1112)
T PRK12901        168 MVHYDVQLIGGVVLHQGKIAEMATGEGKTLVATLPVYLNALTGNG---VHVVTVNDYLAKRDSEWMGPLYEFHGLSVDCI  244 (1112)
T ss_pred             CcccchHHhhhhhhcCCceeeecCCCCchhHHHHHHHHHHHcCCC---cEEEEechhhhhccHHHHHHHHHHhCCceeec
Confidence            455556666666667778999999999999999988876666644   67778888899888888888888889999877


Q ss_pred             eC-CcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcC------CccCCCccEEEEecchhhh
Q 018574          136 VG-GKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRK------TLRTRAIKLLVLDESDEML  188 (354)
Q Consensus       136 ~~-~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~------~~~~~~~~~vvvDE~h~~~  188 (354)
                      .. +.+..+  .+-...+||.++|...| .++++..      ....+.+.+.||||+|+++
T Consensus       245 ~~~~~~~~~--rr~aY~~DItYgTn~EfGFDYLRDnm~~~~~~~vqR~~~fAIVDEvDSIL  303 (1112)
T PRK12901        245 DKHQPNSEA--RRKAYNADITYGTNNEFGFDYLRDNMAHSPEDLVQRKHNYAIVDEVDSVL  303 (1112)
T ss_pred             CCCCCCHHH--HHHhCCCcceecCCCccccccchhccccchHhhhCcCCceeEeechhhhh
Confidence            54 323333  23334589999998655 2333321      2233568899999999863

>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]

Probab=99.33  E-value=3.8e-11  Score=113.66  Aligned_cols=267  Identities=14%  Similarity=0.211  Sum_probs=177.2

Q ss_pred             CChHHHHHhHhhhhc-CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHH-HhccCcCeEE
Q 018574           55 KPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVIL-AIGDFINIQA  132 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~-~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~-~~~~~~~~~~  132 (354)
                      ...+.|.++++.+-+ ++++++.+|+|+|||.++-++++.    .....+++++.|..+.+..++.... ++....|..+
T Consensus      1143 ~~n~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~----~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G~~~ 1218 (1674)
T KOG0951|consen 1143 DFNPIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLR----PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLGLRI 1218 (1674)
T ss_pred             ccCCceEEEEeeeecccceEEEecCCCCchhHHHHHHhcC----CccceEEEEecchHHHHHHHHHHHHHhhccccCceE
Confidence            348889998887765 678999999999999887777665    2334579999999999877776654 5667778899


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC------cHHHHHHHHhhCCCC
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG------FKDQIYDVYRYLPPD  206 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~------~~~~~~~i~~~~~~~  206 (354)
                      ..++|....+-.   +....+|+++||+++..+ +    ..+..++.|.||.|.+.+..      ... ++.+...+.++
T Consensus      1219 ~~l~ge~s~~lk---l~~~~~vii~tpe~~d~l-q----~iQ~v~l~i~d~lh~igg~~g~v~evi~S-~r~ia~q~~k~ 1289 (1674)
T KOG0951|consen 1219 VKLTGETSLDLK---LLQKGQVIISTPEQWDLL-Q----SIQQVDLFIVDELHLIGGVYGAVYEVICS-MRYIASQLEKK 1289 (1674)
T ss_pred             EecCCccccchH---HhhhcceEEechhHHHHH-h----hhhhcceEeeehhhhhcccCCceEEEEee-HHHHHHHHHhh
Confidence            889888876644   334479999999999665 2    44578999999999986332      122 77777888888


Q ss_pred             CcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEecccc---ch----HHHHHHHHhhC-CCCcEEEE
Q 018574          207 LQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREE---WK----FDTLCDLYDTL-TITQAVIF  278 (354)
Q Consensus       207 ~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~----~~~l~~~l~~~-~~~~~lvf  278 (354)
                      .+++.+|..+.+.- .+  ........+.+.......+ .......+.-..   ..    -..+..+.+.. ..++.+||
T Consensus      1290 ir~v~ls~~lana~-d~--ig~s~~~v~Nf~p~~R~~P-l~i~i~~~~~~~~~~~~~am~~~~~~ai~~~a~~~k~~~vf 1365 (1674)
T KOG0951|consen 1290 IRVVALSSSLANAR-DL--IGASSSGVFNFSPSVRPVP-LEIHIQSVDISHFESRMLAMTKPTYTAIVRHAGNRKPAIVF 1365 (1674)
T ss_pred             eeEEEeehhhccch-hh--ccccccceeecCcccCCCc-eeEEEEEeccchhHHHHHHhhhhHHHHHHHHhcCCCCeEEE
Confidence            99999999886542 22  1122222222222222111 222222222111   01    11122222222 34689999


Q ss_pred             cCchhhHHHHHHHHhcC----------------------CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCC
Q 018574          279 CNTKRKVDWLTEKMRGY----------------------NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGL  336 (354)
Q Consensus       279 ~~~~~~~~~l~~~l~~~----------------------~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  336 (354)
                      +++++++..++..|-..                      ..++.+=|.+++..+..-+-.-|..|.+.|+|.... ..|+
T Consensus      1366 ~p~rk~~~~~a~~~~~~s~~~~~~~l~~~~e~~~~~l~e~l~~gvg~e~~s~~d~~iv~~l~e~g~i~v~v~s~~-~~~~ 1444 (1674)
T KOG0951|consen 1366 LPTRKHARLVAVDLVTFSHADEPDYLLSELEECDETLRESLKHGVGHEGLSSNDQEIVQQLFEAGAIQVCVMSRD-CYGT 1444 (1674)
T ss_pred             eccchhhhhhhhccchhhccCcHHHHHHHHhcchHhhhhcccccccccccCcchHHHHHHHHhcCcEEEEEEEcc-cccc
Confidence            99999998887655321                      122223377888888787888899999999988865 6676


Q ss_pred             CcC
Q 018574          337 DVQ  339 (354)
Q Consensus       337 di~  339 (354)
                      -..
T Consensus      1445 ~~~ 1447 (1674)
T KOG0951|consen 1445 KLK 1447 (1674)
T ss_pred             ccc
Confidence            664

>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]

Probab=99.30  E-value=7.9e-11  Score=108.61  Aligned_cols=94  Identities=14%  Similarity=0.142  Sum_probs=75.5

Q ss_pred             HHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhc----------------------CCCeEEEeecCCCHHHHHHHH
Q 018574          260 FDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRG----------------------YNFTVSSMHGDMPQKERDAIM  315 (354)
Q Consensus       260 ~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~----------------------~~~~~~~~~~~~~~~~r~~~~  315 (354)
                      +-.|..+|+.-  -+.|.|||.++.....-+..+|.-                      .|...+.++|.....+|..+.
T Consensus      1128 miLLleIL~mceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k~~ 1207 (1567)
T KOG1015|consen 1128 MILLLEILRMCEEIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKKWA 1207 (1567)
T ss_pred             eehHHHHHHHHHHhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHHHHHH
Confidence            44455555422  247999999999988888777752                      145678899999999999999


Q ss_pred             HHHhCC-C---CcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          316 GEFRSG-T---TRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       316 ~~f~~g-~---~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +.|++- +   -..||+|.+.+-|+|+-.++.||.||..|||
T Consensus      1208 ~~FNdp~NlRaRl~LISTRAGsLGiNLvAANRVIIfDasWNP 1249 (1567)
T KOG1015|consen 1208 EEFNDPTNLRARLFLISTRAGSLGINLVAANRVIIFDASWNP 1249 (1567)
T ss_pred             HHhcCcccceeEEEEEeeccCccccceeecceEEEEecccCC
Confidence            999863 2   2369999999999999999999999999997

>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]

Probab=99.23  E-value=3.8e-10  Score=111.62  Aligned_cols=295  Identities=18%  Similarity=0.190  Sum_probs=182.0

Q ss_pred             CCChHHHHHhHhhhhc-----CCcEEEEcCCCCchhhHhHHHHhhccccCCC-ceeEEEEcCCHHHHHHHHHHHHHhccC
Q 018574           54 EKPSAIQQRAVMPIIK-----GRDVIAQAQSGTGKTSMIALTVCQTVDTSSR-EVQALILSPTRELATQTEKVILAIGDF  127 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~-----~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~-~~~~lil~p~~~l~~q~~~~~~~~~~~  127 (354)
                      ..+++||.+.++++..     +.+.++...+|.|||...+..+......... .+.++++||+ ++..+|.+++.++...
T Consensus       337 ~~lr~yq~~g~~wl~~~l~~~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~~~liv~p~-s~~~nw~~e~~k~~~~  415 (866)
T COG0553         337 AELRPYQLEGVNWLSELLRSNLLGGILADDMGLGKTVQTIALLLSLLESIKVYLGPALIVVPA-SLLSNWKREFEKFAPD  415 (866)
T ss_pred             hhhHHHHHHHHHHHHHHHHhccCCCcccccccchhHHHHHHHHHhhhhcccCCCCCeEEEecH-HHHHHHHHHHhhhCcc
Confidence            4678999999988662     6678889999999998777766553333322 3468999995 7778889888887765


Q ss_pred             cCeEEEEEeCCcch----HHhHHhhcCC-----CeEEEeCcHHHHHHH-hcCCccCCCccEEEEecchhhhccCcHHHHH
Q 018574          128 INIQAHACVGGKSV----GEDIRKLEHG-----VHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLSRGFKDQIY  197 (354)
Q Consensus       128 ~~~~~~~~~~~~~~----~~~~~~~~~~-----~~iiv~T~~~l~~~~-~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~  197 (354)
                      ... +....|....    .+....+...     .+++++|.+.+.... ....+....++.+|+||+|.+.+.. .....
T Consensus       416 ~~~-~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~v~itty~~l~~~~~~~~~l~~~~~~~~v~DEa~~ikn~~-s~~~~  493 (866)
T COG0553         416 LRL-VLVYHGEKSELDKKREALRDLLKLHLVIIFDVVITTYELLRRFLVDHGGLKKIEWDRVVLDEAHRIKNDQ-SSEGK  493 (866)
T ss_pred             ccc-eeeeeCCcccccHHHHHHHHHhhhcccceeeEEechHHHHHHhhhhHHHHhhceeeeeehhhHHHHhhhh-hHHHH
Confidence            543 4444444431    3333333332     789999999887732 2234455678999999999965443 11111


Q ss_pred             HHHhhCCCCCcEEEEEeeCchh-HHH---HHH-----------------------------------------------h
Q 018574          198 DVYRYLPPDLQVVLISATLPHE-ILE---MTT-----------------------------------------------K  226 (354)
Q Consensus       198 ~i~~~~~~~~~~i~lSaT~~~~-~~~---~~~-----------------------------------------------~  226 (354)
                      .+. .+... ..+.+|+||-+. +.+   +..                                               .
T Consensus       494 ~l~-~~~~~-~~~~LtgTPlen~l~eL~sl~~~f~~p~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~  571 (866)
T COG0553         494 ALQ-FLKAL-NRLDLTGTPLENRLGELWSLLQEFLNPGLLGTSFAIFTRLFEKPIQAEEDIGPLEARELGIELLRKLLSP  571 (866)
T ss_pred             HHH-HHhhc-ceeeCCCChHhhhHHHHHHHHHHHhCCccccchHHHHHHHHhhhhhhcccccchhhHHHHHHHHHHHHHH
Confidence            111 11111 124555554110 000   000                                               0


Q ss_pred             cc-CC-CeE--EE--------------ecC-------------------------C----------ccc-------ccCc
Q 018574          227 FM-TD-PVK--IL--------------VKR-------------------------D----------ELT-------LEGI  246 (354)
Q Consensus       227 ~~-~~-~~~--~~--------------~~~-------------------------~----------~~~-------~~~~  246 (354)
                      +. +. ...  +.              ...                         .          ...       ...+
T Consensus       572 f~lrr~k~~~~v~~~Lp~k~e~~~~~~l~~~q~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~lr~~  651 (866)
T COG0553         572 FILRRTKEDVEVLKELPPKIEKVLECELSEEQRELYEALLEGAEKNQQLLEDLEKADSDENRIGDSELNILALLTRLRQI  651 (866)
T ss_pred             HhhcccccchhHHHhCChhhhhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHh
Confidence            00 00 000  00              000                         0          000       0000


Q ss_pred             eeEEEEecc----------------------------cc-chHHHHHHHH---hhCCCC--cEEEEcCchhhHHHHHHHH
Q 018574          247 KQFFVAVER----------------------------EE-WKFDTLCDLY---DTLTIT--QAVIFCNTKRKVDWLTEKM  292 (354)
Q Consensus       247 ~~~~~~~~~----------------------------~~-~~~~~l~~~l---~~~~~~--~~lvf~~~~~~~~~l~~~l  292 (354)
                      ...-.....                            .. .+...+.+++   ....+.  ++++|++......-+...+
T Consensus       652 ~~~p~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~k~~~l~~ll~~~~~~~~~~~kvlifsq~t~~l~il~~~l  731 (866)
T COG0553         652 CNHPALVDEGLEATFDRIVLLLREDKDFDYLKKPLIQLSKGKLQALDELLLDKLLEEGHYHKVLIFSQFTPVLDLLEDYL  731 (866)
T ss_pred             ccCccccccccccccchhhhhhhcccccccccchhhhccchHHHHHHHHHHHHHHhhcccccEEEEeCcHHHHHHHHHHH
Confidence            000000000                            00 3556666666   222334  8999999999999999999


Q ss_pred             hcCCCeEEEeecCCCHHHHHHHHHHHhCC--CCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          293 RGYNFTVSSMHGDMPQKERDAIMGEFRSG--TTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~r~~~~~~f~~g--~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +..++....++|.++.++|...++.|.++  ....++++.+.+.|+|+..+++||+||..+|+
T Consensus       732 ~~~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~v~lls~kagg~glnLt~a~~vi~~d~~wnp  794 (866)
T COG0553         732 KALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLKAGGLGLNLTGADTVILFDPWWNP  794 (866)
T ss_pred             HhcCCcEEEEeCCCChhhHHHHHHHhhcCCCCceEEEEecccccceeecccceEEEeccccCh
Confidence            99888899999999999999999999986  34456666899999999999999999999986

>smart00490 HELICc helicase superfamily c-terminal domain

Probab=99.20  E-value=6.6e-11  Score=80.61  Aligned_cols=67  Identities=33%  Similarity=0.523  Sum_probs=62.6

Q ss_pred             HHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          287 WLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       287 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+++.|+..++.+..+||++++++|..+++.|+++...||++|+++++|+|+|.+++||+++.|+|.
T Consensus         2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~   68 (82)
T smart00490        2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSP   68 (82)
T ss_pred             HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECChhhCCcChhcCCEEEEeCCCCCH
Confidence            4677788888999999999999999999999999999999999999999999999999999999874

>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]

Probab=99.18  E-value=1e-09  Score=102.11  Aligned_cols=274  Identities=18%  Similarity=0.220  Sum_probs=169.9

Q ss_pred             ChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEE
Q 018574           56 PSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHAC  135 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~  135 (354)
                      ++++--+.+-.+.-+..-+..+-||-|||+++.+|+.-....++.   +.+++-.--|+..-+++...+...+++++...
T Consensus        79 ~~~~dVQliG~i~lh~g~iaEM~TGEGKTL~atlp~ylnaL~gkg---VhvVTvNdYLA~RDae~m~~l~~~LGlsvG~~  155 (822)
T COG0653          79 MRHFDVQLLGGIVLHLGDIAEMRTGEGKTLVATLPAYLNALAGKG---VHVVTVNDYLARRDAEWMGPLYEFLGLSVGVI  155 (822)
T ss_pred             CChhhHHHhhhhhhcCCceeeeecCCchHHHHHHHHHHHhcCCCC---cEEeeehHHhhhhCHHHHHHHHHHcCCceeec
Confidence            344445555555666778899999999999999887755555543   78888888899888999999888999999998


Q ss_pred             eCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhc------CCccCCCccEEEEecchhhhcc----------------Cc
Q 018574          136 VGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKR------KTLRTRAIKLLVLDESDEMLSR----------------GF  192 (354)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~------~~~~~~~~~~vvvDE~h~~~~~----------------~~  192 (354)
                      ..+....+....+  .++|.++|...| .++++.      .......+.+-|+||++.++-.                ..
T Consensus       156 ~~~m~~~ek~~aY--~~DItY~TnnElGFDYLRDNm~~~~ee~vqr~~~faIvDEvDSILIDEARtPLiISG~~~~~~~~  233 (822)
T COG0653         156 LAGMSPEEKRAAY--ACDITYGTNNELGFDYLRDNMVTSQEEKVQRGLNFAIVDEVDSILIDEARTPLIISGPAEDSSEL  233 (822)
T ss_pred             cCCCChHHHHHHH--hcCceeccccccCcchhhhhhhccHHHhhhccCCeEEEcchhheeeeccccceeeecccccCchH
Confidence            8887666555544  389999998655 222222      1222346788999999986311                11


Q ss_pred             HHHHHHHHhhCCCC------------------------------------------------------------------
Q 018574          193 KDQIYDVYRYLPPD------------------------------------------------------------------  206 (354)
Q Consensus       193 ~~~~~~i~~~~~~~------------------------------------------------------------------  206 (354)
                      ...+..+...+...                                                                  
T Consensus       234 Y~~~~~~v~~l~~~~d~~iDek~k~v~lte~G~~kae~~f~~~~Ly~~en~~~~h~~~~alrA~~l~~~D~dYIVrd~ev  313 (822)
T COG0653         234 YKKVDDLVRLLSEDEDFTIDEKSKNVSLTESGLEKAEELLGIENLYDLENVNLVHHLNQALRAHILFFRDVDYIVRDGEV  313 (822)
T ss_pred             HHHHHHHHHHhccccceeecchhcccccchhhHHHHHHHhCcccccchhhHHHHhhHHHHHHHHHHhhcCCeeEEecCeE
Confidence            22333333222211                                                                  


Q ss_pred             ---------------------------------------------------CcEEEEEeeCchhHHHHHHhccCCCeEEE
Q 018574          207 ---------------------------------------------------LQVVLISATLPHEILEMTTKFMTDPVKIL  235 (354)
Q Consensus       207 ---------------------------------------------------~~~i~lSaT~~~~~~~~~~~~~~~~~~~~  235 (354)
                                                                         ..+.+||+|...+..++..-+..+...+.
T Consensus       314 ~IvD~ftGR~m~gRr~s~GLhQAiEAKEgv~i~~e~~tlatITfQn~fR~y~kl~gmTGTa~te~~EF~~iY~l~vv~iP  393 (822)
T COG0653         314 VIVDEFTGRMMEGRRWSDGLHQAIEAKEGVEIQEENQTLATITFQNLFRLYPKLAGMTGTADTEEEEFDVIYGLDVVVIP  393 (822)
T ss_pred             EEEecccCCcccCcCCCchhHHHHHHhcCCcccccceeehhhhHHHHHhhhhhhcCCCCcchhhhhhhhhccCCceeecc
Confidence                                                               12333333333333333333333332222


Q ss_pred             ecCCcccccCceeEEEEeccccchHHHHHHHHh--hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHH
Q 018574          236 VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD--TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDA  313 (354)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~--~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~  313 (354)
                      ........+.-...   ......|...+...+.  ...++|+||-+.+++.++.+.+.|++.|++..++.....  .++.
T Consensus       394 Tnrp~~R~D~~D~v---y~t~~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h--~~EA  468 (822)
T COG0653         394 TNRPIIRLDEPDLV---YKTEEEKFKAIVEDIKERHEKGQPVLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNH--AREA  468 (822)
T ss_pred             CCCcccCCCCcccc---ccchHHHHHHHHHHHHHHHhcCCCEEEcCcceecchhHHHHHHhcCCCceeeccccH--HHHH
Confidence            22221111111111   1112224444444433  335679999999999999999999999999999988754  3333


Q ss_pred             HHHHHhCCCCcEEEEccccccCCCcC
Q 018574          314 IMGEFRSGTTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       314 ~~~~f~~g~~~vlv~T~~~~~Gidi~  339 (354)
                      -+-...-....|-|+|+++++|-||.
T Consensus       469 ~Iia~AG~~gaVTiATNMAGRGTDIk  494 (822)
T COG0653         469 EIIAQAGQPGAVTIATNMAGRGTDIK  494 (822)
T ss_pred             HHHhhcCCCCccccccccccCCcccc
Confidence            33333323457999999999999985

>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane

Probab=99.17  E-value=8.8e-10  Score=90.80  Aligned_cols=130  Identities=21%  Similarity=0.353  Sum_probs=95.6

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+ .|++.|.-..-.+..|+  ++...||-|||++..+++......+.   .+=|++.+.-|+..-++.+..+...+|+
T Consensus        74 ~g~-~p~~vQll~~l~L~~G~--laEm~TGEGKTli~~l~a~~~AL~G~---~V~vvT~NdyLA~RD~~~~~~~y~~LGl  147 (266)
T PF07517_consen   74 LGL-RPYDVQLLGALALHKGR--LAEMKTGEGKTLIAALPAALNALQGK---GVHVVTSNDYLAKRDAEEMRPFYEFLGL  147 (266)
T ss_dssp             TS-----HHHHHHHHHHHTTS--EEEESTTSHHHHHHHHHHHHHHTTSS----EEEEESSHHHHHHHHHHHHHHHHHTT-
T ss_pred             cCC-cccHHHHhhhhhcccce--eEEecCCCCcHHHHHHHHHHHHHhcC---CcEEEeccHHHhhccHHHHHHHHHHhhh
Confidence            455 78888887776665554  89999999999998888776666553   4889999999999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHH-HHHhcC------CccCCCccEEEEecchhhh
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVC-DMIKRK------TLRTRAIKLLVLDESDEML  188 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~-~~~~~~------~~~~~~~~~vvvDE~h~~~  188 (354)
                      .+.....+....+....+.  ++|+++|...+. ++++..      ......+.++||||+|.++
T Consensus       148 sv~~~~~~~~~~~r~~~Y~--~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~~~~ivDEvDs~L  210 (266)
T PF07517_consen  148 SVGIITSDMSSEERREAYA--ADIVYGTNSEFGFDYLRDNLALSKNEQVQRGFDFAIVDEVDSIL  210 (266)
T ss_dssp             -EEEEETTTEHHHHHHHHH--SSEEEEEHHHHHHHHHHHTT-SSGGG--SSSSSEEEECTHHHHT
T ss_pred             ccccCccccCHHHHHHHHh--CcccccccchhhHHHHHHHHhhccchhccCCCCEEEEeccceEE
Confidence            9999998877655444443  689999998875 334331      1124678999999999975

SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....

>KOG2340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.10  E-value=1.9e-09  Score=93.82  Aligned_cols=300  Identities=15%  Similarity=0.183  Sum_probs=182.1

Q ss_pred             CCCChHHHHHhHhhhhcCCcEEEEc-CCCCch--hhHhHHHHhhccc----------------------------cCCCc
Q 018574           53 FEKPSAIQQRAVMPIIKGRDVIAQA-QSGTGK--TSMIALTVCQTVD----------------------------TSSRE  101 (354)
Q Consensus        53 ~~~~~~~Q~~~~~~~~~~~~~ii~~-~tGsGK--T~~~~~~~~~~~~----------------------------~~~~~  101 (354)
                      -.++++.|.+++....+.++++..- ..+.|+  +.+|.+-++.++.                            ++-.+
T Consensus       214 s~pltalQ~~L~~~m~~YrDl~y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frDQG~tR  293 (698)
T KOG2340|consen  214 SEPLTALQKELFKIMFNYRDLLYPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRDQGFTR  293 (698)
T ss_pred             cCcchHHHHHHHHHHHhhhhhccccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhhcCCCC
Confidence            3579999999999988888875432 223444  3456666665541                            12235


Q ss_pred             eeEEEEcCCHHHHHHHHHHHHHhccCcCe------EEEEE----e---------------------CCc--------chH
Q 018574          102 VQALILSPTRELATQTEKVILAIGDFINI------QAHAC----V---------------------GGK--------SVG  142 (354)
Q Consensus       102 ~~~lil~p~~~l~~q~~~~~~~~~~~~~~------~~~~~----~---------------------~~~--------~~~  142 (354)
                      +++|||||+++-|..+.+.+..+....+-      +-..+    .                     |++        ...
T Consensus       294 pkVLivvpfRe~A~riVn~lis~l~G~~q~k~~V~Nk~RF~~eys~~te~~~~~~~kP~D~~~lf~GNtDD~FriGl~ft  373 (698)
T KOG2340|consen  294 PKVLIVVPFRESAYRIVNLLISLLSGDDQGKSEVWNKKRFEGEYSGPTELPPPRAKKPEDFEELFSGNTDDAFRIGLAFT  373 (698)
T ss_pred             ceEEEEecchHHHHHHHHHHHHHhcCccccchhhhhhhhhchhcCCCcccCCCCCCCchhHHHHhcCCCcchhhhhHHHH
Confidence            78999999999999999988776322110      00000    0                     000        000


Q ss_pred             HhHHhh---cCCCeEEEeCcHHHHHHHhcC------CccCCCccEEEEecchhhhccCcHHHHHHHHhhC---CCC----
Q 018574          143 EDIRKL---EHGVHVVSGTPGRVCDMIKRK------TLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL---PPD----  206 (354)
Q Consensus       143 ~~~~~~---~~~~~iiv~T~~~l~~~~~~~------~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~---~~~----  206 (354)
                      ....++   ....+|+||+|=-|.-.+.+.      .-.++.+.++|+|.+|.++...|.. +..++..+   |..    
T Consensus       374 kKtikLys~fy~SDIlVaSPLGLRmil~n~gdkkrd~dfLSSIEl~iIDQa~~~l~QNwEh-l~~ifdHLn~~P~k~h~~  452 (698)
T KOG2340|consen  374 KKTIKLYSKFYKSDILVASPLGLRMILGNTGDKKRDFDFLSSIELLIIDQADIMLMQNWEH-LLHIFDHLNLQPSKQHDV  452 (698)
T ss_pred             HHHHHHHhhhcccCeEEecchhhhhhhcCCCcccccchhhhhhhhhhhhhHHHHHHhhHHH-HHHHHHHhhcCcccccCC
Confidence            111111   134799999998776666531      1234667899999999997666543 33444444   222    


Q ss_pred             -----------------CcEEEEEeeCchhHHHHHHhccCCCe-EEEe---cCC-cccc--cCceeEEEEeccc------
Q 018574          207 -----------------LQVVLISATLPHEILEMTTKFMTDPV-KILV---KRD-ELTL--EGIKQFFVAVERE------  256 (354)
Q Consensus       207 -----------------~~~i~lSaT~~~~~~~~~~~~~~~~~-~~~~---~~~-~~~~--~~~~~~~~~~~~~------  256 (354)
                                       +|.+++|+--.+....++..++.+.. .+..   ... ....  -.+.+.+......      
T Consensus       453 DfSRVR~wyL~~qsr~~rQtl~Fs~y~~~~~nS~fn~~c~N~~Gkv~~~~~~~~gsi~~v~~~l~Qvf~ri~~~si~~~~  532 (698)
T KOG2340|consen  453 DFSRVRMWYLDGQSRYFRQTLLFSRYSHPLFNSLFNQYCQNMAGKVKARNLQSGGSISNVGIPLCQVFQRIEVKSIIETP  532 (698)
T ss_pred             ChhheehheeccHHHHHHHHHHHHhhccHHHHHHHHHhhhhhcceeeeccccCCCchhhccchhhhhhhheeccCcccCc
Confidence                             35666666666666666665554321 1111   111 1100  1111211111111      


Q ss_pred             cchHHHH-HHHH---hhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc--
Q 018574          257 EWKFDTL-CDLY---DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD--  330 (354)
Q Consensus       257 ~~~~~~l-~~~l---~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~--  330 (354)
                      +...... .+++   ......-+|||.++.-.--++..++++..+....++...+..+-.+.-+.|-.|...||+-|.  
T Consensus       533 D~RFkyFv~~ImPq~~k~t~s~~LiyIPSYfDFVRvRNy~K~e~i~F~~i~EYssk~~vsRAR~lF~qgr~~vlLyTER~  612 (698)
T KOG2340|consen  533 DARFKYFVDKIMPQLIKRTESGILIYIPSYFDFVRVRNYMKKEEISFVMINEYSSKSKVSRARELFFQGRKSVLLYTERA  612 (698)
T ss_pred             hHHHHHHHHhhchhhcccccCceEEEecchhhHHHHHHHhhhhhcchHHHhhhhhHhhhhHHHHHHHhcCceEEEEehhh
Confidence            1111111 1111   112234589999999999999999999888777777776777777777889999999999995  


Q ss_pred             ccccCCCcCCCcEEEecCCCCCC
Q 018574          331 VWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       331 ~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      -.-+-.++.+++.||+|.+|.+|
T Consensus       613 hffrR~~ikGVk~vVfYqpP~~P  635 (698)
T KOG2340|consen  613 HFFRRYHIKGVKNVVFYQPPNNP  635 (698)
T ss_pred             hhhhhheecceeeEEEecCCCCc
Confidence            56778999999999999999987

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=98.95  E-value=2.3e-08  Score=82.94  Aligned_cols=69  Identities=22%  Similarity=0.346  Sum_probs=51.6

Q ss_pred             CChHHHHHhHhhhhcCCc-EEEEcCCCCchhhHhHHHHhhcc-----ccCCCceeEEEEcCCHHHHHHHHHHHHH
Q 018574           55 KPSAIQQRAVMPIIKGRD-VIAQAQSGTGKTSMIALTVCQTV-----DTSSREVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~-~ii~~~tGsGKT~~~~~~~~~~~-----~~~~~~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      ++++.|.+++..++.... .+|+||+|+|||.+....+....     .....+.++|+++|+..-+++..+.+.+
T Consensus         1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen    1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            468899999999999888 99999999999965555444442     1244566799999999999999998877

>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=98.81  E-value=3.4e-08  Score=78.15  Aligned_cols=147  Identities=14%  Similarity=0.188  Sum_probs=73.8

Q ss_pred             CCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHH-------HHHHHHhc
Q 018574           53 FEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQT-------EKVILAIG  125 (354)
Q Consensus        53 ~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~-------~~~~~~~~  125 (354)
                      +...+..|..+++.+...+.+++.+|.|+|||+.++..+++.+..+ .-.+++|+-|..+..+..       .+.+.-+.
T Consensus         2 I~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g-~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~   80 (205)
T PF02562_consen    2 IKPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEG-EYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYL   80 (205)
T ss_dssp             ----SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTT-S-SEEEEEE-S--TT----SS---------TTT
T ss_pred             ccCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhC-CCcEEEEEecCCCCccccccCCCCHHHHHHHHH
Confidence            3456889999999999889999999999999999999888888764 334678887876432111       00000000


Q ss_pred             cCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCC
Q 018574          126 DFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPP  205 (354)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~  205 (354)
                      ...--....+.+..    ....+.....|-+..+..+    +-..+   +-.+||+|||+.+    ....+..++.++..
T Consensus        81 ~p~~d~l~~~~~~~----~~~~~~~~~~Ie~~~~~~i----RGrt~---~~~~iIvDEaQN~----t~~~~k~ilTR~g~  145 (205)
T PF02562_consen   81 RPIYDALEELFGKE----KLEELIQNGKIEIEPLAFI----RGRTF---DNAFIIVDEAQNL----TPEELKMILTRIGE  145 (205)
T ss_dssp             HHHHHHHTTTS-TT----CHHHHHHTTSEEEEEGGGG----TT--B----SEEEEE-SGGG------HHHHHHHHTTB-T
T ss_pred             HHHHHHHHHHhChH----hHHHHhhcCeEEEEehhhh----cCccc---cceEEEEecccCC----CHHHHHHHHcccCC
Confidence            00000000000011    1111112234444443222    21112   2389999999987    67788999999988


Q ss_pred             CCcEEEEEee
Q 018574          206 DLQVVLISAT  215 (354)
Q Consensus       206 ~~~~i~lSaT  215 (354)
                      +.+++++.-.
T Consensus       146 ~skii~~GD~  155 (205)
T PF02562_consen  146 GSKIIITGDP  155 (205)
T ss_dssp             T-EEEEEE--
T ss_pred             CcEEEEecCc
Confidence            8877765544

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional

Probab=98.77  E-value=9e-08  Score=91.41  Aligned_cols=143  Identities=16%  Similarity=0.224  Sum_probs=86.6

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHH-----Hhc----cCcCeEEEEEeCCc--
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVIL-----AIG----DFINIQAHACVGGK--  139 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~-----~~~----~~~~~~~~~~~~~~--  139 (354)
                      .++.+.++||+|||.+|+..+++.....+ -.++||+||+.++...+...+.     .+.    ....+.......+.  
T Consensus        60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~~-~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~~~~~~~~~~S~k~~  138 (986)
T PRK15483         60 ANIDIKMETGTGKTYVYTRLMYELHQKYG-LFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYENTRIELYVINAGDKK  138 (986)
T ss_pred             ceEEEEeCCCCCHHHHHHHHHHHHHHHcC-CcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCCceeEEEEEecCccc
Confidence            47899999999999999988877655433 2569999999999988876654     111    11123333333222  


Q ss_pred             -----chHHhHHhhcC-------CCeEEEeCcHHHHHHHh-cCC----------ccC----CCccEEEEecchhhhccCc
Q 018574          140 -----SVGEDIRKLEH-------GVHVVSGTPGRVCDMIK-RKT----------LRT----RAIKLLVLDESDEMLSRGF  192 (354)
Q Consensus       140 -----~~~~~~~~~~~-------~~~iiv~T~~~l~~~~~-~~~----------~~~----~~~~~vvvDE~h~~~~~~~  192 (354)
                           +.......+..       ...|.+.|.+.|..-.. ...          .+.    ..-.+||+||.|++...  
T Consensus       139 k~gr~~~~~~i~~Fa~~~~~~~~~I~Ilv~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~~~PivIiDEPh~~~~~--  216 (986)
T PRK15483        139 KSGRKNFPAQLSNFVKASRQNSNTIHVLLINAGMLNSASMTRDDYDQTLLGGFTSPVDALAATRPVVIIDEPHRFPRD--  216 (986)
T ss_pred             ccccccChHHHHHHHhccccCCCceEEEEEehHHhcccccccchhhhhhccCCCChHHHHHhCCCEEEEECCCCCCcc--
Confidence                 11222222221       46899999998854211 000          011    22358999999998542  


Q ss_pred             HHHHHHHHhhCCCCCcEEEEEeeCch
Q 018574          193 KDQIYDVYRYLPPDLQVVLISATLPH  218 (354)
Q Consensus       193 ~~~~~~i~~~~~~~~~~i~lSaT~~~  218 (354)
                      ...+..+. .+.+. -++.+|||.+.
T Consensus       217 ~k~~~~i~-~lnpl-~~lrysAT~~~  240 (986)
T PRK15483        217 NKFYQAIE-ALKPQ-MIIRFGATFPD  240 (986)
T ss_pred             hHHHHHHH-hcCcc-cEEEEeeecCC
Confidence            23445553 33332 25779999976

>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]

Probab=98.76  E-value=4.4e-08  Score=87.85  Aligned_cols=85  Identities=21%  Similarity=0.196  Sum_probs=68.2

Q ss_pred             HHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhcc
Q 018574           47 GIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGD  126 (354)
Q Consensus        47 ~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~  126 (354)
                      .+...++.+++.-|..++.+++++.-.+|++|+|+|||.+....++..+...  +.++|+++|+..-++|+++.+.+.+ 
T Consensus       402 ~~s~~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~~--~~~VLvcApSNiAVDqLaeKIh~tg-  478 (935)
T KOG1802|consen  402 RFSVPNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQH--AGPVLVCAPSNIAVDQLAEKIHKTG-  478 (935)
T ss_pred             hhcCCCchhhchHHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHhc--CCceEEEcccchhHHHHHHHHHhcC-
Confidence            4555678899999999999999999999999999999976666555544442  3459999999999999999997766 


Q ss_pred             CcCeEEEEEeC
Q 018574          127 FINIQAHACVG  137 (354)
Q Consensus       127 ~~~~~~~~~~~  137 (354)
                         +++..+..
T Consensus       479 ---LKVvRl~a  486 (935)
T KOG1802|consen  479 ---LKVVRLCA  486 (935)
T ss_pred             ---ceEeeeeh
Confidence               55555544

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=98.74  E-value=7.7e-08  Score=76.88  Aligned_cols=123  Identities=20%  Similarity=0.279  Sum_probs=72.0

Q ss_pred             CChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEE
Q 018574           55 KPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQA  132 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~  132 (354)
                      ++++.|.+++..++.+  +-.++.+++|+|||++.. .+...+...  +.++++++||...+..+.+...       +..
T Consensus         1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~-~~~~~~~~~--g~~v~~~apT~~Aa~~L~~~~~-------~~a   70 (196)
T PF13604_consen    1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTLLK-ALAEALEAA--GKRVIGLAPTNKAAKELREKTG-------IEA   70 (196)
T ss_dssp             -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHH-HHHHHHHHT--T--EEEEESSHHHHHHHHHHHT-------S-E
T ss_pred             CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHH-HHHHHHHhC--CCeEEEECCcHHHHHHHHHhhC-------cch
Confidence            4688999999999754  357888999999997543 344444433  3579999999988887666531       221


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC----CccCCCccEEEEecchhhhccCcHHHHHHHHhhCCC-CC
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK----TLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPP-DL  207 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~----~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~-~~  207 (354)
                      .                        |..++.......    .....+.++|||||+-.+    ....+..++...+. +.
T Consensus        71 ~------------------------Ti~~~l~~~~~~~~~~~~~~~~~~vliVDEasmv----~~~~~~~ll~~~~~~~~  122 (196)
T PF13604_consen   71 Q------------------------TIHSFLYRIPNGDDEGRPELPKKDVLIVDEASMV----DSRQLARLLRLAKKSGA  122 (196)
T ss_dssp             E------------------------EHHHHTTEECCEECCSSCC-TSTSEEEESSGGG-----BHHHHHHHHHHS-T-T-
T ss_pred             h------------------------hHHHHHhcCCcccccccccCCcccEEEEeccccc----CHHHHHHHHHHHHhcCC
Confidence            1                        111111111110    001345679999999987    44566677777766 55


Q ss_pred             cEEEEEee
Q 018574          208 QVVLISAT  215 (354)
Q Consensus       208 ~~i~lSaT  215 (354)
                      +++++.-+
T Consensus       123 klilvGD~  130 (196)
T PF13604_consen  123 KLILVGDP  130 (196)
T ss_dssp             EEEEEE-T
T ss_pred             EEEEECCc
Confidence            65555444

>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]

Probab=98.73  E-value=1.4e-05  Score=72.60  Aligned_cols=80  Identities=8%  Similarity=0.134  Sum_probs=55.9

Q ss_pred             hhCCCCcEEEEcCchhhHHHHHHHHhcCCC-------eEEEeecCCCHHHHHHHHHHH----hCCCCcEEEEc--ccccc
Q 018574          268 DTLTITQAVIFCNTKRKVDWLTEKMRGYNF-------TVSSMHGDMPQKERDAIMGEF----RSGTTRVLITT--DVWAR  334 (354)
Q Consensus       268 ~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~-------~~~~~~~~~~~~~r~~~~~~f----~~g~~~vlv~T--~~~~~  334 (354)
                      ...+ +.+++|++|.+....+.+..++.|+       +-+++-..-+   -..+++.+    ..|...+|++.  .-+++
T Consensus       626 ~~VP-gGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~---~~dvl~~Ya~a~~~g~GaiLlaVVGGKlSE  701 (821)
T KOG1133|consen  626 NAVP-GGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT---VEDVLEGYAEAAERGRGAILLAVVGGKLSE  701 (821)
T ss_pred             hhCC-CcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc---HHHHHHHHHHHhhcCCCeEEEEEecccccc
Confidence            3334 7799999999999999988876543       2222222222   23344444    45777888887  69999


Q ss_pred             CCCcCC--CcEEEecCCCC
Q 018574          335 GLDVQQ--AILFFFLFLFC  351 (354)
Q Consensus       335 Gidi~~--~~~Vi~~~~p~  351 (354)
                      |||+.+  +++||.+++|-
T Consensus       702 GINF~D~LgRaVvvVGlPy  720 (821)
T KOG1133|consen  702 GINFSDDLGRAVVVVGLPY  720 (821)
T ss_pred             ccccccccccEEEEeecCC
Confidence            999974  78899999985

>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1

Probab=98.64  E-value=5.5e-07  Score=74.66  Aligned_cols=157  Identities=23%  Similarity=0.179  Sum_probs=102.9

Q ss_pred             CChHHHHHhHhhhh----------cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           55 KPSAIQQRAVMPII----------KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~----------~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      .+...|.+++-..-          .+..+++--.||.||-......++....++.  .+.|+++.+..|.......++.+
T Consensus        37 ~LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr--~r~vwvS~s~dL~~Da~RDl~DI  114 (303)
T PF13872_consen   37 LLSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGR--KRAVWVSVSNDLKYDAERDLRDI  114 (303)
T ss_pred             cccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHcCC--CceEEEECChhhhhHHHHHHHHh
Confidence            45777877764432          2457899999999999988888887776663  36899999999999999999988


Q ss_pred             ccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC-----Ccc-------CCCccEEEEecchhhhccC-
Q 018574          125 GDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK-----TLR-------TRAIKLLVLDESDEMLSRG-  191 (354)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~-----~~~-------~~~~~~vvvDE~h~~~~~~-  191 (354)
                      +.. .+.+.-+..-...  ..  ......|+++|+..|.......     .+.       ...-++|||||||...+.. 
T Consensus       115 G~~-~i~v~~l~~~~~~--~~--~~~~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDEcH~akn~~~  189 (303)
T PF13872_consen  115 GAD-NIPVHPLNKFKYG--DI--IRLKEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDECHKAKNLSS  189 (303)
T ss_pred             CCC-cccceechhhccC--cC--CCCCCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEeccchhcCCCCc
Confidence            844 3322222110000  00  1123579999999887664321     110       1224689999999985432 


Q ss_pred             -------cHHHHHHHHhhCCCCCcEEEEEeeCchh
Q 018574          192 -------FKDQIYDVYRYLPPDLQVVLISATLPHE  219 (354)
Q Consensus       192 -------~~~~~~~i~~~~~~~~~~i~lSaT~~~~  219 (354)
                             .......+-+.+| +.+++.+|||...+
T Consensus       190 ~~~~~sk~g~avl~LQ~~LP-~ARvvY~SATgase  223 (303)
T PF13872_consen  190 GSKKPSKTGIAVLELQNRLP-NARVVYASATGASE  223 (303)
T ss_pred             cCccccHHHHHHHHHHHhCC-CCcEEEecccccCC
Confidence                   2244455555664 55699999997554

>PRK10536 hypothetical protein; Provisional

Probab=98.51  E-value=4.7e-07  Score=73.80  Aligned_cols=145  Identities=14%  Similarity=0.145  Sum_probs=82.9

Q ss_pred             HCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHH-------HHHHHH
Q 018574           50 QYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ-------TEKVIL  122 (354)
Q Consensus        50 ~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q-------~~~~~~  122 (354)
                      -.++...+..|...+..+.++..+++.||+|+|||+.+...+++.+..+. -.++++.-|..+..+.       ..+.+.
T Consensus        54 ~~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~-~~kIiI~RP~v~~ge~LGfLPG~~~eK~~  132 (262)
T PRK10536         54 TSPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKD-VDRIIVTRPVLQADEDLGFLPGDIAEKFA  132 (262)
T ss_pred             CccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCC-eeEEEEeCCCCCchhhhCcCCCCHHHHHH
Confidence            34566789999999999988889999999999999988887776664432 2345555565432211       011111


Q ss_pred             H----hccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHH
Q 018574          123 A----IGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYD  198 (354)
Q Consensus       123 ~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~  198 (354)
                      -    +.+.+..    +.+.....+...  .....|-+...    .+++...+   .-++||+||++.+    ....+..
T Consensus       133 p~~~pi~D~L~~----~~~~~~~~~~~~--~~~~~Iei~~l----~ymRGrtl---~~~~vIvDEaqn~----~~~~~k~  195 (262)
T PRK10536        133 PYFRPVYDVLVR----RLGASFMQYCLR--PEIGKVEIAPF----AYMRGRTF---ENAVVILDEAQNV----TAAQMKM  195 (262)
T ss_pred             HHHHHHHHHHHH----HhChHHHHHHHH--hccCcEEEecH----HHhcCCcc---cCCEEEEechhcC----CHHHHHH
Confidence            1    1100000    001111111000  11223444433    22332232   3489999999987    4578888


Q ss_pred             HHhhCCCCCcEEEE
Q 018574          199 VYRYLPPDLQVVLI  212 (354)
Q Consensus       199 i~~~~~~~~~~i~l  212 (354)
                      ++..+..+.+++++
T Consensus       196 ~ltR~g~~sk~v~~  209 (262)
T PRK10536        196 FLTRLGENVTVIVN  209 (262)
T ss_pred             HHhhcCCCCEEEEe
Confidence            88888877776653

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=98.51  E-value=1.5e-06  Score=82.91  Aligned_cols=128  Identities=22%  Similarity=0.217  Sum_probs=80.8

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .++ .+++.|.+++..+..++-+++.+++|+|||++.- .++..+........+++++||-.-+..+.+..       +.
T Consensus       320 ~~~-~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~l~-~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~-------g~  390 (720)
T TIGR01448       320 LRK-GLSEEQKQALDTAIQHKVVILTGGPGTGKTTITR-AIIELAEELGGLLPVGLAAPTGRAAKRLGEVT-------GL  390 (720)
T ss_pred             cCC-CCCHHHHHHHHHHHhCCeEEEECCCCCCHHHHHH-HHHHHHHHcCCCceEEEEeCchHHHHHHHHhc-------CC
Confidence            454 8999999999999988999999999999996443 33333333221245888899987776554432       11


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc-----CCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCC
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR-----KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPP  205 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~-----~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~  205 (354)
                      ..                        .|..+++.....     ..-.....++||+||++.+.    ...+..+++.++.
T Consensus       391 ~a------------------------~Tih~lL~~~~~~~~~~~~~~~~~~~llIvDEaSMvd----~~~~~~Ll~~~~~  442 (720)
T TIGR01448       391 TA------------------------STIHRLLGYGPDTFRHNHLEDPIDCDLLIVDESSMMD----TWLALSLLAALPD  442 (720)
T ss_pred             cc------------------------ccHHHHhhccCCccchhhhhccccCCEEEEeccccCC----HHHHHHHHHhCCC
Confidence            11                        111111110000     00112356899999999873    3456677777887


Q ss_pred             CCcEEEEEee
Q 018574          206 DLQVVLISAT  215 (354)
Q Consensus       206 ~~~~i~lSaT  215 (354)
                      ..+++++.-+
T Consensus       443 ~~rlilvGD~  452 (720)
T TIGR01448       443 HARLLLVGDT  452 (720)
T ss_pred             CCEEEEECcc
Confidence            8888876655

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.

>PF13245 AAA_19: Part of AAA domain

Probab=98.47  E-value=6.4e-07  Score=59.15  Aligned_cols=52  Identities=25%  Similarity=0.419  Sum_probs=40.1

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhcccc-CCCceeEEEEcCCHHHHHHHHHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQALILSPTRELATQTEKVI  121 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~~lil~p~~~l~~q~~~~~  121 (354)
                      ++-++|.+|+|+|||...+..+...+.. ...+.++++++|++..++++.+.+
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl   62 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL   62 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence            4445669999999997777776666632 112567999999999999998887

>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]

Probab=98.46  E-value=1.2e-06  Score=81.40  Aligned_cols=282  Identities=15%  Similarity=0.212  Sum_probs=156.4

Q ss_pred             HHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCc--eeEEEEcCCHHHHHHHHHHHHH-hccCcCeEEEEE
Q 018574           59 IQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSRE--VQALILSPTRELATQTEKVILA-IGDFINIQAHAC  135 (354)
Q Consensus        59 ~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~--~~~lil~p~~~l~~q~~~~~~~-~~~~~~~~~~~~  135 (354)
                      +-..++..+..++-+++.+.||.|||.-+...++..+.....+  ..+.+.-|++..+..+++++.+ -+...+-.+.  
T Consensus       382 ~~~~i~q~v~dn~v~~I~getgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisiaerva~er~e~~g~tvg--  459 (1282)
T KOG0921|consen  382 YRSEILQAVAENRVVIIKGETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISLAERVANERGEEVGETCG--  459 (1282)
T ss_pred             HHHHHHHHHhcCceeeEeecccccchhHHHHHHHHHHhhccccccccceeccccccchHHHHHHHHHhhHHhhccccc--
Confidence            3345666667788899999999999999999999887665443  2466666777666666655432 2212111111  


Q ss_pred             eCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-cHHHHHHHHhhCCCCCcEEEEEe
Q 018574          136 VGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-FKDQIYDVYRYLPPDLQVVLISA  214 (354)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-~~~~~~~i~~~~~~~~~~i~lSa  214 (354)
                         .+......--....-|+++|.+-+++.++....   ...++++||.|...-.+ |...+..=......+..++++||
T Consensus       460 ---y~vRf~Sa~prpyg~i~fctvgvllr~~e~glr---g~sh~i~deiherdv~~dfll~~lr~m~~ty~dl~v~lmsa  533 (1282)
T KOG0921|consen  460 ---YNVRFDSATPRPYGSIMFCTVGVLLRMMENGLR---GISHVIIDEIHERDVDTDFVLIVLREMISTYRDLRVVLMSA  533 (1282)
T ss_pred             ---ccccccccccccccceeeeccchhhhhhhhccc---ccccccchhhhhhccchHHHHHHHHhhhccchhhhhhhhhc
Confidence               111111110111245789999999988886543   56889999999864332 22222111112234555666666


Q ss_pred             eCchhHH--------------------HHHHhccCCCeEEEec----------CCccccc-C-----------------c
Q 018574          215 TLPHEIL--------------------EMTTKFMTDPVKILVK----------RDELTLE-G-----------------I  246 (354)
Q Consensus       215 T~~~~~~--------------------~~~~~~~~~~~~~~~~----------~~~~~~~-~-----------------~  246 (354)
                      |+..+..                    .++.+.+..+......          ..+...+ +                 +
T Consensus       534 tIdTd~f~~~f~~~p~~~~~grt~pvq~F~led~~~~~~~vp~~~~~~k~k~~~~~~~~~~ddK~~n~n~~~dd~~~~~~  613 (1282)
T KOG0921|consen  534 TIDTDLFTNFFSSIPDVTVHGRTFPVQSFFLEDIIQMTQFVPSEPSQKKRKKDDDEEDEEVDDKGRNMNILCDPSYNEST  613 (1282)
T ss_pred             ccchhhhhhhhccccceeeccccccHHHHHHHHhhhhhhccCCCcCccchhhcccccCchhhhcccccccccChhhcchh
Confidence            6543321                    1222211111100000          0000000 0                 0


Q ss_pred             eeEEEEeccccchHHHHHHHHhh----CCCCcEEEEcCchhhHHHHHHHHhcC-------CCeEEEeecCCCHHHHHHHH
Q 018574          247 KQFFVAVEREEWKFDTLCDLYDT----LTITQAVIFCNTKRKVDWLTEKMRGY-------NFTVSSMHGDMPQKERDAIM  315 (354)
Q Consensus       247 ~~~~~~~~~~~~~~~~l~~~l~~----~~~~~~lvf~~~~~~~~~l~~~l~~~-------~~~~~~~~~~~~~~~r~~~~  315 (354)
                      ................++.++..    .-.+-+++|.+.-.....+...|...       .......|+-....+..++.
T Consensus       614 ~~am~~~se~d~~f~l~Eal~~~i~s~~i~gailvflpgwa~i~~L~~~ll~~~~fg~~~~y~ilp~Hsq~~~~eqrkvf  693 (1282)
T KOG0921|consen  614 RTAMSRLSEKDIPFGLIEALLNDIASRNIDGAVLVFLPGWAEIMTLCNRLLEHQEFGQANKYEILPLHSQLTSQEQRKVF  693 (1282)
T ss_pred             hhhhhcchhhcchhHHHHHHHhhhcccCCccceeeecCchHHhhhhhhhhhhhhhhccchhcccccchhhcccHhhhhcc
Confidence            00000000001112222222222    22356888888877777776666443       34566677777767777788


Q ss_pred             HHHhCCCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          316 GEFRSGTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       316 ~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      +.-..|..++++.|+.....+.+-++..||..+
T Consensus       694 ~~~p~gv~kii~stniaetsiTidd~v~vid~c  726 (1282)
T KOG0921|consen  694 EPVPEGVTKIILSTNIAETSITIDDVVYVIDSC  726 (1282)
T ss_pred             CcccccccccccccceeeEeeeecceeEEEeee
Confidence            888889999999999999999988888777654

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=98.43  E-value=1.5e-06  Score=76.44  Aligned_cols=108  Identities=13%  Similarity=0.178  Sum_probs=66.6

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCC
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG  151 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (354)
                      -++|.|.+|||||.+++-.+... .....+.+++++++..+|...+.+.+.....                      ...
T Consensus         3 v~~I~G~aGTGKTvla~~l~~~l-~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~----------------------~~~   59 (352)
T PF09848_consen    3 VILITGGAGTGKTVLALNLAKEL-QNSEEGKKVLYLCGNHPLRNKLREQLAKKYN----------------------PKL   59 (352)
T ss_pred             EEEEEecCCcCHHHHHHHHHHHh-hccccCCceEEEEecchHHHHHHHHHhhhcc----------------------cch
Confidence            47999999999997666555444 2233455689999999999988887754320                      000


Q ss_pred             CeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-------cHHHHHHHHhh
Q 018574          152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-------FKDQIYDVYRY  202 (354)
Q Consensus       152 ~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-------~~~~~~~i~~~  202 (354)
                      ....+..+..+.............+++|||||||++....       ....+..+++.
T Consensus        60 ~~~~~~~~~~~i~~~~~~~~~~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~  117 (352)
T PF09848_consen   60 KKSDFRKPTSFINNYSESDKEKNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKR  117 (352)
T ss_pred             hhhhhhhhHHHHhhcccccccCCcCCEEEEehhHhhhhccccccccccHHHHHHHHhc
Confidence            1112223333333222223345678999999999997631       23556566554

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]

Probab=98.42  E-value=1.6e-07  Score=88.43  Aligned_cols=131  Identities=15%  Similarity=0.217  Sum_probs=96.3

Q ss_pred             ChHHHHHhHhhhhc-CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           56 PSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~-~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      ..+.|.+.+..... ..++++.+|||+|||.++...+...+... ++.+++++.|.++|...-.+...+.....++++..
T Consensus       928 fn~~q~~if~~~y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~-p~~kvvyIap~kalvker~~Dw~~r~~~~g~k~ie 1006 (1230)
T KOG0952|consen  928 FNPIQTQIFHCLYHTDLNFLLGAPTGSGKTVVAELAIFRALSYY-PGSKVVYIAPDKALVKERSDDWSKRDELPGIKVIE 1006 (1230)
T ss_pred             cCCccceEEEEEeecchhhhhcCCccCcchhHHHHHHHHHhccC-CCccEEEEcCCchhhcccccchhhhcccCCceeEe
Confidence            34556655544333 46789999999999998888877666544 44789999999999988777776655555888988


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHh--cCCccCCCccEEEEecchhhhcc
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIK--RKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~--~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      +.|+...+..   -...++++|+||+++....+  ...-.+..++.+|+||.|.+...
T Consensus      1007 ~tgd~~pd~~---~v~~~~~~ittpek~dgi~Rsw~~r~~v~~v~~iv~de~hllg~~ 1061 (1230)
T KOG0952|consen 1007 LTGDVTPDVK---AVREADIVITTPEKWDGISRSWQTRKYVQSVSLIVLDEIHLLGED 1061 (1230)
T ss_pred             ccCccCCChh---heecCceEEcccccccCccccccchhhhccccceeecccccccCC
Confidence            8888765522   22347999999999876655  23444567889999999987443

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=98.41  E-value=5.3e-06  Score=77.23  Aligned_cols=141  Identities=16%  Similarity=0.213  Sum_probs=88.4

Q ss_pred             hHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-CCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEE
Q 018574           57 SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQALILSPTRELATQTEKVILAIGDFINIQAHAC  135 (354)
Q Consensus        57 ~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~  135 (354)
                      .++|+.++...+.++-.+|.|++|+|||++....+...... .....+++++.||..-+..+.+.+.......+..    
T Consensus       154 ~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~----  229 (615)
T PRK10875        154 VDWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLT----  229 (615)
T ss_pred             CHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccc----
Confidence            58999999999999999999999999997654433322221 1223568889999998888888776543322210    


Q ss_pred             eCCcchHHhHHhhcCCCeEEEeCcHHHHHHH------hcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcE
Q 018574          136 VGGKSVGEDIRKLEHGVHVVSGTPGRVCDMI------KRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV  209 (354)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~------~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~  209 (354)
                            ......+    ..-..|..+++...      .....+...+++|||||+-.+    -...+..+++.++++.++
T Consensus       230 ------~~~~~~~----~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIvDEaSMv----d~~lm~~ll~al~~~~rl  295 (615)
T PRK10875        230 ------DEQKKRI----PEEASTLHRLLGAQPGSQRLRYHAGNPLHLDVLVVDEASMV----DLPMMARLIDALPPHARV  295 (615)
T ss_pred             ------hhhhhcC----CCchHHHHHHhCcCCCccchhhccccCCCCCeEEEChHhcc----cHHHHHHHHHhcccCCEE
Confidence                  0000000    01123333332211      111122335689999999876    356777788888888888


Q ss_pred             EEEEee
Q 018574          210 VLISAT  215 (354)
Q Consensus       210 i~lSaT  215 (354)
                      |++.-.
T Consensus       296 IlvGD~  301 (615)
T PRK10875        296 IFLGDR  301 (615)
T ss_pred             EEecch
Confidence            887766

>TIGR00376 DNA helicase, putative

Probab=98.40  E-value=3e-06  Score=79.76  Aligned_cols=68  Identities=18%  Similarity=0.204  Sum_probs=55.5

Q ss_pred             CCChHHHHHhHhhhhcC-CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           54 EKPSAIQQRAVMPIIKG-RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      ..+++.|.+++..++.. ...+|.||+|+|||.+....+.+.+..+   .++|+++|+..-++++.+.+...
T Consensus       156 ~~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g---~~VLv~a~sn~Avd~l~e~l~~~  224 (637)
T TIGR00376       156 PNLNESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLVKRG---LRVLVTAPSNIAVDNLLERLALC  224 (637)
T ss_pred             CCCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHHcC---CCEEEEcCcHHHHHHHHHHHHhC
Confidence            35799999999998876 6789999999999977766666555433   36999999999999999888763

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.

>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length

Probab=98.40  E-value=5.9e-06  Score=66.13  Aligned_cols=128  Identities=20%  Similarity=0.282  Sum_probs=84.1

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhc---CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIK---GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~---~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      .+|+....+.++.=.+.. ++ -+++-|.++...+.+   |++.+.++-+|.|||.+.+..+...+..+ . .-+.+++|
T Consensus         3 ~~w~p~~~P~wLl~E~e~-~i-liR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsVI~Pmla~~LAdg-~-~LvrviVp   78 (229)
T PF12340_consen    3 RNWDPMEYPDWLLFEIES-NI-LIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSVIVPMLALALADG-S-RLVRVIVP   78 (229)
T ss_pred             CCCCchhChHHHHHHHHc-Cc-eeeHHHHHHHHHHhCCCCCCCeEeeecccCCccchHHHHHHHHHcCC-C-cEEEEEcC
Confidence            578888777777766644 34 789999999988876   57899999999999966555544444433 2 34667777


Q ss_pred             CHHHHHHHHHHHHH-hccCcCeEEEEEeC--CcchHH----hHH----hhcCCCeEEEeCcHHHHHH
Q 018574          110 TRELATQTEKVILA-IGDFINIQAHACVG--GKSVGE----DIR----KLEHGVHVVSGTPGRVCDM  165 (354)
Q Consensus       110 ~~~l~~q~~~~~~~-~~~~~~~~~~~~~~--~~~~~~----~~~----~~~~~~~iiv~T~~~l~~~  165 (354)
                       ++|..|..+.+.. ++...+-.+..+.-  ....+.    ...    .......|+++||+.+..+
T Consensus        79 -k~Ll~q~~~~L~~~lg~l~~r~i~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilSf  144 (229)
T PF12340_consen   79 -KALLEQMRQMLRSRLGGLLNRRIYHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILSF  144 (229)
T ss_pred             -HHHHHHHHHHHHHHHHHHhCCeeEEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHHH
Confidence             6799999888875 44333433333322  222111    111    2234567999999988764

There are two conserved sequence motifs: LLE and NMG.

>KOG1803 consensus DNA helicase [Replication, recombination and repair]

Probab=98.37  E-value=2.3e-06  Score=76.49  Aligned_cols=65  Identities=22%  Similarity=0.261  Sum_probs=54.6

Q ss_pred             CChHHHHHhHhhhhcC-CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHH
Q 018574           55 KPSAIQQRAVMPIIKG-RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVIL  122 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~  122 (354)
                      .+.+-|..++...... .-.+++||||+|||.+....+.+.+..+   .++|++.|+..-++.+.+++.
T Consensus       185 ~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~~---k~VLVcaPSn~AVdNiverl~  250 (649)
T KOG1803|consen  185 NLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVKQK---KRVLVCAPSNVAVDNIVERLT  250 (649)
T ss_pred             cccHHHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHHHHcC---CeEEEEcCchHHHHHHHHHhc
Confidence            5788899999887776 5679999999999998888888777655   459999999999999988653

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=98.37  E-value=5.2e-06  Score=77.14  Aligned_cols=141  Identities=18%  Similarity=0.228  Sum_probs=86.6

Q ss_pred             hHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC--CceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           57 SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS--REVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        57 ~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~--~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .++|+.++...+.++-.+|.|++|+|||++....+........  ...++++++||-.-+..+.+.+......++..   
T Consensus       147 ~~~Qk~A~~~al~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l~~~---  223 (586)
T TIGR01447       147 QNWQKVAVALALKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNLAAA---  223 (586)
T ss_pred             cHHHHHHHHHHhhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcccccc---
Confidence            3789999999999999999999999999765444332221111  12469999999888888777765533222110   


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHh------cCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCc
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIK------RKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ  208 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~------~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~  208 (354)
                          .   ....    ...+-..|..+++....      ........+++||+||+-.+    -...+..+++.++...+
T Consensus       224 ----~---~~~~----~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIiDEaSMv----d~~l~~~ll~al~~~~r  288 (586)
T TIGR01447       224 ----E---ALIA----ALPSEAVTIHRLLGIKPDTKRFRHHERNPLPLDVLVVDEASMV----DLPLMAKLLKALPPNTK  288 (586)
T ss_pred             ----h---hhhh----ccccccchhhhhhcccCCcchhhhcccCCCcccEEEEcccccC----CHHHHHHHHHhcCCCCE
Confidence                0   0000    00111233333332211      11112335799999999876    34567778888888888


Q ss_pred             EEEEEee
Q 018574          209 VVLISAT  215 (354)
Q Consensus       209 ~i~lSaT  215 (354)
                      +|++.-.
T Consensus       289 lIlvGD~  295 (586)
T TIGR01447       289 LILLGDK  295 (586)
T ss_pred             EEEECCh
Confidence            8876655

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.

>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]

Probab=98.34  E-value=3.5e-06  Score=78.48  Aligned_cols=72  Identities=15%  Similarity=0.148  Sum_probs=53.8

Q ss_pred             CChHHHHHhHhhhhc----CCcEEEEcCCCCchhhHhHHHHhhcccc---------------------------------
Q 018574           55 KPSAIQQRAVMPIIK----GRDVIAQAQSGTGKTSMIALTVCQTVDT---------------------------------   97 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~~~~ii~~~tGsGKT~~~~~~~~~~~~~---------------------------------   97 (354)
                      +|++-|...+..++.    ..++++..|||+|||++.+-..++....                                 
T Consensus        21 qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~p~~~s~~~g~~s~e~  100 (945)
T KOG1132|consen   21 QPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFIPTQPSDSGGEKSEEA  100 (945)
T ss_pred             CcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccccCCCCccCCCCchhhh
Confidence            889999988877765    5789999999999998776665543310                                 


Q ss_pred             CC------CceeEEEEcCCHHHHHHHHHHHHHhcc
Q 018574           98 SS------REVQALILSPTRELATQTEKVILAIGD  126 (354)
Q Consensus        98 ~~------~~~~~lil~p~~~l~~q~~~~~~~~~~  126 (354)
                      ..      ..+++.|-.-|.+-..|+.+++++..-
T Consensus       101 ~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT~Y  135 (945)
T KOG1132|consen  101 GEPIACYTGIPKIYYASRTHSQLTQVVRELRRTGY  135 (945)
T ss_pred             cCccccccCCceEEEecchHHHHHHHHHHHhhcCC
Confidence            00      135677777788888999999987663

>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]

Probab=98.31  E-value=8.6e-05  Score=68.57  Aligned_cols=81  Identities=16%  Similarity=0.260  Sum_probs=64.9

Q ss_pred             CcEEEEcCchhhHHHHHHHHhcCC------------------CeEEEeecCCCHHHHHHHHHHHhCC---CCcEEEEccc
Q 018574          273 TQAVIFCNTKRKVDWLTEKMRGYN------------------FTVSSMHGDMPQKERDAIMGEFRSG---TTRVLITTDV  331 (354)
Q Consensus       273 ~~~lvf~~~~~~~~~l~~~l~~~~------------------~~~~~~~~~~~~~~r~~~~~~f~~g---~~~vlv~T~~  331 (354)
                      .++|||.++.-...-+.+.|.++.                  .....++|..+..+|++.+++|.+-   .+-++++|.+
T Consensus       720 ~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN~e~~lsWlfllstra  799 (1387)
T KOG1016|consen  720 EKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFNSEPGLSWLFLLSTRA  799 (1387)
T ss_pred             ceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhccCCCCceeeeeehhcc
Confidence            478999999888888888886542                  2244677888899999999999863   2457888999


Q ss_pred             cccCCCcCCCcEEEecCCCCCC
Q 018574          332 WARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       332 ~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ..-|+++=.++.+|.||.-|++
T Consensus       800 g~lGinLIsanr~~ifda~wnp  821 (1387)
T KOG1016|consen  800 GSLGINLISANRCIIFDACWNP  821 (1387)
T ss_pred             ccccceeeccceEEEEEeecCc
Confidence            9999999888888888887764

>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A

Probab=98.25  E-value=2.1e-06  Score=66.74  Aligned_cols=84  Identities=17%  Similarity=0.326  Sum_probs=61.6

Q ss_pred             HHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCC--eEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc--ccccCCCcCC
Q 018574          265 DLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNF--TVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD--VWARGLDVQQ  340 (354)
Q Consensus       265 ~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~--~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~--~~~~Gidi~~  340 (354)
                      ++++..+ ++++||++|.+.++.+.+.++....  ...++..  +..++..+++.|++++..||+++.  .+++|+|+|+
T Consensus         3 ~l~~~~~-g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~~q--~~~~~~~~l~~~~~~~~~il~~v~~g~~~EGiD~~~   79 (167)
T PF13307_consen    3 ELISAVP-GGVLVFFPSYRRLEKVYERLKERLEEKGIPVFVQ--GSKSRDELLEEFKRGEGAILLAVAGGSFSEGIDFPG   79 (167)
T ss_dssp             HHHHCCS-SEEEEEESSHHHHHHHHTT-TSS-E-ETSCEEES--TCCHHHHHHHHHCCSSSEEEEEETTSCCGSSS--EC
T ss_pred             HHHhcCC-CCEEEEeCCHHHHHHHHHHHHhhcccccceeeec--CcchHHHHHHHHHhccCeEEEEEecccEEEeecCCC
Confidence            4444444 8999999999999999999987531  1123332  356788899999999999999998  9999999995


Q ss_pred             --CcEEEecCCCC
Q 018574          341 --AILFFFLFLFC  351 (354)
Q Consensus       341 --~~~Vi~~~~p~  351 (354)
                        +++||..++|-
T Consensus        80 ~~~r~vii~glPf   92 (167)
T PF13307_consen   80 DLLRAVIIVGLPF   92 (167)
T ss_dssp             ESEEEEEEES---
T ss_pred             chhheeeecCCCC
Confidence              78899999995

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=98.20  E-value=4.8e-06  Score=68.58  Aligned_cols=60  Identities=20%  Similarity=0.298  Sum_probs=40.8

Q ss_pred             CccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeC---chhHHHHHHhccCC
Q 018574          170 TLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATL---PHEILEMTTKFMTD  230 (354)
Q Consensus       170 ~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~---~~~~~~~~~~~~~~  230 (354)
                      ..+...+.++|+||||.|.... ...+.+.+...+....+++++.-+   +..+....+.|...
T Consensus       124 ~~~~~~fKiiIlDEcdsmtsda-q~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk  186 (346)
T KOG0989|consen  124 GYPCPPFKIIILDECDSMTSDA-QAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFK  186 (346)
T ss_pred             CCCCCcceEEEEechhhhhHHH-HHHHHHHHhccccceEEEEEcCChhhCChHHHhhHHHhcCC
Confidence            4455678999999999996654 446666667667777778777765   44455555555443

>COG3587 Restriction endonuclease [Defense mechanisms]

Probab=98.11  E-value=1.3e-05  Score=74.54  Aligned_cols=145  Identities=13%  Similarity=0.107  Sum_probs=83.6

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc-----cCc-CeEEEEEeCCcchHHh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG-----DFI-NIQAHACVGGKSVGED  144 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~-----~~~-~~~~~~~~~~~~~~~~  144 (354)
                      -++=|.+.||+|||++|+-.+.+.-..-+ -.+.+|+||+.++-.-+........     ..+ +.+...+..+......
T Consensus        75 lNiDI~METGTGKTy~YlrtmfeLhk~YG-~~KFIivVPs~AIkeGv~~~s~~~~ehF~k~~Yent~~e~~i~~~~~~~~  153 (985)
T COG3587          75 LNIDILMETGTGKTYTYLRTMFELHKKYG-LFKFIIVVPSLAIKEGVFLTSKETTEHFFKSEYENTRLESYIYDEDIEKF  153 (985)
T ss_pred             ceeeEEEecCCCceeeHHHHHHHHHHHhC-ceeEEEEeccHHHHhhhHHHHHHHHHHHhhhhccCcceeEEeechHHHHH
Confidence            47889999999999999988776543222 2368999999998766433322111     111 2334444443333333


Q ss_pred             HHhhcCCCeEEEeCcHHHHHH------HhcCCccC---------------CCccEEEEecchhhhccCcHHHHHHHHhhC
Q 018574          145 IRKLEHGVHVVSGTPGRVCDM------IKRKTLRT---------------RAIKLLVLDESDEMLSRGFKDQIYDVYRYL  203 (354)
Q Consensus       145 ~~~~~~~~~iiv~T~~~l~~~------~~~~~~~~---------------~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~  203 (354)
                      ..+..+.+.+++.+.+.+..-      +.......               ..-.+||+||-|.+...  ...+..+... 
T Consensus       154 ~~~~~~~~~vLl~~~~Afnk~~inan~iN~~s~~~~~~~~~~~spvd~la~~rPIvIvDEPh~f~~~--~k~~~~i~~l-  230 (985)
T COG3587         154 KFKSNNKPCVLLIFVSAFNKEEINANMINSESMENTNLFNGATSPVDALASMRPIVIVDEPHRFLGD--DKTYGAIKQL-  230 (985)
T ss_pred             hhccCCCceEEEEehhhhccccccccccchhhhcccCccccccCHHHHHHhcCCEEEecChhhcccc--hHHHHHHHhh-
Confidence            333445577777776655432      11100000               22358999999999764  2333344333 


Q ss_pred             CCCCcEEEEEeeCchhH
Q 018574          204 PPDLQVVLISATLPHEI  220 (354)
Q Consensus       204 ~~~~~~i~lSaT~~~~~  220 (354)
                       ...-++=++||.+.+.
T Consensus       231 -~pl~ilRfgATfkd~y  246 (985)
T COG3587         231 -NPLLILRFGATFKDEY  246 (985)
T ss_pred             -CceEEEEecccchhhh
Confidence             2334677899986653

>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA

Probab=98.10  E-value=8.8e-06  Score=70.61  Aligned_cols=68  Identities=18%  Similarity=0.205  Sum_probs=55.2

Q ss_pred             ChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC-CCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           56 PSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS-SREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~-~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      +++-|.+++..  ..++++|.|++|||||.+.+.-+...+... ....++|++++|+..+..+.+++....
T Consensus         1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l   69 (315)
T PF00580_consen    1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELL   69 (315)
T ss_dssp             S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhc
Confidence            57889999987  678999999999999998888877777655 345679999999999999999988754

THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=98.08  E-value=9.9e-05  Score=64.00  Aligned_cols=135  Identities=16%  Similarity=0.245  Sum_probs=83.7

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE  149 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (354)
                      ++.+.+.||||.|||+..+-.+.......+.....+|-+.+--.+.  .++++.+++..++.+                 
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA--~EQLk~Ya~im~vp~-----------------  263 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGA--VEQLKTYADIMGVPL-----------------  263 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhH--HHHHHHHHHHhCCce-----------------
Confidence            6788999999999998777666555533333445777777655443  355555554444433                 


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhh-hccCcHHHHHHHHhhCCCCCcEEEEEeeCc-hhHHHHHHhc
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM-LSRGFKDQIYDVYRYLPPDLQVVLISATLP-HEILEMTTKF  227 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~-~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~-~~~~~~~~~~  227 (354)
                          .++-+|.-|...+..    +.++++|.||=+-+- .+......+..+.....+-...+.+|||.. .++.+.+..|
T Consensus       264 ----~vv~~~~el~~ai~~----l~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f  335 (407)
T COG1419         264 ----EVVYSPKELAEAIEA----LRDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQF  335 (407)
T ss_pred             ----EEecCHHHHHHHHHH----hhcCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHh
Confidence                344455555444432    345588888855443 344456677777776655556788899984 4566667666


Q ss_pred             cCCC
Q 018574          228 MTDP  231 (354)
Q Consensus       228 ~~~~  231 (354)
                      ..-+
T Consensus       336 ~~~~  339 (407)
T COG1419         336 SLFP  339 (407)
T ss_pred             ccCC
Confidence            5543

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=98.06  E-value=8.4e-05  Score=71.51  Aligned_cols=121  Identities=18%  Similarity=0.163  Sum_probs=72.8

Q ss_pred             CChHHHHHhHhhhhcC-CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEE
Q 018574           55 KPSAIQQRAVMPIIKG-RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAH  133 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~  133 (354)
                      .+++.|.+++..+..+ +-++|.+++|+|||++.-. +...+...  +.++++++||-.-+..+.+..       ++...
T Consensus       352 ~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~-i~~~~~~~--g~~V~~~ApTg~Aa~~L~~~~-------g~~a~  421 (744)
T TIGR02768       352 RLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKA-AREAWEAA--GYRVIGAALSGKAAEGLQAES-------GIESR  421 (744)
T ss_pred             CCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHH-HHHHHHhC--CCeEEEEeCcHHHHHHHHhcc-------CCcee
Confidence            6899999999998874 6779999999999965443 33333322  456899999976665544321       12111


Q ss_pred             EEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhh-CCCCCcEEEE
Q 018574          134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY-LPPDLQVVLI  212 (354)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~-~~~~~~~i~l  212 (354)
                                              |..++..........+...++||+||+-.+....    +..+++. .....+++++
T Consensus       422 ------------------------Ti~~~~~~~~~~~~~~~~~~llIvDEasMv~~~~----~~~Ll~~~~~~~~kliLV  473 (744)
T TIGR02768       422 ------------------------TLASLEYAWANGRDLLSDKDVLVIDEAGMVGSRQ----MARVLKEAEEAGAKVVLV  473 (744)
T ss_pred             ------------------------eHHHHHhhhccCcccCCCCcEEEEECcccCCHHH----HHHHHHHHHhcCCEEEEE
Confidence                                    2222211112222234567899999998874333    3344442 2245666665


Q ss_pred             E
Q 018574          213 S  213 (354)
Q Consensus       213 S  213 (354)
                      .
T Consensus       474 G  474 (744)
T TIGR02768       474 G  474 (744)
T ss_pred             C
Confidence            5

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.

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=98.04  E-value=7.1e-05  Score=73.24  Aligned_cols=126  Identities=19%  Similarity=0.129  Sum_probs=76.4

Q ss_pred             CCCCCChHHHHHhHhhhhcCC-cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcC
Q 018574           51 YGFEKPSAIQQRAVMPIIKGR-DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN  129 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~-~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~  129 (354)
                      .|+ .+++-|.+++..++.++ .+++.++.|+|||++ +-.+...+...  +.+++.++||-.-+..+.+.       .+
T Consensus       343 ~g~-~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~~--G~~V~~~ApTGkAA~~L~e~-------tG  411 (988)
T PRK13889        343 RGL-VLSGEQADALAHVTDGRDLGVVVGYAGTGKSAM-LGVAREAWEAA--GYEVRGAALSGIAAENLEGG-------SG  411 (988)
T ss_pred             cCC-CCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHH-HHHHHHHHHHc--CCeEEEecCcHHHHHHHhhc-------cC
Confidence            455 79999999999998854 579999999999975 33344333322  45689999987655544321       11


Q ss_pred             eEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhC-CCCCc
Q 018574          130 IQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL-PPDLQ  208 (354)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~-~~~~~  208 (354)
                      +..                        .|..++..........+...++|||||+-.+..    ..+..+++.. +...+
T Consensus       412 i~a------------------------~TI~sll~~~~~~~~~l~~~~vlIVDEASMv~~----~~m~~LL~~a~~~gar  463 (988)
T PRK13889        412 IAS------------------------RTIASLEHGWGQGRDLLTSRDVLVIDEAGMVGT----RQLERVLSHAADAGAK  463 (988)
T ss_pred             cch------------------------hhHHHHHhhhcccccccccCcEEEEECcccCCH----HHHHHHHHhhhhCCCE
Confidence            111                        122222211111222345668999999997633    3444555433 34667


Q ss_pred             EEEEEee
Q 018574          209 VVLISAT  215 (354)
Q Consensus       209 ~i~lSaT  215 (354)
                      ++++.-+
T Consensus       464 vVLVGD~  470 (988)
T PRK13889        464 VVLVGDP  470 (988)
T ss_pred             EEEECCH
Confidence            7766655

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=98.03  E-value=3.6e-05  Score=65.11  Aligned_cols=145  Identities=15%  Similarity=0.212  Sum_probs=87.9

Q ss_pred             HCCCCCChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccC
Q 018574           50 QYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDF  127 (354)
Q Consensus        50 ~~~~~~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~  127 (354)
                      -+|+......|.-+++.++..  .-+.+.++.|+|||..++.+.+......+.-.++++.=|+..+.+.+          
T Consensus       223 vwGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dI----------  292 (436)
T COG1875         223 VWGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDI----------  292 (436)
T ss_pred             hhccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCccccc----------
Confidence            368878888999999998875  45788999999999998888887776665556677777776554321          


Q ss_pred             cCeEEEEEeCCcc--hHHhHHhhcCCCeEEE----eCcHHHHHHHhcCCccC----------CCccEEEEecchhhhccC
Q 018574          128 INIQAHACVGGKS--VGEDIRKLEHGVHVVS----GTPGRVCDMIKRKTLRT----------RAIKLLVLDESDEMLSRG  191 (354)
Q Consensus       128 ~~~~~~~~~~~~~--~~~~~~~~~~~~~iiv----~T~~~l~~~~~~~~~~~----------~~~~~vvvDE~h~~~~~~  191 (354)
                           .++-|..+  ...+.+.+.+.-.+++    ++.+.+...+....+..          -.-.+||+|||+.+    
T Consensus       293 -----GfLPG~eEeKm~PWmq~i~DnLE~L~~~~~~~~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNL----  363 (436)
T COG1875         293 -----GFLPGTEEEKMGPWMQAIFDNLEVLFSPNEPGDRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNL----  363 (436)
T ss_pred             -----CcCCCchhhhccchHHHHHhHHHHHhcccccchHHHHHHHhccceeeeeeeeecccccccceEEEehhhcc----
Confidence                 11111110  0000010000000000    11233333333322221          12368999999998    


Q ss_pred             cHHHHHHHHhhCCCCCcEEEEE
Q 018574          192 FKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       192 ~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ....++.++.+..+..+++++.
T Consensus       364 TpheikTiltR~G~GsKIVl~g  385 (436)
T COG1875         364 TPHELKTILTRAGEGSKIVLTG  385 (436)
T ss_pred             CHHHHHHHHHhccCCCEEEEcC
Confidence            6789999999998888766543

>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]

Probab=98.01  E-value=3e-05  Score=73.18  Aligned_cols=138  Identities=17%  Similarity=0.198  Sum_probs=89.6

Q ss_pred             cCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcC-CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHH
Q 018574           37 AMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG-RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT  115 (354)
Q Consensus        37 ~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~  115 (354)
                      ...+.|.+.+..    ...++.-|++|+..++.. ...+|.|=||+|||......+...+..+   .++|+.+-|.+-++
T Consensus       655 ~~~~~p~~~~~~----~~~LN~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIkiL~~~g---kkVLLtsyThsAVD  727 (1100)
T KOG1805|consen  655 SKVLIPKIKKII----LLRLNNDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKILVALG---KKVLLTSYTHSAVD  727 (1100)
T ss_pred             ccccCchhhHHH----HhhcCHHHHHHHHHHHhccchheeecCCCCCchhhHHHHHHHHHHcC---CeEEEEehhhHHHH
Confidence            355677776652    236788999999888774 5679999999999976665544444333   45899898988888


Q ss_pred             HHHHHHHHhccCcCeEEEEEeCCcchHHhH-----------------HhhcCCCeEEEeCcHHHHHHHhcCCccCCCccE
Q 018574          116 QTEKVILAIGDFINIQAHACVGGKSVGEDI-----------------RKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKL  178 (354)
Q Consensus       116 q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~  178 (354)
                      .+.-.++.++    +....+..+.....+.                 .+..+.+.|+.+|---+.    +..+..+.|++
T Consensus       728 NILiKL~~~~----i~~lRLG~~~kih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi~----~plf~~R~FD~  799 (1100)
T KOG1805|consen  728 NILIKLKGFG----IYILRLGSEEKIHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGIN----HPLFVNRQFDY  799 (1100)
T ss_pred             HHHHHHhccC----cceeecCCccccchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCCC----chhhhccccCE
Confidence            8888777655    4444343333333222                 233345667777742222    12333467999


Q ss_pred             EEEecchhhhc
Q 018574          179 LVLDESDEMLS  189 (354)
Q Consensus       179 vvvDE~h~~~~  189 (354)
                      .|+|||-.+..
T Consensus       800 cIiDEASQI~l  810 (1100)
T KOG1805|consen  800 CIIDEASQILL  810 (1100)
T ss_pred             EEEcccccccc
Confidence            99999998643

>PRK13826 Dtr system oriT relaxase; Provisional

Probab=97.94  E-value=0.0002  Score=70.64  Aligned_cols=138  Identities=17%  Similarity=0.174  Sum_probs=82.9

Q ss_pred             CCCHHHHHHHHHCCCCCChHHHHHhHhhhhc-CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHH
Q 018574           39 GIKDDLLRGIYQYGFEKPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQT  117 (354)
Q Consensus        39 ~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~  117 (354)
                      ++++.........++ .+++-|.+++..+.. ++-.++.|+.|+|||++.-. +......  .+.+++.++|+-.-+..+
T Consensus       366 ~v~~~~l~a~~~~~~-~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~~-~~~~~e~--~G~~V~g~ApTgkAA~~L  441 (1102)
T PRK13826        366 GVREAVLAATFARHA-RLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKA-AREAWEA--AGYRVVGGALAGKAAEGL  441 (1102)
T ss_pred             CCCHHHHHHHHhcCC-CCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHHH-HHHHHHH--cCCeEEEEcCcHHHHHHH
Confidence            455555555444444 799999999998765 56689999999999964443 3333332  245689999987666554


Q ss_pred             HHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHH
Q 018574          118 EKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIY  197 (354)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~  197 (354)
                      .+..       ++...                        |..++..........+...++|||||+..+.    ...+.
T Consensus       442 ~e~~-------Gi~a~------------------------TIas~ll~~~~~~~~l~~~~vlVIDEAsMv~----~~~m~  486 (1102)
T PRK13826        442 EKEA-------GIQSR------------------------TLSSWELRWNQGRDQLDNKTVFVLDEAGMVA----SRQMA  486 (1102)
T ss_pred             HHhh-------CCCee------------------------eHHHHHhhhccCccCCCCCcEEEEECcccCC----HHHHH
Confidence            4322       22221                        2222211111112234456799999999773    34455


Q ss_pred             HHHhhCC-CCCcEEEEEee
Q 018574          198 DVYRYLP-PDLQVVLISAT  215 (354)
Q Consensus       198 ~i~~~~~-~~~~~i~lSaT  215 (354)
                      .+++..+ .+.+++++.-+
T Consensus       487 ~Ll~~~~~~garvVLVGD~  505 (1102)
T PRK13826        487 LFVEAVTRAGAKLVLVGDP  505 (1102)
T ss_pred             HHHHHHHhcCCEEEEECCH
Confidence            5555554 46677776655

>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]

Probab=97.88  E-value=0.00011  Score=64.87  Aligned_cols=74  Identities=12%  Similarity=0.060  Sum_probs=48.3

Q ss_pred             CCCCCChHHHHHhHhhhh----cCCcEEEEcCCCCchhhHhHHHHhhccccCC-CceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           51 YGFEKPSAIQQRAVMPII----KGRDVIAQAQSGTGKTSMIALTVCQTVDTSS-REVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~----~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~-~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      +.+...+|-|.+-+..+.    .+.++++.+|+|+|||.+.+..+.++..... .-.+.++..-|..-.+....+++.+
T Consensus        12 FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSRTvpEieK~l~El~~l   90 (755)
T KOG1131|consen   12 FPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSRTVPEIEKALEELKRL   90 (755)
T ss_pred             cCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecCcchHHHHHHHHHHHH
Confidence            445667888876665544    3679999999999999877777666554433 2345677666655445444444443

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.86  E-value=4.3e-05  Score=56.88  Aligned_cols=25  Identities=28%  Similarity=0.407  Sum_probs=15.4

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhh
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQ   93 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~   93 (354)
                      +++.++|.|++|+|||.+....+..
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~   27 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQ   27 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHH
Confidence            3567899999999999755554443

>PRK08181 transposase; Validated

Probab=97.83  E-value=0.00046  Score=57.76  Aligned_cols=117  Identities=16%  Similarity=0.186  Sum_probs=63.7

Q ss_pred             hHHHHHhHh----hhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEE
Q 018574           57 SAIQQRAVM----PIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQA  132 (354)
Q Consensus        57 ~~~Q~~~~~----~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~  132 (354)
                      .+.|..++.    ++.+++++++.||+|+|||..+...+.+.+..   +..++++ +...|..+......          
T Consensus        89 ~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~---g~~v~f~-~~~~L~~~l~~a~~----------  154 (269)
T PRK08181         89 SKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIEN---GWRVLFT-RTTDLVQKLQVARR----------  154 (269)
T ss_pred             CHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHc---CCceeee-eHHHHHHHHHHHHh----------
Confidence            345554442    34467899999999999997666554444433   2335554 44455554432110          


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-cHHHHHHHHhhCCCCCcEEE
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-FKDQIYDVYRYLPPDLQVVL  211 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-~~~~~~~i~~~~~~~~~~i~  211 (354)
                           .                  .+.+.+...+       .+.+++|+||.+...... ....+..+++......+++ 
T Consensus       155 -----~------------------~~~~~~l~~l-------~~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~I-  203 (269)
T PRK08181        155 -----E------------------LQLESAIAKL-------DKFDLLILDDLAYVTKDQAETSVLFELISARYERRSIL-  203 (269)
T ss_pred             -----C------------------CcHHHHHHHH-------hcCCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEE-
Confidence                 0                  0111122222       256899999999764332 3455666666554444544 


Q ss_pred             EEeeCch
Q 018574          212 ISATLPH  218 (354)
Q Consensus       212 lSaT~~~  218 (354)
                      +|+..+.
T Consensus       204 iTSN~~~  210 (269)
T PRK08181        204 ITANQPF  210 (269)
T ss_pred             EEcCCCH
Confidence            4444433

>PRK04296 thymidine kinase; Provisional

Probab=97.82  E-value=3e-05  Score=61.72  Aligned_cols=36  Identities=11%  Similarity=0.232  Sum_probs=25.4

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      .-.++.+|+|+|||..++..+......   +.+++++-|
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~---g~~v~i~k~   38 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEER---GMKVLVFKP   38 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHc---CCeEEEEec
Confidence            346889999999997777666555443   345777766

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=97.80  E-value=0.00015  Score=68.07  Aligned_cols=137  Identities=20%  Similarity=0.167  Sum_probs=89.2

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCC------CceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSS------REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED  144 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~------~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (354)
                      +.+|+.-..|-|||...+..++..-....      .....|++||+ ++..||..++.+..+...+.+...+|..   .+
T Consensus       153 ~ggIladd~glgkt~~ti~l~l~~~~~~~~~~~~~~~kttLivcp~-s~~~qW~~elek~~~~~~l~v~v~~gr~---kd  228 (674)
T KOG1001|consen  153 RGGILADDMGLGKTVKTIALILKQKLKSKEEDRQKEFKTTLIVCPT-SLLTQWKTELEKVTEEDKLSIYVYHGRT---KD  228 (674)
T ss_pred             ccceEeeccccchHHHHHHHHHhcccCCcchhhccccCceeEecch-HHHHHHHHHHhccCCccceEEEEecccc---cc
Confidence            46899999999999887777665544433      44568888885 7788899888777766677777777711   11


Q ss_pred             HHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchh
Q 018574          145 IRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHE  219 (354)
Q Consensus       145 ~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~  219 (354)
                       .....+++|+++|++.+..    ..+..-.+-.+|+||+|.+......  .....-.+....+ =++|+|+...
T Consensus       229 -~~el~~~dVVltTy~il~~----~~l~~i~w~Riildea~~ikn~~tq--~~~a~~~L~a~~R-WcLtgtPiqn  295 (674)
T KOG1001|consen  229 -KSELNSYDVVLTTYDILKN----SPLVKIKWLRIVLDEAHTIKNKDTQ--IFKAVCQLDAKYR-WCLTGTPIQN  295 (674)
T ss_pred             -cchhcCCceEEeeHHHhhc----ccccceeEEEEEeccccccCCcchH--hhhhheeecccee-eeecCChhhh
Confidence             1123347899999988763    1222235667999999998666522  2222222323333 4568887543

>PRK06526 transposase; Provisional

Probab=97.77  E-value=0.00015  Score=60.20  Aligned_cols=110  Identities=13%  Similarity=0.112  Sum_probs=58.5

Q ss_pred             hhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhH
Q 018574           66 PIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDI  145 (354)
Q Consensus        66 ~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (354)
                      .+..++++++.||+|+|||..+.......+..+   .++++. ....+..+..    ...                    
T Consensus        94 fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~g---~~v~f~-t~~~l~~~l~----~~~--------------------  145 (254)
T PRK06526         94 FVTGKENVVFLGPPGTGKTHLAIGLGIRACQAG---HRVLFA-TAAQWVARLA----AAH--------------------  145 (254)
T ss_pred             hhhcCceEEEEeCCCCchHHHHHHHHHHHHHCC---Cchhhh-hHHHHHHHHH----HHH--------------------
Confidence            344578999999999999976665555444332   335443 2233333322    110                    


Q ss_pred             HhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc-CcHHHHHHHHhhCCCCCcEEEEEeeCchh
Q 018574          146 RKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQVVLISATLPHE  219 (354)
Q Consensus       146 ~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~~~~~i~lSaT~~~~  219 (354)
                         ..      ++..   ..+..    ..+.++||+||+|..... .....+..++........+++.|..++..
T Consensus       146 ---~~------~~~~---~~l~~----l~~~dlLIIDD~g~~~~~~~~~~~L~~li~~r~~~~s~IitSn~~~~~  204 (254)
T PRK06526        146 ---HA------GRLQ---AELVK----LGRYPLLIVDEVGYIPFEPEAANLFFQLVSSRYERASLIVTSNKPFGR  204 (254)
T ss_pred             ---hc------CcHH---HHHHH----hccCCEEEEcccccCCCCHHHHHHHHHHHHHHHhcCCEEEEcCCCHHH
Confidence               00      0111   11111    234689999999986432 22345556655433345566666665443

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.76  E-value=0.00082  Score=59.24  Aligned_cols=129  Identities=20%  Similarity=0.207  Sum_probs=70.2

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccC-CCceeEEEEc-CC-HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTS-SREVQALILS-PT-RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRK  147 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~-~~~~~~lil~-p~-~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (354)
                      +.+++.+|||+|||++..-.+....... ..+.++.++. .+ +.-+.   +++..+....++.+..             
T Consensus       175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~---eQL~~~a~~lgvpv~~-------------  238 (388)
T PRK12723        175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAK---KQIQTYGDIMGIPVKA-------------  238 (388)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHH---HHHHHHhhcCCcceEe-------------
Confidence            4689999999999987766654433221 2233344444 33 22222   2244444433443211             


Q ss_pred             hcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-cHHHHHHHHhhCCCC-CcEEEEEeeCchh-HHHHH
Q 018574          148 LEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-FKDQIYDVYRYLPPD-LQVVLISATLPHE-ILEMT  224 (354)
Q Consensus       148 ~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-~~~~~~~i~~~~~~~-~~~i~lSaT~~~~-~~~~~  224 (354)
                              +.++..+...+..    ..+.++|++|++.+..... ....+..++.....+ ..++.+|||.... ....+
T Consensus       239 --------~~~~~~l~~~L~~----~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~  306 (388)
T PRK12723        239 --------IESFKDLKEEITQ----SKDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIF  306 (388)
T ss_pred             --------eCcHHHHHHHHHH----hCCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHH
Confidence                    1133334333332    2467999999999875321 234555565555433 4678999998644 34444


Q ss_pred             Hhc
Q 018574          225 TKF  227 (354)
Q Consensus       225 ~~~  227 (354)
                      ..+
T Consensus       307 ~~~  309 (388)
T PRK12723        307 HQF  309 (388)
T ss_pred             HHh
Confidence            554

>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=97.75  E-value=0.00012  Score=58.33  Aligned_cols=133  Identities=18%  Similarity=0.256  Sum_probs=72.3

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCC
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG  151 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (354)
                      -+++.||||+|||+...-.+...... + ....++-+.+.-.+  -.++++.+.+..++.+.......+..+        
T Consensus         3 vi~lvGptGvGKTTt~aKLAa~~~~~-~-~~v~lis~D~~R~g--a~eQL~~~a~~l~vp~~~~~~~~~~~~--------   70 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLAARLKLK-G-KKVALISADTYRIG--AVEQLKTYAEILGVPFYVARTESDPAE--------   70 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHT-T---EEEEEESTSSTH--HHHHHHHHHHHHTEEEEESSTTSCHHH--------
T ss_pred             EEEEECCCCCchHhHHHHHHHHHhhc-c-ccceeecCCCCCcc--HHHHHHHHHHHhccccchhhcchhhHH--------
Confidence            46889999999998877776665554 2 22234444322111  123444444444455443222211111        


Q ss_pred             CeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc-cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhc
Q 018574          152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKF  227 (354)
Q Consensus       152 ~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~-~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~  227 (354)
                               .+...++.  ...+++++|++|-+-+... ......+..+.....+..-.+.++||...+.......+
T Consensus        71 ---------~~~~~l~~--~~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~  136 (196)
T PF00448_consen   71 ---------IAREALEK--FRKKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAF  136 (196)
T ss_dssp             ---------HHHHHHHH--HHHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHH
T ss_pred             ---------HHHHHHHH--HhhcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHH
Confidence                     11111221  1123568899998865432 23456777777777777778999999987665544443

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 ....

>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=97.68  E-value=0.0007  Score=51.23  Aligned_cols=21  Identities=24%  Similarity=0.449  Sum_probs=16.7

Q ss_pred             CCcEEEEcCCCCchhhHhHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      ++.+++.||+|+|||......
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i   39 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAI   39 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHH
Confidence            678999999999999644433

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.

>PRK11054 helD DNA helicase IV; Provisional

Probab=97.62  E-value=0.00027  Score=67.14  Aligned_cols=85  Identities=22%  Similarity=0.197  Sum_probs=61.9

Q ss_pred             HCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC-CceeEEEEcCCHHHHHHHHHHHHHhccCc
Q 018574           50 QYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS-REVQALILSPTRELATQTEKVILAIGDFI  128 (354)
Q Consensus        50 ~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~-~~~~~lil~p~~~l~~q~~~~~~~~~~~~  128 (354)
                      ...-..+++-|++++..  ...+++|.|++|||||.+.+.-+.+.+.... .+.++|+++.++..+..+.+++.......
T Consensus       191 ~~e~~~L~~~Q~~av~~--~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg~~  268 (684)
T PRK11054        191 QVESSPLNPSQARAVVN--GEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLGTE  268 (684)
T ss_pred             hccCCCCCHHHHHHHhC--CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcCCC
Confidence            33335799999999854  3457899999999999888777766664432 34579999999999999999887654333


Q ss_pred             CeEEEEEe
Q 018574          129 NIQAHACV  136 (354)
Q Consensus       129 ~~~~~~~~  136 (354)
                      ++.+.+++
T Consensus       269 ~v~v~TFH  276 (684)
T PRK11054        269 DITARTFH  276 (684)
T ss_pred             CcEEEeHH
Confidence            44444443

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.62  E-value=0.00024  Score=53.42  Aligned_cols=42  Identities=14%  Similarity=0.232  Sum_probs=26.0

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELA  114 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~  114 (354)
                      ++.+++.+|+|+|||......+... ....  ..++++.+.....
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~-~~~~--~~~~~~~~~~~~~   43 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALAREL-GPPG--GGVIYIDGEDILE   43 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhcc-CCCC--CCEEEECCEEccc
Confidence            5678999999999996554443332 2221  2367777655433

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=97.56  E-value=0.0012  Score=56.99  Aligned_cols=131  Identities=20%  Similarity=0.290  Sum_probs=75.2

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC---HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT---RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRK  147 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~---~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (354)
                      .-+++.+++|+|||+.....+... ...  +.+++++...   ..-..|+......+    ++.+.....+.+       
T Consensus       141 ~vi~~~G~~GvGKTTtiakLA~~l-~~~--g~~V~li~~Dt~R~~a~eqL~~~a~~l----gv~v~~~~~g~d-------  206 (336)
T PRK14974        141 VVIVFVGVNGTGKTTTIAKLAYYL-KKN--GFSVVIAAGDTFRAGAIEQLEEHAERL----GVKVIKHKYGAD-------  206 (336)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH-HHc--CCeEEEecCCcCcHHHHHHHHHHHHHc----CCceecccCCCC-------
Confidence            357899999999998666555433 222  2345555432   34445555444433    333322111111       


Q ss_pred             hcCCCeEEEeCcHH-HHHHHhcCCccCCCccEEEEecchhhhc-cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHH
Q 018574          148 LEHGVHVVSGTPGR-VCDMIKRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTT  225 (354)
Q Consensus       148 ~~~~~~iiv~T~~~-l~~~~~~~~~~~~~~~~vvvDE~h~~~~-~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~  225 (354)
                                 |.. +.+.++..  .....++|++|.+.++.. ......+..+.+...++..++.++|+..++......
T Consensus       207 -----------p~~v~~~ai~~~--~~~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a~  273 (336)
T PRK14974        207 -----------PAAVAYDAIEHA--KARGIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQAR  273 (336)
T ss_pred             -----------HHHHHHHHHHHH--HhCCCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHHH
Confidence                       111 11111110  113467999999998753 345667777777777788889999998877666665


Q ss_pred             hcc
Q 018574          226 KFM  228 (354)
Q Consensus       226 ~~~  228 (354)
                      .|.
T Consensus       274 ~f~  276 (336)
T PRK14974        274 EFN  276 (336)
T ss_pred             HHH
Confidence            553

>PRK10919 ATP-dependent DNA helicase Rep; Provisional

Probab=97.53  E-value=0.00019  Score=68.55  Aligned_cols=69  Identities=17%  Similarity=0.152  Sum_probs=56.6

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-CCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .+++-|.+++.+  ...+++|.|++|||||.+...-+...+.. +-+..++|+++.|+..+..+.+++....
T Consensus         2 ~Ln~~Q~~av~~--~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l   71 (672)
T PRK10919          2 RLNPGQQQAVEF--VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTL   71 (672)
T ss_pred             CCCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHh
Confidence            478999999876  35688999999999999888888777754 3344579999999999999999998754

>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI

Probab=97.42  E-value=0.015  Score=62.02  Aligned_cols=209  Identities=12%  Similarity=0.128  Sum_probs=109.3

Q ss_pred             CChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEE
Q 018574           55 KPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQA  132 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~  132 (354)
                      .+++-|.+++..++..  +-.++.++.|+|||.+.- .+...+...  +.+++.++|+..-+..+.+......       
T Consensus       429 ~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~-~l~~~~~~~--G~~V~~lAPTgrAA~~L~e~~g~~A-------  498 (1960)
T TIGR02760       429 ALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQ-LLLHLASEQ--GYEIQIITAGSLSAQELRQKIPRLA-------  498 (1960)
T ss_pred             CCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHH-HHHHHHHhc--CCeEEEEeCCHHHHHHHHHHhcchh-------
Confidence            6889999999998875  578999999999995433 333333322  4579999999877776665432111       


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhC-CCCCcEEE
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL-PPDLQVVL  211 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~-~~~~~~i~  211 (354)
                      .+      .......+..+  .-..|.+.+.    .....+...++|||||+-.+.    ...+..+++.. +.+.++++
T Consensus       499 ~T------i~~~l~~l~~~--~~~~tv~~fl----~~~~~l~~~~vlIVDEAsMl~----~~~~~~Ll~~a~~~garvVl  562 (1960)
T TIGR02760       499 ST------FITWVKNLFND--DQDHTVQGLL----DKSSPFSNKDIFVVDEANKLS----NNELLKLIDKAEQHNSKLIL  562 (1960)
T ss_pred             hh------HHHHHHhhccc--ccchhHHHhh----cccCCCCCCCEEEEECCCCCC----HHHHHHHHHHHhhcCCEEEE
Confidence            00      01111111111  1112333332    222333567899999999873    34555555544 35778888


Q ss_pred             EEeeC------chhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchH-HHHHHHHhhC-CCCcEEEEcCchh
Q 018574          212 ISATL------PHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKF-DTLCDLYDTL-TITQAVIFCNTKR  283 (354)
Q Consensus       212 lSaT~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~l~~~-~~~~~lvf~~~~~  283 (354)
                      +.-+-      +-.....+...-.....+  .........+  .+....... .. .....++... ...+++|+..+.+
T Consensus       563 vGD~~QL~sV~aG~~f~~L~~~gv~t~~l--~~i~rq~~~v--~i~~~~~~~-r~~~ia~~y~~L~~~r~~tliv~~t~~  637 (1960)
T TIGR02760       563 LNDSAQRQGMSAGSAIDLLKEGGVTTYAW--VDTKQQKASV--EISEAVDKL-RVDYIASAWLDLTPDRQNSQVLATTHR  637 (1960)
T ss_pred             EcChhhcCccccchHHHHHHHCCCcEEEe--ecccccCcce--eeeccCchH-HHHHHHHHHHhcccccCceEEEcCCcH
Confidence            77662      112222333321111111  1110001111  111111111 22 2333333333 2235899999988


Q ss_pred             hHHHHHHHHhc
Q 018574          284 KVDWLTEKMRG  294 (354)
Q Consensus       284 ~~~~l~~~l~~  294 (354)
                      +...+....+.
T Consensus       638 dr~~Ln~~iR~  648 (1960)
T TIGR02760       638 EQQDLTQIIRN  648 (1960)
T ss_pred             HHHHHHHHHHH
Confidence            88877777754

This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.

>PHA02533 17 large terminase protein; Provisional

Probab=97.39  E-value=0.0017  Score=60.02  Aligned_cols=123  Identities=15%  Similarity=0.139  Sum_probs=77.7

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe--EE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI--QA  132 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~--~~  132 (354)
                      .|.++|..++..+..++..++..+-..|||.+....++..+... ++..+++++|+..-+..+.+.++......+.  ..
T Consensus        59 ~L~p~Q~~i~~~~~~~R~~ii~~aRq~GKStl~a~~al~~a~~~-~~~~v~i~A~~~~QA~~vF~~ik~~ie~~P~l~~~  137 (534)
T PHA02533         59 QMRDYQKDMLKIMHKNRFNACNLSRQLGKTTVVAIFLLHYVCFN-KDKNVGILAHKASMAAEVLDRTKQAIELLPDFLQP  137 (534)
T ss_pred             CCcHHHHHHHHHHhcCeEEEEEEcCcCChHHHHHHHHHHHHHhC-CCCEEEEEeCCHHHHHHHHHHHHHHHHhCHHHhhc
Confidence            68999999998876677778999999999988776555444332 3457999999999888888877754433211  10


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      .... .   ......+.+++.|.+.|.+       .....-....++++||+|.+.+
T Consensus       138 ~i~~-~---~~~~I~l~NGS~I~~lss~-------~~t~rG~~~~~liiDE~a~~~~  183 (534)
T PHA02533        138 GIVE-W---NKGSIELENGSKIGAYASS-------PDAVRGNSFAMIYIDECAFIPN  183 (534)
T ss_pred             ceee-c---CccEEEeCCCCEEEEEeCC-------CCccCCCCCceEEEeccccCCC
Confidence            0000 0   0111223456666554432       1122234567899999997643

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.38  E-value=0.0037  Score=54.65  Aligned_cols=129  Identities=13%  Similarity=0.227  Sum_probs=69.2

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC-C-H-HHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP-T-R-ELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRK  147 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p-~-~-~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (354)
                      +.+.+.||+|+|||+.....+......   +.++.++.. + + +...|+..    +....++.+               
T Consensus       242 ~vI~LVGptGvGKTTTiaKLA~~L~~~---GkkVglI~aDt~RiaAvEQLk~----yae~lgipv---------------  299 (436)
T PRK11889        242 QTIALIGPTGVGKTTTLAKMAWQFHGK---KKTVGFITTDHSRIGTVQQLQD----YVKTIGFEV---------------  299 (436)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHc---CCcEEEEecCCcchHHHHHHHH----HhhhcCCcE---------------
Confidence            467899999999998777665544322   233444443 2 2 33444443    222212211               


Q ss_pred             hcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc-CcHHHHHHHHhhCCCCCcEEEEEeeCch-hHHHHHH
Q 018574          148 LEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQVVLISATLPH-EILEMTT  225 (354)
Q Consensus       148 ~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~~~~~i~lSaT~~~-~~~~~~~  225 (354)
                            +...++..+.+.+....- ..++++|++|-+=+.... .....+..+++...+...++.+|||... +......
T Consensus       300 ------~v~~d~~~L~~aL~~lk~-~~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~  372 (436)
T PRK11889        300 ------IAVRDEAAMTRALTYFKE-EARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIIT  372 (436)
T ss_pred             ------EecCCHHHHHHHHHHHHh-ccCCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHH
Confidence                  123355555544432110 124789999987664322 2334455555544455556779988654 5466665


Q ss_pred             hcc
Q 018574          226 KFM  228 (354)
Q Consensus       226 ~~~  228 (354)
                      .|.
T Consensus       373 ~F~  375 (436)
T PRK11889        373 NFK  375 (436)
T ss_pred             Hhc
Confidence            554

>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.38  E-value=0.00044  Score=62.34  Aligned_cols=141  Identities=13%  Similarity=0.156  Sum_probs=76.9

Q ss_pred             EEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc-cCcCeEEEEEeCCcchH----HhHHhhc
Q 018574           75 AQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG-DFINIQAHACVGGKSVG----EDIRKLE  149 (354)
Q Consensus        75 i~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~-~~~~~~~~~~~~~~~~~----~~~~~~~  149 (354)
                      ..++||||||.+++..++.+...+-+  ..|+.|.....++....-+..-. ..+=+.-....++....    .......
T Consensus         2 f~matgsgkt~~ma~lil~~y~kgyr--~flffvnq~nilekt~~nftd~~s~kylf~e~i~~~d~~i~ikkvn~fsehn   79 (812)
T COG3421           2 FEMATGSGKTLVMAGLILECYKKGYR--NFLFFVNQANILEKTKLNFTDSVSSKYLFSENININDENIEIKKVNNFSEHN   79 (812)
T ss_pred             cccccCCChhhHHHHHHHHHHHhchh--hEEEEecchhHHHHHHhhcccchhhhHhhhhhhhcCCceeeeeeecccCccC
Confidence            46899999999888888887766543  47888887777765543331100 00000000011111110    0011133


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCcc------CCCcc-EEEEecchhhhccC-------------cHHHHHHHHhhCCCCCcE
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLR------TRAIK-LLVLDESDEMLSRG-------------FKDQIYDVYRYLPPDLQV  209 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~------~~~~~-~vvvDE~h~~~~~~-------------~~~~~~~i~~~~~~~~~~  209 (354)
                      ++..|.++|.+.|...+.+..-+      +.+.. +++-||+||+-...             |...+..-+ ...++.-+
T Consensus        80 d~iei~fttiq~l~~d~~~~ken~itledl~~~klvfl~deahhln~~tkkk~~de~~~~~~we~~v~la~-~~nkd~~~  158 (812)
T COG3421          80 DAIEIYFTTIQGLFSDFTRAKENAITLEDLKDQKLVFLADEAHHLNTETKKKLNDEASEKRNWESVVKLAL-EQNKDNLL  158 (812)
T ss_pred             CceEEEEeehHHHHHHHHhhccccccHhhHhhCceEEEechhhhhhhhhhhhcccHHHHHhhHHHHHHHHH-hcCCCcee
Confidence            45789999999998766542221      22333 45679999984321             222222222 22345567


Q ss_pred             EEEEeeCch
Q 018574          210 VLISATLPH  218 (354)
Q Consensus       210 i~lSaT~~~  218 (354)
                      +.+|||.+.
T Consensus       159 lef~at~~k  167 (812)
T COG3421         159 LEFSATIPK  167 (812)
T ss_pred             ehhhhcCCc
Confidence            788999884

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.38  E-value=0.0021  Score=53.00  Aligned_cols=34  Identities=24%  Similarity=0.304  Sum_probs=22.6

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEE
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALIL  107 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil  107 (354)
                      ..+++.+++|+|||..+...+......   +..++++
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~~---g~~v~~i  133 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLLR---GKSVLII  133 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhc---CCeEEEE
Confidence            478999999999997665544444332   2345555

>KOG0383 consensus Predicted helicase [General function prediction only]

Probab=97.35  E-value=3.5e-05  Score=71.58  Aligned_cols=63  Identities=19%  Similarity=0.277  Sum_probs=54.3

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhC---CCCcEEEEccccccC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRS---GTTRVLITTDVWARG  335 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~---g~~~vlv~T~~~~~G  335 (354)
                      +++++||.+-.+..+-+...+...+ ....++|......|...+..|..   ..++.|++|.+.+.|
T Consensus       631 ghrvl~~~q~~~~ldlled~~~~~~-~~~r~dG~~~~~~rq~ai~~~n~~~~~~~cfllstra~g~g  696 (696)
T KOG0383|consen  631 GHRVLIFSQMIHMLDLLEDYLTYEG-KYERIDGPITGPERQAAIDRFNAPGSNQFCFLLSTRAGGLG  696 (696)
T ss_pred             chhhHHHHHHHHHHHHhHHHHhccC-cceeccCCccchhhhhhccccCCCCccceEEEeecccccCC
Confidence            3689999999999998888888777 88899999999999999999973   457789999987765

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.34  E-value=0.0017  Score=59.25  Aligned_cols=105  Identities=10%  Similarity=0.252  Sum_probs=55.8

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      +.+++.||+|+|||...-.. ...+.....+.+++++ +...+..++...+..                           
T Consensus       149 ~~l~l~G~~G~GKThL~~ai-~~~~~~~~~~~~v~yi-~~~~~~~~~~~~~~~---------------------------  199 (450)
T PRK00149        149 NPLFIYGGVGLGKTHLLHAI-GNYILEKNPNAKVVYV-TSEKFTNDFVNALRN---------------------------  199 (450)
T ss_pred             CeEEEECCCCCCHHHHHHHH-HHHHHHhCCCCeEEEE-EHHHHHHHHHHHHHc---------------------------
Confidence            46899999999999654433 3333333234456665 434554444333311                           


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-cHHHHHHHHhhCC-CCCcEEEEEeeCch
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-FKDQIYDVYRYLP-PDLQVVLISATLPH  218 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-~~~~~~~i~~~~~-~~~~~i~lSaT~~~  218 (354)
                            .+.+.+...+.       +.++|++||+|.+.... ....+..++..+. ...+ ++++++.++
T Consensus       200 ------~~~~~~~~~~~-------~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~-iiits~~~p  255 (450)
T PRK00149        200 ------NTMEEFKEKYR-------SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQ-IVLTSDRPP  255 (450)
T ss_pred             ------CcHHHHHHHHh-------cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCc-EEEECCCCH
Confidence                  01122222222       46799999999885432 2344444444433 2344 555666544

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.34  E-value=0.0022  Score=56.09  Aligned_cols=168  Identities=17%  Similarity=0.216  Sum_probs=83.3

Q ss_pred             cCcccCCCCHHHHHHHHHC-C----CC---CChHHHHHhHhh-----------hhcCCcEEEEcCCCCchhhHhHHHHhh
Q 018574           33 TSFDAMGIKDDLLRGIYQY-G----FE---KPSAIQQRAVMP-----------IIKGRDVIAQAQSGTGKTSMIALTVCQ   93 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~-~----~~---~~~~~Q~~~~~~-----------~~~~~~~ii~~~tGsGKT~~~~~~~~~   93 (354)
                      ..+...|+++.+.+.+-+. .    ..   ..+.+....+..           +.+++.+++.+|||+|||+.....+..
T Consensus        81 ~~L~~~g~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~g~ii~lvGptGvGKTTtiakLA~~  160 (374)
T PRK14722         81 KYLFAAGFSAQLVRMIVDNLPEGEGYDTLDAAADWAQSVLAANLPVLDSEDALMERGGVFALMGPTGVGKTTTTAKLAAR  160 (374)
T ss_pred             HHHHHCCCCHHHHHHHHHhhhhhcccCCHHHHHHHHHHHHHhcchhhcCCCccccCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4456678888887776442 1    11   112333333222           112567899999999999877766655


Q ss_pred             ccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccC
Q 018574           94 TVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRT  173 (354)
Q Consensus        94 ~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~  173 (354)
                      ....... .++.+++ +.....--.++++.+....++.+...                     .++..+...+..    .
T Consensus       161 ~~~~~G~-~~V~lit-~D~~R~ga~EqL~~~a~~~gv~~~~~---------------------~~~~~l~~~l~~----l  213 (374)
T PRK14722        161 CVMRFGA-SKVALLT-TDSYRIGGHEQLRIFGKILGVPVHAV---------------------KDGGDLQLALAE----L  213 (374)
T ss_pred             HHHhcCC-CeEEEEe-cccccccHHHHHHHHHHHcCCceEec---------------------CCcccHHHHHHH----h
Confidence            4433211 2344433 22221122344444444334433222                     223223222221    2


Q ss_pred             CCccEEEEecchhhhcc-CcHHHHHHHHhhCCCCCcEEEEEeeCchhH-HHHHHhc
Q 018574          174 RAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQVVLISATLPHEI-LEMTTKF  227 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~-~~~~~~~  227 (354)
                      .+.++|+||.+-..... .....+..+.........++.++||...+. .+....|
T Consensus       214 ~~~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f  269 (374)
T PRK14722        214 RNKHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAY  269 (374)
T ss_pred             cCCCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHH
Confidence            34588999988654221 223333333332233445888999986654 3344444

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]

Probab=97.32  E-value=0.00096  Score=65.21  Aligned_cols=148  Identities=15%  Similarity=0.014  Sum_probs=91.2

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhcccc-----------C----CCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDT-----------S----SREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~-----------~----~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      |+.+++.-..|.|||...+...+.....           .    .....+|||+|. ++..||.+++.+..... +++..
T Consensus       374 g~~~~~ade~~~qk~~~~l~~~l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~-aIl~QW~~EI~kH~~~~-lKv~~  451 (1394)
T KOG0298|consen  374 GKRVQCADEMGWQKTSEKLILELSDLPKLCPSCCSELVKEGENLVETGATLIICPN-AILMQWFEEIHKHISSL-LKVLL  451 (1394)
T ss_pred             CcceeehhhhhccchHHHHHHHHhcccccchhhhhHHHhcccceeecCceEEECcH-HHHHHHHHHHHHhcccc-ceEEE
Confidence            5678999999999997666544332211           0    112358999995 88999999998877554 56655


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccC---------------C-----CccEEEEecchhhhccCcHH
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRT---------------R-----AIKLLVLDESDEMLSRGFKD  194 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~---------------~-----~~~~vvvDE~h~~~~~~~~~  194 (354)
                      ..|=.+...........+|||++|+..|..-+.+.....               +     .+=.|++||++.+-..  ..
T Consensus       452 Y~Girk~~~~~~~el~~yDIVlTtYdiLr~El~hte~~~~~R~lR~qsr~~~~~SPL~~v~wWRIclDEaQMvess--sS  529 (1394)
T KOG0298|consen  452 YFGIRKTFWLSPFELLQYDIVLTTYDILRNELYHTEDFGSDRQLRHQSRYMRPNSPLLMVNWWRICLDEAQMVESS--SS  529 (1394)
T ss_pred             EechhhhcccCchhhhccCEEEeehHHHHhHhhcccccCChhhhhcccCCCCCCCchHHHHHHHHhhhHHHhhcch--HH
Confidence            555322221111223358999999999876554421110               0     1224899999987553  23


Q ss_pred             HHHHHHhhCCCCCcEEEEEeeCchhHHH
Q 018574          195 QIYDVYRYLPPDLQVVLISATLPHEILE  222 (354)
Q Consensus       195 ~~~~i~~~~~~~~~~i~lSaT~~~~~~~  222 (354)
                      ...++...++.. ..=++|+||-..+..
T Consensus       530 ~~a~M~~rL~~i-n~W~VTGTPiq~Idd  556 (1394)
T KOG0298|consen  530 AAAEMVRRLHAI-NRWCVTGTPIQKIDD  556 (1394)
T ss_pred             HHHHHHHHhhhh-ceeeecCCchhhhhh
Confidence            444555555432 357789998665433

>PRK05642 DNA replication initiation factor; Validated

Probab=97.31  E-value=0.0017  Score=53.56  Aligned_cols=44  Identities=16%  Similarity=0.399  Sum_probs=30.3

Q ss_pred             CccEEEEecchhhhcc-CcHHHHHHHHhhCCCCCcEEEEEeeCch
Q 018574          175 AIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQVVLISATLPH  218 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~~~~~i~lSaT~~~  218 (354)
                      ..+++++|++|.+... .+...+..+++.+......+++|++.++
T Consensus        97 ~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p  141 (234)
T PRK05642         97 QYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSP  141 (234)
T ss_pred             hCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCH
Confidence            4478999999987543 4566677777766554455777777654

>TIGR01075 uvrD DNA helicase II

Probab=97.30  E-value=0.0005  Score=66.53  Aligned_cols=70  Identities=17%  Similarity=0.211  Sum_probs=57.5

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-CCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      ..+++-|.+++.+  ...+++|.|.+|||||.+...-+...+.. +-+..++|+++.|+..+..+.+++.+..
T Consensus         3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~   73 (715)
T TIGR01075         3 DGLNDKQREAVAA--PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALL   73 (715)
T ss_pred             cccCHHHHHHHcC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHh
Confidence            3689999999865  34689999999999999888877776654 3344579999999999999999998765

Designed to identify uvrD members of the uvrD/rep subfamily.

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.30  E-value=0.0075  Score=52.20  Aligned_cols=45  Identities=18%  Similarity=0.220  Sum_probs=28.5

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTE  118 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~  118 (354)
                      +.++++.||||+|||..+...+...+..   +..++++ +...+..+..
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~---g~~V~y~-t~~~l~~~l~  227 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDR---GKSVIYR-TADELIEILR  227 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHC---CCeEEEE-EHHHHHHHHH
Confidence            5789999999999997665544444432   3345554 4455555443

>PRK06893 DNA replication initiation factor; Validated

Probab=97.29  E-value=0.0012  Score=54.21  Aligned_cols=45  Identities=20%  Similarity=0.392  Sum_probs=29.6

Q ss_pred             CccEEEEecchhhhc-cCcHHHHHHHHhhCCC-CCcEEEEEeeCchh
Q 018574          175 AIKLLVLDESDEMLS-RGFKDQIYDVYRYLPP-DLQVVLISATLPHE  219 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~-~~~~~~~~~i~~~~~~-~~~~i~lSaT~~~~  219 (354)
                      +.+++++||+|.+.. ..+...+..+++.... +.+++++|++.++.
T Consensus        91 ~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~  137 (229)
T PRK06893         91 QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPH  137 (229)
T ss_pred             cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChH
Confidence            568999999998753 3345556666655543 34567778876554

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.29  E-value=0.0029  Score=57.05  Aligned_cols=22  Identities=23%  Similarity=0.283  Sum_probs=17.1

Q ss_pred             EEEEcCCCCchhhHhHHHHhhc
Q 018574           73 VIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      .++.||+|+|||.++...+...
T Consensus        43 ~Lf~GP~GtGKTTlAriLAk~L   64 (484)
T PRK14956         43 YIFFGPRGVGKTTIARILAKRL   64 (484)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            6999999999997666554433

>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=97.28  E-value=0.0038  Score=49.55  Aligned_cols=49  Identities=16%  Similarity=0.209  Sum_probs=34.3

Q ss_pred             EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      +++.||+|+|||...+..+...+..+   .+++|++. .+...++.+.+..++
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g---~~v~~~s~-e~~~~~~~~~~~~~g   50 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARG---EPGLYVTL-EESPEELIENAESLG   50 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCC---CcEEEEEC-CCCHHHHHHHHHHcC
Confidence            68999999999987776666665433   34777764 455666666666554

A related protein is found in archaea.

>PRK11773 uvrD DNA-dependent helicase II; Provisional

Probab=97.27  E-value=0.00056  Score=66.16  Aligned_cols=70  Identities=16%  Similarity=0.191  Sum_probs=57.2

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-CCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      ..+++-|.+++.+.  ..+++|.|++|||||.+...-+...+.. +-...++|+++-|+..+..+.+++.+..
T Consensus         8 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~   78 (721)
T PRK11773          8 DSLNDKQREAVAAP--LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLL   78 (721)
T ss_pred             HhcCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHh
Confidence            36899999998653  4689999999999999888877776653 3344579999999999999999998765

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

Probab=97.26  E-value=0.00057  Score=58.91  Aligned_cols=36  Identities=25%  Similarity=0.325  Sum_probs=23.2

Q ss_pred             ccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeC
Q 018574          176 IKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATL  216 (354)
Q Consensus       176 ~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~  216 (354)
                      -.++++||+|++...+ .+.   ++..+ .+..++++.||-
T Consensus       105 ~tiLflDEIHRfnK~Q-QD~---lLp~v-E~G~iilIGATT  140 (436)
T COG2256         105 RTILFLDEIHRFNKAQ-QDA---LLPHV-ENGTIILIGATT  140 (436)
T ss_pred             ceEEEEehhhhcChhh-hhh---hhhhh-cCCeEEEEeccC
Confidence            3679999999984433 222   23333 355688888884

>PRK08727 hypothetical protein; Validated

Probab=97.26  E-value=0.0017  Score=53.50  Aligned_cols=35  Identities=17%  Similarity=0.164  Sum_probs=21.9

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS  108 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~  108 (354)
                      +.+++.||+|+|||...-..+.+....   +.+++++.
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~~---~~~~~y~~   76 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQA---GRSSAYLP   76 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHc---CCcEEEEe
Confidence            459999999999996544433332222   33466654

>PRK06921 hypothetical protein; Provisional

Probab=97.25  E-value=0.0084  Score=50.40  Aligned_cols=44  Identities=18%  Similarity=0.213  Sum_probs=26.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ  116 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q  116 (354)
                      +.++++.|++|+|||..+...+-+.+...  +..++++.. .++..+
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~--g~~v~y~~~-~~l~~~  160 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKK--GVPVLYFPF-VEGFGD  160 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhc--CceEEEEEH-HHHHHH
Confidence            56899999999999976554444333221  344666553 344443

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.25  E-value=0.002  Score=58.06  Aligned_cols=37  Identities=14%  Similarity=0.276  Sum_probs=23.6

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS  108 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~  108 (354)
                      ..+++.||+|+|||.... .+...+.....+..++++.
T Consensus       137 n~l~l~G~~G~GKThL~~-ai~~~l~~~~~~~~v~yi~  173 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLH-AIGNEILENNPNAKVVYVS  173 (405)
T ss_pred             CeEEEECCCCCcHHHHHH-HHHHHHHHhCCCCcEEEEE
Confidence            467999999999996553 3344443333345577764

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).

>TIGR01074 rep ATP-dependent DNA helicase Rep

Probab=97.25  E-value=0.00077  Score=64.85  Aligned_cols=68  Identities=18%  Similarity=0.154  Sum_probs=55.7

Q ss_pred             ChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-CCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           56 PSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      +++-|.+++.+  ...+++|.|++|||||.+.+.-+...+.. +....++|+|+.|+..+.++.+++.+..
T Consensus         2 Ln~~Q~~av~~--~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l   70 (664)
T TIGR01074         2 LNPQQQEAVEY--VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTL   70 (664)
T ss_pred             CCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHh
Confidence            68899999865  35689999999999999888888877754 3344579999999999999999987654

Designed to identify rep members of the uvrD/rep subfamily.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.22  E-value=0.0019  Score=58.55  Aligned_cols=108  Identities=10%  Similarity=0.200  Sum_probs=59.4

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      +.+++.|++|+|||... ..+...+....++.+++++.+ ..+...+...+....                         
T Consensus       142 npl~i~G~~G~GKTHLl-~Ai~~~l~~~~~~~~v~yv~~-~~f~~~~~~~l~~~~-------------------------  194 (450)
T PRK14087        142 NPLFIYGESGMGKTHLL-KAAKNYIESNFSDLKVSYMSG-DEFARKAVDILQKTH-------------------------  194 (450)
T ss_pred             CceEEECCCCCcHHHHH-HHHHHHHHHhCCCCeEEEEEH-HHHHHHHHHHHHHhh-------------------------
Confidence            46899999999999544 344444444344556776555 555555554442100                         


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc-CcHHHHHHHHhhCCCCCcEEEEEeeCch
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQVVLISATLPH  218 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~~~~~i~lSaT~~~  218 (354)
                            ...+.+...       ..+.+++|+||+|.+... .....+..+++.+......+++|+..++
T Consensus       195 ------~~~~~~~~~-------~~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P  250 (450)
T PRK14087        195 ------KEIEQFKNE-------ICQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSP  250 (450)
T ss_pred             ------hHHHHHHHH-------hccCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCH
Confidence                  001111111       125689999999988543 3445565665555433323555655444

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.19  E-value=0.0055  Score=47.28  Aligned_cols=39  Identities=13%  Similarity=0.271  Sum_probs=25.2

Q ss_pred             EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHH
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELA  114 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~  114 (354)
                      +++.|++|+|||......+.....   .+..++++.......
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~---~~~~v~~~~~e~~~~   40 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIAT---KGGKVVYVDIEEEIE   40 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHh---cCCEEEEEECCcchH
Confidence            578999999999766555444433   234577776654433

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.

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.18  E-value=0.0027  Score=52.40  Aligned_cols=43  Identities=19%  Similarity=0.369  Sum_probs=25.7

Q ss_pred             ccEEEEecchhhhcc-CcHHHHHHHHhhCCC-CCcEEEEEeeCch
Q 018574          176 IKLLVLDESDEMLSR-GFKDQIYDVYRYLPP-DLQVVLISATLPH  218 (354)
Q Consensus       176 ~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~-~~~~i~lSaT~~~  218 (354)
                      .+++++||+|.+... .+...+..+++.... +...+++|++.++
T Consensus        98 ~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p  142 (235)
T PRK08084         98 LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPP  142 (235)
T ss_pred             CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCCh
Confidence            478999999998543 455566666655432 2223555666443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.17  E-value=0.0033  Score=51.64  Aligned_cols=25  Identities=20%  Similarity=0.336  Sum_probs=18.8

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhh
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQ   93 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~   93 (354)
                      .+..+++.||+|+|||..+...+..
T Consensus        37 ~~~~lll~G~~G~GKT~la~~~~~~   61 (226)
T TIGR03420        37 GDRFLYLWGESGSGKSHLLQAACAA   61 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999765544433

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.

>PRK12377 putative replication protein; Provisional

Probab=97.17  E-value=0.0049  Score=51.01  Aligned_cols=45  Identities=11%  Similarity=0.244  Sum_probs=27.7

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHH
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEK  119 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~  119 (354)
                      .++++.||+|+|||..+...+-..+..   +..+++ ++..++..++..
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~~---g~~v~~-i~~~~l~~~l~~  146 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLAK---GRSVIV-VTVPDVMSRLHE  146 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHc---CCCeEE-EEHHHHHHHHHH
Confidence            578999999999996555544444322   233444 454566665444

>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=97.16  E-value=0.0018  Score=52.75  Aligned_cols=107  Identities=19%  Similarity=0.333  Sum_probs=59.2

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      ..+++.||+|+|||- .+.++...+....++.+++++.. .+......+.+..                           
T Consensus        35 ~~l~l~G~~G~GKTH-LL~Ai~~~~~~~~~~~~v~y~~~-~~f~~~~~~~~~~---------------------------   85 (219)
T PF00308_consen   35 NPLFLYGPSGLGKTH-LLQAIANEAQKQHPGKRVVYLSA-EEFIREFADALRD---------------------------   85 (219)
T ss_dssp             SEEEEEESTTSSHHH-HHHHHHHHHHHHCTTS-EEEEEH-HHHHHHHHHHHHT---------------------------
T ss_pred             CceEEECCCCCCHHH-HHHHHHHHHHhccccccceeecH-HHHHHHHHHHHHc---------------------------
Confidence            358999999999996 34444444443334556777654 2433333332211                           


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc-CcHHHHHHHHhhCCC-CCcEEEEEeeCchh
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPP-DLQVVLISATLPHE  219 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~-~~~~i~lSaT~~~~  219 (354)
                            ...+.+...+       ...+++++|+.|.+... .+...+..+++.+.. +.++++.|...|.+
T Consensus        86 ------~~~~~~~~~~-------~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~  143 (219)
T PF00308_consen   86 ------GEIEEFKDRL-------RSADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSE  143 (219)
T ss_dssp             ------TSHHHHHHHH-------CTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTT
T ss_pred             ------ccchhhhhhh-------hcCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCcc
Confidence                  1112222222       25789999999998654 345666666665533 44555555455443

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.

>smart00492 HELICc3 helicase superfamily c-terminal domain

Probab=97.16  E-value=0.0019  Score=48.37  Aligned_cols=68  Identities=10%  Similarity=0.132  Sum_probs=47.9

Q ss_pred             hHHHHHHHHhcCCC------eEEEeecCCCHHHHHHHHHHHhCCC-CcEEEEccccccCCCcCC--CcEEEecCCCC
Q 018574          284 KVDWLTEKMRGYNF------TVSSMHGDMPQKERDAIMGEFRSGT-TRVLITTDVWARGLDVQQ--AILFFFLFLFC  351 (354)
Q Consensus       284 ~~~~l~~~l~~~~~------~~~~~~~~~~~~~r~~~~~~f~~g~-~~vlv~T~~~~~Gidi~~--~~~Vi~~~~p~  351 (354)
                      ..++++..+++.+.      ...++..+.+..+...+++.|++.. ..||+++..+++|+|+|+  +++||..++|-
T Consensus         3 ~m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~iL~~~~~~~EGiD~~g~~~r~vii~glPf   79 (141)
T smart00492        3 YMESFVQYWKENGILENINKNLLLLVQGEDGKETGKLLEKYVEACENAILLATARFSEGVDFPGDYLRAVIIDGLPF   79 (141)
T ss_pred             HHHHHHHHHHHcCchhhHhcCCeEEEeCCChhHHHHHHHHHHHcCCCEEEEEccceecceecCCCCeeEEEEEecCC
Confidence            34555555555432      2234444445556788999998754 379999988999999996  57899999985

>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type

Probab=97.15  E-value=0.0018  Score=66.31  Aligned_cols=122  Identities=15%  Similarity=0.161  Sum_probs=78.0

Q ss_pred             ChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccC-cCeEEEE
Q 018574           56 PSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHA  134 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~-~~~~~~~  134 (354)
                      .++-|.+++.  ..+++++|.|+.|||||.+.+--++..+..+....++++++-|+..+..+.+++.+.... ..-    
T Consensus         2 ~t~~Q~~ai~--~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~~~~~~----   75 (1232)
T TIGR02785         2 WTDEQWQAIY--TRGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQKALQQ----   75 (1232)
T ss_pred             CCHHHHHHHh--CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHHHHHhc----
Confidence            5889999997  358899999999999999888888877765533346999999999999998888764421 110    


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHH-HhcCCccC-CCccEEEEecchh
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDM-IKRKTLRT-RAIKLLVLDESDE  186 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~-~~~~~~~~-~~~~~vvvDE~h~  186 (354)
                         ..........+..-...-|+|...+... ++...... -...+=|.||...
T Consensus        76 ---~p~~~~L~~q~~~~~~~~i~Tihsf~~~~~~~~~~~l~ldP~F~i~de~e~  126 (1232)
T TIGR02785        76 ---EPNSKHLRRQLALLNTANISTLHSFCLKVIRKHYYLLDLDPSFRILTDTEQ  126 (1232)
T ss_pred             ---CchhHHHHHHHhhccCCeEeeHHHHHHHHHHHhhhhcCCCCCceeCCHHHH
Confidence               0011111111222245567898887644 33321111 1123445887775

AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.

>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase

Probab=97.14  E-value=0.0012  Score=51.10  Aligned_cols=123  Identities=15%  Similarity=0.172  Sum_probs=51.8

Q ss_pred             EEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCe
Q 018574           74 IAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVH  153 (354)
Q Consensus        74 ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (354)
                      ++.|+-|-|||.+.-+.+...+..+.  .+++|..|+.+-+....+.+..-....+++........   ...........
T Consensus         1 VltA~RGRGKSa~lGl~~a~l~~~~~--~~I~vtAP~~~~~~~lf~~~~~~l~~~~~~~~~~~~~~---~~~~~~~~~~~   75 (177)
T PF05127_consen    1 VLTADRGRGKSAALGLAAAALIQKGK--IRILVTAPSPENVQTLFEFAEKGLKALGYKEEKKKRIG---QIIKLRFNKQR   75 (177)
T ss_dssp             -EEE-TTSSHHHHHHHCCCCSSS-------EEEE-SS--S-HHHHHCC-----------------------------CCC
T ss_pred             CccCCCCCCHHHHHHHHHHHHHHhcC--ceEEEecCCHHHHHHHHHHHHhhccccccccccccccc---cccccccccce
Confidence            57899999999555444444433332  46999999998888777766544433333320000000   00000011244


Q ss_pred             EEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeC
Q 018574          154 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATL  216 (354)
Q Consensus       154 iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~  216 (354)
                      |-+..|+.+...       ....+++|||||=.+    -...+..+++    ....+++|.|.
T Consensus        76 i~f~~Pd~l~~~-------~~~~DlliVDEAAaI----p~p~L~~ll~----~~~~vv~stTi  123 (177)
T PF05127_consen   76 IEFVAPDELLAE-------KPQADLLIVDEAAAI----PLPLLKQLLR----RFPRVVFSTTI  123 (177)
T ss_dssp             --B--HHHHCCT-----------SCEEECTGGGS-----HHHHHHHHC----CSSEEEEEEEB
T ss_pred             EEEECCHHHHhC-------cCCCCEEEEechhcC----CHHHHHHHHh----hCCEEEEEeec
Confidence            555555544221       123589999999877    3455656644    33357778886

This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.14  E-value=0.0073  Score=54.31  Aligned_cols=128  Identities=16%  Similarity=0.249  Sum_probs=66.0

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhcc-ccCCCceeEEEEc-CC-HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTV-DTSSREVQALILS-PT-RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR  146 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~-~~~~~~~~~lil~-p~-~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (354)
                      ++.+++.+|||+|||+.....+.... ...  +.++.++. .+ +.-+   .+++..+....++.+.             
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~--g~~V~li~~D~~r~~a---~eqL~~~a~~~~vp~~-------------  282 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYG--KKKVALITLDTYRIGA---VEQLKTYAKIMGIPVE-------------  282 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcC--CCeEEEEECCccHHHH---HHHHHHHHHHhCCceE-------------
Confidence            45689999999999987776555443 222  22344443 32 2111   1333333322222221             


Q ss_pred             hhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc-cCcHHHHHHHHhh-CCCCCcEEEEEeeCchh-HHHH
Q 018574          147 KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY-LPPDLQVVLISATLPHE-ILEM  223 (354)
Q Consensus       147 ~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~-~~~~~~~~~i~~~-~~~~~~~i~lSaT~~~~-~~~~  223 (354)
                              .+.++..+...+..    ..++++|+||.+-.... ......+..++.. ..+....+++++|.... ....
T Consensus       283 --------~~~~~~~l~~~l~~----~~~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~  350 (424)
T PRK05703        283 --------VVYDPKELAKALEQ----LRDCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKYEDLKDI  350 (424)
T ss_pred             --------ccCCHHhHHHHHHH----hCCCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHH
Confidence                    12233444343332    22579999998855322 1233455555552 22334578899998654 4444


Q ss_pred             HHhc
Q 018574          224 TTKF  227 (354)
Q Consensus       224 ~~~~  227 (354)
                      ...+
T Consensus       351 ~~~f  354 (424)
T PRK05703        351 YKHF  354 (424)
T ss_pred             HHHh
Confidence            4444

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.13  E-value=0.0026  Score=52.98  Aligned_cols=49  Identities=12%  Similarity=0.329  Sum_probs=35.2

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVI  121 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~  121 (354)
                      ++.++++.||+|+|||..+.......+..   +. -+++++..++..++...+
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~---g~-sv~f~~~~el~~~Lk~~~  152 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKA---GI-SVLFITAPDLLSKLKAAF  152 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHc---CC-eEEEEEHHHHHHHHHHHH
Confidence            57899999999999998776666655522   23 355567778887766654

>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family

Probab=97.12  E-value=0.0023  Score=57.46  Aligned_cols=144  Identities=15%  Similarity=0.184  Sum_probs=81.0

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH-HHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE-LATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~-l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      ..++.++.|||||.+....++..+....++.+++++-++.. +...+...+......+++....-......   ...+..
T Consensus         3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i~~~g~~~~~~~~~~~~---~i~~~~   79 (396)
T TIGR01547         3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLLSIEGINYEFKKSKSSM---EIKILN   79 (396)
T ss_pred             eEEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHHHHcCChhheeecCCcc---EEEecC
Confidence            46889999999999888887777666434467888888775 66667777765544444322111111110   111222


Q ss_pred             -CCeEEEeCc-HHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCC--CCCcEEEEEeeCchhHHHHHHh
Q 018574          151 -GVHVVSGTP-GRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP--PDLQVVLISATLPHEILEMTTK  226 (354)
Q Consensus       151 -~~~iiv~T~-~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~--~~~~~i~lSaT~~~~~~~~~~~  226 (354)
                       +..|++... +......     ....++.+.+||+..+...    .+..+...++  .....+++|.+|......+...
T Consensus        80 ~g~~i~f~g~~d~~~~ik-----~~~~~~~~~idEa~~~~~~----~~~~l~~rlr~~~~~~~i~~t~NP~~~~~w~~~~  150 (396)
T TIGR01547        80 TGKKFIFKGLNDKPNKLK-----SGAGIAIIWFEEASQLTFE----DIKELIPRLRETGGKKFIIFSSNPESPLHWVKKR  150 (396)
T ss_pred             CCeEEEeecccCChhHhh-----CcceeeeehhhhhhhcCHH----HHHHHHHHhhccCCccEEEEEcCcCCCccHHHHH
Confidence             455666554 2222211     1123589999999998433    3333333333  2222478888886543334433


Q ss_pred             c
Q 018574          227 F  227 (354)
Q Consensus       227 ~  227 (354)
                      +
T Consensus       151 f  151 (396)
T TIGR01547       151 F  151 (396)
T ss_pred             H
Confidence            3

This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.

>PF13173 AAA_14: AAA domain

Probab=97.11  E-value=0.0091  Score=44.12  Aligned_cols=41  Identities=12%  Similarity=0.280  Sum_probs=27.7

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchh
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHE  219 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~  219 (354)
                      .-.+|++||+|.+.  ++...+..+.+.. ++.+ +.+|++....
T Consensus        61 ~~~~i~iDEiq~~~--~~~~~lk~l~d~~-~~~~-ii~tgS~~~~  101 (128)
T PF13173_consen   61 GKKYIFIDEIQYLP--DWEDALKFLVDNG-PNIK-IILTGSSSSL  101 (128)
T ss_pred             CCcEEEEehhhhhc--cHHHHHHHHHHhc-cCce-EEEEccchHH
Confidence            45789999999984  5667888887754 3445 4455554443

>PRK14712 conjugal transfer nickase/helicase TraI; Provisional

Probab=97.11  E-value=0.0032  Score=64.63  Aligned_cols=63  Identities=22%  Similarity=0.260  Sum_probs=45.1

Q ss_pred             CChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHH--HhhccccCCCceeEEEEcCCHHHHHHHH
Q 018574           55 KPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALT--VCQTVDTSSREVQALILSPTRELATQTE  118 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~--~~~~~~~~~~~~~~lil~p~~~l~~q~~  118 (354)
                      .+++.|.+++..++.+  +-++|.+..|+|||++.-..  ++..+. ...+..++.++||-.-+..+.
T Consensus       835 ~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~-e~~g~~V~glAPTgkAa~~L~  901 (1623)
T PRK14712        835 KLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLP-ESERPRVVGLGPTHRAVGEMR  901 (1623)
T ss_pred             ccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHh-hccCceEEEEechHHHHHHHH
Confidence            7899999999999864  77899999999999764222  122221 123456888999877666553

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.11  E-value=0.0059  Score=54.41  Aligned_cols=132  Identities=14%  Similarity=0.195  Sum_probs=64.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE  149 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (354)
                      ++.+.+.||+|+|||+.....+...+.......-.++...+.-.+  ..+++..++...++.+...              
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rig--alEQL~~~a~ilGvp~~~v--------------  254 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIG--GHEQLRIYGKLLGVSVRSI--------------  254 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchh--HHHHHHHHHHHcCCceecC--------------
Confidence            567899999999999877655543332222222345555553322  2233444443334433222              


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc-cCcHHHHHHHHhhCCCCCcEEEEEeeCchh-HHHHHHhc
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRYLPPDLQVVLISATLPHE-ILEMTTKF  227 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~-~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~-~~~~~~~~  227 (354)
                             .++..+...+.    .+...+.+++|.+=.... ......+..+.....+...+++++||.... ..+....|
T Consensus       255 -------~~~~dl~~al~----~l~~~d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f  323 (420)
T PRK14721        255 -------KDIADLQLMLH----ELRGKHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAY  323 (420)
T ss_pred             -------CCHHHHHHHHH----HhcCCCEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHh
Confidence                   12222222222    123557788887532211 112334444433233445678899997554 44445444


Q ss_pred             c
Q 018574          228 M  228 (354)
Q Consensus       228 ~  228 (354)
                      .
T Consensus       324 ~  324 (420)
T PRK14721        324 Q  324 (420)
T ss_pred             c
Confidence            3

>smart00491 HELICc2 helicase superfamily c-terminal domain

Probab=97.10  E-value=0.0016  Score=48.93  Aligned_cols=68  Identities=7%  Similarity=0.148  Sum_probs=46.5

Q ss_pred             hHHHHHHHHhcCCC---eEEEeecCCCHHHHHHHHHHHhCCCC---cEEEEccc--cccCCCcCC--CcEEEecCCCC
Q 018574          284 KVDWLTEKMRGYNF---TVSSMHGDMPQKERDAIMGEFRSGTT---RVLITTDV--WARGLDVQQ--AILFFFLFLFC  351 (354)
Q Consensus       284 ~~~~l~~~l~~~~~---~~~~~~~~~~~~~r~~~~~~f~~g~~---~vlv~T~~--~~~Gidi~~--~~~Vi~~~~p~  351 (354)
                      .++++++.+++.+.   ...++.......+..++++.|++...   .||+++.-  +++|+|+|+  +++||.+++|-
T Consensus         3 ~m~~v~~~~~~~~~~~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~g~iL~~v~~G~~~EGiD~~g~~~r~vii~glPf   80 (142)
T smart00491        3 YLEQVVEYWKENGILEINKPVFIEGKDSGETEELLEKYSAACEARGALLLAVARGKVSEGIDFPDDLGRAVIIVGIPF   80 (142)
T ss_pred             HHHHHHHHHHhcCccccCceEEEECCCCchHHHHHHHHHHhcCCCCEEEEEEeCCeeecceecCCCccEEEEEEecCC
Confidence            45566666665433   12233333333455678888987543   69999976  999999996  68999999995

>PLN03025 replication factor C subunit; Provisional

Probab=97.10  E-value=0.0063  Score=52.85  Aligned_cols=40  Identities=18%  Similarity=0.299  Sum_probs=25.5

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeC
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATL  216 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~  216 (354)
                      +..++|+||+|.+.... ...+...+...+....+ +++++.
T Consensus        99 ~~kviiiDE~d~lt~~a-q~aL~~~lE~~~~~t~~-il~~n~  138 (319)
T PLN03025         99 RHKIVILDEADSMTSGA-QQALRRTMEIYSNTTRF-ALACNT  138 (319)
T ss_pred             CeEEEEEechhhcCHHH-HHHHHHHHhcccCCceE-EEEeCC
Confidence            57899999999985443 45555666654444444 444443

>PRK13709 conjugal transfer nickase/helicase TraI; Provisional

Probab=97.04  E-value=0.0056  Score=63.74  Aligned_cols=63  Identities=24%  Similarity=0.295  Sum_probs=45.1

Q ss_pred             CChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHHHhhccc--cCCCceeEEEEcCCHHHHHHHH
Q 018574           55 KPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVD--TSSREVQALILSPTRELATQTE  118 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~~~~~~~--~~~~~~~~lil~p~~~l~~q~~  118 (354)
                      .+++.|.+++..++.+  +-++|.+.+|+|||++.- .+...+.  ....+.+++.++||-.-+..+.
T Consensus       967 ~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~-~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~ 1033 (1747)
T PRK13709        967 GLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFR-AVMSAVNTLPESERPRVVGLGPTHRAVGEMR 1033 (1747)
T ss_pred             CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHH-HHHHHHHHhhcccCceEEEECCcHHHHHHHH
Confidence            7899999999999974  578999999999996543 2222221  1223456888999977666543

>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=97.02  E-value=0.0058  Score=45.28  Aligned_cols=16  Identities=25%  Similarity=0.501  Sum_probs=13.1

Q ss_pred             ccEEEEecchhhhccC
Q 018574          176 IKLLVLDESDEMLSRG  191 (354)
Q Consensus       176 ~~~vvvDE~h~~~~~~  191 (354)
                      ..++++||+|.+....
T Consensus        59 ~~vl~iDe~d~l~~~~   74 (132)
T PF00004_consen   59 PCVLFIDEIDKLFPKS   74 (132)
T ss_dssp             SEEEEEETGGGTSHHC
T ss_pred             ceeeeeccchhccccc
Confidence            5899999999986553

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 ....

>PHA03368 DNA packaging terminase subunit 1; Provisional

Probab=97.02  E-value=0.0055  Score=56.82  Aligned_cols=132  Identities=14%  Similarity=0.167  Sum_probs=81.4

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCc--CeEEEEEeCCcchHHhHHh
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI--NIQAHACVGGKSVGEDIRK  147 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~  147 (354)
                      .+..++..|--.|||+... +++..+.....+.+++|.+|.+..++.+.+++.......  +-.+.... |...   ...
T Consensus       254 qk~tVflVPRR~GKTwivv-~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~~~v~~vk-Ge~I---~i~  328 (738)
T PHA03368        254 QRATVFLVPRRHGKTWFLV-PLIALALATFRGIKIGYTAHIRKATEPVFEEIGARLRQWFGASRVDHVK-GETI---SFS  328 (738)
T ss_pred             ccceEEEecccCCchhhHH-HHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHHHhhhcchhheeeec-CcEE---EEE
Confidence            4567889999999997666 555555544456789999999999999999888765321  11111111 2111   112


Q ss_pred             hcCC--CeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          148 LEHG--VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       148 ~~~~--~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      +.++  .-|.+++.      .......-..++++|+|||+.+....+...+ ..+..  .+.+++++|.|
T Consensus       329 f~nG~kstI~FaSa------rntNsiRGqtfDLLIVDEAqFIk~~al~~il-p~l~~--~n~k~I~ISS~  389 (738)
T PHA03368        329 FPDGSRSTIVFASS------HNTNGIRGQDFNLLFVDEANFIRPDAVQTIM-GFLNQ--TNCKIIFVSST  389 (738)
T ss_pred             ecCCCccEEEEEec------cCCCCccCCcccEEEEechhhCCHHHHHHHH-HHHhc--cCccEEEEecC
Confidence            2223  24445431      1122344567899999999998655444444 33222  47888999988

>PHA03333 putative ATPase subunit of terminase; Provisional

Probab=96.98  E-value=0.019  Score=53.73  Aligned_cols=68  Identities=13%  Similarity=0.176  Sum_probs=47.4

Q ss_pred             hHHHHHhHhhhh---cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhcc
Q 018574           57 SAIQQRAVMPII---KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGD  126 (354)
Q Consensus        57 ~~~Q~~~~~~~~---~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~  126 (354)
                      .|.=.+-++++.   +.+-.++.+|-|-|||.+..+.+...+...  +.+++|.+|...-+.++.+.+.....
T Consensus       171 ~~~~~~~id~~~~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f~--Gi~IlvTAH~~~ts~evF~rv~~~le  241 (752)
T PHA03333        171 SPRTLREIDRIFDEYGKCYTAATVPRRCGKTTIMAIILAAMISFL--EIDIVVQAQRKTMCLTLYNRVETVVH  241 (752)
T ss_pred             ChhhHHHHHHHHHHHhhcceEEEeccCCCcHHHHHHHHHHHHHhc--CCeEEEECCChhhHHHHHHHHHHHHH
Confidence            444444444444   356778899999999977765555444322  46799999999988888887776654

>CHL00181 cbbX CbbX; Provisional

Probab=96.97  E-value=0.0053  Score=52.24  Aligned_cols=21  Identities=29%  Similarity=0.370  Sum_probs=16.6

Q ss_pred             CCcEEEEcCCCCchhhHhHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      +.++++.||||+|||.++-..
T Consensus        59 ~~~ill~G~pGtGKT~lAr~l   79 (287)
T CHL00181         59 GLHMSFTGSPGTGKTTVALKM   79 (287)
T ss_pred             CceEEEECCCCCCHHHHHHHH
Confidence            446899999999999755544

>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase)

Probab=96.96  E-value=0.0051  Score=56.58  Aligned_cols=148  Identities=15%  Similarity=0.110  Sum_probs=81.8

Q ss_pred             HHHHHhHhhhhc-----C----CcEEEEcCCCCchhhHhHHHHhhccc-cCCCceeEEEEcCCHHHHHHHHHHHHHhccC
Q 018574           58 AIQQRAVMPIIK-----G----RDVIAQAQSGTGKTSMIALTVCQTVD-TSSREVQALILSPTRELATQTEKVILAIGDF  127 (354)
Q Consensus        58 ~~Q~~~~~~~~~-----~----~~~ii~~~tGsGKT~~~~~~~~~~~~-~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~  127 (354)
                      |+|.-++..+..     |    +.+++..|=|-|||......++..+. .+..+..++++++++.-+....+.+..+...
T Consensus         1 PwQ~fi~~~i~G~~~~~g~rrf~~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~~QA~~~f~~~~~~i~~   80 (477)
T PF03354_consen    1 PWQKFILRSIFGWRKDDGRRRFREVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTRDQAKIVFDEAKKMIEA   80 (477)
T ss_pred             CcHHHHHHHHhceEcCCCCEEEEEEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCHHHHHHHHHHHHHHHHh
Confidence            567766665541     2    45789999999999877776665554 4556778999999999999999988876644


Q ss_pred             cCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHH--hcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCC
Q 018574          128 INIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMI--KRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPP  205 (354)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~--~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~  205 (354)
                      .+.......      ....+.. ...|.....+.+...+  ......-.+..++|+||+|...+......+..-... .+
T Consensus        81 ~~~l~~~~~------~~~~~~~-~~~i~~~~~~s~~~~~s~~~~~~dG~~~~~~i~DE~h~~~~~~~~~~l~~g~~~-r~  152 (477)
T PF03354_consen   81 SPELRKRKK------PKIIKSN-KKEIEFPKTGSFFKALSSDADSLDGLNPSLAIFDELHAHKDDELYDALESGMGA-RP  152 (477)
T ss_pred             Chhhccchh------hhhhhhh-ceEEEEcCCCcEEEEEecCCCCccCCCCceEEEeCCCCCCCHHHHHHHHhhhcc-CC
Confidence            211110000      0000000 0112211111111111  112333456789999999998654333333333333 23


Q ss_pred             CCcEEEEE
Q 018574          206 DLQVVLIS  213 (354)
Q Consensus       206 ~~~~i~lS  213 (354)
                      +++++.+|
T Consensus       153 ~pl~~~IS  160 (477)
T PF03354_consen  153 NPLIIIIS  160 (477)
T ss_pred             CceEEEEe
Confidence            45555443

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.93  E-value=0.004  Score=52.37  Aligned_cols=20  Identities=30%  Similarity=0.488  Sum_probs=16.0

Q ss_pred             CcEEEEcCCCCchhhHhHHH
Q 018574           71 RDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~   90 (354)
                      .++++.||+|+|||..+-..
T Consensus        43 ~~vll~GppGtGKTtlA~~i   62 (261)
T TIGR02881        43 LHMIFKGNPGTGKTTVARIL   62 (261)
T ss_pred             ceEEEEcCCCCCHHHHHHHH
Confidence            47899999999999655443

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.

>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=96.92  E-value=0.0032  Score=48.63  Aligned_cols=42  Identities=17%  Similarity=0.365  Sum_probs=27.2

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeC
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATL  216 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~  216 (354)
                      ....++|+||+|.|... ....+.+.++.-+.+..++++|..+
T Consensus       101 ~~~KviiI~~ad~l~~~-a~NaLLK~LEepp~~~~fiL~t~~~  142 (162)
T PF13177_consen  101 GKYKVIIIDEADKLTEE-AQNALLKTLEEPPENTYFILITNNP  142 (162)
T ss_dssp             SSSEEEEEETGGGS-HH-HHHHHHHHHHSTTTTEEEEEEES-G
T ss_pred             CCceEEEeehHhhhhHH-HHHHHHHHhcCCCCCEEEEEEECCh
Confidence            46889999999998544 3556666666655565555555444

...

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=96.91  E-value=0.0054  Score=55.12  Aligned_cols=36  Identities=22%  Similarity=0.353  Sum_probs=21.6

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEE
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALIL  107 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil  107 (354)
                      .++++.||+|+|||.+.-. ++..+.....+..++++
T Consensus        56 ~~~lI~G~~GtGKT~l~~~-v~~~l~~~~~~~~~v~i   91 (394)
T PRK00411         56 LNVLIYGPPGTGKTTTVKK-VFEELEEIAVKVVYVYI   91 (394)
T ss_pred             CeEEEECCCCCCHHHHHHH-HHHHHHHhcCCcEEEEE
Confidence            5799999999999964433 33333322223344554

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=96.91  E-value=0.0096  Score=54.01  Aligned_cols=38  Identities=13%  Similarity=0.255  Sum_probs=24.4

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      +.+++.||+|+|||..+-.. ...+....++.+++++..
T Consensus       131 n~l~lyG~~G~GKTHLl~ai-~~~l~~~~~~~~v~yi~~  168 (440)
T PRK14088        131 NPLFIYGGVGLGKTHLLQSI-GNYVVQNEPDLRVMYITS  168 (440)
T ss_pred             CeEEEEcCCCCcHHHHHHHH-HHHHHHhCCCCeEEEEEH
Confidence            46899999999999655433 333333333456777654

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=96.90  E-value=0.0099  Score=51.54  Aligned_cols=41  Identities=12%  Similarity=0.110  Sum_probs=30.6

Q ss_pred             CChHHHHHhHhhhhcCC----cEEEEcCCCCchhhHhHHHHhhcc
Q 018574           55 KPSAIQQRAVMPIIKGR----DVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~----~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      .++|||...+..+.+.+    ..++.||.|.|||..+...+...+
T Consensus         3 ~~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~ll   47 (328)
T PRK05707          3 EIYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALL   47 (328)
T ss_pred             cCCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHc
Confidence            35789999998887643    468999999999976665544444

>TIGR01073 pcrA ATP-dependent DNA helicase PcrA

Probab=96.89  E-value=0.0022  Score=62.30  Aligned_cols=70  Identities=16%  Similarity=0.198  Sum_probs=56.8

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC-CCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS-SREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~-~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      ..+++-|.+++.+.  ..+++|.|++|||||.+...-+.+.+... -...++|+++-|+..+..+.+++.+..
T Consensus         3 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~   73 (726)
T TIGR01073         3 AHLNPEQREAVKTT--EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLL   73 (726)
T ss_pred             cccCHHHHHHHhCC--CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHh
Confidence            36899999999753  56899999999999998888877777543 233579999999999999999887664

Designed to identify pcrA members of the uvrD/rep subfamily.

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

Probab=96.88  E-value=0.0062  Score=54.36  Aligned_cols=34  Identities=21%  Similarity=0.329  Sum_probs=26.5

Q ss_pred             ChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHH
Q 018574           56 PSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      +......++..+..++++++.+|+|+|||..+-.
T Consensus       180 ~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~  213 (459)
T PRK11331        180 PETTIETILKRLTIKKNIILQGPPGVGKTFVARR  213 (459)
T ss_pred             CHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHH
Confidence            4445566677777899999999999999976543

>PRK08116 hypothetical protein; Validated

Probab=96.87  E-value=0.023  Score=47.85  Aligned_cols=45  Identities=18%  Similarity=0.270  Sum_probs=26.3

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHH
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEK  119 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~  119 (354)
                      ..+++.|++|+|||..+...+-..+..   +..++++ +...+...+..
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~---~~~v~~~-~~~~ll~~i~~  159 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEK---GVPVIFV-NFPQLLNRIKS  159 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHc---CCeEEEE-EHHHHHHHHHH
Confidence            359999999999997655443333322   2335444 44455544433

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=96.87  E-value=0.0026  Score=50.81  Aligned_cols=25  Identities=28%  Similarity=0.385  Sum_probs=19.6

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      .++++.+|+|.|||+.....+...+
T Consensus        49 P~liisGpPG~GKTTsi~~LAr~LL   73 (333)
T KOG0991|consen   49 PNLIISGPPGTGKTTSILCLARELL   73 (333)
T ss_pred             CceEeeCCCCCchhhHHHHHHHHHh
Confidence            4899999999999987765554444

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.85  E-value=0.011  Score=56.10  Aligned_cols=40  Identities=18%  Similarity=0.458  Sum_probs=23.9

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      .+++++||||+|.+....+ +.+.+.++.-+.+..+| +++|
T Consensus       118 gr~KVIIIDEah~LT~~A~-NALLKtLEEPP~~v~FI-LaTt  157 (830)
T PRK07003        118 ARFKVYMIDEVHMLTNHAF-NAMLKTLEEPPPHVKFI-LATT  157 (830)
T ss_pred             CCceEEEEeChhhCCHHHH-HHHHHHHHhcCCCeEEE-EEEC
Confidence            4678999999999854433 33444455444444444 4444

>PRK09183 transposase/IS protein; Provisional

Probab=96.84  E-value=0.0088  Score=50.09  Aligned_cols=46  Identities=20%  Similarity=0.298  Sum_probs=28.9

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ  116 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q  116 (354)
                      +.++.++++.||+|+|||..+..........   +..++++ +..++..+
T Consensus        99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~---G~~v~~~-~~~~l~~~  144 (259)
T PRK09183         99 IERNENIVLLGPSGVGKTHLAIALGYEAVRA---GIKVRFT-TAADLLLQ  144 (259)
T ss_pred             hhcCCeEEEEeCCCCCHHHHHHHHHHHHHHc---CCeEEEE-eHHHHHHH
Confidence            4557899999999999997666554433332   3345554 33444443

>PRK10917 ATP-dependent DNA helicase RecG; Provisional

Probab=96.84  E-value=0.0081  Score=57.77  Aligned_cols=76  Identities=20%  Similarity=0.291  Sum_probs=65.8

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccCCCcCCCcEEE
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWARGLDVQQAILFF  345 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~~Gidi~~~~~Vi  345 (354)
                      .+.+++|.+++...|.+.++.+++.    ++++..++|+++..+|.+.++.+.+|+.+|+|+|. .+...+.++++.+||
T Consensus       309 ~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~v~~~~l~lvV  388 (681)
T PRK10917        309 AGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQDDVEFHNLGLVI  388 (681)
T ss_pred             cCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcccchhcccceEE
Confidence            3468999999999999988887654    68899999999999999999999999999999996 555567888998887


Q ss_pred             e
Q 018574          346 F  346 (354)
Q Consensus       346 ~  346 (354)
                      .
T Consensus       389 I  389 (681)
T PRK10917        389 I  389 (681)
T ss_pred             E
Confidence            4

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.83  E-value=0.012  Score=53.58  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=17.4

Q ss_pred             CcEEEEcCCCCchhhHhHHHHh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVC   92 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~   92 (354)
                      +..++.||.|+|||.++...+.
T Consensus        36 ha~Lf~Gp~G~GKTT~ArilAk   57 (491)
T PRK14964         36 QSILLVGASGVGKTTCARIISL   57 (491)
T ss_pred             ceEEEECCCCccHHHHHHHHHH
Confidence            4689999999999976665543

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=96.82  E-value=0.0075  Score=56.08  Aligned_cols=104  Identities=16%  Similarity=0.274  Sum_probs=56.5

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      +.+++.|++|+|||...-.. ...+.....+.+++++. ...+..++...+..                           
T Consensus       315 NpL~LyG~sGsGKTHLL~AI-a~~a~~~~~g~~V~Yit-aeef~~el~~al~~---------------------------  365 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAI-GHYARRLYPGTRVRYVS-SEEFTNEFINSIRD---------------------------  365 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHH-HHHHHHhCCCCeEEEee-HHHHHHHHHHHHHh---------------------------
Confidence            35899999999999644433 33333322344566654 34555444333211                           


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc-CcHHHHHHHHhhCCC-CCcEEEEEeeCc
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPP-DLQVVLISATLP  217 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~-~~~~i~lSaT~~  217 (354)
                            ...+.+...       ..+.++|+|||+|.+... .+...+..+++.+.. +.+++ +|+..+
T Consensus       366 ------~~~~~f~~~-------y~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~II-ITSd~~  420 (617)
T PRK14086        366 ------GKGDSFRRR-------YREMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIV-LSSDRP  420 (617)
T ss_pred             ------ccHHHHHHH-------hhcCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEE-EecCCC
Confidence                  001112111       124689999999988653 234556666665544 45555 455543

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.80  E-value=0.022  Score=46.84  Aligned_cols=55  Identities=16%  Similarity=0.209  Sum_probs=34.4

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      +..+..+++.+++|+|||......+...+..   +.++++++.. +-..+..+.+..++
T Consensus        21 i~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~---g~~~~yi~~e-~~~~~~~~~~~~~g   75 (230)
T PRK08533         21 IPAGSLILIEGDESTGKSILSQRLAYGFLQN---GYSVSYVSTQ-LTTTEFIKQMMSLG   75 (230)
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHHhC---CCcEEEEeCC-CCHHHHHHHHHHhC
Confidence            3447789999999999997755555544433   3457777743 33344444444444

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=96.80  E-value=0.015  Score=56.58  Aligned_cols=39  Identities=15%  Similarity=0.405  Sum_probs=26.4

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      .+++++||||+|.|.... .+.+.++++..+....+|+.+
T Consensus       119 ~~~KV~IIDEad~lt~~a-~NaLLK~LEEpP~~~~fIl~t  157 (824)
T PRK07764        119 SRYKIFIIDEAHMVTPQG-FNALLKIVEEPPEHLKFIFAT  157 (824)
T ss_pred             CCceEEEEechhhcCHHH-HHHHHHHHhCCCCCeEEEEEe
Confidence            467899999999995443 445556666655565555554

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.79  E-value=0.0093  Score=57.65  Aligned_cols=21  Identities=29%  Similarity=0.324  Sum_probs=16.0

Q ss_pred             EEEEcCCCCchhhHhHHHHhh
Q 018574           73 VIAQAQSGTGKTSMIALTVCQ   93 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~   93 (354)
                      .++.||+|+|||.++...+..
T Consensus        41 yLFtGPpGtGKTTLARiLAk~   61 (944)
T PRK14949         41 YLFTGTRGVGKTSLARLFAKG   61 (944)
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            489999999999766554433

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.77  E-value=0.012  Score=53.31  Aligned_cols=46  Identities=11%  Similarity=0.377  Sum_probs=26.3

Q ss_pred             CccEEEEecchhhhcc-CcHHHHHHHHhhCC-CCCcEEEEEeeCchhH
Q 018574          175 AIKLLVLDESDEMLSR-GFKDQIYDVYRYLP-PDLQVVLISATLPHEI  220 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~-~~~~~i~lSaT~~~~~  220 (354)
                      ..+++++||+|.+... .....+..+++.+. ...++++.|...+.+.
T Consensus       202 ~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l  249 (445)
T PRK12422        202 NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDL  249 (445)
T ss_pred             cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHH
Confidence            5689999999998643 23445555554332 3445444443444443

>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit

Probab=96.77  E-value=0.0042  Score=51.08  Aligned_cols=86  Identities=21%  Similarity=0.324  Sum_probs=64.0

Q ss_pred             CceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCc-chHHhHHhhc-CCCeEEEeCcHHHHHHHhcCCccCCCcc
Q 018574          100 REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK-SVGEDIRKLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIK  177 (354)
Q Consensus       100 ~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~  177 (354)
                      ..|.+|||+.+.-.+..+...++.+.. -+..+..+...+ ...++...+. ....|.||||+++..+++.+.+.++++.
T Consensus       125 gsP~~lvvs~SalRa~dl~R~l~~~~~-k~~~v~KLFaKH~Kl~eqv~~L~~~~~~i~vGTP~Rl~kLle~~~L~l~~l~  203 (252)
T PF14617_consen  125 GSPHVLVVSSSALRAADLIRALRSFKG-KDCKVAKLFAKHIKLEEQVKLLKKTRVHIAVGTPGRLSKLLENGALSLSNLK  203 (252)
T ss_pred             CCCEEEEEcchHHHHHHHHHHHHhhcc-CCchHHHHHHhhccHHHHHHHHHhCCceEEEeChHHHHHHHHcCCCCcccCe
Confidence            357899999988888888887776631 112333344443 5555555555 3589999999999999999999999999


Q ss_pred             EEEEecchh
Q 018574          178 LLVLDESDE  186 (354)
Q Consensus       178 ~vvvDE~h~  186 (354)
                      +||+|-.|.
T Consensus       204 ~ivlD~s~~  212 (252)
T PF14617_consen  204 RIVLDWSYL  212 (252)
T ss_pred             EEEEcCCcc
Confidence            999998775

>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=96.76  E-value=0.0011  Score=53.11  Aligned_cols=18  Identities=22%  Similarity=0.403  Sum_probs=14.4

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      .++++.||+|.|||..+-
T Consensus        51 ~h~lf~GPPG~GKTTLA~   68 (233)
T PF05496_consen   51 DHMLFYGPPGLGKTTLAR   68 (233)
T ss_dssp             -EEEEESSTTSSHHHHHH
T ss_pred             ceEEEECCCccchhHHHH
Confidence            368999999999996443

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.76  E-value=0.011  Score=48.50  Aligned_cols=42  Identities=10%  Similarity=0.276  Sum_probs=24.9

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCc-EEEEEeeCc
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ-VVLISATLP  217 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~-~i~lSaT~~  217 (354)
                      ..+++|+||+|.+... ....+..++........ +++++++.+
T Consensus        90 ~~~~liiDdi~~l~~~-~~~~L~~~~~~~~~~~~~~vl~~~~~~  132 (227)
T PRK08903         90 EAELYAVDDVERLDDA-QQIALFNLFNRVRAHGQGALLVAGPAA  132 (227)
T ss_pred             cCCEEEEeChhhcCch-HHHHHHHHHHHHHHcCCcEEEEeCCCC
Confidence            4578999999987433 23445555544333333 466666654

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.75  E-value=0.013  Score=48.46  Aligned_cols=53  Identities=15%  Similarity=0.227  Sum_probs=37.3

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .|..+++.+++|+|||..++..+...+..+   .+++|++- .+-..+..+.+..++
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~g---e~~lyvs~-ee~~~~i~~~~~~~g   72 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMG---EPGIYVAL-EEHPVQVRRNMAQFG   72 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHcC---CcEEEEEe-eCCHHHHHHHHHHhC
Confidence            367889999999999987777766665443   34788774 455566666666555

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.73  E-value=0.017  Score=53.98  Aligned_cols=24  Identities=17%  Similarity=0.220  Sum_probs=17.7

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhcc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      -.++.||.|.|||.+....+....
T Consensus        40 A~LFtGP~GvGKTTLAriLAkaLn   63 (700)
T PRK12323         40 AYLFTGTRGVGKTTLSRILAKSLN   63 (700)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            359999999999976665544443

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=96.70  E-value=0.021  Score=50.15  Aligned_cols=40  Identities=8%  Similarity=0.235  Sum_probs=25.1

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      ...++||+||+|.+... ....+..++...+...++++ +++
T Consensus       124 ~~~~vlilDe~~~l~~~-~~~~L~~~le~~~~~~~~Il-~~~  163 (337)
T PRK12402        124 ADYKTILLDNAEALRED-AQQALRRIMEQYSRTCRFII-ATR  163 (337)
T ss_pred             CCCcEEEEeCcccCCHH-HHHHHHHHHHhccCCCeEEE-EeC
Confidence            34579999999987433 34455666666555555554 443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.69  E-value=0.011  Score=54.44  Aligned_cols=39  Identities=15%  Similarity=0.378  Sum_probs=24.7

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      .+++++|+||+|.+....+ +.+.+.+..-+....+++.|
T Consensus       118 ~~~kV~iIDE~~~ls~~a~-naLLk~LEepp~~~~fIlat  156 (509)
T PRK14958        118 GRFKVYLIDEVHMLSGHSF-NALLKTLEEPPSHVKFILAT  156 (509)
T ss_pred             CCcEEEEEEChHhcCHHHH-HHHHHHHhccCCCeEEEEEE
Confidence            3678999999999854433 34444555555555555544

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.67  E-value=0.015  Score=54.42  Aligned_cols=40  Identities=13%  Similarity=0.287  Sum_probs=24.2

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      .+++++|+||+|.+.... .+.+.+.+..-+....+|+ ++|
T Consensus       117 gk~KV~IIDEVh~LS~~A-~NALLKtLEEPP~~v~FIL-aTt  156 (702)
T PRK14960        117 GRFKVYLIDEVHMLSTHS-FNALLKTLEEPPEHVKFLF-ATT  156 (702)
T ss_pred             CCcEEEEEechHhcCHHH-HHHHHHHHhcCCCCcEEEE-EEC
Confidence            357899999999885443 3445455555444444444 444

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.67  E-value=0.017  Score=50.37  Aligned_cols=40  Identities=13%  Similarity=0.342  Sum_probs=25.0

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      ..+.+||+||++.+... ....+...+..-+.+..++ +++.
T Consensus       108 ~~~kviiidead~mt~~-A~nallk~lEep~~~~~~i-l~~n  147 (325)
T COG0470         108 GGYKVVIIDEADKLTED-AANALLKTLEEPPKNTRFI-LITN  147 (325)
T ss_pred             CCceEEEeCcHHHHhHH-HHHHHHHHhccCCCCeEEE-EEcC
Confidence            57899999999998543 2445555555444455444 4444

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.67  E-value=0.027  Score=51.18  Aligned_cols=26  Identities=27%  Similarity=0.319  Sum_probs=20.1

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      ++-+.+.||||+|||++....+....
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~  281 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCV  281 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHH
Confidence            45678999999999987776665443

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.67  E-value=0.029  Score=51.28  Aligned_cols=20  Identities=30%  Similarity=0.375  Sum_probs=15.8

Q ss_pred             EEEEcCCCCchhhHhHHHHh
Q 018574           73 VIAQAQSGTGKTSMIALTVC   92 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~   92 (354)
                      .++.||+|+|||..+-..+-
T Consensus        39 ~Lf~GPpGtGKTTlA~~lA~   58 (472)
T PRK14962         39 YIFAGPRGTGKTTVARILAK   58 (472)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            69999999999976655443

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.66  E-value=0.043  Score=46.05  Aligned_cols=129  Identities=13%  Similarity=0.222  Sum_probs=69.1

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC-C--HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP-T--RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRK  147 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p-~--~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (354)
                      ..+.+.+++|+|||..+...+......   +.++.++.- +  .....||.......    ++.+..             
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~---~~~v~~i~~D~~ri~~~~ql~~~~~~~----~~~~~~-------------  135 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGK---KKTVGFITTDHSRIGTVQQLQDYVKTI----GFEVIA-------------  135 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHc---CCeEEEEecCCCCHHHHHHHHHHhhhc----CceEEe-------------
Confidence            578999999999997666554433221   223444332 2  24556665443322    222211             


Q ss_pred             hcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc-cCcHHHHHHHHhhCCCCCcEEEEEeeCc-hhHHHHHH
Q 018574          148 LEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRYLPPDLQVVLISATLP-HEILEMTT  225 (354)
Q Consensus       148 ~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~-~~~~~~~~~i~~~~~~~~~~i~lSaT~~-~~~~~~~~  225 (354)
                              ..++..+...+..- -...++++|++|-+=+... ......+..+.....++..++.++||.. .+......
T Consensus       136 --------~~~~~~l~~~l~~l-~~~~~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~~~  206 (270)
T PRK06731        136 --------VRDEAAMTRALTYF-KEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIIT  206 (270)
T ss_pred             --------cCCHHHHHHHHHHH-HhcCCCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHHHH
Confidence                    12333443333210 0113578999998866532 2234455555555555555778999875 45556666


Q ss_pred             hcc
Q 018574          226 KFM  228 (354)
Q Consensus       226 ~~~  228 (354)
                      .|.
T Consensus       207 ~f~  209 (270)
T PRK06731        207 NFK  209 (270)
T ss_pred             HhC
Confidence            654

>COG4626 Phage terminase-like protein, large subunit [General function prediction only]

Probab=96.64  E-value=0.018  Score=52.28  Aligned_cols=149  Identities=14%  Similarity=0.104  Sum_probs=85.7

Q ss_pred             CChHHHHHhHhhhhc------C----CcEEEEcCCCCchhhHhHHHHh-hccccCCCceeEEEEcCCHHHHHHHHHHHHH
Q 018574           55 KPSAIQQRAVMPIIK------G----RDVIAQAQSGTGKTSMIALTVC-QTVDTSSREVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~------~----~~~ii~~~tGsGKT~~~~~~~~-~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      .+-|+|.-++..+.-      +    +.++|..|-+-|||..+...+. ..+.....+..+.|+.|+.+-+.+....++.
T Consensus        61 ~l~PwQkFiia~l~G~~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~~l~~~~~~~~~~i~A~s~~qa~~~F~~ar~  140 (546)
T COG4626          61 SLEPWQKFIVAALFGFYDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPSVEQAANSFNPARD  140 (546)
T ss_pred             ccchHHHHHHHHHhceeecCCCceEEEEEEEEEecCCchHHHHHHHHHHHHHhhhhcCCcEEEEeccHHHHHHhhHHHHH
Confidence            678999999988772      1    3469999999999976663333 3344445667899999999988888887776


Q ss_pred             hccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHH--hcCCccCCCccEEEEecchhhhccCcHHHHHHHHh
Q 018574          124 IGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMI--KRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYR  201 (354)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~--~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~  201 (354)
                      ......          ........-.....|...--......+  ........+..+.|+||.|.....+  ..+..+..
T Consensus       141 mv~~~~----------~l~~~~~~q~~s~~i~~~~~~s~ik~~aa~~~~~Dg~~~~~~I~DEih~f~~~~--~~~~~~~~  208 (546)
T COG4626         141 MVKRDD----------DLRDLCNVQTHSRTITHRKTDSTIKAVAADPNTVDGLNSVGAIIDELHLFGKQE--DMYSEAKG  208 (546)
T ss_pred             HHHhCc----------chhhhhccccceeEEEecccceeeeeeccCCCcccCCCcceEEEehhhhhcCHH--HHHHHHHh
Confidence            543221          000000000000111111111111111  1134455678899999999986552  34444433


Q ss_pred             hC--CCCCcEEEEEee
Q 018574          202 YL--PPDLQVVLISAT  215 (354)
Q Consensus       202 ~~--~~~~~~i~lSaT  215 (354)
                      -+  +++.+++++|..
T Consensus       209 g~~ar~~~l~~~ITT~  224 (546)
T COG4626         209 GLGARPEGLVVYITTS  224 (546)
T ss_pred             hhccCcCceEEEEecC
Confidence            33  345667776663

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=96.62  E-value=0.013  Score=49.93  Aligned_cols=19  Identities=26%  Similarity=0.330  Sum_probs=15.7

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      +.++++.||+|+|||.++-
T Consensus        58 ~~~vll~G~pGTGKT~lA~   76 (284)
T TIGR02880        58 TLHMSFTGNPGTGKTTVAL   76 (284)
T ss_pred             CceEEEEcCCCCCHHHHHH
Confidence            3479999999999997653

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.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=96.60  E-value=0.024  Score=48.79  Aligned_cols=42  Identities=24%  Similarity=0.268  Sum_probs=30.8

Q ss_pred             CCChHHHHHhHhhhhc----CC---cEEEEcCCCCchhhHhHHHHhhcc
Q 018574           54 EKPSAIQQRAVMPIIK----GR---DVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~----~~---~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      ..++|+|..++..+.+    ++   -.++.||.|.||+..+...+...+
T Consensus         3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~Ll   51 (319)
T PRK08769          3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVL   51 (319)
T ss_pred             ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHh
Confidence            4678899988887664    33   478999999999976665544443

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.59  E-value=0.014  Score=52.43  Aligned_cols=52  Identities=13%  Similarity=0.335  Sum_probs=34.1

Q ss_pred             cEEEEecchhhh-ccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhcc
Q 018574          177 KLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFM  228 (354)
Q Consensus       177 ~~vvvDE~h~~~-~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~  228 (354)
                      ++||+|.+-+.. +......+..+.....++.-++.++|+...+.......+.
T Consensus       177 DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq~av~~a~~F~  229 (437)
T PRK00771        177 DVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQQAKNQAKAFH  229 (437)
T ss_pred             CEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccHHHHHHHHHHH
Confidence            789999994432 2234455666666666677788888888776655555543

>TIGR00643 recG ATP-dependent DNA helicase RecG

Probab=96.58  E-value=0.015  Score=55.54  Aligned_cols=76  Identities=14%  Similarity=0.274  Sum_probs=65.3

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccCCCcCCCcEEE
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWARGLDVQQAILFF  345 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~~Gidi~~~~~Vi  345 (354)
                      .+.++++.++++.-|.+.++.+++.    ++++..++|+++..+|...++...+|+.+|+|+|. .+...+++.++.+||
T Consensus       283 ~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~~~~~~~l~lvV  362 (630)
T TIGR00643       283 AGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQEKVEFKRLALVI  362 (630)
T ss_pred             cCCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhccccccccceEE
Confidence            3468999999999999988887653    78999999999999999999999999999999995 555677888888877


Q ss_pred             e
Q 018574          346 F  346 (354)
Q Consensus       346 ~  346 (354)
                      .
T Consensus       363 I  363 (630)
T TIGR00643       363 I  363 (630)
T ss_pred             E
Confidence            4

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.57  E-value=0.0098  Score=48.87  Aligned_cols=53  Identities=21%  Similarity=0.317  Sum_probs=36.7

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhcccc-CCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .|..+++.+++|+|||...+..+.+.+.+ +.+   +++++- .+-..++.+.++.++
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~---vlyvs~-ee~~~~l~~~~~s~g   71 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEK---VLYVSF-EEPPEELIENMKSFG   71 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT-----EEEEES-SS-HHHHHHHHHTTT
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCc---EEEEEe-cCCHHHHHHHHHHcC
Confidence            35778999999999998888877777766 543   777774 344466666665554

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 ....

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.57  E-value=0.0082  Score=51.74  Aligned_cols=41  Identities=17%  Similarity=0.225  Sum_probs=26.3

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHH
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTE  118 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~  118 (354)
                      +.++..+|+|+|||.      ++.......+ .+.+-+.+..|...|.
T Consensus       246 kgvLm~GPPGTGKTl------LAKAvATEc~-tTFFNVSsstltSKwR  286 (491)
T KOG0738|consen  246 KGVLMVGPPGTGKTL------LAKAVATECG-TTFFNVSSSTLTSKWR  286 (491)
T ss_pred             ceeeeeCCCCCcHHH------HHHHHHHhhc-CeEEEechhhhhhhhc
Confidence            579999999999994      4333332222 3566666666665544

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

Probab=96.56  E-value=0.039  Score=47.27  Aligned_cols=73  Identities=16%  Similarity=0.328  Sum_probs=41.2

Q ss_pred             ccCcccCC-CCHHHHHHHHH---CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEE
Q 018574           32 ITSFDAMG-IKDDLLRGIYQ---YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALIL  107 (354)
Q Consensus        32 ~~~~~~~~-~~~~~~~~l~~---~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil  107 (354)
                      ..+|++.| +.+++. .+++   ....+|--++.--+   -.-+.+++.+|+|+|||      +++...++..+.. .|=
T Consensus       147 dvtY~dIGGL~~Qi~-EirE~VELPL~~PElF~~~GI---~PPKGVLLYGPPGTGKT------LLAkAVA~~T~At-FIr  215 (406)
T COG1222         147 DVTYEDIGGLDEQIQ-EIREVVELPLKNPELFEELGI---DPPKGVLLYGPPGTGKT------LLAKAVANQTDAT-FIR  215 (406)
T ss_pred             CCChhhccCHHHHHH-HHHHHhcccccCHHHHHHcCC---CCCCceEeeCCCCCcHH------HHHHHHHhccCce-EEE
Confidence            45666764 444443 3333   33334444433332   33688999999999999      4555544444443 444


Q ss_pred             cCCHHHHH
Q 018574          108 SPTRELAT  115 (354)
Q Consensus       108 ~p~~~l~~  115 (354)
                      +...+|++
T Consensus       216 vvgSElVq  223 (406)
T COG1222         216 VVGSELVQ  223 (406)
T ss_pred             eccHHHHH
Confidence            44556655

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=96.55  E-value=0.0045  Score=52.87  Aligned_cols=41  Identities=20%  Similarity=0.271  Sum_probs=24.0

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchh
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHE  219 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~  219 (354)
                      .+-.++++||+|++...+ .+.   ++-.. .+.-++++.||-.+.
T Consensus       221 krkTilFiDEiHRFNksQ-QD~---fLP~V-E~G~I~lIGATTENP  261 (554)
T KOG2028|consen  221 KRKTILFIDEIHRFNKSQ-QDT---FLPHV-ENGDITLIGATTENP  261 (554)
T ss_pred             cceeEEEeHHhhhhhhhh-hhc---cccee-ccCceEEEecccCCC
Confidence            345789999999974332 111   12222 345578888885433

>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]

Probab=96.54  E-value=0.047  Score=42.69  Aligned_cols=105  Identities=13%  Similarity=0.109  Sum_probs=59.3

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE  149 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (354)
                      ++-.++.+|++||||...+..+..+...+   .++++..|...-             ..+.....-+.|.+.        
T Consensus         4 g~l~~i~gpM~SGKT~eLl~r~~~~~~~g---~~v~vfkp~iD~-------------R~~~~~V~Sr~G~~~--------   59 (201)
T COG1435           4 GWLEFIYGPMFSGKTEELLRRARRYKEAG---MKVLVFKPAIDT-------------RYGVGKVSSRIGLSS--------   59 (201)
T ss_pred             EEEEEEEccCcCcchHHHHHHHHHHHHcC---CeEEEEeccccc-------------ccccceeeeccCCcc--------
Confidence            34468899999999987777666555444   358888885321             111222222222221        


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhh
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY  202 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~  202 (354)
                        .-+++-....+...+....... ..++|.+||++-+.. .....+..+.+.
T Consensus        60 --~A~~i~~~~~i~~~i~~~~~~~-~~~~v~IDEaQF~~~-~~v~~l~~lad~  108 (201)
T COG1435          60 --EAVVIPSDTDIFDEIAALHEKP-PVDCVLIDEAQFFDE-ELVYVLNELADR  108 (201)
T ss_pred             --cceecCChHHHHHHHHhcccCC-CcCEEEEehhHhCCH-HHHHHHHHHHhh
Confidence              2344445555555554432222 278999999997633 334555555554

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=96.53  E-value=0.035  Score=53.60  Aligned_cols=26  Identities=15%  Similarity=0.613  Sum_probs=17.7

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHh
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYR  201 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~  201 (354)
                      ...+||+||+|.+.... ...+..+++
T Consensus       869 ~v~IIILDEID~L~kK~-QDVLYnLFR  894 (1164)
T PTZ00112        869 NVSILIIDEIDYLITKT-QKVLFTLFD  894 (1164)
T ss_pred             cceEEEeehHhhhCccH-HHHHHHHHH
Confidence            45689999999997542 344555544

>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI

Probab=96.52  E-value=0.015  Score=62.06  Aligned_cols=62  Identities=31%  Similarity=0.408  Sum_probs=44.5

Q ss_pred             CChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhH---HHHhhccccCCCceeEEEEcCCHHHHHHHH
Q 018574           55 KPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIA---LTVCQTVDTSSREVQALILSPTRELATQTE  118 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~---~~~~~~~~~~~~~~~~lil~p~~~l~~q~~  118 (354)
                      .+++.|.+++..++.+  +-++|.++.|+|||++.-   -++......  .+.+++.++||..-+.++.
T Consensus      1019 ~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~--~g~~v~glApT~~Aa~~L~ 1085 (1960)
T TIGR02760      1019 RLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFES--EQLQVIGLAPTHEAVGELK 1085 (1960)
T ss_pred             CCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHh--cCCeEEEEeChHHHHHHHH
Confidence            7899999999998864  567889999999997662   223333222  2456888999977666553

This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.49  E-value=0.0095  Score=51.75  Aligned_cols=40  Identities=13%  Similarity=0.226  Sum_probs=27.1

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      ..++||+||+|.+........+..+++..+.+.++++ +++
T Consensus       100 ~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Il-t~n  139 (316)
T PHA02544        100 GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFII-TAN  139 (316)
T ss_pred             CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEE-EcC
Confidence            4579999999988433345666777777666666555 444

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.48  E-value=0.01  Score=51.12  Aligned_cols=64  Identities=20%  Similarity=0.278  Sum_probs=39.9

Q ss_pred             HHHHCCCCCChHHHHHhHhhhh-cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHH
Q 018574           47 GIYQYGFEKPSAIQQRAVMPII-KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTREL  113 (354)
Q Consensus        47 ~l~~~~~~~~~~~Q~~~~~~~~-~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l  113 (354)
                      .+.+.|.  +.+.|.+.+..+. .+.++++.|+||||||+.. -.++..+.......+++.+=...+|
T Consensus       122 ~lv~~g~--~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTll-~aL~~~i~~~~~~~rivtiEd~~El  186 (323)
T PRK13833        122 DYVTSKI--MTEAQASVIRSAIDSRLNIVISGGTGSGKTTLA-NAVIAEIVASAPEDRLVILEDTAEI  186 (323)
T ss_pred             HHHHcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHHhcCCCCceEEEecCCccc
Confidence            3445544  4567776665544 4779999999999999644 4445554332233456666666665

>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]

Probab=96.47  E-value=0.0077  Score=56.46  Aligned_cols=156  Identities=22%  Similarity=0.215  Sum_probs=92.4

Q ss_pred             CChHHHHHhHhhhhc--------CC--cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           55 KPSAIQQRAVMPIIK--------GR--DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~--------~~--~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      .+...|.+++-..-+        |+  .++|-...|.||-....-.++.....+  .+++|++.-+..|-......+..+
T Consensus       264 ~lSALQLEav~YAcQ~He~llPsG~RaGfLiGDGAGVGKGRTvAgiIfeNyLkG--RKrAlW~SVSsDLKfDAERDL~Di  341 (1300)
T KOG1513|consen  264 HLSALQLEAVTYACQAHEVLLPSGQRAGFLIGDGAGVGKGRTVAGIIFENYLKG--RKRALWFSVSSDLKFDAERDLRDI  341 (1300)
T ss_pred             chhHHHHHHHHHHHhhhhhcCCCCccceeeeccCcccCCCceeEEEEehhhhcc--cceeEEEEeccccccchhhchhhc
Confidence            567777777644332        22  457777777777765555555555544  346999999989988888888777


Q ss_pred             ccCcCeEEEEEeC---CcchHHhHHhhcCCCeEEEeCcHHHHHHHhc--CC----------ccCCC-ccEEEEecchhhh
Q 018574          125 GDFINIQAHACVG---GKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR--KT----------LRTRA-IKLLVLDESDEML  188 (354)
Q Consensus       125 ~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~--~~----------~~~~~-~~~vvvDE~h~~~  188 (354)
                      +.. ++.+..+..   +.-..++-...  .-.|+++|+..|.-....  ..          +.-.+ =++|||||||..-
T Consensus       342 gA~-~I~V~alnK~KYakIss~en~n~--krGViFaTYtaLIGEs~~~~~kyrtR~rQllqW~Ge~feGvIvfDECHkAK  418 (1300)
T KOG1513|consen  342 GAT-GIAVHALNKFKYAKISSKENTNT--KRGVIFATYTALIGESQGKGGKYRTRFRQLLQWCGEDFEGVIVFDECHKAK  418 (1300)
T ss_pred             CCC-CccceehhhcccccccccccCCc--cceeEEEeeHhhhhhccccCchHHHHHHHHHHHhhhccceeEEehhhhhhc
Confidence            633 344443321   00000000011  146899998776532221  00          11111 2689999999863


Q ss_pred             c---------cCcHHHHHHHHhhCCCCCcEEEEEeeC
Q 018574          189 S---------RGFKDQIYDVYRYLPPDLQVVLISATL  216 (354)
Q Consensus       189 ~---------~~~~~~~~~i~~~~~~~~~~i~lSaT~  216 (354)
                      .         ...+..+..+-+.+| +.+++.-|||-
T Consensus       419 NL~p~~~~k~TKtG~tVLdLQk~LP-~ARVVYASATG  454 (1300)
T KOG1513|consen  419 NLVPTAGAKSTKTGKTVLDLQKKLP-NARVVYASATG  454 (1300)
T ss_pred             ccccccCCCcCcccHhHHHHHHhCC-CceEEEeeccC
Confidence            2         125567777777774 66789999995

>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]

Probab=96.47  E-value=0.0078  Score=54.80  Aligned_cols=89  Identities=20%  Similarity=0.281  Sum_probs=59.7

Q ss_pred             cCCCCHHH-HHHHHHCCCCCC-------hHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC---CceeEE
Q 018574           37 AMGIKDDL-LRGIYQYGFEKP-------SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS---REVQAL  105 (354)
Q Consensus        37 ~~~~~~~~-~~~l~~~~~~~~-------~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~---~~~~~l  105 (354)
                      +.+..+++ ...|++.--.++       -+-|.+++.. -.++-.+|+|..|||||.+++.-+.+.+...+   .+..+|
T Consensus       186 d~~~~dEvL~~~Lek~ss~~mrdIV~TIQkEQneIIR~-ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vl  264 (747)
T COG3973         186 DTGGRDEVLQRVLEKNSSAKMRDIVETIQKEQNEIIRF-EKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVL  264 (747)
T ss_pred             CCchHHHHHHHHHHhccchhHHHHHHHhhHhHHHHHhc-cCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceE
Confidence            34455554 445655433233       3334444421 23667899999999999999888777765432   223499


Q ss_pred             EEcCCHHHHHHHHHHHHHhcc
Q 018574          106 ILSPTRELATQTEKVILAIGD  126 (354)
Q Consensus       106 il~p~~~l~~q~~~~~~~~~~  126 (354)
                      |+.|.+.+..-+.+.+-.++.
T Consensus       265 vl~PN~vFleYis~VLPeLGe  285 (747)
T COG3973         265 VLGPNRVFLEYISRVLPELGE  285 (747)
T ss_pred             EEcCcHHHHHHHHHhchhhcc
Confidence            999999999999888877773

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.46  E-value=0.016  Score=55.44  Aligned_cols=130  Identities=15%  Similarity=0.189  Sum_probs=66.6

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc-CCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS-PTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL  148 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~-p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (354)
                      ++-+.+.+|+|+|||+++...+.......+ +.++.++. .+.-.+  ..++++.+....++.+.               
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G-~kkV~lit~Dt~Rig--A~eQL~~~a~~~gvpv~---------------  246 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREG-ADQLALLTTDSFRIG--ALEQLRIYGRILGVPVH---------------  246 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcC-CCeEEEecCcccchH--HHHHHHHHHHhCCCCcc---------------
Confidence            345789999999999877766554432221 12344443 222111  12333333333333221               


Q ss_pred             cCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc-CcHHHHHHHHhhCCCCCcEEEEEeeCchh-HHHHHHh
Q 018574          149 EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQVVLISATLPHE-ILEMTTK  226 (354)
Q Consensus       149 ~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~~~~~i~lSaT~~~~-~~~~~~~  226 (354)
                            ++.+++.+...+..    ..+.++|+||=+=+.... .....+..+.....+...++.++||...+ +.+....
T Consensus       247 ------~~~~~~~l~~al~~----~~~~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~~~  316 (767)
T PRK14723        247 ------AVKDAADLRFALAA----LGDKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVVHA  316 (767)
T ss_pred             ------ccCCHHHHHHHHHH----hcCCCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHHHH
Confidence                  22345555444442    224578888876654322 23344444444445566788888887543 3334444


Q ss_pred             c
Q 018574          227 F  227 (354)
Q Consensus       227 ~  227 (354)
                      |
T Consensus       317 f  317 (767)
T PRK14723        317 Y  317 (767)
T ss_pred             H
Confidence            4

>PRK05580 primosome assembly protein PriA; Validated

Probab=96.45  E-value=0.031  Score=53.70  Aligned_cols=76  Identities=16%  Similarity=0.123  Sum_probs=64.2

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC-CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY-NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~-~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      +.++||.+++++.+.++.+.|++. +..+..+||+++..+|.+....+.+|+.+|+|+|.... -..++++.+||.-+
T Consensus       190 g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal-~~p~~~l~liVvDE  266 (679)
T PRK05580        190 GKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSAL-FLPFKNLGLIIVDE  266 (679)
T ss_pred             CCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHh-cccccCCCEEEEEC
Confidence            468999999999999999999764 78899999999999999888889999999999996332 25577888887654

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.44  E-value=0.019  Score=48.61  Aligned_cols=45  Identities=22%  Similarity=0.251  Sum_probs=31.1

Q ss_pred             hHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           63 AVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        63 ~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      +..-+..|.-+++.|++|+|||......+...+...  +.+++|+.-
T Consensus        23 ~~gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~--g~~vl~iS~   67 (271)
T cd01122          23 LTKGLRKGELIILTAGTGVGKTTFLREYALDLITQH--GVRVGTISL   67 (271)
T ss_pred             eeEEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhc--CceEEEEEc
Confidence            334556678899999999999977766666554431  345777764

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>TIGR00596 rad1 DNA repair protein (rad1)

Probab=96.42  E-value=0.011  Score=57.30  Aligned_cols=68  Identities=12%  Similarity=0.035  Sum_probs=59.0

Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCch
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPH  218 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~  218 (354)
                      ...|+++||+.+..-+..+.+++..+..|||||||++........+..+++...+..-+.++|++|..
T Consensus         7 ~ggi~~~T~rIl~~DlL~~ri~~~~itgiiv~~Ahr~~~~~~eaFI~rlyr~~n~~gfIkafSdsP~~   74 (814)
T TIGR00596         7 EGGIFSITSRILVVDLLTGIIPPELITGILVLRADRIIESSQEAFILRLYRQKNKTGFIKAFSDNPEA   74 (814)
T ss_pred             cCCEEEEechhhHhHHhcCCCCHHHccEEEEeecccccccccHHHHHHHHHHhCCCcceEEecCCCcc
Confidence            46899999999988888889999999999999999998776667777888877788889999999864

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit

>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=96.42  E-value=0.12  Score=40.29  Aligned_cols=53  Identities=11%  Similarity=0.369  Sum_probs=29.7

Q ss_pred             CccEEEEecchhhh-ccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhc
Q 018574          175 AIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKF  227 (354)
Q Consensus       175 ~~~~vvvDE~h~~~-~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~  227 (354)
                      ..+++|+|...... +......+..+........-++.+.+.-..+.......+
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~~~~~~~~~  135 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQDAVNQAKAF  135 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChHHHHHHHHH
Confidence            56789999888652 222334444444444455556677776555444444443

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.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=96.41  E-value=0.012  Score=53.07  Aligned_cols=19  Identities=32%  Similarity=0.524  Sum_probs=15.2

Q ss_pred             CcEEEEcCCCCchhhHhHH
Q 018574           71 RDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~   89 (354)
                      .++++.||+|+|||..+-.
T Consensus        37 ~~ilL~GppGtGKTtLA~~   55 (413)
T PRK13342         37 SSMILWGPPGTGKTTLARI   55 (413)
T ss_pred             ceEEEECCCCCCHHHHHHH
Confidence            3789999999999965443

>PTZ00293 thymidine kinase; Provisional

Probab=96.39  E-value=0.027  Score=45.03  Aligned_cols=39  Identities=13%  Similarity=0.135  Sum_probs=27.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      |+--++.||+++|||.-.+..+..+...+   .+++++-|..
T Consensus         4 G~i~vi~GpMfSGKTteLLr~i~~y~~ag---~kv~~~kp~~   42 (211)
T PTZ00293          4 GTISVIIGPMFSGKTTELMRLVKRFTYSE---KKCVVIKYSK   42 (211)
T ss_pred             eEEEEEECCCCChHHHHHHHHHHHHHHcC---CceEEEEecc
Confidence            45568899999999976666655554443   3488888864

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.38  E-value=0.036  Score=46.37  Aligned_cols=52  Identities=10%  Similarity=0.208  Sum_probs=32.7

Q ss_pred             cccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC
Q 018574           29 VEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS   99 (354)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~   99 (354)
                      +..+.+|+++++++-+.+.+..                  ...-++|.+|||||||+ .+..++.++....
T Consensus       102 p~~i~~~e~LglP~i~~~~~~~------------------~~GLILVTGpTGSGKST-TlAamId~iN~~~  153 (353)
T COG2805         102 PSKIPTLEELGLPPIVRELAES------------------PRGLILVTGPTGSGKST-TLAAMIDYINKHK  153 (353)
T ss_pred             CccCCCHHHcCCCHHHHHHHhC------------------CCceEEEeCCCCCcHHH-HHHHHHHHHhccC
Confidence            4556666666666555542221                  12348999999999995 4555666665543

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.38  E-value=0.033  Score=42.53  Aligned_cols=134  Identities=21%  Similarity=0.285  Sum_probs=73.3

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH---HHHHHHHHHHHhccCcCeEEEEEeCCc-----chHH
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE---LATQTEKVILAIGDFINIQAHACVGGK-----SVGE  143 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~---l~~q~~~~~~~~~~~~~~~~~~~~~~~-----~~~~  143 (354)
                      -+.|..++|.|||.+++..++..+..+.   +++++==.+.   -.+  ...++++.   ++.......+.     +..+
T Consensus         4 ~i~vy~g~G~Gkt~~a~g~~~ra~~~g~---~v~~vQFlKg~~~~gE--~~~l~~l~---~v~~~~~g~~~~~~~~~~~~   75 (159)
T cd00561           4 LIQVYTGNGKGKTTAALGLALRALGHGY---RVGVVQFLKGGWKYGE--LKALERLP---NIEIHRMGRGFFWTTENDEE   75 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCC---eEEEEEEeCCCCccCH--HHHHHhCC---CcEEEECCCCCccCCCChHH
Confidence            4567788899999999888887776553   4666322111   111  12233332   33333322211     1111


Q ss_pred             hHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC--cHHHHHHHHhhCCCCCcEEEEEeeCchhHH
Q 018574          144 DIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG--FKDQIYDVYRYLPPDLQVVLISATLPHEIL  221 (354)
Q Consensus       144 ~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~--~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~  221 (354)
                      ....           ......... ..+....+++||+||+-.....+  -.+.+..+++..+...-+++.+-.+++++.
T Consensus        76 ~~~~-----------a~~~~~~a~-~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p~~l~  143 (159)
T cd00561          76 DIAA-----------AAEGWAFAK-EAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAPKELI  143 (159)
T ss_pred             HHHH-----------HHHHHHHHH-HHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCCHHHH
Confidence            0000           001111111 12234578999999999876554  356777888888777777766666677666


Q ss_pred             HHHH
Q 018574          222 EMTT  225 (354)
Q Consensus       222 ~~~~  225 (354)
                      +...
T Consensus       144 e~AD  147 (159)
T cd00561         144 EAAD  147 (159)
T ss_pred             HhCc
Confidence            6543

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=96.37  E-value=0.02  Score=48.16  Aligned_cols=116  Identities=16%  Similarity=0.248  Sum_probs=58.1

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccC----CCceeEEEEcCCHHHHHHHHHHHHH-hccCcCeEEEEEeCCcchHHhH
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTS----SREVQALILSPTRELATQTEKVILA-IGDFINIQAHACVGGKSVGEDI  145 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~----~~~~~~lil~p~~~l~~q~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  145 (354)
                      .+.++.|++|-|||...--....+-...    ..-+-+++-+|...-...++..+-. ++.-..-       ........
T Consensus        62 p~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~-------~~~~~~~~  134 (302)
T PF05621_consen   62 PNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYRP-------RDRVAKLE  134 (302)
T ss_pred             CceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccCC-------CCCHHHHH
Confidence            5789999999999974433332222111    1113455556766655555554432 3211100       00000000


Q ss_pred             HhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC--cHHHHHHHHhhCCCC--CcEEEE
Q 018574          146 RKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG--FKDQIYDVYRYLPPD--LQVVLI  212 (354)
Q Consensus       146 ~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~--~~~~~~~i~~~~~~~--~~~i~l  212 (354)
                                    .....+++     .-..+++||||+|+++...  -.+.+...++.+.+.  ..++++
T Consensus       135 --------------~~~~~llr-----~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~v  186 (302)
T PF05621_consen  135 --------------QQVLRLLR-----RLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGV  186 (302)
T ss_pred             --------------HHHHHHHH-----HcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEe
Confidence                          01112222     2356899999999987543  234455555555544  344443

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.37  E-value=0.033  Score=50.92  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=19.6

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhc
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      .|+.+.+.||+|+|||+.....+...
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~l  374 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRF  374 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            36788899999999997765554433

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.36  E-value=0.038  Score=52.00  Aligned_cols=22  Identities=18%  Similarity=0.259  Sum_probs=17.0

Q ss_pred             EEEEcCCCCchhhHhHHHHhhc
Q 018574           73 VIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      .++.||.|+|||.++...+...
T Consensus        41 ~Lf~Gp~GvGKTtlAr~lAk~L   62 (618)
T PRK14951         41 YLFTGTRGVGKTTVSRILAKSL   62 (618)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5899999999997666554443

>PRK05298 excinuclease ABC subunit B; Provisional

Probab=96.34  E-value=0.012  Score=56.21  Aligned_cols=67  Identities=24%  Similarity=0.295  Sum_probs=52.0

Q ss_pred             CChHHHHHhHhhhhc----C-CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccC
Q 018574           55 KPSAIQQRAVMPIIK----G-RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDF  127 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~  127 (354)
                      .|+..|..++..+.+    + +..++.+.+|+||++.+.. ++...     +..+|||+|+...+.|+++.++.+...
T Consensus        12 ~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~-l~~~~-----~r~vLIVt~~~~~A~~l~~dL~~~~~~   83 (652)
T PRK05298         12 KPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMAN-VIARL-----QRPTLVLAHNKTLAAQLYSEFKEFFPE   83 (652)
T ss_pred             CCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHH-HHHHh-----CCCEEEEECCHHHHHHHHHHHHHhcCC
Confidence            799999999988764    2 2567999999999976543 22221     235999999999999999999888643

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.31  E-value=0.025  Score=50.10  Aligned_cols=20  Identities=25%  Similarity=0.351  Sum_probs=15.6

Q ss_pred             EEEEcCCCCchhhHhHHHHh
Q 018574           73 VIAQAQSGTGKTSMIALTVC   92 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~   92 (354)
                      .++.||+|+|||..+...+-
T Consensus        41 ~L~~Gp~G~GKTtla~~la~   60 (363)
T PRK14961         41 WLLSGTRGVGKTTIARLLAK   60 (363)
T ss_pred             EEEecCCCCCHHHHHHHHHH
Confidence            58999999999976655443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=96.31  E-value=0.034  Score=52.53  Aligned_cols=21  Identities=24%  Similarity=0.325  Sum_probs=16.3

Q ss_pred             EEEEcCCCCchhhHhHHHHhh
Q 018574           73 VIAQAQSGTGKTSMIALTVCQ   93 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~   93 (354)
                      .++.||.|+|||.++...+..
T Consensus        41 yLf~Gp~GvGKTTlAr~lAk~   61 (647)
T PRK07994         41 YLFSGTRGVGKTTIARLLAKG   61 (647)
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            589999999999766655443

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=96.30  E-value=0.013  Score=50.54  Aligned_cols=66  Identities=20%  Similarity=0.343  Sum_probs=41.0

Q ss_pred             HHHHHHCCCCCChHHHHHhHhhh-hcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHH
Q 018574           45 LRGIYQYGFEKPSAIQQRAVMPI-IKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTREL  113 (354)
Q Consensus        45 ~~~l~~~~~~~~~~~Q~~~~~~~-~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l  113 (354)
                      +..+.+.|.  +.+.|.+.+... ..++++++.|+||+|||. ++-.++..+....+..+++++-.+.++
T Consensus       124 l~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTT-ll~aL~~~~~~~~~~~rivtIEd~~El  190 (319)
T PRK13894        124 LDQYVERGI--MTAAQREAIIAAVRAHRNILVIGGTGSGKTT-LVNAIINEMVIQDPTERVFIIEDTGEI  190 (319)
T ss_pred             HHHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHH-HHHHHHHhhhhcCCCceEEEEcCCCcc
Confidence            344545554  356677777654 457899999999999995 444444443222233457776666655

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.30  E-value=0.021  Score=48.95  Aligned_cols=66  Identities=20%  Similarity=0.379  Sum_probs=39.7

Q ss_pred             HHHHHHCCCCCChHHHHHhHhh-hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHH
Q 018574           45 LRGIYQYGFEKPSAIQQRAVMP-IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTREL  113 (354)
Q Consensus        45 ~~~l~~~~~~~~~~~Q~~~~~~-~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l  113 (354)
                      ++.+.+.|.  +.+.|.+.+.. +..++++++.|+||||||+.. -.++..+.......+++.+=...++
T Consensus       108 l~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll-~al~~~i~~~~~~~ri~tiEd~~El  174 (299)
T TIGR02782       108 LDDYVEAGI--MTAAQRDVLREAVLARKNILVVGGTGSGKTTLA-NALLAEIAKNDPTDRVVIIEDTREL  174 (299)
T ss_pred             HHHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHH-HHHHHHhhccCCCceEEEECCchhh
Confidence            344444443  34445555544 445779999999999999544 4445555432233457777666665

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.

>TIGR00580 mfd transcription-repair coupling factor (mfd)

Probab=96.28  E-value=0.027  Score=55.76  Aligned_cols=75  Identities=19%  Similarity=0.233  Sum_probs=64.6

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccCCCcCCCcEEEe
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWARGLDVQQAILFFF  346 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~~Gidi~~~~~Vi~  346 (354)
                      +.+++|.++|...|.+.++.+++.    ++++..+++..+..++.++++.+.+|+.+|+|+|. .+...+.+.++.+||.
T Consensus       500 g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll~~~v~f~~L~llVI  579 (926)
T TIGR00580       500 GKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLLQKDVKFKDLGLLII  579 (926)
T ss_pred             CCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHhhCCCCcccCCEEEe
Confidence            468999999999999999887753    67788899999999999999999999999999995 6666788888888775

All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=96.28  E-value=0.054  Score=50.97  Aligned_cols=39  Identities=13%  Similarity=0.335  Sum_probs=24.3

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ...+++||||+|.+.... .+.+.+.+..-+....+|+.+
T Consensus       131 a~~KVvIIDEad~Ls~~a-~naLLKtLEePp~~~~fIl~t  169 (598)
T PRK09111        131 ARYKVYIIDEVHMLSTAA-FNALLKTLEEPPPHVKFIFAT  169 (598)
T ss_pred             CCcEEEEEEChHhCCHHH-HHHHHHHHHhCCCCeEEEEEe
Confidence            467899999999985433 334444455544555555544

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=96.27  E-value=0.026  Score=50.13  Aligned_cols=18  Identities=33%  Similarity=0.565  Sum_probs=15.1

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+++.||+|+|||.+.-
T Consensus        41 ~~i~I~G~~GtGKT~l~~   58 (365)
T TIGR02928        41 SNVFIYGKTGTGKTAVTK   58 (365)
T ss_pred             CcEEEECCCCCCHHHHHH
Confidence            579999999999995443

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.

>TIGR00595 priA primosomal protein N'

Probab=96.26  E-value=0.042  Score=50.79  Aligned_cols=77  Identities=12%  Similarity=0.071  Sum_probs=63.8

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC-CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY-NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~-~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      +++++|.++++..+.++++.|++. +..+..+||+++..+|.+......+|+.+|+|+|...- =..++++..||.-+.
T Consensus        25 g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVGTrsal-f~p~~~l~lIIVDEe  102 (505)
T TIGR00595        25 GKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEILVVIGTRSAL-FLPFKNLGLIIVDEE  102 (505)
T ss_pred             CCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCCEEECChHHH-cCcccCCCEEEEECC
Confidence            468999999999999999999764 67889999999999999988888999999999996332 245778888876443

All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=96.26  E-value=0.056  Score=49.74  Aligned_cols=24  Identities=17%  Similarity=0.209  Sum_probs=18.2

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      ...++.||+|+|||.++-..+...
T Consensus        44 ~a~Lf~Gp~G~GKTT~ArilAk~L   67 (507)
T PRK06645         44 GGYLLTGIRGVGKTTSARIIAKAV   67 (507)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999997666554433

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.26  E-value=0.061  Score=45.42  Aligned_cols=132  Identities=20%  Similarity=0.308  Sum_probs=67.0

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc-CC-HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS-PT-RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL  148 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~-p~-~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (354)
                      +-+++.+|+|+|||+...-.+......   +.+++++. .+ +.-+   .+++..+....++.+.....+.+        
T Consensus        73 ~vi~l~G~~G~GKTTt~akLA~~l~~~---g~~V~li~~D~~r~~a---~~ql~~~~~~~~i~~~~~~~~~d--------  138 (272)
T TIGR00064        73 NVILFVGVNGVGKTTTIAKLANKLKKQ---GKSVLLAAGDTFRAAA---IEQLEEWAKRLGVDVIKQKEGAD--------  138 (272)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHHhc---CCEEEEEeCCCCCHHH---HHHHHHHHHhCCeEEEeCCCCCC--------
Confidence            457788999999998777666544322   33455554 32 2221   12333333333333321111111        


Q ss_pred             cCCCeEEEeCcHH-HHHHHhcCCccCCCccEEEEecchhhhc-cCcHHHHHHHHhhCC------CCCcEEEEEeeCchhH
Q 018574          149 EHGVHVVSGTPGR-VCDMIKRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRYLP------PDLQVVLISATLPHEI  220 (354)
Q Consensus       149 ~~~~~iiv~T~~~-l~~~~~~~~~~~~~~~~vvvDE~h~~~~-~~~~~~~~~i~~~~~------~~~~~i~lSaT~~~~~  220 (354)
                                |.. ....+..  .....+++|++|=+-+... ......+..+.+..+      ++..++.++|+...+.
T Consensus       139 ----------p~~~~~~~l~~--~~~~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~  206 (272)
T TIGR00064       139 ----------PAAVAFDAIQK--AKARNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNA  206 (272)
T ss_pred             ----------HHHHHHHHHHH--HHHCCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHH
Confidence                      111 1111111  1123568899997765432 233445666655544      5667888999977665


Q ss_pred             HHHHHhcc
Q 018574          221 LEMTTKFM  228 (354)
Q Consensus       221 ~~~~~~~~  228 (354)
                      ......+.
T Consensus       207 ~~~~~~f~  214 (272)
T TIGR00064       207 LEQAKVFN  214 (272)
T ss_pred             HHHHHHHH
Confidence            55454444

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK05973 replicative DNA helicase; Provisional

Probab=96.25  E-value=0.016  Score=47.47  Aligned_cols=85  Identities=15%  Similarity=0.218  Sum_probs=54.0

Q ss_pred             ccCCCCHHHHHHHHHCCCC----------CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEE
Q 018574           36 DAMGIKDDLLRGIYQYGFE----------KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQAL  105 (354)
Q Consensus        36 ~~~~~~~~~~~~l~~~~~~----------~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~l  105 (354)
                      ...++++.+-+...+.||.          .++| ..+...-+..|.-++|.|+||+|||...+..+...+..+   .+++
T Consensus        21 ~~~~~~~~~~~~a~~~g~~~w~~~~~~~~~~~p-~~~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~G---e~vl   96 (237)
T PRK05973         21 QNIPLHEALDRIAAEEGFSSWSLLAAKAAATTP-AEELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMKSG---RTGV   96 (237)
T ss_pred             cCCcHHHHHHHHHHHhccchHHHHHHhccCCCC-HHHhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcC---CeEE
Confidence            4456777777777777774          2333 122333444567889999999999987777766665433   3477


Q ss_pred             EEcCCHHHHHHHHHHHHHhc
Q 018574          106 ILSPTRELATQTEKVILAIG  125 (354)
Q Consensus       106 il~p~~~l~~q~~~~~~~~~  125 (354)
                      |++-- +-..|+.+.+..++
T Consensus        97 yfSlE-es~~~i~~R~~s~g  115 (237)
T PRK05973         97 FFTLE-YTEQDVRDRLRALG  115 (237)
T ss_pred             EEEEe-CCHHHHHHHHHHcC
Confidence            77543 33566666666554

>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]

Probab=96.24  E-value=0.035  Score=51.64  Aligned_cols=85  Identities=16%  Similarity=0.273  Sum_probs=67.1

Q ss_pred             HHHHHHhhC-CCCcEEEEcCchhhHHH----HHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccC
Q 018574          262 TLCDLYDTL-TITQAVIFCNTKRKVDW----LTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWARG  335 (354)
Q Consensus       262 ~l~~~l~~~-~~~~~lvf~~~~~~~~~----l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~~G  335 (354)
                      .+...+... .+.++.+..+|.=-|++    +.+.|...|+++..+.|.+....|.++++...+|+.+++|+|- .+...
T Consensus       300 A~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~  379 (677)
T COG1200         300 ALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDK  379 (677)
T ss_pred             HHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhhcc
Confidence            333333333 34589999999555554    5555556699999999999999999999999999999999994 67779


Q ss_pred             CCcCCCcEEEe
Q 018574          336 LDVQQAILFFF  346 (354)
Q Consensus       336 idi~~~~~Vi~  346 (354)
                      +++.++..||.
T Consensus       380 V~F~~LgLVIi  390 (677)
T COG1200         380 VEFHNLGLVII  390 (677)
T ss_pred             eeecceeEEEE
Confidence            99999988874

>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA

Probab=96.23  E-value=0.025  Score=52.86  Aligned_cols=156  Identities=16%  Similarity=0.128  Sum_probs=87.4

Q ss_pred             CChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHH-HHHHHhccCcCeE
Q 018574           55 KPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTE-KVILAIGDFINIQ  131 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~-~~~~~~~~~~~~~  131 (354)
                      ..+|||.+.++.+...  +.+++..++-+|||.+.+-.+...+....  ..+|++.|+...+..+. +++.-.......-
T Consensus        16 ~~~Py~~eimd~~~~~~v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~~P--~~~l~v~Pt~~~a~~~~~~rl~Pmi~~sp~l   93 (557)
T PF05876_consen   16 DRTPYLREIMDALSDPSVREVVVMKSAQVGKTELLLNWIGYSIDQDP--GPMLYVQPTDDAAKDFSKERLDPMIRASPVL   93 (557)
T ss_pred             CCChhHHHHHHhcCCcCccEEEEEEcchhhHhHHHHhhceEEEEeCC--CCEEEEEEcHHHHHHHHHHHHHHHHHhCHHH
Confidence            5789999999988764  58899999999999866666666655443  35899999999998887 4454433222110


Q ss_pred             EEEEeC---CcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc----C-cHHHHHHHHhhC
Q 018574          132 AHACVG---GKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR----G-FKDQIYDVYRYL  203 (354)
Q Consensus       132 ~~~~~~---~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~----~-~~~~~~~i~~~~  203 (354)
                      -..+..   ....+....+...+..+.+....+-      ..+.....+++++||++.+...    + .......=.+..
T Consensus        94 ~~~~~~~~~~~~~~t~~~k~f~gg~l~~~ga~S~------~~l~s~~~r~~~~DEvD~~p~~~~~eGdp~~la~~R~~tf  167 (557)
T PF05876_consen   94 RRKLSPSKSRDSGNTILYKRFPGGFLYLVGANSP------SNLRSRPARYLLLDEVDRYPDDVGGEGDPVELAEKRTKTF  167 (557)
T ss_pred             HHHhCchhhcccCCchhheecCCCEEEEEeCCCC------cccccCCcCEEEEechhhccccCccCCCHHHHHHHHHhhh
Confidence            011111   1111111111122344443332111      2233456789999999998432    1 112222211222


Q ss_pred             CCCCcEEEEEeeCchh
Q 018574          204 PPDLQVVLISATLPHE  219 (354)
Q Consensus       204 ~~~~~~i~lSaT~~~~  219 (354)
                       .....+++..||...
T Consensus       168 -~~~~K~~~~STPt~~  182 (557)
T PF05876_consen  168 -GSNRKILRISTPTIE  182 (557)
T ss_pred             -ccCcEEEEeCCCCCC
Confidence             234467777777544

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.22  E-value=0.052  Score=46.63  Aligned_cols=26  Identities=15%  Similarity=0.224  Sum_probs=19.6

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      ++++++.||+|+|||..+...+...+
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~  181 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELA  181 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999976665544444

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.20  E-value=0.063  Score=50.29  Aligned_cols=39  Identities=13%  Similarity=0.355  Sum_probs=23.9

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ....++|+||+|.+.... .+.+.+.+..-+....+|+.+
T Consensus       117 ~~~KVvIIDEah~Lt~~A-~NALLK~LEEpp~~~~fIL~t  155 (584)
T PRK14952        117 SRYRIFIVDEAHMVTTAG-FNALLKIVEEPPEHLIFIFAT  155 (584)
T ss_pred             CCceEEEEECCCcCCHHH-HHHHHHHHhcCCCCeEEEEEe
Confidence            467899999999985443 334444455444454444444

>PRK04195 replication factor C large subunit; Provisional

Probab=96.19  E-value=0.021  Score=52.65  Aligned_cols=21  Identities=24%  Similarity=0.374  Sum_probs=16.6

Q ss_pred             CCcEEEEcCCCCchhhHhHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      .+.+++.||+|+|||..+-..
T Consensus        39 ~~~lLL~GppG~GKTtla~al   59 (482)
T PRK04195         39 KKALLLYGPPGVGKTSLAHAL   59 (482)
T ss_pred             CCeEEEECCCCCCHHHHHHHH
Confidence            467999999999999654433

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.19  E-value=0.078  Score=44.30  Aligned_cols=106  Identities=13%  Similarity=0.193  Sum_probs=60.5

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      +.+++.+|+|+||+..+-      ......+ .+.+-+.+..|+..|..+-+++..                        
T Consensus       167 rgiLLyGPPGTGKSYLAK------AVATEAn-STFFSvSSSDLvSKWmGESEkLVk------------------------  215 (439)
T KOG0739|consen  167 RGILLYGPPGTGKSYLAK------AVATEAN-STFFSVSSSDLVSKWMGESEKLVK------------------------  215 (439)
T ss_pred             eeEEEeCCCCCcHHHHHH------HHHhhcC-CceEEeehHHHHHHHhccHHHHHH------------------------
Confidence            358999999999994322      2222222 367778888888877654443320                        


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC-------cHHHHHHHHhhC----CCCCcEEEEEeeCchh
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-------FKDQIYDVYRYL----PPDLQVVLISATLPHE  219 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~-------~~~~~~~i~~~~----~~~~~~i~lSaT~~~~  219 (354)
                                .|..+.+.     ...++|++||++.+....       .++.=.+++-.+    ..+--++.+.||-.+.
T Consensus       216 ----------nLFemARe-----~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATNiPw  280 (439)
T KOG0739|consen  216 ----------NLFEMARE-----NKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATNIPW  280 (439)
T ss_pred             ----------HHHHHHHh-----cCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecCCCch
Confidence                      11122221     255889999999886432       111111222222    2345688899997665


Q ss_pred             HHH
Q 018574          220 ILE  222 (354)
Q Consensus       220 ~~~  222 (354)
                      ...
T Consensus       281 ~LD  283 (439)
T KOG0739|consen  281 VLD  283 (439)
T ss_pred             hHH
Confidence            544

>PRK14873 primosome assembly protein PriA; Provisional

Probab=96.19  E-value=0.045  Score=52.11  Aligned_cols=93  Identities=16%  Similarity=0.024  Sum_probs=74.0

Q ss_pred             chHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcC-C-CeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccc
Q 018574          258 WKFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGY-N-FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWA  333 (354)
Q Consensus       258 ~~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~-~-~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~  333 (354)
                      .|.+.+..+++..  .++.+||.++.+..+.++.+.|++. + ..+..+|+++++.+|.+......+|+.+|+|+|..+-
T Consensus       172 GKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRSAv  251 (665)
T PRK14873        172 DWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRSAV  251 (665)
T ss_pred             cHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcceeE
Confidence            4666666666533  3567999999999999999999865 4 6799999999999999999999999999999996332


Q ss_pred             cCCCcCCCcEEEecCCCC
Q 018574          334 RGLDVQQAILFFFLFLFC  351 (354)
Q Consensus       334 ~Gidi~~~~~Vi~~~~p~  351 (354)
                       =.-+++...||..+--.
T Consensus       252 -FaP~~~LgLIIvdEEhd  268 (665)
T PRK14873        252 -FAPVEDLGLVAIWDDGD  268 (665)
T ss_pred             -EeccCCCCEEEEEcCCc
Confidence             34567788888765443

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.18  E-value=0.088  Score=46.87  Aligned_cols=125  Identities=13%  Similarity=0.143  Sum_probs=62.6

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc-CC-HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS-PT-RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE  149 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~-p~-~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (354)
                      -+++.+|+|+|||+.....+.......  +.++.++. .+ +..+.   .++..+....++....               
T Consensus       225 vi~lvGptGvGKTTtaaKLA~~~~~~~--G~~V~Lit~Dt~R~aA~---eQLk~yAe~lgvp~~~---------------  284 (432)
T PRK12724        225 VVFFVGPTGSGKTTSIAKLAAKYFLHM--GKSVSLYTTDNYRIAAI---EQLKRYADTMGMPFYP---------------  284 (432)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhc--CCeEEEecccchhhhHH---HHHHHHHHhcCCCeee---------------
Confidence            478999999999987777665443222  22344433 32 22222   2333333222221110               


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhh-ccCcHHHHHHHHhhCC---CCCcEEEEEeeCch-hHHHHH
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLP---PDLQVVLISATLPH-EILEMT  224 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~-~~~~~~~~~~i~~~~~---~~~~~i~lSaT~~~-~~~~~~  224 (354)
                            +..+..+...+.     ....++|++|=+-... +......+..+++...   +...++.++||... ......
T Consensus       285 ------~~~~~~l~~~l~-----~~~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~  353 (432)
T PRK12724        285 ------VKDIKKFKETLA-----RDGSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVL  353 (432)
T ss_pred             ------hHHHHHHHHHHH-----hCCCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHH
Confidence                  011222222222     1356889999654432 2223445555555432   23467889999977 444444


Q ss_pred             Hhc
Q 018574          225 TKF  227 (354)
Q Consensus       225 ~~~  227 (354)
                      ..+
T Consensus       354 ~~f  356 (432)
T PRK12724        354 KAY  356 (432)
T ss_pred             HHh
Confidence            444

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.18  E-value=0.091  Score=46.07  Aligned_cols=128  Identities=15%  Similarity=0.197  Sum_probs=64.2

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc-CCHH--HHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS-PTRE--LATQTEKVILAIGDFINIQAHACVGGKSVGEDIR  146 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~-p~~~--l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (354)
                      ++.+++.+|+|+|||....-.+......+   .++.++. .+.-  -..||....+    ..++.+.             
T Consensus       206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g---~~V~lItaDtyR~gAveQLk~yae----~lgvpv~-------------  265 (407)
T PRK12726        206 HRIISLIGQTGVGKTTTLVKLGWQLLKQN---RTVGFITTDTFRSGAVEQFQGYAD----KLDVELI-------------  265 (407)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcC---CeEEEEeCCccCccHHHHHHHHhh----cCCCCEE-------------
Confidence            45678999999999987776665443332   2344443 3322  2445444332    2222211             


Q ss_pred             hhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhh-ccCcHHHHHHHHhhCCCCCcEEEEEeeCch-hHHHHH
Q 018574          147 KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQVVLISATLPH-EILEMT  224 (354)
Q Consensus       147 ~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~-~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~-~~~~~~  224 (354)
                              ...+|+.+...+.... .....++|++|=+=+.. +......+..+.....++.-++.+|++... +.....
T Consensus       266 --------~~~dp~dL~~al~~l~-~~~~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~~~~d~~~i~  336 (407)
T PRK12726        266 --------VATSPAELEEAVQYMT-YVNCVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGMKSADVMTIL  336 (407)
T ss_pred             --------ecCCHHHHHHHHHHHH-hcCCCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCcccHHHHHHHH
Confidence                    1234444433332111 11346788888665432 222344555555555454445667776543 444444


Q ss_pred             Hh
Q 018574          225 TK  226 (354)
Q Consensus       225 ~~  226 (354)
                      ..
T Consensus       337 ~~  338 (407)
T PRK12726        337 PK  338 (407)
T ss_pred             Hh
Confidence            44

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=96.17  E-value=0.079  Score=50.63  Aligned_cols=42  Identities=21%  Similarity=0.328  Sum_probs=37.5

Q ss_pred             ccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCc
Q 018574          176 IKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLP  217 (354)
Q Consensus       176 ~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~  217 (354)
                      .=++|+|+.|.+.+......+..++++.|.+..+++.|-+-|
T Consensus       130 pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP  171 (894)
T COG2909         130 PLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRP  171 (894)
T ss_pred             ceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCC
Confidence            358999999999999889999999999999999998888754

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.14  E-value=0.038  Score=50.22  Aligned_cols=52  Identities=21%  Similarity=0.296  Sum_probs=35.1

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      |.-+++.+++|+|||...+..+......   +.+++|+.- .+-..|+.....+++
T Consensus        80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~---g~~vlYvs~-Ees~~qi~~ra~rlg  131 (446)
T PRK11823         80 GSVVLIGGDPGIGKSTLLLQVAARLAAA---GGKVLYVSG-EESASQIKLRAERLG  131 (446)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc---CCeEEEEEc-cccHHHHHHHHHHcC
Confidence            5578999999999997766665554422   345888775 344566666665554

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.13  E-value=0.1  Score=45.36  Aligned_cols=38  Identities=18%  Similarity=0.388  Sum_probs=24.2

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ...+|++||+|.+.... ...+..++...+....+++.+
T Consensus       102 ~~~vviiDe~~~l~~~~-~~~L~~~le~~~~~~~lIl~~  139 (319)
T PRK00440        102 PFKIIFLDEADNLTSDA-QQALRRTMEMYSQNTRFILSC  139 (319)
T ss_pred             CceEEEEeCcccCCHHH-HHHHHHHHhcCCCCCeEEEEe
Confidence            45799999999885432 345556666655555555543

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.12  E-value=0.057  Score=44.44  Aligned_cols=54  Identities=17%  Similarity=0.169  Sum_probs=33.2

Q ss_pred             hcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           68 IKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      ..|..+++.+++|+|||..+...+...+..   +..++++.- .....++.+....++
T Consensus        18 ~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~---g~~~~~is~-e~~~~~i~~~~~~~g   71 (229)
T TIGR03881        18 PRGFFVAVTGEPGTGKTIFCLHFAYKGLRD---GDPVIYVTT-EESRESIIRQAAQFG   71 (229)
T ss_pred             cCCeEEEEECCCCCChHHHHHHHHHHHHhc---CCeEEEEEc-cCCHHHHHHHHHHhC
Confidence            346788999999999997666555544433   334667664 333445444444443

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.

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

Probab=96.11  E-value=0.021  Score=54.95  Aligned_cols=40  Identities=18%  Similarity=0.252  Sum_probs=24.2

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchh
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHE  219 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~  219 (354)
                      +..++|+||+|.+.... .   ..++..+. +.+++++++|-.+.
T Consensus       109 ~~~IL~IDEIh~Ln~~q-Q---daLL~~lE-~g~IiLI~aTTenp  148 (725)
T PRK13341        109 KRTILFIDEVHRFNKAQ-Q---DALLPWVE-NGTITLIGATTENP  148 (725)
T ss_pred             CceEEEEeChhhCCHHH-H---HHHHHHhc-CceEEEEEecCCCh
Confidence            45689999999974332 2   22333332 45677788775443

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.11  E-value=0.061  Score=49.61  Aligned_cols=21  Identities=24%  Similarity=0.327  Sum_probs=16.2

Q ss_pred             EEEEcCCCCchhhHhHHHHhh
Q 018574           73 VIAQAQSGTGKTSMIALTVCQ   93 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~   93 (354)
                      .++.||+|+|||.++...+..
T Consensus        39 ~Lf~GppGtGKTTlA~~lA~~   59 (504)
T PRK14963         39 YLFSGPRGVGKTTTARLIAMA   59 (504)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            499999999999776554433

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.10  E-value=0.014  Score=49.59  Aligned_cols=26  Identities=23%  Similarity=0.238  Sum_probs=19.7

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVD   96 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~   96 (354)
                      +.+++.+|||+|||+.....+.....
T Consensus       195 ~vi~~vGptGvGKTTt~~kLa~~~~~  220 (282)
T TIGR03499       195 GVIALVGPTGVGKTTTLAKLAARFVL  220 (282)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            46789999999999877666555443

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=96.10  E-value=0.0085  Score=47.05  Aligned_cols=46  Identities=22%  Similarity=0.391  Sum_probs=28.0

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ  116 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q  116 (354)
                      +.+++++++.||+|+|||..+...+...+..   +..++++ +..+|...
T Consensus        44 ~~~~~~l~l~G~~G~GKThLa~ai~~~~~~~---g~~v~f~-~~~~L~~~   89 (178)
T PF01695_consen   44 IENGENLILYGPPGTGKTHLAVAIANEAIRK---GYSVLFI-TASDLLDE   89 (178)
T ss_dssp             -SC--EEEEEESTTSSHHHHHHHHHHHHHHT---T--EEEE-EHHHHHHH
T ss_pred             cccCeEEEEEhhHhHHHHHHHHHHHHHhccC---CcceeEe-ecCceecc
Confidence            3457899999999999998766665555543   3345554 44455554

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.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=96.09  E-value=0.088  Score=41.81  Aligned_cols=25  Identities=12%  Similarity=0.137  Sum_probs=18.0

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      ...++.||+|.|||..+...+...+
T Consensus        15 ~~~L~~G~~G~gkt~~a~~~~~~l~   39 (188)
T TIGR00678        15 HAYLFAGPEGVGKELLALALAKALL   39 (188)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHc
Confidence            3578999999999976655544433

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.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.07  E-value=0.071  Score=46.24  Aligned_cols=39  Identities=15%  Similarity=0.171  Sum_probs=27.4

Q ss_pred             hHHHHHhHhhhhc--C---CcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           57 SAIQQRAVMPIIK--G---RDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        57 ~~~Q~~~~~~~~~--~---~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      +|+|...|..+..  +   ...++.||.|.|||..+...+-..+
T Consensus         3 yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~~a~~ll   46 (325)
T PRK08699          3 YPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARFAAQALL   46 (325)
T ss_pred             CCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHHHHHHHc
Confidence            5777777777664  2   2478999999999976665544433

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=96.04  E-value=0.038  Score=48.85  Aligned_cols=45  Identities=22%  Similarity=0.442  Sum_probs=29.9

Q ss_pred             CccEEEEecchhhhcc-CcHHHHHHHHhhCCCCC-cEEEEEeeCchh
Q 018574          175 AIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDL-QVVLISATLPHE  219 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~~~-~~i~lSaT~~~~  219 (354)
                      +.+++++|.++.+... .+...+..+++.+.... |+++.|..+|.+
T Consensus       175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~  221 (408)
T COG0593         175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKE  221 (408)
T ss_pred             ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchh
Confidence            4688999999998654 45667777777665544 555555444444

>PF05729 NACHT: NACHT domain

Probab=96.04  E-value=0.057  Score=41.64  Aligned_cols=26  Identities=15%  Similarity=0.302  Sum_probs=17.9

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhcccc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDT   97 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~   97 (354)
                      -++|.|++|+|||......+......
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~   27 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEE   27 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhc
Confidence            47899999999996555444443333

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=96.04  E-value=0.044  Score=50.58  Aligned_cols=39  Identities=13%  Similarity=0.307  Sum_probs=24.9

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ..+.++|+||+|.+.... .+.+...+..-++...+++.+
T Consensus       116 ~~~KVvIIDEad~Lt~~A-~NALLK~LEEpp~~t~FIL~t  154 (535)
T PRK08451        116 ARFKIFIIDEVHMLTKEA-FNALLKTLEEPPSYVKFILAT  154 (535)
T ss_pred             CCeEEEEEECcccCCHHH-HHHHHHHHhhcCCceEEEEEE
Confidence            467899999999985433 344455555545555555544

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.03  E-value=0.049  Score=50.63  Aligned_cols=39  Identities=13%  Similarity=0.283  Sum_probs=23.6

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      .++.++|+||+|.+.... .+.+.+.+..-+....+|+.|
T Consensus       118 ~~~kVvIIDEad~ls~~a-~naLLK~LEepp~~~~fIL~t  156 (527)
T PRK14969        118 GRFKVYIIDEVHMLSKSA-FNAMLKTLEEPPEHVKFILAT  156 (527)
T ss_pred             CCceEEEEcCcccCCHHH-HHHHHHHHhCCCCCEEEEEEe
Confidence            467899999999985433 233444444444455555544

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.02  E-value=0.073  Score=44.68  Aligned_cols=38  Identities=16%  Similarity=0.122  Sum_probs=28.1

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      .|.-++|.+++|+|||...+..+...+..+   .+++|+.-
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~G---e~vlyis~   72 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQASRG---NPVLFVTV   72 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhCC---CcEEEEEe
Confidence            456789999999999987777766655433   34787773

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=96.02  E-value=0.063  Score=50.84  Aligned_cols=39  Identities=13%  Similarity=0.270  Sum_probs=23.8

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      .+.+++||||+|.+.... .+.+.+.+..-+....+|+.|
T Consensus       118 gk~KVIIIDEad~Ls~~A-~NALLKtLEEPp~~v~fILaT  156 (709)
T PRK08691        118 GKYKVYIIDEVHMLSKSA-FNAMLKTLEEPPEHVKFILAT  156 (709)
T ss_pred             CCcEEEEEECccccCHHH-HHHHHHHHHhCCCCcEEEEEe
Confidence            357899999999874433 334444455444555555544

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.00  E-value=0.078  Score=49.96  Aligned_cols=39  Identities=13%  Similarity=0.371  Sum_probs=23.4

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      .+++++||||+|.+.... .+.+.+.+..-+....+|+.|
T Consensus       118 ~~~KVvIIdev~~Lt~~a-~naLLk~LEepp~~~~fIl~t  156 (576)
T PRK14965        118 SRYKIFIIDEVHMLSTNA-FNALLKTLEEPPPHVKFIFAT  156 (576)
T ss_pred             CCceEEEEEChhhCCHHH-HHHHHHHHHcCCCCeEEEEEe
Confidence            467899999999885433 334444555444444444433

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.98  E-value=0.16  Score=45.56  Aligned_cols=131  Identities=11%  Similarity=0.119  Sum_probs=64.4

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC--CHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP--TRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE  149 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p--~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (354)
                      -+.+.+++|+|||+...-.+......   +.+++++..  .+.-+.   ++++.+....++.+.....+.+...-.    
T Consensus       102 vi~lvG~~GvGKTTtaaKLA~~l~~~---G~kV~lV~~D~~R~aA~---eQLk~~a~~~~vp~~~~~~~~dp~~i~----  171 (429)
T TIGR01425       102 VIMFVGLQGSGKTTTCTKLAYYYQRK---GFKPCLVCADTFRAGAF---DQLKQNATKARIPFYGSYTESDPVKIA----  171 (429)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC---CCCEEEEcCcccchhHH---HHHHHHhhccCCeEEeecCCCCHHHHH----
Confidence            46899999999997776655543222   334555543  233222   333333333344433222221110000    


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc-cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhc
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKF  227 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~-~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~  227 (354)
                               .+.+.. +.     ...+++||+|=+-+... ......+..+.+...++..++.++|+...+.......|
T Consensus       172 ---------~~~l~~-~~-----~~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~a~~F  235 (429)
T TIGR01425       172 ---------SEGVEK-FK-----KENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQAKAF  235 (429)
T ss_pred             ---------HHHHHH-HH-----hCCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHHHHHHH
Confidence                     000101 11     12456777776654322 22445555555555566667778888766555555544

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.98  E-value=0.066  Score=49.67  Aligned_cols=39  Identities=13%  Similarity=0.246  Sum_probs=24.3

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ....++|+||+|.+.... .+.+.+.+..-+....+++.|
T Consensus       118 g~~kViIIDEa~~ls~~a-~naLLK~LEepp~~v~fIL~T  156 (546)
T PRK14957        118 GRYKVYLIDEVHMLSKQS-FNALLKTLEEPPEYVKFILAT  156 (546)
T ss_pred             CCcEEEEEechhhccHHH-HHHHHHHHhcCCCCceEEEEE
Confidence            356899999999985433 344445555544455555544

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=95.97  E-value=0.036  Score=43.56  Aligned_cols=146  Identities=15%  Similarity=0.136  Sum_probs=76.4

Q ss_pred             hcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHh
Q 018574           68 IKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRK  147 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (354)
                      .....+.+..++|.|||.+++..++..+..+.   +++++==.+.-..  ..+.+.+....++.......+.....    
T Consensus        20 ~~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~---~V~ivQFlKg~~~--~GE~~~l~~l~~v~~~~~g~~~~~~~----   90 (191)
T PRK05986         20 EEKGLLIVHTGNGKGKSTAAFGMALRAVGHGK---KVGVVQFIKGAWS--TGERNLLEFGGGVEFHVMGTGFTWET----   90 (191)
T ss_pred             ccCCeEEEECCCCCChHHHHHHHHHHHHHCCC---eEEEEEEecCCCc--cCHHHHHhcCCCcEEEECCCCCcccC----
Confidence            35678999999999999999888888876664   3565543322110  11122221111233322221111000    


Q ss_pred             hcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc--HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHH
Q 018574          148 LEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF--KDQIYDVYRYLPPDLQVVLISATLPHEILEMTT  225 (354)
Q Consensus       148 ~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~--~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~  225 (354)
                        ....--............ ..+....+++||+||+-...+.++  ...+..+++..|...-+|+..-.+|+++.+...
T Consensus        91 --~~~~e~~~~~~~~~~~a~-~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p~~Lie~AD  167 (191)
T PRK05986         91 --QDRERDIAAAREGWEEAK-RMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAPRELIEAAD  167 (191)
T ss_pred             --CCcHHHHHHHHHHHHHHH-HHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhCc
Confidence              000000000111111111 223345789999999998877664  566777777777666666555555666655544

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.96  E-value=0.075  Score=46.97  Aligned_cols=52  Identities=17%  Similarity=0.259  Sum_probs=34.1

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      |.-+++.+++|+|||...+..+......   +.+++|+.-. +-..|+..+..+++
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a~~---g~~VlYvs~E-Es~~qi~~Ra~rlg  133 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLAKR---GGKVLYVSGE-ESPEQIKLRADRLG  133 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhc---CCeEEEEECC-cCHHHHHHHHHHcC
Confidence            5678999999999997666665544332   2358887653 34556665555544

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PRK10867 signal recognition particle protein; Provisional

Probab=95.96  E-value=0.062  Score=48.37  Aligned_cols=26  Identities=15%  Similarity=0.124  Sum_probs=19.6

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhcccc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDT   97 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~   97 (354)
                      -+++.+++|+|||+...-.+......
T Consensus       102 vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867        102 VIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            46899999999998777666554433

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=95.95  E-value=0.011  Score=48.76  Aligned_cols=17  Identities=24%  Similarity=0.630  Sum_probs=13.3

Q ss_pred             EEEEcCCCCchhhHhHH
Q 018574           73 VIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~   89 (354)
                      ++|.|++|+|||....-
T Consensus         1 ~vv~G~pGsGKSt~i~~   17 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIKK   17 (234)
T ss_pred             CEEEcCCCCCHHHHHHH
Confidence            47899999999974433

Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.92  E-value=0.13  Score=48.42  Aligned_cols=23  Identities=17%  Similarity=0.255  Sum_probs=17.7

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      ..++.+|.|+|||.++...+...
T Consensus        40 a~Lf~GPpG~GKTtiArilAk~L   62 (624)
T PRK14959         40 AYLFSGTRGVGKTTIARIFAKAL   62 (624)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhc
Confidence            47889999999997776555444

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=95.91  E-value=0.16  Score=44.82  Aligned_cols=29  Identities=21%  Similarity=0.426  Sum_probs=20.3

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhC
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYL  203 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~  203 (354)
                      ...-+||+||++.+..... ..+..+.+..
T Consensus       122 ~~~~IvvLDEid~L~~~~~-~~LY~L~r~~  150 (366)
T COG1474         122 GKTVIVILDEVDALVDKDG-EVLYSLLRAP  150 (366)
T ss_pred             CCeEEEEEcchhhhccccc-hHHHHHHhhc
Confidence            3456899999999987753 5555555544

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=95.90  E-value=0.16  Score=44.27  Aligned_cols=39  Identities=13%  Similarity=0.112  Sum_probs=27.7

Q ss_pred             hHHHHHhHhhhhc--C---CcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           57 SAIQQRAVMPIIK--G---RDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        57 ~~~Q~~~~~~~~~--~---~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      +|+|...+..+.+  +   ...++.||.|.||+..+...+...+
T Consensus         3 yPW~~~~~~~l~~~~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~Ll   46 (342)
T PRK06964          3 YPWQTDDWNRLQALRARLPHALLLHGQAGIGKLDFAQHLAQGLL   46 (342)
T ss_pred             CcccHHHHHHHHHhcCCcceEEEEECCCCCCHHHHHHHHHHHHc
Confidence            6778877777664  2   3568999999999976655544443

>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2

Probab=95.88  E-value=0.19  Score=38.97  Aligned_cols=142  Identities=17%  Similarity=0.226  Sum_probs=66.5

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCC
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG  151 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (354)
                      -+.+....|-|||++++-.++..+..+.   +++++==.+.-.  ...+.+.+....++.......+-........    
T Consensus         5 ~i~vytG~GKGKTTAAlGlalRA~G~G~---rV~ivQFlKg~~--~~GE~~~l~~l~~~~~~~~g~~f~~~~~~~~----   75 (172)
T PF02572_consen    5 LIQVYTGDGKGKTTAALGLALRAAGHGM---RVLIVQFLKGGR--YSGELKALKKLPNVEIERFGKGFVWRMNEEE----   75 (172)
T ss_dssp             -EEEEESSSS-HHHHHHHHHHHHHCTT-----EEEEESS--SS----HHHHHHGGGT--EEEE--TT----GGGHH----
T ss_pred             EEEEEeCCCCCchHHHHHHHHHHHhCCC---EEEEEEEecCCC--CcCHHHHHHhCCeEEEEEcCCcccccCCCcH----
Confidence            3567778999999999888888876554   477776555411  1233333322222333222221100000000    


Q ss_pred             CeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc--HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHH
Q 018574          152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF--KDQIYDVYRYLPPDLQVVLISATLPHEILEMTT  225 (354)
Q Consensus       152 ~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~--~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~  225 (354)
                      .+  ....+....... ..+....+++||+||+-.....++  ...+..+++..+...-+++..-.+++++.+...
T Consensus        76 ~~--~~~~~~~~~~a~-~~i~~~~~dlvILDEi~~a~~~gll~~~~v~~~l~~rp~~~evVlTGR~~~~~l~e~AD  148 (172)
T PF02572_consen   76 ED--RAAAREGLEEAK-EAISSGEYDLVILDEINYAVDYGLLSEEEVLDLLENRPESLEVVLTGRNAPEELIEAAD  148 (172)
T ss_dssp             HH--HHHHHHHHHHHH-HHTT-TT-SEEEEETHHHHHHTTSS-HHHHHHHHHTS-TT-EEEEE-SS--HHHHHH-S
T ss_pred             HH--HHHHHHHHHHHH-HHHhCCCCCEEEEcchHHHhHCCCccHHHHHHHHHcCCCCeEEEEECCCCCHHHHHhCC
Confidence            00  001111111111 233346789999999998877663  566777778777777766655556666666554

5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=95.88  E-value=0.051  Score=50.67  Aligned_cols=23  Identities=26%  Similarity=0.284  Sum_probs=17.4

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      ..++.||.|+|||..+...+...
T Consensus        40 A~Lf~GP~GvGKTTlA~~lAk~L   62 (605)
T PRK05896         40 AYIFSGPRGIGKTSIAKIFAKAI   62 (605)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999997666554433

>PRK04328 hypothetical protein; Provisional

Probab=95.87  E-value=0.11  Score=43.34  Aligned_cols=53  Identities=15%  Similarity=0.234  Sum_probs=35.9

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .|..+++.+++|+|||...+..+...+..+.   +++|++ +.+-..++.+.++.++
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge---~~lyis-~ee~~~~i~~~~~~~g   74 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGE---PGVYVA-LEEHPVQVRRNMRQFG   74 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCC---cEEEEE-eeCCHHHHHHHHHHcC
Confidence            3567899999999999877777666655443   367766 3344555666665555

>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []

Probab=95.86  E-value=0.18  Score=44.83  Aligned_cols=143  Identities=17%  Similarity=0.140  Sum_probs=63.7

Q ss_pred             EEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH-HHHHH---HHHHHHhccC-cCeEEEEEeCCcchHHhHHhh
Q 018574           74 IAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE-LATQT---EKVILAIGDF-INIQAHACVGGKSVGEDIRKL  148 (354)
Q Consensus        74 ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~-l~~q~---~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  148 (354)
                      ++.++.|+|||.+....++..+........++++ ++.. +...+   ...+...... ............      ..+
T Consensus         1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~   73 (384)
T PF03237_consen    1 LINGGRGSGKTTLIAIWFLWWALTRPPGRRVIIA-STYRQARDIFGRFWKGIIELLPSWFEIKFNEWNDRK------IIL   73 (384)
T ss_dssp             -EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEE-ESSHHHHHHHHHHHHHHHHTS-TTTS--EEEE-SSE------EEE
T ss_pred             CCcCCccccHHHHHHHHHHHHHhhCCCCcEEEEe-cCHHHHHHHHHHhHHHHHHHHHHhcCcccccCCCCc------EEe
Confidence            4788999999999888777777666544455555 5554 44432   2233333322 122221111111      011


Q ss_pred             cCCCeEEEeCcHHH--HHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeC--chhHHHHH
Q 018574          149 EHGVHVVSGTPGRV--CDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATL--PHEILEMT  224 (354)
Q Consensus       149 ~~~~~iiv~T~~~l--~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~--~~~~~~~~  224 (354)
                      .++..|.+.+.+.-  ...++     -..++.+++||+-......+...+.......... ..+..|.|+  ........
T Consensus        74 ~nG~~i~~~~~~~~~~~~~~~-----G~~~~~i~iDE~~~~~~~~~~~~~~~~~~~~~~~-~~~~~s~p~~~~~~~~~~~  147 (384)
T PF03237_consen   74 PNGSRIQFRGADSPDSGDNIR-----GFEYDLIIIDEAAKVPDDAFSELIRRLRATWGGS-IRMYISTPPNPGGWFYEIF  147 (384)
T ss_dssp             TTS-EEEEES-----SHHHHH-----TS--SEEEEESGGGSTTHHHHHHHHHHHHCSTT---EEEEEE---SSSHHHHHH
T ss_pred             cCceEEEEecccccccccccc-----ccccceeeeeecccCchHHHHHHHHhhhhcccCc-ceEEeecCCCCCCceeeee
Confidence            45566666663321  11122     2467899999988875554555554444433222 222445544  23334444


Q ss_pred             HhccC
Q 018574          225 TKFMT  229 (354)
Q Consensus       225 ~~~~~  229 (354)
                      .....
T Consensus       148 ~~~~~  152 (384)
T PF03237_consen  148 QRNLD  152 (384)
T ss_dssp             HHHHC
T ss_pred             ehhhc
Confidence            43333

The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.

>PRK10689 transcription-repair coupling factor; Provisional

Probab=95.85  E-value=0.058  Score=54.76  Aligned_cols=76  Identities=16%  Similarity=0.187  Sum_probs=63.7

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccCCCcCCCcEEE
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWARGLDVQQAILFF  345 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~~Gidi~~~~~Vi  345 (354)
                      .+.+++|.++++..|.++++.+++.    ++.+..+++..+..++..+++.+.+|+.+|+|+|. .+...+.+.++.++|
T Consensus       648 ~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL~~~v~~~~L~lLV  727 (1147)
T PRK10689        648 NHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLLQSDVKWKDLGLLI  727 (1147)
T ss_pred             cCCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHHhCCCCHhhCCEEE
Confidence            3568999999999999999988753    56788899999999999999999999999999995 555567778888877


Q ss_pred             e
Q 018574          346 F  346 (354)
Q Consensus       346 ~  346 (354)
                      .
T Consensus       728 I  728 (1147)
T PRK10689        728 V  728 (1147)
T ss_pred             E
Confidence            4

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=95.83  E-value=0.11  Score=42.89  Aligned_cols=52  Identities=12%  Similarity=0.199  Sum_probs=34.6

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      |.-+++.+++|+|||......+...+.+   +.+++|+.-. +-..++.+.+..++
T Consensus        25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~---g~~~~y~~~e-~~~~~~~~~~~~~g   76 (234)
T PRK06067         25 PSLILIEGDHGTGKSVLSQQFVYGALKQ---GKKVYVITTE-NTSKSYLKQMESVK   76 (234)
T ss_pred             CcEEEEECCCCCChHHHHHHHHHHHHhC---CCEEEEEEcC-CCHHHHHHHHHHCC
Confidence            5678999999999997776665555443   3457777654 33455666665554

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=95.82  E-value=0.042  Score=48.47  Aligned_cols=25  Identities=12%  Similarity=0.122  Sum_probs=18.8

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVD   96 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~   96 (354)
                      -.++.||.|.||+..+...+-..+.
T Consensus        43 A~Lf~Gp~G~GK~~lA~~~A~~Llc   67 (365)
T PRK07471         43 AWLIGGPQGIGKATLAYRMARFLLA   67 (365)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhC
Confidence            4799999999999766655554443

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.81  E-value=0.022  Score=48.82  Aligned_cols=59  Identities=17%  Similarity=0.141  Sum_probs=37.6

Q ss_pred             CcccccCcccCCCCHHHHHHHHHCCCCCC-hHHHHHhHhhhhcCCcEEEEcCCCCchhhH
Q 018574           28 GVEAITSFDAMGIKDDLLRGIYQYGFEKP-SAIQQRAVMPIIKGRDVIAQAQSGTGKTSM   86 (354)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~   86 (354)
                      ..+-..+|.+.|=-+.+++.+++.=+.++ +|-.-.-...+...+++++.+|+|+|||..
T Consensus        84 p~~I~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTml  143 (386)
T KOG0737|consen   84 PSEIGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTML  143 (386)
T ss_pred             hhhceeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHH
Confidence            44566889998877888888877533222 222111112222357899999999999943

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.81  E-value=0.13  Score=46.20  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=17.5

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      ..++.||+|+|||.++...+-..
T Consensus        40 a~lf~Gp~G~GKtt~A~~~a~~l   62 (397)
T PRK14955         40 GYIFSGLRGVGKTTAARVFAKAV   62 (397)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999997766554433

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=95.79  E-value=0.068  Score=44.39  Aligned_cols=41  Identities=20%  Similarity=0.202  Sum_probs=29.3

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      +..|+-++|.|+||+|||...+..+...+...  +.++++++.
T Consensus        10 l~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~--g~~vly~s~   50 (242)
T cd00984          10 LQPGDLIIIAARPSMGKTAFALNIAENIAKKQ--GKPVLFFSL   50 (242)
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhC--CCceEEEeC
Confidence            44567889999999999976666666555442  335788873

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.

>COG1110 Reverse gyrase [DNA replication, recombination, and repair]

Probab=95.78  E-value=0.035  Score=53.86  Aligned_cols=77  Identities=25%  Similarity=0.399  Sum_probs=59.1

Q ss_pred             hHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC----C-CeEEE-eecCCCHHHHHHHHHHHhCCCCcEEEEcc-c
Q 018574          259 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY----N-FTVSS-MHGDMPQKERDAIMGEFRSGTTRVLITTD-V  331 (354)
Q Consensus       259 ~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~----~-~~~~~-~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~  331 (354)
                      ..-.+..+.-...++++++.++|.-.+.+.++.|...    + ..+.. ||+.++..+++++++.|.+|+++|||+|. -
T Consensus       112 Tfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~F  191 (1187)
T COG1110         112 TFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQF  191 (1187)
T ss_pred             HHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeeeeccccchHHHHHHHHHHhcCCccEEEEeHHH
Confidence            3444444444555589999999999999999888754    2 33333 99999999999999999999999999995 4


Q ss_pred             cccC
Q 018574          332 WARG  335 (354)
Q Consensus       332 ~~~G  335 (354)
                      +..-
T Consensus       192 L~k~  195 (1187)
T COG1110         192 LSKR  195 (1187)
T ss_pred             HHhh
Confidence            4433

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=95.77  E-value=0.11  Score=45.59  Aligned_cols=41  Identities=20%  Similarity=0.368  Sum_probs=25.9

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      ....++||||+|.+.... .+.+.+.++.-+....++++|..
T Consensus       140 g~~rVviIDeAd~l~~~a-anaLLk~LEEpp~~~~fiLit~~  180 (351)
T PRK09112        140 GNWRIVIIDPADDMNRNA-ANAILKTLEEPPARALFILISHS  180 (351)
T ss_pred             CCceEEEEEchhhcCHHH-HHHHHHHHhcCCCCceEEEEECC
Confidence            467899999999985433 34555555554445555555533

>TIGR03689 pup_AAA proteasome ATPase

Probab=95.77  E-value=0.065  Score=49.20  Aligned_cols=18  Identities=28%  Similarity=0.431  Sum_probs=15.3

Q ss_pred             CCcEEEEcCCCCchhhHh
Q 018574           70 GRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~   87 (354)
                      .+.+++.||+|+|||..+
T Consensus       216 p~GILLyGPPGTGKT~LA  233 (512)
T TIGR03689       216 PKGVLLYGPPGCGKTLIA  233 (512)
T ss_pred             CcceEEECCCCCcHHHHH
Confidence            568999999999999643

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.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=95.77  E-value=0.12  Score=43.61  Aligned_cols=34  Identities=26%  Similarity=0.388  Sum_probs=22.0

Q ss_pred             ChHHHHHhHhhhh----cCC-cEEEEcCCCCchhhHhHH
Q 018574           56 PSAIQQRAVMPII----KGR-DVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        56 ~~~~Q~~~~~~~~----~~~-~~ii~~~tGsGKT~~~~~   89 (354)
                      +++.+.+++..+.    .+. .+++.||+|+|||+..-.
T Consensus        24 ~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~   62 (269)
T TIGR03015        24 PSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRN   62 (269)
T ss_pred             CCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHH
Confidence            3445555555442    233 578999999999965543

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.

>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]

Probab=95.70  E-value=0.15  Score=48.66  Aligned_cols=149  Identities=17%  Similarity=0.256  Sum_probs=86.6

Q ss_pred             HHHHHCCCCCChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHH
Q 018574           46 RGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        46 ~~l~~~~~~~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      +.+......+...-|.+.+..+++.  +-+++.|+-|=|||.+.=+++ ..+.......+++|..|+.+-++...+.+.+
T Consensus       205 ~~l~~l~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~-~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~  283 (758)
T COG1444         205 RELYELCLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIAL-AAAARLAGSVRIIVTAPTPANVQTLFEFAGK  283 (758)
T ss_pred             HHHhhhhcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHhHHH-HHHHHhcCCceEEEeCCCHHHHHHHHHHHHH
Confidence            3354444545556666677777764  368999999999996554444 2322222145699999999988888887766


Q ss_pred             hccCcCeEEEEEeCCc-chHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhh
Q 018574          124 IGDFINIQAHACVGGK-SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY  202 (354)
Q Consensus       124 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~  202 (354)
                      -....+.+........ ....   ...+...|=+.+|....          ..-+++|||||=.+    -...+..+...
T Consensus       284 ~l~~lg~~~~v~~d~~g~~~~---~~~~~~~i~y~~P~~a~----------~~~DllvVDEAAaI----plplL~~l~~~  346 (758)
T COG1444         284 GLEFLGYKRKVAPDALGEIRE---VSGDGFRIEYVPPDDAQ----------EEADLLVVDEAAAI----PLPLLHKLLRR  346 (758)
T ss_pred             hHHHhCCccccccccccceee---ecCCceeEEeeCcchhc----------ccCCEEEEehhhcC----ChHHHHHHHhh
Confidence            5555544322211110 0000   00111234445554332          11488999999876    45566666553


Q ss_pred             CCCCCcEEEEEeeC
Q 018574          203 LPPDLQVVLISATL  216 (354)
Q Consensus       203 ~~~~~~~i~lSaT~  216 (354)
                      .    +.+++|.|.
T Consensus       347 ~----~rv~~sTTI  356 (758)
T COG1444         347 F----PRVLFSTTI  356 (758)
T ss_pred             c----CceEEEeee
Confidence            2    368889997

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.68  E-value=0.11  Score=47.90  Aligned_cols=141  Identities=18%  Similarity=0.147  Sum_probs=74.5

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCC--hHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKP--SAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~--~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      ..+|++.|--+++...|...= ..|  +|-+.+++- +-....+++++|+|.|||+      ++....+..+.. .|-+-
T Consensus       507 dVtW~dIGaL~~vR~eL~~aI-~~PiK~pd~~k~lG-i~~PsGvLL~GPPGCGKTL------lAKAVANEag~N-FisVK  577 (802)
T KOG0733|consen  507 DVTWDDIGALEEVRLELNMAI-LAPIKRPDLFKALG-IDAPSGVLLCGPPGCGKTL------LAKAVANEAGAN-FISVK  577 (802)
T ss_pred             CCChhhcccHHHHHHHHHHHH-hhhccCHHHHHHhC-CCCCCceEEeCCCCccHHH------HHHHHhhhccCc-eEeec
Confidence            357777777777776665531 122  222333331 1225679999999999994      444333332222 33344


Q ss_pred             CHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc
Q 018574          110 TRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       110 ~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      .-+|..-+.-+-+                                      +-.+...+ .-..+...+|+|||.|.+..
T Consensus       578 GPELlNkYVGESE--------------------------------------rAVR~vFq-RAR~saPCVIFFDEiDaL~p  618 (802)
T KOG0733|consen  578 GPELLNKYVGESE--------------------------------------RAVRQVFQ-RARASAPCVIFFDEIDALVP  618 (802)
T ss_pred             CHHHHHHHhhhHH--------------------------------------HHHHHHHH-HhhcCCCeEEEecchhhcCc
Confidence            4455443322211                                      11111110 11123568899999999852


Q ss_pred             c-------CcHHHHHHHHhhC---CCCCcEEEEEeeCchhH
Q 018574          190 R-------GFKDQIYDVYRYL---PPDLQVVLISATLPHEI  220 (354)
Q Consensus       190 ~-------~~~~~~~~i~~~~---~~~~~~i~lSaT~~~~~  220 (354)
                      .       ...+.++.++..+   .....+..+.||-.+++
T Consensus       619 ~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDi  659 (802)
T KOG0733|consen  619 RRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDI  659 (802)
T ss_pred             ccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcc
Confidence            2       2345555555544   33456888889966653

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.65  E-value=0.026  Score=50.79  Aligned_cols=41  Identities=17%  Similarity=0.355  Sum_probs=28.6

Q ss_pred             hHHHHHhHhhhhcCC--cEEEEcCCCCchhhHhHHHHhhccccC
Q 018574           57 SAIQQRAVMPIIKGR--DVIAQAQSGTGKTSMIALTVCQTVDTS   98 (354)
Q Consensus        57 ~~~Q~~~~~~~~~~~--~~ii~~~tGsGKT~~~~~~~~~~~~~~   98 (354)
                      .+.|...+..+++..  -+++.||||||||+... .++..+...
T Consensus       243 ~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY-~~L~~ln~~  285 (500)
T COG2804         243 SPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLY-AALSELNTP  285 (500)
T ss_pred             CHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHH-HHHHHhcCC
Confidence            677777777777643  46899999999996444 445555444

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=95.63  E-value=0.021  Score=53.47  Aligned_cols=39  Identities=26%  Similarity=0.332  Sum_probs=25.9

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLI  212 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~l  212 (354)
                      ++-+++|+||+-.-+|......+.+.+....++.-++.+
T Consensus       487 ~~~~iliLDE~TSaLD~~te~~I~~~l~~~~~~~TvIiI  525 (529)
T TIGR02868       487 ADAPILLLDEPTEHLDAGTESELLEDLLAALSGKTVVVI  525 (529)
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHhcCCCEEEEE
Confidence            566789999998887776666666666655444444443

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

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

Probab=95.62  E-value=0.15  Score=49.58  Aligned_cols=19  Identities=26%  Similarity=0.454  Sum_probs=15.6

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+.++.||+|+|||..+-
T Consensus       207 ~~n~LLvGppGvGKT~lae  225 (758)
T PRK11034        207 KNNPLLVGESGVGKTAIAE  225 (758)
T ss_pred             CCCeEEECCCCCCHHHHHH
Confidence            4689999999999996443

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=95.62  E-value=0.14  Score=39.66  Aligned_cols=142  Identities=14%  Similarity=0.197  Sum_probs=72.4

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      .-+.+..++|.|||.+++-.++..+..+.   +++++==.+.-..  ..+.+.+.. .++.......+-....      .
T Consensus         6 Gli~v~~g~GkGKtt~a~g~a~ra~~~g~---~v~ivQFlKg~~~--~GE~~~l~~-~~~~~~~~g~g~~~~~------~   73 (173)
T TIGR00708         6 GIIIVHTGNGKGKTTAAFGMALRALGHGK---KVGVIQFIKGAWP--NGERAAFEP-HGVEFQVMGTGFTWET------Q   73 (173)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHHHHCCC---eEEEEEEecCCcc--cChHHHHHh-cCcEEEECCCCCeecC------C
Confidence            35678889999999998888887776554   3655522111100  011111111 1233332222211000      0


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc--HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHH
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF--KDQIYDVYRYLPPDLQVVLISATLPHEILEMTT  225 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~--~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~  225 (354)
                      +..--............ ..+....+++||+||+-.....++  .+.+..+++..|...-+++..-.+|+.+.+...
T Consensus        74 ~~~~~~~~~~~~~~~a~-~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p~~l~e~AD  149 (173)
T TIGR00708        74 NREADTAIAKAAWQHAK-EMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLELAD  149 (173)
T ss_pred             CcHHHHHHHHHHHHHHH-HHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCc
Confidence            00000000111111111 122345789999999998876653  456777778777777766655556666666554

Alternate name: corrinoid adenosyltransferase.

>PRK06620 hypothetical protein; Validated

Probab=95.61  E-value=0.038  Score=44.87  Aligned_cols=18  Identities=22%  Similarity=0.348  Sum_probs=14.7

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      +.+++.||+|+|||...-
T Consensus        45 ~~l~l~Gp~G~GKThLl~   62 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTK   62 (214)
T ss_pred             ceEEEECCCCCCHHHHHH
Confidence            458999999999996443

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=95.61  E-value=0.033  Score=49.07  Aligned_cols=40  Identities=10%  Similarity=0.203  Sum_probs=24.3

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      .+..+++.+|||||||+.. ..++..+.......+++.+=.
T Consensus       148 ~~GlilI~G~TGSGKTT~l-~al~~~i~~~~~~~~IvtiEd  187 (372)
T TIGR02525       148 AAGLGLICGETGSGKSTLA-ASIYQHCGETYPDRKIVTYED  187 (372)
T ss_pred             cCCEEEEECCCCCCHHHHH-HHHHHHHHhcCCCceEEEEec
Confidence            3457899999999999644 445555543322334554433

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).

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=95.60  E-value=0.22  Score=42.53  Aligned_cols=132  Identities=17%  Similarity=0.293  Sum_probs=77.7

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCC
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG  151 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (354)
                      -+++.+-.|+|||+...-.+......+   .++++.+- -....--.++++.+++..+..+..-..|.+           
T Consensus       141 Vil~vGVNG~GKTTTIaKLA~~l~~~g---~~VllaA~-DTFRAaAiEQL~~w~er~gv~vI~~~~G~D-----------  205 (340)
T COG0552         141 VILFVGVNGVGKTTTIAKLAKYLKQQG---KSVLLAAG-DTFRAAAIEQLEVWGERLGVPVISGKEGAD-----------  205 (340)
T ss_pred             EEEEEecCCCchHhHHHHHHHHHHHCC---CeEEEEec-chHHHHHHHHHHHHHHHhCCeEEccCCCCC-----------
Confidence            368899999999987776666555433   33555443 222222345555555555566554222221           


Q ss_pred             CeEEEeCcHHH-HHHHhcCCccCCCccEEEEecchhhhcc-CcHHHHHHHHhhCCCCC------cEEEEEeeCchhHHHH
Q 018574          152 VHVVSGTPGRV-CDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDL------QVVLISATLPHEILEM  223 (354)
Q Consensus       152 ~~iiv~T~~~l-~~~~~~~~~~~~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~~~------~~i~lSaT~~~~~~~~  223 (354)
                             |..+ ++.++.  -..+++++|++|=|-++... .....+.++.+.+.+..      -++.+-||..++....
T Consensus       206 -------pAaVafDAi~~--Akar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqnal~Q  276 (340)
T COG0552         206 -------PAAVAFDAIQA--AKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNALSQ  276 (340)
T ss_pred             -------cHHHHHHHHHH--HHHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccChhHHHH
Confidence                   2111 122221  11246788999988887654 46677778877776554      4556689998877666


Q ss_pred             HHhc
Q 018574          224 TTKF  227 (354)
Q Consensus       224 ~~~~  227 (354)
                      .+.|
T Consensus       277 Ak~F  280 (340)
T COG0552         277 AKIF  280 (340)
T ss_pred             HHHH
Confidence            6554

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.60  E-value=0.038  Score=46.61  Aligned_cols=51  Identities=22%  Similarity=0.214  Sum_probs=29.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccc---cCCCceeEEEEcCCHHHHHHHHHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVD---TSSREVQALILSPTRELATQTEKVI  121 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~---~~~~~~~~lil~p~~~l~~q~~~~~  121 (354)
                      ++-+++.||||+|||. ..-++.+.+.   .+......+|=....+|-..|..+-
T Consensus       177 NRliLlhGPPGTGKTS-LCKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFsES  230 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTS-LCKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFSES  230 (423)
T ss_pred             eeEEEEeCCCCCChhH-HHHHHHHhheeeecCccccceEEEEehhHHHHHHHhhh
Confidence            4568999999999995 3333344332   1222234566666666666555443

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=95.60  E-value=0.043  Score=50.87  Aligned_cols=58  Identities=17%  Similarity=0.241  Sum_probs=34.3

Q ss_pred             cCcccccCcccCCCCHHHHHHHHHCC--CCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHh
Q 018574           27 EGVEAITSFDAMGIKDDLLRGIYQYG--FEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~   87 (354)
                      ....+..+|++++-.+...+.+.+.-  +..+..++..-   ....+++++.+|+|+|||..+
T Consensus        46 ~~~~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g---~~~~~giLL~GppGtGKT~la  105 (495)
T TIGR01241        46 NEEKPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLG---AKIPKGVLLVGPPGTGKTLLA  105 (495)
T ss_pred             cCCCCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcC---CCCCCcEEEECCCCCCHHHHH
Confidence            34456778888876666666554421  22222222211   122467999999999999543

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.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=95.59  E-value=0.09  Score=49.33  Aligned_cols=22  Identities=27%  Similarity=0.286  Sum_probs=16.7

Q ss_pred             cEEEEcCCCCchhhHhHHHHhh
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQ   93 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~   93 (354)
                      ..++.||.|+|||.++-..+.+
T Consensus        40 ayLf~Gp~GtGKTt~Ak~lAka   61 (559)
T PRK05563         40 AYLFSGPRGTGKTSAAKIFAKA   61 (559)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4688999999999766655433

>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]

Probab=95.59  E-value=0.045  Score=46.80  Aligned_cols=62  Identities=15%  Similarity=0.252  Sum_probs=41.4

Q ss_pred             CCCCCChHHHHHhHhhhhcC-CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHH
Q 018574           51 YGFEKPSAIQQRAVMPIIKG-RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ  116 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q  116 (354)
                      ..+..+++.|-..+..+... .++++.+.||||||+..- .+...+....   +++.+=.+.+|.-+
T Consensus       153 i~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTlLN-al~~~i~~~e---RvItiEDtaELql~  215 (355)
T COG4962         153 IIFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTLLN-ALSGFIDSDE---RVITIEDTAELQLA  215 (355)
T ss_pred             HHcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHHHH-HHHhcCCCcc---cEEEEeehhhhccC
Confidence            34557788888887776665 599999999999996332 2233333232   57777777666543

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.57  E-value=0.13  Score=48.75  Aligned_cols=21  Identities=24%  Similarity=0.273  Sum_probs=16.2

Q ss_pred             cEEEEcCCCCchhhHhHHHHh
Q 018574           72 DVIAQAQSGTGKTSMIALTVC   92 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~   92 (354)
                      ..++.||+|+|||.++...+-
T Consensus        40 a~Lf~Gp~G~GKTtlA~~lA~   60 (585)
T PRK14950         40 AYLFTGPRGVGKTSTARILAK   60 (585)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            358999999999976665543

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

Probab=95.57  E-value=0.25  Score=48.20  Aligned_cols=19  Identities=21%  Similarity=0.422  Sum_probs=15.6

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+.++.||+|+|||..+-
T Consensus       203 ~~n~lL~G~pG~GKT~l~~  221 (731)
T TIGR02639       203 KNNPLLVGEPGVGKTAIAE  221 (731)
T ss_pred             CCceEEECCCCCCHHHHHH
Confidence            4589999999999996543

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=95.50  E-value=0.1  Score=45.49  Aligned_cols=40  Identities=18%  Similarity=0.179  Sum_probs=28.1

Q ss_pred             ChHHHHHhHhhhhc----CC---cEEEEcCCCCchhhHhHHHHhhcc
Q 018574           56 PSAIQQRAVMPIIK----GR---DVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~----~~---~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      ++|||...+..+.+    ++   -.++.||.|.||+..+...+...+
T Consensus         3 ~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~Ll   49 (334)
T PRK07993          3 WYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLM   49 (334)
T ss_pred             CCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHc
Confidence            46777777776653    33   468999999999976665554444

>TIGR00959 ffh signal recognition particle protein

Probab=95.45  E-value=0.12  Score=46.54  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=18.3

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      -+++.+++|+|||++..-.+...
T Consensus       101 vi~~vG~~GsGKTTtaakLA~~l  123 (428)
T TIGR00959       101 VILMVGLQGSGKTTTCGKLAYYL  123 (428)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHH
Confidence            47899999999998776666553

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PHA03372 DNA packaging terminase subunit 1; Provisional

Probab=95.45  E-value=0.096  Score=48.36  Aligned_cols=126  Identities=13%  Similarity=0.170  Sum_probs=74.8

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc-cCcCeE-EEEEeCCcchHHhHHhh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG-DFINIQ-AHACVGGKSVGEDIRKL  148 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~  148 (354)
                      +-.+..-|-..||| +++.|++..+...-.+.++.|+++-+-..+-+.+++..-. .-++-+ +....            
T Consensus       203 kaTVFLVPRRHGKT-Wf~VpiIsllL~s~~gI~IGYvAHqKhvs~~Vf~EI~~~lrrwF~~~~vi~~k------------  269 (668)
T PHA03372        203 KATVFLVPRRHGKT-WFIIPIISFLLKNIIGISIGYVAHQKHVSQFVLKEVEFRCRRMFPRKHTIENK------------  269 (668)
T ss_pred             cceEEEecccCCce-ehHHHHHHHHHHhhcCceEEEEeeHHHHHHHHHHHHHHHHhhhcCccceeeec------------
Confidence            45677889999999 6777788777777778899999998876666555543211 111111 11111            


Q ss_pred             cCCCeEEEeCcH-----HHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCC-CCCcEEEEEee
Q 018574          149 EHGVHVVSGTPG-----RVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP-PDLQVVLISAT  215 (354)
Q Consensus       149 ~~~~~iiv~T~~-----~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~-~~~~~i~lSaT  215 (354)
                        +.-|.+.-|+     .+..........-+.+++++|||+|-+-    ...+..++..+. ++.++|++|.|
T Consensus       270 --~~tI~~s~pg~Kst~~fasc~n~NsiRGQ~fnll~VDEA~FI~----~~a~~tilgfm~q~~~KiIfISS~  336 (668)
T PHA03372        270 --DNVISIDHRGAKSTALFASCYNTNSIRGQNFHLLLVDEAHFIK----KDAFNTILGFLAQNTTKIIFISST  336 (668)
T ss_pred             --CcEEEEecCCCcceeeehhhccCccccCCCCCEEEEehhhccC----HHHHHHhhhhhcccCceEEEEeCC
Confidence              1112222111     0111122234556789999999999773    334444444443 56778888877

>PRK04841 transcriptional regulator MalT; Provisional

Probab=95.44  E-value=0.19  Score=50.56  Aligned_cols=43  Identities=23%  Similarity=0.365  Sum_probs=34.4

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCc
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLP  217 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~  217 (354)
                      .--+||+|++|.+.+......+..+++..+.+..+++.|-+.+
T Consensus       121 ~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~  163 (903)
T PRK04841        121 QPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLP  163 (903)
T ss_pred             CCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCC
Confidence            3467999999998666667788888998888888888777643

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.43  E-value=0.23  Score=45.05  Aligned_cols=52  Identities=15%  Similarity=0.212  Sum_probs=28.6

Q ss_pred             ccCcccCC---CCHHHHHHHHHCCCCCChHHHHHhHhhh--hcCCcEEEEcCCCCchhh
Q 018574           32 ITSFDAMG---IKDDLLRGIYQYGFEKPSAIQQRAVMPI--IKGRDVIAQAQSGTGKTS   85 (354)
Q Consensus        32 ~~~~~~~~---~~~~~~~~l~~~~~~~~~~~Q~~~~~~~--~~~~~~ii~~~tGsGKT~   85 (354)
                      .=+|+++|   ++.+.-+.+.+.--....|  .+.++.+  ..=+.+++.+|+|+|||+
T Consensus       215 df~Fe~mGIGGLd~EFs~IFRRAFAsRvFp--p~vie~lGi~HVKGiLLyGPPGTGKTL  271 (744)
T KOG0741|consen  215 DFNFESMGIGGLDKEFSDIFRRAFASRVFP--PEVIEQLGIKHVKGILLYGPPGTGKTL  271 (744)
T ss_pred             CCChhhcccccchHHHHHHHHHHHHhhcCC--HHHHHHcCccceeeEEEECCCCCChhH
Confidence            34566665   5666666555432111111  2223221  112678999999999995

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=95.42  E-value=0.17  Score=43.83  Aligned_cols=40  Identities=20%  Similarity=0.187  Sum_probs=26.9

Q ss_pred             ChHHHHHhHhhhhc----CC---cEEEEcCCCCchhhHhHHHHhhcc
Q 018574           56 PSAIQQRAVMPIIK----GR---DVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~----~~---~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      .+|+|...+..+.+    |+   -.++.||.|.||+..+...+...+
T Consensus         3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~ll   49 (325)
T PRK06871          3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLM   49 (325)
T ss_pred             CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHc
Confidence            35677766665543    33   467999999999976665554444

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=95.42  E-value=0.27  Score=43.94  Aligned_cols=47  Identities=19%  Similarity=0.412  Sum_probs=26.9

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHH
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILE  222 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~  222 (354)
                      .+..++||||+|.+.... .+.+.+.++.-+ ...++++++|-+..+..
T Consensus       116 ~~~kViiIDead~m~~~a-anaLLk~LEep~-~~~~fIL~a~~~~~llp  162 (394)
T PRK07940        116 GRWRIVVIEDADRLTERA-ANALLKAVEEPP-PRTVWLLCAPSPEDVLP  162 (394)
T ss_pred             CCcEEEEEechhhcCHHH-HHHHHHHhhcCC-CCCeEEEEECChHHChH
Confidence            466899999999995443 234444444333 33455555554444443

>TIGR02012 tigrfam_recA protein RecA

Probab=95.40  E-value=0.032  Score=47.98  Aligned_cols=45  Identities=16%  Similarity=0.252  Sum_probs=31.2

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ  116 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q  116 (354)
                      .|+-+.|.+|+|+|||...+..+......   +.+++|+-.-.++..+
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~~---g~~v~yId~E~~~~~~   98 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQKA---GGTAAFIDAEHALDPV   98 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc---CCcEEEEcccchhHHH
Confidence            35678899999999998777766665543   3457777665554443

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.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=95.40  E-value=0.04  Score=48.83  Aligned_cols=59  Identities=24%  Similarity=0.342  Sum_probs=41.0

Q ss_pred             CChHHHHHhHhhh------hcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHH
Q 018574           55 KPSAIQQRAVMPI------IKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ  116 (354)
Q Consensus        55 ~~~~~Q~~~~~~~------~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q  116 (354)
                      ++++-|+++++.+      .++..+++.|+.|+|||+.+-... ..+..  .+..+++++||-.-|..
T Consensus         1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~-~~~~~--~~~~~~~~a~tg~AA~~   65 (364)
T PF05970_consen    1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAII-DYLRS--RGKKVLVTAPTGIAAFN   65 (364)
T ss_pred             CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHH-HHhcc--ccceEEEecchHHHHHh
Confidence            3678899998888      568899999999999996544332 22222  24468888887654443

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.39  E-value=0.12  Score=48.94  Aligned_cols=24  Identities=25%  Similarity=0.235  Sum_probs=17.9

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      ...++.||.|+|||.++...+-..
T Consensus        39 ~a~Lf~Gp~G~GKttlA~~lAk~L   62 (620)
T PRK14948         39 PAYLFTGPRGTGKTSSARILAKSL   62 (620)
T ss_pred             ceEEEECCCCCChHHHHHHHHHHh
Confidence            356999999999997666554443

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=95.35  E-value=0.037  Score=48.20  Aligned_cols=44  Identities=18%  Similarity=0.346  Sum_probs=29.2

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELA  114 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~  114 (354)
                      +..++++++.||||||||+ ++-.++..+...   .+++.+=.+.++.
T Consensus       159 v~~~~nilI~G~tGSGKTT-ll~aLl~~i~~~---~rivtiEd~~El~  202 (344)
T PRK13851        159 VVGRLTMLLCGPTGSGKTT-MSKTLISAIPPQ---ERLITIEDTLELV  202 (344)
T ss_pred             HHcCCeEEEECCCCccHHH-HHHHHHcccCCC---CCEEEECCCcccc
Confidence            4457899999999999995 444455555432   3466666666553

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=95.34  E-value=0.43  Score=40.85  Aligned_cols=56  Identities=14%  Similarity=0.320  Sum_probs=31.5

Q ss_pred             HHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCC---CCCcEEEEEeeC
Q 018574          161 RVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP---PDLQVVLISATL  216 (354)
Q Consensus       161 ~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~---~~~~~i~lSaT~  216 (354)
                      .++..+..+....+.--++|+||+|......-...+..+++.-.   ....++++|..+
T Consensus       123 ~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrl  181 (408)
T KOG2228|consen  123 KLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRL  181 (408)
T ss_pred             HHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccc
Confidence            44444554444444446788999998876655555555555443   233344544443

>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]

Probab=95.32  E-value=0.11  Score=48.31  Aligned_cols=68  Identities=19%  Similarity=0.383  Sum_probs=54.3

Q ss_pred             EEEEcCchhhHHHHHHHHhcC-----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-----ccccC-CCcCCCcE
Q 018574          275 AVIFCNTKRKVDWLTEKMRGY-----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-----VWARG-LDVQQAIL  343 (354)
Q Consensus       275 ~lvf~~~~~~~~~l~~~l~~~-----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----~~~~G-idi~~~~~  343 (354)
                      +||+++|++.|.++++.++..     ++.+..++|+.+...+...+   +.| .+|+|+|+     .+.+| +|+..+.+
T Consensus       102 aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~~~l---~~~-~~ivVaTPGRllD~i~~~~l~l~~v~~  177 (513)
T COG0513         102 ALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEAL---KRG-VDIVVATPGRLLDLIKRGKLDLSGVET  177 (513)
T ss_pred             eEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHHHHH---hcC-CCEEEECccHHHHHHHcCCcchhhcCE
Confidence            899999999999999988653     56788999998866665444   445 99999997     45555 88888888


Q ss_pred             EEe
Q 018574          344 FFF  346 (354)
Q Consensus       344 Vi~  346 (354)
                      +|.
T Consensus       178 lVl  180 (513)
T COG0513         178 LVL  180 (513)
T ss_pred             EEe
Confidence            775

>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]

Probab=95.31  E-value=0.19  Score=45.06  Aligned_cols=69  Identities=16%  Similarity=0.177  Sum_probs=51.0

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .+-..|.++.-..-.|.. .|.+=.|||||...++- .+.+...++.-++++.+-|+.|+.++.....++.
T Consensus       162 nfD~~Q~kaa~~~~~G~q-rIrGLAGSGKT~~La~K-aa~lh~knPd~~I~~Tfftk~L~s~~r~lv~~F~  230 (660)
T COG3972         162 NFDTDQTKAAFQSGFGKQ-RIRGLAGSGKTELLAHK-AAELHSKNPDSRIAFTFFTKILASTMRTLVPEFF  230 (660)
T ss_pred             cccchhheeeeecCCchh-hhhcccCCCchhHHHHH-HHHHhcCCCCceEEEEeehHHHHHHHHHHHHHHH
Confidence            445678777655555655 66888999999654443 3455666667789999999999999988887765

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.31  E-value=0.11  Score=49.01  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=17.7

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      ..++.||+|.|||.++...+...
T Consensus        40 a~Lf~Gp~GvGKttlA~~lAk~L   62 (620)
T PRK14954         40 GYIFSGLRGVGKTTAARVFAKAV   62 (620)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999997776554443

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=95.28  E-value=0.18  Score=43.50  Aligned_cols=41  Identities=17%  Similarity=0.168  Sum_probs=28.4

Q ss_pred             CChHHHHHhHhhhhc----CC---cEEEEcCCCCchhhHhHHHHhhcc
Q 018574           55 KPSAIQQRAVMPIIK----GR---DVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~~---~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      .++|+|...+..+.+    ++   -.++.||.|.||+..+...+...+
T Consensus         3 ~~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~ll   50 (319)
T PRK06090          3 NDYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALL   50 (319)
T ss_pred             cCcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHc
Confidence            456778777776553    33   579999999999966655544443

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=95.26  E-value=0.12  Score=45.51  Aligned_cols=27  Identities=22%  Similarity=0.433  Sum_probs=19.5

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccc
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVD   96 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~   96 (354)
                      .|++.+|.+|+|+|||..+ ..+...+.
T Consensus       168 kGQR~lIvgppGvGKTTLa-K~Ian~I~  194 (416)
T PRK09376        168 KGQRGLIVAPPKAGKTVLL-QNIANSIT  194 (416)
T ss_pred             cCceEEEeCCCCCChhHHH-HHHHHHHH
Confidence            4899999999999999533 33444443

>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]

Probab=95.23  E-value=0.12  Score=51.31  Aligned_cols=76  Identities=13%  Similarity=0.184  Sum_probs=65.5

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEc-cccccCCCcCCCcEEE
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT-DVWARGLDVQQAILFF  345 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T-~~~~~Gidi~~~~~Vi  345 (354)
                      .++++.|+++|.=-|++-++.|+++    ++++..++--.+.++..++++...+|+++|+|+| ..++.++-+.++..+|
T Consensus       642 ~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrLL~kdv~FkdLGLlI  721 (1139)
T COG1197         642 DGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRLLSKDVKFKDLGLLI  721 (1139)
T ss_pred             CCCeEEEEcccHHhHHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEEEechHhhCCCcEEecCCeEE
Confidence            3467999999988887777777654    7778888888889999999999999999999999 6999999999999887


Q ss_pred             e
Q 018574          346 F  346 (354)
Q Consensus       346 ~  346 (354)
                      .
T Consensus       722 I  722 (1139)
T COG1197         722 I  722 (1139)
T ss_pred             E
Confidence            4

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.22  E-value=0.22  Score=46.32  Aligned_cols=142  Identities=19%  Similarity=0.232  Sum_probs=77.8

Q ss_pred             ccccCcccCCCCHHHHHHHHH---CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEE
Q 018574           30 EAITSFDAMGIKDDLLRGIYQ---YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALI  106 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~---~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~li  106 (354)
                      -...+|++.|=-+++.+.+++   +....|..+..--   +...+.+++.+|+|.|||+.+      .......+. -++
T Consensus       428 ~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~G---i~ppkGVLlyGPPGC~KT~lA------kalAne~~~-nFl  497 (693)
T KOG0730|consen  428 MPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFG---ISPPKGVLLYGPPGCGKTLLA------KALANEAGM-NFL  497 (693)
T ss_pred             CCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhc---CCCCceEEEECCCCcchHHHH------HHHhhhhcC-Cee
Confidence            344788998877788888875   3333444444333   233678999999999999533      222222222 234


Q ss_pred             EcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          107 LSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       107 l~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      -++.-+|-.-|..+-                                      ++..+...... ......+++|||+|.
T Consensus       498 svkgpEL~sk~vGeS--------------------------------------Er~ir~iF~kA-R~~aP~IiFfDEiDs  538 (693)
T KOG0730|consen  498 SVKGPELFSKYVGES--------------------------------------ERAIREVFRKA-RQVAPCIIFFDEIDA  538 (693)
T ss_pred             eccCHHHHHHhcCch--------------------------------------HHHHHHHHHHH-hhcCCeEEehhhHHh
Confidence            445444444332211                                      11111111100 011337899999999


Q ss_pred             hhccC-------cHHHHHHHHhhCC---CCCcEEEEEeeCchhH
Q 018574          187 MLSRG-------FKDQIYDVYRYLP---PDLQVVLISATLPHEI  220 (354)
Q Consensus       187 ~~~~~-------~~~~~~~i~~~~~---~~~~~i~lSaT~~~~~  220 (354)
                      +...-       ..+.+..++..+.   ....++.+-||=.++.
T Consensus       539 i~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~  582 (693)
T KOG0730|consen  539 LAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDM  582 (693)
T ss_pred             HhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhh
Confidence            85321       3455555555553   3456888899966543

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.20  E-value=0.16  Score=46.90  Aligned_cols=52  Identities=19%  Similarity=0.280  Sum_probs=38.8

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      |.-+++.+|+|+|||...+..+...+.++   .+++|++ .-+-..|+...++.++
T Consensus       263 gs~~li~G~~G~GKt~l~~~f~~~~~~~g---e~~~y~s-~eEs~~~i~~~~~~lg  314 (484)
T TIGR02655       263 DSIILATGATGTGKTLLVSKFLENACANK---ERAILFA-YEESRAQLLRNAYSWG  314 (484)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHCC---CeEEEEE-eeCCHHHHHHHHHHcC
Confidence            45789999999999987777777665544   3477766 4566777777777665

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.17  E-value=0.03  Score=48.13  Aligned_cols=46  Identities=13%  Similarity=0.183  Sum_probs=32.5

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTE  118 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~  118 (354)
                      |+-+.+.+|+|+|||..++..+......   +.+++|+..-.++-.+.+
T Consensus        55 G~iteI~Gp~GsGKTtLal~~~~~~~~~---g~~~vyId~E~~~~~~~a  100 (325)
T cd00983          55 GRIIEIYGPESSGKTTLALHAIAEAQKL---GGTVAFIDAEHALDPVYA  100 (325)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc---CCCEEEECccccHHHHHH
Confidence            4567899999999998777766655443   345888887666555433

RecA couples ATP hydrolysis to DNA strand exchange.

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=95.16  E-value=0.062  Score=50.85  Aligned_cols=34  Identities=26%  Similarity=0.308  Sum_probs=24.3

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCC
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDL  207 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~  207 (354)
                      .+-.++|+||+...++......+...+..+.+++
T Consensus       482 ~~~~ILILDEaTSalD~~tE~~I~~~l~~l~~~r  515 (567)
T COG1132         482 RNPPILILDEATSALDTETEALIQDALKKLLKGR  515 (567)
T ss_pred             cCCCEEEEeccccccCHHhHHHHHHHHHHHhcCC
Confidence            4458899999999888776666666666544443

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.14  E-value=0.12  Score=50.60  Aligned_cols=53  Identities=17%  Similarity=0.187  Sum_probs=29.1

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhh--hhcCCcEEEEcCCCCchhhHh
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMP--IIKGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~--~~~~~~~ii~~~tGsGKT~~~   87 (354)
                      .+|++.+-.+.+.+.+.+.-. -+..++. .+..  +...+.+++.||+|+|||..+
T Consensus       450 ~~~~di~g~~~~k~~l~~~v~-~~~~~~~-~~~~~g~~~~~giLL~GppGtGKT~la  504 (733)
T TIGR01243       450 VRWSDIGGLEEVKQELREAVE-WPLKHPE-IFEKMGIRPPKGVLLFGPPGTGKTLLA  504 (733)
T ss_pred             cchhhcccHHHHHHHHHHHHH-hhhhCHH-HHHhcCCCCCceEEEECCCCCCHHHHH
Confidence            466666666666666655311 1111111 1111  223467999999999999533

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.

>PHA00729 NTP-binding motif containing protein

Probab=95.13  E-value=0.23  Score=40.32  Aligned_cols=19  Identities=21%  Similarity=0.354  Sum_probs=15.5

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      ++++.|++|+|||..+...
T Consensus        19 nIlItG~pGvGKT~LA~aL   37 (226)
T PHA00729         19 SAVIFGKQGSGKTTYALKV   37 (226)
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            7999999999999655443

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=95.13  E-value=0.05  Score=46.99  Aligned_cols=18  Identities=22%  Similarity=0.423  Sum_probs=14.8

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      +++++.||+|+|||..+.
T Consensus        31 ~~~ll~Gp~G~GKT~la~   48 (305)
T TIGR00635        31 DHLLLYGPPGLGKTTLAH   48 (305)
T ss_pred             CeEEEECCCCCCHHHHHH
Confidence            468999999999995444

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.

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

Probab=95.13  E-value=0.11  Score=46.36  Aligned_cols=55  Identities=24%  Similarity=0.252  Sum_probs=31.9

Q ss_pred             ccccCcccCCCCHHHHHHHHHC---CCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHh
Q 018574           30 EAITSFDAMGIKDDLLRGIYQY---GFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~   87 (354)
                      .+..+|.+.+--+..++.+.+.   .+..+..++..-   +...+.+++.||+|+|||..+
T Consensus       139 ~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~G---l~~pkgvLL~GppGTGKT~LA  196 (398)
T PTZ00454        139 KPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIG---IDPPRGVLLYGPPGTGKTMLA  196 (398)
T ss_pred             CCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcC---CCCCceEEEECCCCCCHHHHH
Confidence            3446677776555555555542   222222222221   234678999999999999643

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=95.11  E-value=0.14  Score=39.80  Aligned_cols=47  Identities=6%  Similarity=0.111  Sum_probs=33.2

Q ss_pred             EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      ++|.+++|||||..+...+..      .+.+++|+.-...+...+.++...+.
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~------~~~~~~y~at~~~~d~em~~rI~~H~   48 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE------LGGPVTYIATAEAFDDEMAERIARHR   48 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh------cCCCeEEEEccCcCCHHHHHHHHHHH
Confidence            578999999999765544432      23358888887777777777765544

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>TIGR00767 rho transcription termination factor Rho

Probab=95.10  E-value=0.2  Score=44.30  Aligned_cols=28  Identities=29%  Similarity=0.411  Sum_probs=20.1

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      +-.|+.+.+.+|+|+|||..... +...+
T Consensus       165 ig~Gq~~~IvG~~g~GKTtL~~~-i~~~I  192 (415)
T TIGR00767       165 IGKGQRGLIVAPPKAGKTVLLQK-IAQAI  192 (415)
T ss_pred             eCCCCEEEEECCCCCChhHHHHH-HHHhh
Confidence            34588999999999999964333 34443

Members of this family differ in the specificity of RNA binding.

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=95.08  E-value=0.18  Score=47.31  Aligned_cols=23  Identities=26%  Similarity=0.143  Sum_probs=17.1

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      ..++.||.|.|||.++...+...
T Consensus        40 ayLf~Gp~G~GKTt~Ar~lAk~L   62 (563)
T PRK06647         40 AYIFSGPRGVGKTSSARAFARCL   62 (563)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            36899999999997666544433

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=95.07  E-value=0.13  Score=45.76  Aligned_cols=26  Identities=19%  Similarity=0.209  Sum_probs=20.4

Q ss_pred             hhhhcCCcEEEEcCCCCchhhHhHHH
Q 018574           65 MPIIKGRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        65 ~~~~~~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      +.+.++.+++..+|+|+|||..+...
T Consensus       204 ~fve~~~Nli~lGp~GTGKThla~~l  229 (449)
T TIGR02688       204 PLVEPNYNLIELGPKGTGKSYIYNNL  229 (449)
T ss_pred             HHHhcCCcEEEECCCCCCHHHHHHHH
Confidence            44556889999999999999655543

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.

>PRK06904 replicative DNA helicase; Validated

Probab=95.06  E-value=0.44  Score=43.78  Aligned_cols=122  Identities=17%  Similarity=0.132  Sum_probs=59.1

Q ss_pred             hHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCC-cch
Q 018574           63 AVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGG-KSV  141 (354)
Q Consensus        63 ~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~-~~~  141 (354)
                      ...-+..|.-+++.|.||.|||..++-.+...+...  +..++|++. ---..|+..++-......+  ...+..+ .-.
T Consensus       214 ~t~Gl~~G~LiiIaarPg~GKTafalnia~~~a~~~--g~~Vl~fSl-EMs~~ql~~Rlla~~s~v~--~~~i~~g~~l~  288 (472)
T PRK06904        214 KTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMAS--EKPVLVFSL-EMPAEQIMMRMLASLSRVD--QTKIRTGQNLD  288 (472)
T ss_pred             HHhccCCCcEEEEEeCCCCChHHHHHHHHHHHHHhc--CCeEEEEec-cCCHHHHHHHHHHhhCCCC--HHHhccCCCCC
Confidence            334445567789999999999965544444333222  334666654 3344555555433322222  1112122 111


Q ss_pred             HHhHH-------hhcCCCeEEEe-----CcHHHHHHHhcCCccCCCccEEEEecchhhhc
Q 018574          142 GEDIR-------KLEHGVHVVSG-----TPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       142 ~~~~~-------~~~~~~~iiv~-----T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      .+++.       .+.....+.|-     |+..+....+........+++||||-.+.+..
T Consensus       289 ~~e~~~~~~a~~~l~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli~~  348 (472)
T PRK06904        289 QQDWAKISSTVGMFKQKPNLYIDDSSGLTPTELRSRARRVYRENGGLSLIMVDYLQLMRA  348 (472)
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEecHHhcCC
Confidence            22221       22222334442     44444433322111112478999999998753

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.06  E-value=0.39  Score=43.68  Aligned_cols=51  Identities=22%  Similarity=0.322  Sum_probs=33.4

Q ss_pred             CCCCHHHHHHHHHCCCCCChHHHHHhHh-------hhhcC-----CcEEEEcCCCCchhhHhH
Q 018574           38 MGIKDDLLRGIYQYGFEKPSAIQQRAVM-------PIIKG-----RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        38 ~~~~~~~~~~l~~~~~~~~~~~Q~~~~~-------~~~~~-----~~~ii~~~tGsGKT~~~~   88 (354)
                      +|++++-++.+...|+..-.+.-.++++       .+...     ..+++.+|+|+|||..++
T Consensus       494 FG~see~l~~~~~~Gmi~~g~~v~~il~~G~llv~qvk~s~~s~lvSvLl~Gp~~sGKTaLAA  556 (744)
T KOG0741|consen  494 FGISEEDLERFVMNGMINWGPPVTRILDDGKLLVQQVKNSERSPLVSVLLEGPPGSGKTALAA  556 (744)
T ss_pred             cCCCHHHHHHHHhCCceeecccHHHHHhhHHHHHHHhhccccCcceEEEEecCCCCChHHHHH
Confidence            6888888888888876544333333332       22221     358999999999995443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=95.05  E-value=0.21  Score=49.40  Aligned_cols=33  Identities=21%  Similarity=0.427  Sum_probs=22.6

Q ss_pred             CChHHHHHhHhhhhc------CCcEEEEcCCCCchhhHh
Q 018574           55 KPSAIQQRAVMPIIK------GRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~------~~~~ii~~~tGsGKT~~~   87 (354)
                      .+--.|.+.+..+.+      ..+.++.||+|+|||..+
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~  225 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVV  225 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHH
Confidence            343446665665543      358999999999999544

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.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=95.05  E-value=0.14  Score=45.21  Aligned_cols=19  Identities=32%  Similarity=0.434  Sum_probs=14.9

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      ..++.||+|+|||.++...
T Consensus        38 ~~Ll~G~~G~GKt~~a~~l   56 (355)
T TIGR02397        38 AYLFSGPRGTGKTSIARIF   56 (355)
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4689999999999655443

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.

>PHA00012 I assembly protein

Probab=95.04  E-value=0.5  Score=40.45  Aligned_cols=26  Identities=15%  Similarity=0.247  Sum_probs=21.7

Q ss_pred             EEEEcCCCCchhhHhHHHHhhccccC
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTVDTS   98 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~~~~   98 (354)
                      -++.|.+|+|||..++.-+...+.++
T Consensus         4 ylITGkPGSGKSl~aV~~I~~~L~~G   29 (361)
T PHA00012          4 YVVTGKLGAGKTLVAVSRIQDKLVKG   29 (361)
T ss_pred             EEEecCCCCCchHHHHHHHHHHHHcC
Confidence            47899999999998888777777665

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.03  E-value=0.031  Score=49.49  Aligned_cols=33  Identities=21%  Similarity=0.280  Sum_probs=21.1

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      +..++.+|+|+|||      ++..+.+...+....-+.|
T Consensus       187 rglLLfGPpgtGKt------mL~~aiAsE~~atff~iSa  219 (428)
T KOG0740|consen  187 RGLLLFGPPGTGKT------MLAKAIATESGATFFNISA  219 (428)
T ss_pred             chhheecCCCCchH------HHHHHHHhhhcceEeeccH
Confidence            56899999999999      4444444333343444444

>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]

Probab=95.02  E-value=0.058  Score=52.05  Aligned_cols=70  Identities=20%  Similarity=0.253  Sum_probs=57.5

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC-CCceeEEEEcCCHHHHHHHHHHHHHhcc
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS-SREVQALILSPTRELATQTEKVILAIGD  126 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~-~~~~~~lil~p~~~l~~q~~~~~~~~~~  126 (354)
                      .+++-|.+++...  ....+|.+..|||||.+...-+.+.+... -....++.++=|+..+.++.+++.+...
T Consensus         2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~   72 (655)
T COG0210           2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLLKLLG   72 (655)
T ss_pred             CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHHHHhC
Confidence            5789999998775  67899999999999998888877777653 2334689999999999999999988774

>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]

Probab=94.98  E-value=0.16  Score=48.58  Aligned_cols=92  Identities=16%  Similarity=0.124  Sum_probs=72.9

Q ss_pred             hHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcC-CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccC
Q 018574          259 KFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGY-NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARG  335 (354)
Q Consensus       259 ~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~-~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~G  335 (354)
                      |.+.+..+++..  .++.+||.++.+....++.+.|+.+ |.++.++|+++++.+|...-.+..+|+.+|+|+|..+- =
T Consensus       230 KTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAl-F  308 (730)
T COG1198         230 KTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRGEARVVIGTRSAL-F  308 (730)
T ss_pred             HHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcCCceEEEEechhh-c
Confidence            666666666533  3468999999999999999999866 88999999999999999999999999999999996322 2


Q ss_pred             CCcCCCcEEEecCCCC
Q 018574          336 LDVQQAILFFFLFLFC  351 (354)
Q Consensus       336 idi~~~~~Vi~~~~p~  351 (354)
                      .-++++..||.-.--.
T Consensus       309 ~Pf~~LGLIIvDEEHD  324 (730)
T COG1198         309 LPFKNLGLIIVDEEHD  324 (730)
T ss_pred             CchhhccEEEEecccc
Confidence            4466788777654333

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=94.97  E-value=0.13  Score=44.76  Aligned_cols=46  Identities=17%  Similarity=0.186  Sum_probs=29.6

Q ss_pred             HcCCCCCCCCCcceeecccCcccccCcccCCCCHHHHHHHHHCCCC
Q 018574            9 RRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFE   54 (354)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~   54 (354)
                      +..+..........................|+++..++.|++.||.
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~~kL~~~g~~   53 (344)
T PLN03187          8 DEGAQLQLVEAEEVDEEEDLFESIDKLISQGINAGDVKKLQDAGIY   53 (344)
T ss_pred             hhhhhhhhhhhhhhhhhhhcccCHHHHhhCCCCHHHHHHHHHcCCC
Confidence            3333333344444334444456666777788999999999999985

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=94.96  E-value=0.11  Score=50.65  Aligned_cols=19  Identities=32%  Similarity=0.422  Sum_probs=15.9

Q ss_pred             hcCCcEEEEcCCCCchhhH
Q 018574           68 IKGRDVIAQAQSGTGKTSM   86 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~   86 (354)
                      ..++.+++.||+|+|||..
T Consensus       210 ~~~~giLL~GppGtGKT~l  228 (733)
T TIGR01243       210 EPPKGVLLYGPPGTGKTLL  228 (733)
T ss_pred             CCCceEEEECCCCCChHHH
Confidence            3467899999999999954

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.94  E-value=0.61  Score=40.40  Aligned_cols=55  Identities=18%  Similarity=0.433  Sum_probs=32.8

Q ss_pred             CCccEEEEecchhhhcc-CcHHHHHHHHhhC------CCCCcEEEEEeeCchhHHHHHHhcc
Q 018574          174 RAIKLLVLDESDEMLSR-GFKDQIYDVYRYL------PPDLQVVLISATLPHEILEMTTKFM  228 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~------~~~~~~i~lSaT~~~~~~~~~~~~~  228 (354)
                      .++++||+|=+-++... .....+..+.+..      .+...++.++||...+.......+.
T Consensus       195 ~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a~~f~  256 (318)
T PRK10416        195 RGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQAKAFH  256 (318)
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHHHHHH
Confidence            46789999988765322 2334555554432      2344578999998665555444443

>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=94.92  E-value=0.033  Score=43.23  Aligned_cols=34  Identities=26%  Similarity=0.503  Sum_probs=20.7

Q ss_pred             CCccEEEEecchhhh--ccCcHHHHHHHHhhCCCCCcEE
Q 018574          174 RAIKLLVLDESDEML--SRGFKDQIYDVYRYLPPDLQVV  210 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~--~~~~~~~~~~i~~~~~~~~~~i  210 (354)
                      ..-+++|+||.=.|-  ..+|.+.+..+++   ++.+++
T Consensus        94 ~~~~liviDEIG~mEl~~~~F~~~v~~~l~---s~~~vi  129 (168)
T PF03266_consen   94 SSSDLIVIDEIGKMELKSPGFREAVEKLLD---SNKPVI  129 (168)
T ss_dssp             HCCHEEEE---STTCCC-CHHHHHHHHHHC---TTSEEE
T ss_pred             CCCCEEEEeccchhhhcCHHHHHHHHHHHc---CCCcEE
Confidence            356799999998874  4567888877777   444444

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.

>PRK09354 recA recombinase A; Provisional

Probab=94.90  E-value=0.054  Score=47.07  Aligned_cols=44  Identities=18%  Similarity=0.240  Sum_probs=32.1

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ  116 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q  116 (354)
                      |+-+.|.+|+|+|||...+..+......   +..++|+-.-.++-..
T Consensus        60 G~IteI~G~~GsGKTtLal~~~~~~~~~---G~~~~yId~E~s~~~~  103 (349)
T PRK09354         60 GRIVEIYGPESSGKTTLALHAIAEAQKA---GGTAAFIDAEHALDPV  103 (349)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc---CCcEEEECCccchHHH
Confidence            4567899999999998888777666543   3458888776665553

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=94.84  E-value=0.14  Score=45.82  Aligned_cols=18  Identities=33%  Similarity=0.492  Sum_probs=15.2

Q ss_pred             CCcEEEEcCCCCchhhHh
Q 018574           70 GRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~   87 (354)
                      .+.+++.||+|+|||..+
T Consensus       165 p~gvLL~GppGtGKT~lA  182 (389)
T PRK03992        165 PKGVLLYGPPGTGKTLLA  182 (389)
T ss_pred             CCceEEECCCCCChHHHH
Confidence            467999999999999543

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.76  E-value=0.11  Score=48.72  Aligned_cols=35  Identities=20%  Similarity=0.238  Sum_probs=28.1

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCc
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ  208 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~  208 (354)
                      ++..++|+|||-..++......+...+..+..+.-
T Consensus       621 r~P~VLILDEATSALDaeSE~lVq~aL~~~~~~rT  655 (716)
T KOG0058|consen  621 RNPRVLILDEATSALDAESEYLVQEALDRLMQGRT  655 (716)
T ss_pred             cCCCEEEEechhhhcchhhHHHHHHHHHHhhcCCe
Confidence            57789999999999888777888888877666643

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=94.69  E-value=0.62  Score=42.31  Aligned_cols=58  Identities=19%  Similarity=0.180  Sum_probs=34.1

Q ss_pred             HHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHH
Q 018574           61 QRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVI  121 (354)
Q Consensus        61 ~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~  121 (354)
                      -+.+.-+..|.-+++.|+||.|||...+-.+.......  +.+++|+.. -.-..|+..++
T Consensus       185 D~~~~G~~~g~liviag~pg~GKT~~al~ia~~~a~~~--g~~v~~fSl-Em~~~~l~~Rl  242 (421)
T TIGR03600       185 DRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALRE--GKPVLFFSL-EMSAEQLGERL  242 (421)
T ss_pred             HHHhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhC--CCcEEEEEC-CCCHHHHHHHH
Confidence            34444455577889999999999976665554443222  334777762 22334444443

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=94.64  E-value=0.29  Score=41.15  Aligned_cols=140  Identities=16%  Similarity=0.182  Sum_probs=69.8

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC---HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT---RELATQTEKVILAIGDFINIQAHACVGGKSVGE  143 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~---~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~  143 (354)
                      +..|.-+++.|.||.|||..++-.+...+...  +..++|++.-   .++...+......    .+  ...+..+.-...
T Consensus        16 ~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~--~~~vly~SlEm~~~~l~~R~la~~s~----v~--~~~i~~g~l~~~   87 (259)
T PF03796_consen   16 LRPGELTVIAARPGVGKTAFALQIALNAALNG--GYPVLYFSLEMSEEELAARLLARLSG----VP--YNKIRSGDLSDE   87 (259)
T ss_dssp             B-TT-EEEEEESTTSSHHHHHHHHHHHHHHTT--SSEEEEEESSS-HHHHHHHHHHHHHT----ST--HHHHHCCGCHHH
T ss_pred             CCcCcEEEEEecccCCchHHHHHHHHHHHHhc--CCeEEEEcCCCCHHHHHHHHHHHhhc----ch--hhhhhccccCHH
Confidence            34466789999999999977777766666543  2458888753   3333333332211    11  111111111111


Q ss_pred             hH-------HhhcCCCeEEEeC----cHHHHHHHhcCCccCCCccEEEEecchhhhcc----CcHHH-------HHHHHh
Q 018574          144 DI-------RKLEHGVHVVSGT----PGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR----GFKDQ-------IYDVYR  201 (354)
Q Consensus       144 ~~-------~~~~~~~~iiv~T----~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~----~~~~~-------~~~i~~  201 (354)
                      +.       ..+....-++..+    ++.+.............+++||||=.|.+...    .-...       ++.+..
T Consensus        88 e~~~~~~~~~~l~~~~l~i~~~~~~~~~~i~~~i~~~~~~~~~~~~v~IDyl~ll~~~~~~~~~~~~~~~i~~~Lk~lA~  167 (259)
T PF03796_consen   88 EFERLQAAAEKLSDLPLYIEDTPSLTIDDIESKIRRLKREGKKVDVVFIDYLQLLKSEDSSDNRRQEIGEISRELKALAK  167 (259)
T ss_dssp             HHHHHHHHHHHHHTSEEEEEESSS-BHHHHHHHHHHHHHHSTTEEEEEEEEGGGSBTSCSSSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCcEEEECCCCCCHHHHHHHHHHHHhhccCCCEEEechHHHhcCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            11       1222222233333    33444443322222257789999999998653    22233       333333


Q ss_pred             hCCCCCcEEEEEeeC
Q 018574          202 YLPPDLQVVLISATL  216 (354)
Q Consensus       202 ~~~~~~~~i~lSaT~  216 (354)
                      .  .+..++.+|..-
T Consensus       168 ~--~~i~vi~~sQln  180 (259)
T PF03796_consen  168 E--LNIPVIALSQLN  180 (259)
T ss_dssp             H--HTSEEEEEEEBS
T ss_pred             H--cCCeEEEccccC
Confidence            3  256677666653

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. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=94.63  E-value=0.083  Score=39.93  Aligned_cols=117  Identities=15%  Similarity=0.259  Sum_probs=56.3

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh--
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL--  148 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  148 (354)
                      -.+++.+++|+|||++..- +...+.....+. .=+++|-          .+.-+...++++..+..|....-.....  
T Consensus         6 mki~ITG~PGvGKtTl~~k-i~e~L~~~g~kv-gGf~t~E----------VR~gGkR~GF~Ivdl~tg~~~~la~~~~~~   73 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLK-IAEKLREKGYKV-GGFITPE----------VREGGKRIGFKIVDLATGEEGILARVGFSR   73 (179)
T ss_pred             eEEEEeCCCCccHHHHHHH-HHHHHHhcCcee-eeEEeee----------eecCCeEeeeEEEEccCCceEEEEEcCCCC
Confidence            3689999999999965443 344443332222 2333442          2233445567776665443211000000  


Q ss_pred             -cCC-CeEEEeCcHHH-HHHHhcCCccCCCccEEEEecchhhh--ccCcHHHHHHHHhh
Q 018574          149 -EHG-VHVVSGTPGRV-CDMIKRKTLRTRAIKLLVLDESDEML--SRGFKDQIYDVYRY  202 (354)
Q Consensus       149 -~~~-~~iiv~T~~~l-~~~~~~~~~~~~~~~~vvvDE~h~~~--~~~~~~~~~~i~~~  202 (354)
                       .-+ +.|.+-..+.+ ...+++-.   ..-+++|+||.--|-  ...|...+..+++.
T Consensus        74 ~rvGkY~V~v~~le~i~~~al~rA~---~~aDvIIIDEIGpMElks~~f~~~ve~vl~~  129 (179)
T COG1618          74 PRVGKYGVNVEGLEEIAIPALRRAL---EEADVIIIDEIGPMELKSKKFREAVEEVLKS  129 (179)
T ss_pred             cccceEEeeHHHHHHHhHHHHHHHh---hcCCEEEEecccchhhccHHHHHHHHHHhcC
Confidence             000 11211111111 11111100   124899999998763  45677777777653

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=94.63  E-value=0.099  Score=43.98  Aligned_cols=45  Identities=11%  Similarity=0.274  Sum_probs=29.1

Q ss_pred             HHHHCCCCCChHHHHHhHhhhhc--CCcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           47 GIYQYGFEKPSAIQQRAVMPIIK--GRDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        47 ~l~~~~~~~~~~~Q~~~~~~~~~--~~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      .+.+.|+   .+.|.+.+..++.  +..+++.++||||||+... .++..+
T Consensus        58 ~l~~lg~---~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~-all~~i  104 (264)
T cd01129          58 DLEKLGL---KPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLY-SALSEL  104 (264)
T ss_pred             CHHHcCC---CHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHH-HHHhhh
Confidence            4555654   5556666665554  3468999999999996543 344444

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.

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=94.61  E-value=0.32  Score=40.43  Aligned_cols=28  Identities=25%  Similarity=0.395  Sum_probs=20.3

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      +-.|+.+++.+|.|+|||.. +-.+...+
T Consensus        13 i~~Gqr~~I~G~~G~GKTTL-lr~I~n~l   40 (249)
T cd01128          13 IGKGQRGLIVAPPKAGKTTL-LQSIANAI   40 (249)
T ss_pred             cCCCCEEEEECCCCCCHHHH-HHHHHhcc
Confidence            45689999999999999953 33344443

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.

>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=94.59  E-value=0.054  Score=44.48  Aligned_cols=40  Identities=15%  Similarity=0.283  Sum_probs=24.1

Q ss_pred             cEEEEecchhhh-c----cCcHHHHHHHHhhCCC-CCcEEEEEeeC
Q 018574          177 KLLVLDESDEML-S----RGFKDQIYDVYRYLPP-DLQVVLISATL  216 (354)
Q Consensus       177 ~~vvvDE~h~~~-~----~~~~~~~~~i~~~~~~-~~~~i~lSaT~  216 (354)
                      -+||+||+|.+. .    ..+...+..++..... ....++++++.
T Consensus       120 ~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~~S~  165 (234)
T PF01637_consen  120 VIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVSIVITGSS  165 (234)
T ss_dssp             EEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEEEEEEESS
T ss_pred             EEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCceEEEECCc
Confidence            689999999998 2    2355566666666322 23345566664

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]

Probab=94.59  E-value=0.36  Score=37.56  Aligned_cols=143  Identities=16%  Similarity=0.230  Sum_probs=74.0

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHH-HHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQT-EKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      -++|.-..|-|||++++-.++..+..+.   ++.|+==.+.-...- ...+..+.  ..+....+..+-..+.....   
T Consensus        30 li~V~TG~GKGKTTAAlG~alRa~GhG~---rv~vvQFiKg~~~~GE~~~~~~~~--~~v~~~~~~~g~tw~~~~~~---  101 (198)
T COG2109          30 LIIVFTGNGKGKTTAALGLALRALGHGL---RVGVVQFIKGGWKYGEEAALEKFG--LGVEFHGMGEGFTWETQDRE---  101 (198)
T ss_pred             eEEEEecCCCChhHHHHHHHHHHhcCCC---EEEEEEEeecCcchhHHHHHHhhc--cceeEEecCCceeCCCcCcH---
Confidence            4788888999999999988888876654   355543222110100 11122221  11222222221111110000   


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc--HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHh
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF--KDQIYDVYRYLPPDLQVVLISATLPHEILEMTTK  226 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~--~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~  226 (354)
                       .++  ........... ..+....+++||+||.--.+..++  .+.+..+++..|.+.-+|+..-..++.+.+....
T Consensus       102 -~d~--~aa~~~w~~a~-~~l~~~~ydlviLDEl~~al~~g~l~~eeV~~~l~~kP~~~~vIiTGr~ap~~lie~ADl  175 (198)
T COG2109         102 -ADI--AAAKAGWEHAK-EALADGKYDLVILDELNYALRYGLLPLEEVVALLKARPEHTHVIITGRGAPPELIELADL  175 (198)
T ss_pred             -HHH--HHHHHHHHHHH-HHHhCCCCCEEEEehhhHHHHcCCCCHHHHHHHHhcCCCCcEEEEECCCCCHHHHHHHHH
Confidence             011  11111111111 123334789999999998876653  5677777887777777666555567766665543

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=94.52  E-value=0.49  Score=43.25  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=17.8

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhcc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      ..++.||+|+|||.++...+-...
T Consensus        41 a~Lf~Gp~G~GKtt~A~~lAk~l~   64 (451)
T PRK06305         41 AYLFSGIRGTGKTTLARIFAKALN   64 (451)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhc
Confidence            468999999999976665544433

>PRK10436 hypothetical protein; Provisional

Probab=94.51  E-value=0.087  Score=47.94  Aligned_cols=45  Identities=18%  Similarity=0.285  Sum_probs=28.8

Q ss_pred             HHHCCCCCChHHHHHhHhhhhc--CCcEEEEcCCCCchhhHhHHHHhhccc
Q 018574           48 IYQYGFEKPSAIQQRAVMPIIK--GRDVIAQAQSGTGKTSMIALTVCQTVD   96 (354)
Q Consensus        48 l~~~~~~~~~~~Q~~~~~~~~~--~~~~ii~~~tGsGKT~~~~~~~~~~~~   96 (354)
                      +.+.|+   .+.|.+.+..+..  +.-+++.+|||||||+.... ++..+.
T Consensus       197 L~~LG~---~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a-~l~~~~  243 (462)
T PRK10436        197 LETLGM---TPAQLAQFRQALQQPQGLILVTGPTGSGKTVTLYS-ALQTLN  243 (462)
T ss_pred             HHHcCc---CHHHHHHHHHHHHhcCCeEEEECCCCCChHHHHHH-HHHhhC
Confidence            444554   5556666665543  45689999999999975543 444443

>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]

Probab=94.46  E-value=0.39  Score=43.43  Aligned_cols=70  Identities=17%  Similarity=0.243  Sum_probs=52.9

Q ss_pred             ceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh---cC-CCeEEEeCcHHHHHHHhcCCccCCCc
Q 018574          101 EVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL---EH-GVHVVSGTPGRVCDMIKRKTLRTRAI  176 (354)
Q Consensus       101 ~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~iiv~T~~~l~~~~~~~~~~~~~~  176 (354)
                      .+.++|.++++.=++.+++.|.+.+    +++.+++|+...++....+   .. ..+|+|+|.-      -...++..++
T Consensus       517 ~ppiIIFvN~kk~~d~lAk~LeK~g----~~~~tlHg~k~qeQRe~aL~~fr~~t~dIlVaTDv------AgRGIDIpnV  586 (673)
T KOG0333|consen  517 DPPIIIFVNTKKGADALAKILEKAG----YKVTTLHGGKSQEQRENALADFREGTGDILVATDV------AGRGIDIPNV  586 (673)
T ss_pred             CCCEEEEEechhhHHHHHHHHhhcc----ceEEEeeCCccHHHHHHHHHHHHhcCCCEEEEecc------cccCCCCCcc
Confidence            4569999999999998888887776    9999999999887665543   33 5899999952      2235566666


Q ss_pred             cEEE
Q 018574          177 KLLV  180 (354)
Q Consensus       177 ~~vv  180 (354)
                      ++||
T Consensus       587 SlVi  590 (673)
T KOG0333|consen  587 SLVI  590 (673)
T ss_pred             ceee
Confidence            7665

>PRK08506 replicative DNA helicase; Provisional

Probab=94.44  E-value=0.55  Score=43.22  Aligned_cols=54  Identities=20%  Similarity=0.177  Sum_probs=33.2

Q ss_pred             hhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHH
Q 018574           65 MPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVIL  122 (354)
Q Consensus        65 ~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~  122 (354)
                      .-+..|.-+++.|.||.|||..++-.+...+..   +.++++++. -.-..|+..++-
T Consensus       187 ~G~~~G~LivIaarpg~GKT~fal~ia~~~~~~---g~~V~~fSl-EMs~~ql~~Rll  240 (472)
T PRK08506        187 KGFNKGDLIIIAARPSMGKTTLCLNMALKALNQ---DKGVAFFSL-EMPAEQLMLRML  240 (472)
T ss_pred             CCCCCCceEEEEcCCCCChHHHHHHHHHHHHhc---CCcEEEEeC-cCCHHHHHHHHH
Confidence            334456778999999999997666665554422   334666653 234455555443

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=94.43  E-value=0.11  Score=41.22  Aligned_cols=32  Identities=19%  Similarity=0.411  Sum_probs=24.2

Q ss_pred             ChHHHHHhHhhhh-cCCcEEEEcCCCCchhhHh
Q 018574           56 PSAIQQRAVMPII-KGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        56 ~~~~Q~~~~~~~~-~~~~~ii~~~tGsGKT~~~   87 (354)
                      +.+.|.+.+.... .+..+++.+|||+|||+..
T Consensus        10 ~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTll   42 (186)
T cd01130          10 FSPLQAAYLWLAVEARKNILISGGTGSGKTTLL   42 (186)
T ss_pred             CCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHH
Confidence            4566766666544 4789999999999999644

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.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=94.41  E-value=0.082  Score=41.15  Aligned_cols=48  Identities=13%  Similarity=0.180  Sum_probs=31.2

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .+++.+++|||||..+...+.. .     +.+++++......-.++.+++....
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~-~-----~~~~~~iat~~~~~~e~~~ri~~h~   50 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQ-S-----GLQVLYIATAQPFDDEMAARIAHHR   50 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHH-c-----CCCcEeCcCCCCChHHHHHHHHHHH
Confidence            5799999999999655544332 1     2236777766666666666665544

>PRK13764 ATPase; Provisional

Probab=94.40  E-value=0.085  Score=49.41  Aligned_cols=27  Identities=11%  Similarity=0.366  Sum_probs=20.1

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccc
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVD   96 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~   96 (354)
                      .++++++.+|||||||+.. ..++..+.
T Consensus       256 ~~~~ILIsG~TGSGKTTll-~AL~~~i~  282 (602)
T PRK13764        256 RAEGILIAGAPGAGKSTFA-QALAEFYA  282 (602)
T ss_pred             cCCEEEEECCCCCCHHHHH-HHHHHHHh
Confidence            3678999999999999644 44555554

>PHA00350 putative assembly protein

Probab=94.38  E-value=0.33  Score=43.07  Aligned_cols=26  Identities=8%  Similarity=0.118  Sum_probs=18.6

Q ss_pred             EEEEcCCCCchhhHhHH-HHhhccccC
Q 018574           73 VIAQAQSGTGKTSMIAL-TVCQTVDTS   98 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~-~~~~~~~~~   98 (354)
                      .++.|.+|||||..++. .++..+..+
T Consensus         4 ~l~tG~pGSGKT~~aV~~~i~palk~G   30 (399)
T PHA00350          4 YAIVGRPGSYKSYEAVVYHIIPALKDG   30 (399)
T ss_pred             EEEecCCCCchhHHHHHHHHHHHHHCC
Confidence            47899999999987765 344454444

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=94.37  E-value=0.76  Score=45.78  Aligned_cols=19  Identities=21%  Similarity=0.489  Sum_probs=15.6

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+.++.||+|+|||..+-
T Consensus       194 ~~n~lL~G~pGvGKT~l~~  212 (852)
T TIGR03346       194 KNNPVLIGEPGVGKTAIVE  212 (852)
T ss_pred             CCceEEEcCCCCCHHHHHH
Confidence            3588999999999996544

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.

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=94.37  E-value=0.09  Score=51.76  Aligned_cols=154  Identities=17%  Similarity=0.188  Sum_probs=82.5

Q ss_pred             cCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEE
Q 018574           27 EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALI  106 (354)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~li  106 (354)
                      ........|++.|-...++..++++-+..+..-+...=-.+..-+.++..+|+|+|||+++-..+.+.- .+.+  ++.+
T Consensus       256 ~~~~~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s-~~~~--kisf  332 (1080)
T KOG0732|consen  256 LSVDSSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACS-RGNR--KISF  332 (1080)
T ss_pred             hhhhcccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhc-cccc--ccch
Confidence            445667889999988888888888644332211111111233467899999999999964433322221 1111  1111


Q ss_pred             EcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          107 LSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       107 l~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      -.-      .-++.+                               .--|+..++=++++.. .........+.+||++-
T Consensus       333 fmr------kgaD~l-------------------------------skwvgEaERqlrllFe-eA~k~qPSIIffdeIdG  374 (1080)
T KOG0732|consen  333 FMR------KGADCL-------------------------------SKWVGEAERQLRLLFE-EAQKTQPSIIFFDEIDG  374 (1080)
T ss_pred             hhh------cCchhh-------------------------------ccccCcHHHHHHHHHH-HHhccCceEEecccccc
Confidence            000      000000                               0112333333333322 11223568899999995


Q ss_pred             hhcc----------CcHHHHHHHHhhCCCCCcEEEEEeeCchhHH
Q 018574          187 MLSR----------GFKDQIYDVYRYLPPDLQVVLISATLPHEIL  221 (354)
Q Consensus       187 ~~~~----------~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~  221 (354)
                      +.-.          +....+..++.-+....|+++++||..++..
T Consensus       375 lapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigATnRpda~  419 (1080)
T KOG0732|consen  375 LAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGATNRPDAI  419 (1080)
T ss_pred             ccccccchHHHhhhhHHHHHHHhccCCCCCCceEEEcccCCcccc
Confidence            4211          1334555666666778899999999765533

>TIGR00416 sms DNA repair protein RadA

Probab=94.33  E-value=0.32  Score=44.36  Aligned_cols=52  Identities=21%  Similarity=0.421  Sum_probs=35.0

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      |.-+++.+++|+|||...+..+......   +.+++|+..- +-..|+..+..+++
T Consensus        94 GsvilI~G~pGsGKTTL~lq~a~~~a~~---g~kvlYvs~E-Es~~qi~~ra~rlg  145 (454)
T TIGR00416        94 GSLILIGGDPGIGKSTLLLQVACQLAKN---QMKVLYVSGE-ESLQQIKMRAIRLG  145 (454)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHhc---CCcEEEEECc-CCHHHHHHHHHHcC
Confidence            5678999999999997777665544433   2358888753 44566666655543

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=94.31  E-value=0.12  Score=47.60  Aligned_cols=46  Identities=15%  Similarity=0.276  Sum_probs=30.0

Q ss_pred             HHHHCCCCCChHHHHHhHhhhhcC-C-cEEEEcCCCCchhhHhHHHHhhccc
Q 018574           47 GIYQYGFEKPSAIQQRAVMPIIKG-R-DVIAQAQSGTGKTSMIALTVCQTVD   96 (354)
Q Consensus        47 ~l~~~~~~~~~~~Q~~~~~~~~~~-~-~~ii~~~tGsGKT~~~~~~~~~~~~   96 (354)
                      .+.+.|+   .+.|.+.+..+... + -+++.||||||||+.... ++..+.
T Consensus       220 ~l~~Lg~---~~~~~~~l~~~~~~~~GlilitGptGSGKTTtL~a-~L~~l~  267 (486)
T TIGR02533       220 DLETLGM---SPELLSRFERLIRRPHGIILVTGPTGSGKTTTLYA-ALSRLN  267 (486)
T ss_pred             CHHHcCC---CHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHH-HHhccC
Confidence            3445554   56677777666553 3 468999999999965543 344443

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.31  E-value=0.52  Score=43.44  Aligned_cols=19  Identities=32%  Similarity=0.459  Sum_probs=14.7

Q ss_pred             EEEEcCCCCchhhHhHHHH
Q 018574           73 VIAQAQSGTGKTSMIALTV   91 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~   91 (354)
                      .++.||+|+|||.++...+
T Consensus        41 yLf~Gp~G~GKTtlAr~lA   59 (486)
T PRK14953         41 YIFAGPRGTGKTTIARILA   59 (486)
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5789999999996555443

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=94.30  E-value=0.069  Score=46.46  Aligned_cols=43  Identities=19%  Similarity=0.387  Sum_probs=27.4

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTREL  113 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l  113 (354)
                      +..++++++.|+||||||+. +-.++..+...   .+++.+=.+.++
T Consensus       157 v~~~~nili~G~tgSGKTTl-l~aL~~~ip~~---~ri~tiEd~~El  199 (332)
T PRK13900        157 VISKKNIIISGGTSTGKTTF-TNAALREIPAI---ERLITVEDAREI  199 (332)
T ss_pred             HHcCCcEEEECCCCCCHHHH-HHHHHhhCCCC---CeEEEecCCCcc
Confidence            34578999999999999954 34455555433   345554444443

>PRK08840 replicative DNA helicase; Provisional

Probab=94.30  E-value=0.76  Score=42.11  Aligned_cols=60  Identities=18%  Similarity=0.127  Sum_probs=34.6

Q ss_pred             HHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHH
Q 018574           60 QQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVIL  122 (354)
Q Consensus        60 Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~  122 (354)
                      --+...-+..|.-+++.|.||.|||..++-.+.......  +..++|+..- --..|+..++-
T Consensus       207 LD~~~~G~~~g~LiviaarPg~GKTafalnia~~~a~~~--~~~v~~fSlE-Ms~~ql~~Rll  266 (464)
T PRK08840        207 LNKKTAGLQGSDLIIVAARPSMGKTTFAMNLCENAAMDQ--DKPVLIFSLE-MPAEQLMMRML  266 (464)
T ss_pred             HHHhhcCCCCCceEEEEeCCCCchHHHHHHHHHHHHHhC--CCeEEEEecc-CCHHHHHHHHH
Confidence            334444555677889999999999965544444333222  3346666532 33445555443

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=94.29  E-value=0.12  Score=45.18  Aligned_cols=19  Identities=26%  Similarity=0.487  Sum_probs=15.7

Q ss_pred             CcEEEEcCCCCchhhHhHH
Q 018574           71 RDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~   89 (354)
                      .++++.||+|+|||..+..
T Consensus        52 ~~~ll~GppG~GKT~la~~   70 (328)
T PRK00080         52 DHVLLYGPPGLGKTTLANI   70 (328)
T ss_pred             CcEEEECCCCccHHHHHHH
Confidence            5799999999999965543

>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin

Probab=94.15  E-value=0.033  Score=43.65  Aligned_cols=43  Identities=19%  Similarity=0.229  Sum_probs=27.9

Q ss_pred             hcCCCeEEEeCcHHHHHHHhcCCc--cCCCccEEEEecchhhhcc
Q 018574          148 LEHGVHVVSGTPGRVCDMIKRKTL--RTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       148 ~~~~~~iiv~T~~~l~~~~~~~~~--~~~~~~~vvvDE~h~~~~~  190 (354)
                      ....++|+|+++..|..-.....+  ...+-.+|||||||.+.+.
T Consensus       116 ~~~~adivi~~y~yl~~~~~~~~~~~~~~~~~ivI~DEAHNL~~~  160 (174)
T PF06733_consen  116 LAKNADIVICNYNYLFDPSIRKSLFGIDLKDNIVIFDEAHNLEDA  160 (174)
T ss_dssp             CGGG-SEEEEETHHHHSHHHHHHHCT--CCCEEEEETTGGGCGGG
T ss_pred             hcccCCEEEeCHHHHhhHHHHhhhccccccCcEEEEecccchHHH
Confidence            344589999999888764333222  2234578999999998543

RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.

>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated

Probab=94.07  E-value=0.7  Score=35.95  Aligned_cols=142  Identities=14%  Similarity=0.172  Sum_probs=74.0

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHH-HHHHhccCcCeEEEEEeCCcchHHhHHhhc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEK-VILAIGDFINIQAHACVGGKSVGEDIRKLE  149 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (354)
                      .-+.|....|-|||++++-.++..+..+.   +++++==.+.-...-.. .++...   ++.......+......  ...
T Consensus        22 Gli~VYtGdGKGKTTAAlGlalRAaG~G~---rV~iiQFlKg~~~~GE~~~l~~~~---~v~~~~~g~~~~~~~~--~~~   93 (178)
T PRK07414         22 GLVQVFTSSQRNFFTSVMAQALRIAGQGT---PVLIVQFLKGGIQQGPDRPIQLGQ---NLDWVRCDLPRCLDTP--HLD   93 (178)
T ss_pred             CEEEEEeCCCCCchHHHHHHHHHHhcCCC---EEEEEEEecCCCcchHHHHHHhCC---CcEEEECCCCCeeeCC--CcC
Confidence            35677888999999999988888876654   46666533322111111 122211   2333322111000000  000


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc--HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHH
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF--KDQIYDVYRYLPPDLQVVLISATLPHEILEMT  224 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~--~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~  224 (354)
                       .-+.  ........... ..+....+++||+||+-...+.++  .+.+..+++..|...-+|+..-.+|+++.+..
T Consensus        94 -~~~~--~~~~~~~~~a~-~~l~~~~~dlvVLDEi~~Al~~gli~~eeVl~~L~~rp~~~evILTGR~~p~~Lie~A  166 (178)
T PRK07414         94 -ESEK--KALQELWQYTQ-AVVDEGRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVILTGPEMPESLLAIA  166 (178)
T ss_pred             -HHHH--HHHHHHHHHHH-HHHhCCCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhC
Confidence             0000  00111111111 122345789999999998877764  56777788887777666665556666665544

>PHA02535 P terminase ATPase subunit; Provisional

Probab=94.06  E-value=0.45  Score=44.22  Aligned_cols=86  Identities=14%  Similarity=0.080  Sum_probs=61.8

Q ss_pred             CCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHH
Q 018574           39 GIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTE  118 (354)
Q Consensus        39 ~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~  118 (354)
                      .+++.....+...-...+.+||...+..-...+.-++.-.--.|||+.+..-++..+...  +...+++.|+++.+....
T Consensus       122 ~~s~~~~~~l~~~~~~~l~~YQ~~W~~~~~~~r~r~ilKSRQiG~T~~fA~EA~~dal~~--G~nqiflSas~~QA~~f~  199 (581)
T PHA02535        122 DISDEQTEKLIEAFLDSLFDYQKHWYRAGLHHRTRNILKSRQIGATYYFAREALEDALLT--GRNQIFLSASKAQAHVFK  199 (581)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHhCccccceeeEeeecccchHHHHHHHHHHHHHhc--CCceEEECCCHHHHHHHH
Confidence            378788888887666789999999886532234445555666899988776555544332  345799999999999888


Q ss_pred             HHHHHhcc
Q 018574          119 KVILAIGD  126 (354)
Q Consensus       119 ~~~~~~~~  126 (354)
                      +.+..+..
T Consensus       200 ~yi~~~a~  207 (581)
T PHA02535        200 QYIIAFAR  207 (581)
T ss_pred             HHHHHHHH
Confidence            88777743

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

Probab=93.98  E-value=0.057  Score=44.83  Aligned_cols=19  Identities=26%  Similarity=0.462  Sum_probs=15.5

Q ss_pred             CcEEEEcCCCCchhhHhHH
Q 018574           71 RDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~   89 (354)
                      .++++.+|+|.|||+.+.+
T Consensus        53 DHvLl~GPPGlGKTTLA~I   71 (332)
T COG2255          53 DHVLLFGPPGLGKTTLAHI   71 (332)
T ss_pred             CeEEeeCCCCCcHHHHHHH
Confidence            4799999999999964443

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=93.97  E-value=0.087  Score=49.95  Aligned_cols=40  Identities=18%  Similarity=0.269  Sum_probs=27.5

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      .+-+++++||.-.-++......+.+.+....++.-++.+|
T Consensus       486 ~~~~illLDEpts~LD~~~~~~i~~~L~~~~~~~tiIiit  525 (571)
T TIGR02203       486 KDAPILILDEATSALDNESERLVQAALERLMQGRTTLVIA  525 (571)
T ss_pred             cCCCEEEEeCccccCCHHHHHHHHHHHHHHhCCCEEEEEe
Confidence            4568899999998888777776766666654454444443

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=93.92  E-value=0.49  Score=46.99  Aligned_cols=20  Identities=20%  Similarity=0.391  Sum_probs=15.9

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      ..+.++.||+|+|||...-.
T Consensus       199 ~~n~lL~G~pGvGKT~l~~~  218 (857)
T PRK10865        199 KNNPVLIGEPGVGKTAIVEG  218 (857)
T ss_pred             cCceEEECCCCCCHHHHHHH
Confidence            35889999999999965543

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=93.89  E-value=0.52  Score=40.78  Aligned_cols=51  Identities=14%  Similarity=0.296  Sum_probs=28.9

Q ss_pred             HHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEe
Q 018574          161 RVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISA  214 (354)
Q Consensus       161 ~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSa  214 (354)
                      .+...+....+. ....++|+|++|.|.... .+.+.+.+..-+ +..++++|.
T Consensus       111 ~i~~~l~~~p~~-~~~kVvII~~ae~m~~~a-aNaLLK~LEEPp-~~~fILi~~  161 (314)
T PRK07399        111 EIKRFLSRPPLE-APRKVVVIEDAETMNEAA-ANALLKTLEEPG-NGTLILIAP  161 (314)
T ss_pred             HHHHHHccCccc-CCceEEEEEchhhcCHHH-HHHHHHHHhCCC-CCeEEEEEC
Confidence            344444433332 467999999999984432 344555555544 554444443

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.88  E-value=0.45  Score=45.26  Aligned_cols=40  Identities=13%  Similarity=0.243  Sum_probs=23.7

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      ....++|+||+|.+.... .+.+...+...+... ++++.+|
T Consensus       120 ~~~KVvIIdea~~Ls~~a-~naLLK~LEepp~~t-ifIL~tt  159 (614)
T PRK14971        120 GKYKIYIIDEVHMLSQAA-FNAFLKTLEEPPSYA-IFILATT  159 (614)
T ss_pred             CCcEEEEEECcccCCHHH-HHHHHHHHhCCCCCe-EEEEEeC
Confidence            467899999999984432 334445555444443 3444444

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=93.87  E-value=0.49  Score=45.04  Aligned_cols=52  Identities=21%  Similarity=0.307  Sum_probs=29.0

Q ss_pred             ccCcccCCCCHHHHHHHHH-CCCCCChHHHHHhHhh-hhcCCcEEEEcCCCCchhhH
Q 018574           32 ITSFDAMGIKDDLLRGIYQ-YGFEKPSAIQQRAVMP-IIKGRDVIAQAQSGTGKTSM   86 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~-~~~~~~~~~Q~~~~~~-~~~~~~~ii~~~tGsGKT~~   86 (354)
                      ..+|++.|=-+++...+.+ .+.  |-.| .+.+.. +..+..+++.+|+|+|||+.
T Consensus       668 nV~WdDVGGLeevK~eIldTIql--PL~h-peLfssglrkRSGILLYGPPGTGKTLl  721 (953)
T KOG0736|consen  668 NVSWDDVGGLEEVKTEILDTIQL--PLKH-PELFSSGLRKRSGILLYGPPGTGKTLL  721 (953)
T ss_pred             ccchhcccCHHHHHHHHHHHhcC--cccC-hhhhhccccccceeEEECCCCCchHHH
Confidence            3567777644455444433 222  1111 123322 33356799999999999953

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=93.86  E-value=0.24  Score=45.04  Aligned_cols=45  Identities=20%  Similarity=0.228  Sum_probs=28.8

Q ss_pred             CccEEEEecchhhhccC-------cHHHHHHHHhhC---CCCCcEEEEEeeCchh
Q 018574          175 AIKLLVLDESDEMLSRG-------FKDQIYDVYRYL---PPDLQVVLISATLPHE  219 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~-------~~~~~~~i~~~~---~~~~~~i~lSaT~~~~  219 (354)
                      ...+|++||.|.+-..-       ....++.++..+   .++--+|++.||--++
T Consensus       396 APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiIvigATNfpe  450 (752)
T KOG0734|consen  396 APCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGIIVIGATNFPE  450 (752)
T ss_pred             CCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceEEEeccCChh
Confidence            55789999999874321       234455554444   3456799999996444

>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion

Probab=93.85  E-value=0.09  Score=47.07  Aligned_cols=49  Identities=22%  Similarity=0.202  Sum_probs=36.0

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      ++++.||||+|||..+++|-+...     +..++|+=|.-++........+..+
T Consensus         1 H~lv~g~tGsGKt~~~viP~ll~~-----~~s~vv~D~Kge~~~~t~~~r~~~G   49 (384)
T cd01126           1 HVLVFAPTRSGKGVGFVIPNLLTW-----PGSVVVLDPKGENFELTSEHRRALG   49 (384)
T ss_pred             CeeEecCCCCCCccEEEccchhcC-----CCCEEEEccchhHHHHHHHHHHHcC
Confidence            578999999999998887755432     1347787888888887776665543

These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=93.83  E-value=0.85  Score=39.85  Aligned_cols=39  Identities=10%  Similarity=0.281  Sum_probs=23.5

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ...+++||||+|.+.... .+.+.+.++.-+....+++.|
T Consensus       109 ~~~kvviI~~a~~~~~~a-~NaLLK~LEEPp~~~~~Il~t  147 (329)
T PRK08058        109 SNKKVYIIEHADKMTASA-ANSLLKFLEEPSGGTTAILLT  147 (329)
T ss_pred             cCceEEEeehHhhhCHHH-HHHHHHHhcCCCCCceEEEEe
Confidence            456899999999984432 344445555444444445433

>CHL00176 ftsH cell division protein; Validated

Probab=93.83  E-value=0.22  Score=47.43  Aligned_cols=18  Identities=33%  Similarity=0.495  Sum_probs=15.1

Q ss_pred             CCcEEEEcCCCCchhhHh
Q 018574           70 GRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~   87 (354)
                      .+++++.||+|+|||..+
T Consensus       216 p~gVLL~GPpGTGKT~LA  233 (638)
T CHL00176        216 PKGVLLVGPPGTGKTLLA  233 (638)
T ss_pred             CceEEEECCCCCCHHHHH
Confidence            467999999999999543

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=93.83  E-value=0.14  Score=46.85  Aligned_cols=38  Identities=21%  Similarity=0.261  Sum_probs=25.6

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCC-CCcEEEEEee
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPP-DLQVVLISAT  215 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~-~~~~i~lSaT  215 (354)
                      .++.+.|+||+|.+..    ...+.+++.+.. ...++++=||
T Consensus       118 ~ryKVyiIDEvHMLS~----~afNALLKTLEEPP~hV~FIlAT  156 (515)
T COG2812         118 GRYKVYIIDEVHMLSK----QAFNALLKTLEEPPSHVKFILAT  156 (515)
T ss_pred             ccceEEEEecHHhhhH----HHHHHHhcccccCccCeEEEEec
Confidence            5789999999999843    445555565543 3346666666

>CHL00095 clpC Clp protease ATP binding subunit

Probab=93.82  E-value=0.63  Score=46.15  Aligned_cols=21  Identities=24%  Similarity=0.305  Sum_probs=16.5

Q ss_pred             CCcEEEEcCCCCchhhHhHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      .++.++.||+|.|||..+-..
T Consensus       200 ~~n~lL~G~pGvGKTal~~~l  220 (821)
T CHL00095        200 KNNPILIGEPGVGKTAIAEGL  220 (821)
T ss_pred             cCCeEEECCCCCCHHHHHHHH
Confidence            458999999999999655433

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=93.82  E-value=0.43  Score=39.17  Aligned_cols=44  Identities=16%  Similarity=0.304  Sum_probs=25.2

Q ss_pred             hcCC-cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHH
Q 018574           68 IKGR-DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT  115 (354)
Q Consensus        68 ~~~~-~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~  115 (354)
                      ..++ -+.+.++-|||||...= ++.+.+..+   ..++++.|...+..
T Consensus        48 ~d~qg~~~vtGevGsGKTv~~R-al~~s~~~d---~~~~v~i~~~~~s~   92 (269)
T COG3267          48 ADGQGILAVTGEVGSGKTVLRR-ALLASLNED---QVAVVVIDKPTLSD   92 (269)
T ss_pred             hcCCceEEEEecCCCchhHHHH-HHHHhcCCC---ceEEEEecCcchhH
Confidence            3455 67999999999996544 344443322   22444454443333

>PRK07004 replicative DNA helicase; Provisional

Probab=93.75  E-value=0.43  Score=43.74  Aligned_cols=57  Identities=16%  Similarity=0.077  Sum_probs=31.9

Q ss_pred             HhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHH
Q 018574           62 RAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVI  121 (354)
Q Consensus        62 ~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~  121 (354)
                      +...-+..|.-+++.|.||.|||..++-.+.......  +..+++++. ---..|+..++
T Consensus       205 ~~t~G~~~g~liviaarpg~GKT~~al~ia~~~a~~~--~~~v~~fSl-EM~~~ql~~R~  261 (460)
T PRK07004        205 RMTSGMHGGELIIVAGRPSMGKTAFSMNIGEYVAVEY--GLPVAVFSM-EMPGTQLAMRM  261 (460)
T ss_pred             ccccCCCCCceEEEEeCCCCCccHHHHHHHHHHHHHc--CCeEEEEeC-CCCHHHHHHHH
Confidence            3333444567789999999999965554444333222  234666542 22334444443

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=93.74  E-value=0.47  Score=39.33  Aligned_cols=37  Identities=22%  Similarity=0.206  Sum_probs=25.4

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccc---------cCCCceeEEEEc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVD---------TSSREVQALILS  108 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~---------~~~~~~~~lil~  108 (354)
                      -.++.+|+|+|||...+..++....         ....+.+++|+.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~   48 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLS   48 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEE
Confidence            4689999999999877777665331         112344688877

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>PRK14701 reverse gyrase; Provisional

Probab=93.71  E-value=0.33  Score=51.23  Aligned_cols=60  Identities=20%  Similarity=0.347  Sum_probs=53.0

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC------CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY------NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD  330 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~------~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~  330 (354)
                      .+.+++|.+++++.+.++++.|+..      +..+..+||+++..++.+.++.+.+|+.+|||+|+
T Consensus       121 ~g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TP  186 (1638)
T PRK14701        121 KGKKCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTA  186 (1638)
T ss_pred             cCCeEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECC
Confidence            3468999999999999999999863      46778899999999998889999999999999997

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=93.71  E-value=0.15  Score=47.98  Aligned_cols=45  Identities=24%  Similarity=0.345  Sum_probs=29.6

Q ss_pred             HHHHCCCCCChHHHHHhHhhhhc--CCcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           47 GIYQYGFEKPSAIQQRAVMPIIK--GRDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        47 ~l~~~~~~~~~~~Q~~~~~~~~~--~~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      .+.+.|+   .+.|.+.+..+..  +..+++.||||||||+... .++..+
T Consensus       294 ~l~~lg~---~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~-a~l~~~  340 (564)
T TIGR02538       294 DIDKLGF---EPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLY-TALNIL  340 (564)
T ss_pred             CHHHcCC---CHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHH-HHHHhh
Confidence            3555655   5566666666554  3467899999999997653 344444

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.

>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]

Probab=93.70  E-value=0.61  Score=42.10  Aligned_cols=84  Identities=13%  Similarity=0.216  Sum_probs=62.3

Q ss_pred             hHHHHHHHHhhC---CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-
Q 018574          259 KFDTLCDLYDTL---TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-  330 (354)
Q Consensus       259 ~~~~l~~~l~~~---~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-  330 (354)
                      .+.+|..++-..   ..-++||.|+|++.+.+++...++.    .+.+...-|+++-..++.+++    ...+|+|+|+ 
T Consensus       236 ~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~qlaqFt~I~~~L~vGGL~lk~QE~~LR----s~PDIVIATPG  311 (691)
T KOG0338|consen  236 ALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLR----SRPDIVIATPG  311 (691)
T ss_pred             HHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHHHhhccceeeeeecCccHHHHHHHHh----hCCCEEEecch
Confidence            455666655432   2347999999999999998887764    677888889999888777775    6889999997 


Q ss_pred             -c-----cccCCCcCCCcEEEe
Q 018574          331 -V-----WARGLDVQQAILFFF  346 (354)
Q Consensus       331 -~-----~~~Gidi~~~~~Vi~  346 (354)
                       .     -+.++|+.++.++|.
T Consensus       312 RlIDHlrNs~sf~ldsiEVLvl  333 (691)
T KOG0338|consen  312 RLIDHLRNSPSFNLDSIEVLVL  333 (691)
T ss_pred             hHHHHhccCCCccccceeEEEe
Confidence             2     345777777766654

>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=93.68  E-value=0.1  Score=44.15  Aligned_cols=43  Identities=14%  Similarity=0.353  Sum_probs=28.3

Q ss_pred             hcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHH
Q 018574           68 IKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTREL  113 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l  113 (354)
                      ..+.++++.|+||||||+.. ..++..+...  ..+++.+=...++
T Consensus       125 ~~~~~ili~G~tGSGKTT~l-~all~~i~~~--~~~iv~iEd~~E~  167 (270)
T PF00437_consen  125 RGRGNILISGPTGSGKTTLL-NALLEEIPPE--DERIVTIEDPPEL  167 (270)
T ss_dssp             HTTEEEEEEESTTSSHHHHH-HHHHHHCHTT--TSEEEEEESSS-S
T ss_pred             ccceEEEEECCCccccchHH-HHHhhhcccc--ccceEEeccccce
Confidence            44789999999999999654 4455555444  2346666655444

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 ....

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=93.65  E-value=0.35  Score=46.35  Aligned_cols=20  Identities=30%  Similarity=0.378  Sum_probs=15.7

Q ss_pred             EEEEcCCCCchhhHhHHHHh
Q 018574           73 VIAQAQSGTGKTSMIALTVC   92 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~   92 (354)
                      .++.||.|.|||.++-..+-
T Consensus        43 YLF~GP~GtGKTt~AriLAk   62 (725)
T PRK07133         43 YLFSGPRGTGKTSVAKIFAN   62 (725)
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            58999999999976655443

>PRK09087 hypothetical protein; Validated

Probab=93.65  E-value=0.26  Score=40.36  Aligned_cols=40  Identities=8%  Similarity=0.066  Sum_probs=24.3

Q ss_pred             cEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCch
Q 018574          177 KLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPH  218 (354)
Q Consensus       177 ~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~  218 (354)
                      ++|++|++|.+..  ....+..+++.+......+++|++.++
T Consensus        89 ~~l~iDDi~~~~~--~~~~lf~l~n~~~~~g~~ilits~~~p  128 (226)
T PRK09087         89 GPVLIEDIDAGGF--DETGLFHLINSVRQAGTSLLMTSRLWP  128 (226)
T ss_pred             CeEEEECCCCCCC--CHHHHHHHHHHHHhCCCeEEEECCCCh
Confidence            4799999997632  245566666655553344556665433

>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues

Probab=93.64  E-value=0.11  Score=47.99  Aligned_cols=50  Identities=20%  Similarity=0.284  Sum_probs=38.4

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .++++.||||||||..+++|.+-..  .  + .++|.=|.-++...+...+++.+
T Consensus        45 ~h~lvig~tgSGKt~~~viP~ll~~--~--~-s~iV~D~KgEl~~~t~~~r~~~G   94 (469)
T PF02534_consen   45 THVLVIGPTGSGKTTSFVIPNLLNY--P--G-SMIVTDPKGELYEKTAGYRKKRG   94 (469)
T ss_pred             eEEEEEeCCCCCccceeeHhHHHhc--c--C-CEEEEECCCcHHHHHHHHHHHCC
Confidence            4799999999999999988865321  1  1 47777788888888887777665

These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.61  E-value=0.72  Score=41.02  Aligned_cols=19  Identities=21%  Similarity=0.340  Sum_probs=15.3

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      ..++.||+|+|||..+...
T Consensus        41 ~~L~~G~~G~GKt~~a~~l   59 (367)
T PRK14970         41 ALLFCGPRGVGKTTCARIL   59 (367)
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6889999999999655543

>cd00268 DEADc DEAD-box helicases

Probab=93.60  E-value=0.8  Score=36.69  Aligned_cols=72  Identities=17%  Similarity=0.189  Sum_probs=50.7

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccc-----c-ccCCCcCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDV-----W-ARGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~-----~-~~Gidi~~  340 (354)
                      ...+++|.+++...+.+.+..++..    ++.+..++|+.+..+.....+    +..+|+|+|..     + ..-.++++
T Consensus        68 ~~~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~iiv~T~~~l~~~l~~~~~~~~~  143 (203)
T cd00268          68 DGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLK----RGPHIVVATPGRLLDLLERGKLDLSK  143 (203)
T ss_pred             CCceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhc----CCCCEEEEChHHHHHHHHcCCCChhh
Confidence            4458999999999999888777654    677888888877655443332    67889999951     2 22356677


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      ++++|.
T Consensus       144 l~~lIv  149 (203)
T cd00268         144 VKYLVL  149 (203)
T ss_pred             CCEEEE
Confidence            777664

A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.

>PRK05748 replicative DNA helicase; Provisional

Probab=93.54  E-value=0.87  Score=41.73  Aligned_cols=56  Identities=14%  Similarity=0.079  Sum_probs=32.9

Q ss_pred             hHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHH
Q 018574           63 AVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVI  121 (354)
Q Consensus        63 ~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~  121 (354)
                      ...-+..|.-++|.|.||.|||...+-.+...+...  +..+++++. -.-..|+..++
T Consensus       196 ~~~G~~~G~livIaarpg~GKT~~al~ia~~~a~~~--g~~v~~fSl-Ems~~~l~~R~  251 (448)
T PRK05748        196 MTSGLQPNDLIIVAARPSVGKTAFALNIAQNVATKT--DKNVAIFSL-EMGAESLVMRM  251 (448)
T ss_pred             hcCCCCCCceEEEEeCCCCCchHHHHHHHHHHHHhC--CCeEEEEeC-CCCHHHHHHHH
Confidence            333344567789999999999966665554433222  234666653 33344555544

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=93.52  E-value=0.059  Score=45.45  Aligned_cols=55  Identities=15%  Similarity=0.253  Sum_probs=31.7

Q ss_pred             cCcccCCCCHHHHHHHHHC--CCCC--------ChHHHHHhHhh------hhcCCcEEEEcCCCCchhhHh
Q 018574           33 TSFDAMGIKDDLLRGIYQY--GFEK--------PSAIQQRAVMP------IIKGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~--~~~~--------~~~~Q~~~~~~------~~~~~~~ii~~~tGsGKT~~~   87 (354)
                      .+..++|-+.++...|.++  |...        .+.|-.++-..      =++..++++.+|||||||+.+
T Consensus        44 ~~~~~lPtP~eik~~Ld~YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLA  114 (408)
T COG1219          44 KELSELPTPKEIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLA  114 (408)
T ss_pred             hhhccCCChHHHHHHhhhheecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHH
Confidence            4555677777777777664  2211        12222222111      123468999999999999643

>PRK08006 replicative DNA helicase; Provisional

Probab=93.50  E-value=1.1  Score=41.27  Aligned_cols=120  Identities=18%  Similarity=0.115  Sum_probs=57.6

Q ss_pred             HhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHH
Q 018574           64 VMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE  143 (354)
Q Consensus        64 ~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~  143 (354)
                      ..-+..|.-+++.|.||.|||..++-.+.......  +..++|+.. ---..|+..++-.....  +....+..+.-..+
T Consensus       218 ~~Gl~~G~LiiIaarPgmGKTafalnia~~~a~~~--g~~V~~fSl-EM~~~ql~~Rlla~~~~--v~~~~i~~~~l~~~  292 (471)
T PRK08006        218 TAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMLQ--DKPVLIFSL-EMPGEQIMMRMLASLSR--VDQTRIRTGQLDDE  292 (471)
T ss_pred             hcCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhc--CCeEEEEec-cCCHHHHHHHHHHHhcC--CCHHHhhcCCCCHH
Confidence            34445567789999999999965554444433222  334666653 23344555444332222  22212222221222


Q ss_pred             hHH-------hhcCCCeEEEe-----CcHHHHHHHhcCCccCCCccEEEEecchhhh
Q 018574          144 DIR-------KLEHGVHVVSG-----TPGRVCDMIKRKTLRTRAIKLLVLDESDEML  188 (354)
Q Consensus       144 ~~~-------~~~~~~~iiv~-----T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~  188 (354)
                      ++.       .+.....+.|-     |+..+....+........+++||||=.|.+.
T Consensus       293 e~~~~~~a~~~~~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli~  349 (471)
T PRK08006        293 DWARISGTMGILLEKRNMYIDDSSGLTPTEVRSRARRIFREHGGLSLIMIDYLQLMR  349 (471)
T ss_pred             HHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccHHHcc
Confidence            221       12122334332     3444433332211111257899999999875

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=93.46  E-value=0.14  Score=43.11  Aligned_cols=54  Identities=20%  Similarity=0.243  Sum_probs=38.1

Q ss_pred             hcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           68 IKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      -.|+.+++.+++|+|||...+..+...+..+.   ++++++- .+...++.+.+..++
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge---~vlyvs~-~e~~~~l~~~~~~~g   74 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEGAREGE---PVLYVST-EESPEELLENARSFG   74 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCC---cEEEEEe-cCCHHHHHHHHHHcC
Confidence            34678999999999999888888777776643   3777664 344555555555544

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=93.43  E-value=0.11  Score=49.44  Aligned_cols=42  Identities=17%  Similarity=0.254  Sum_probs=27.3

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      ++.+++++||.-.-++....+.+.+.+....++.-++.+|--
T Consensus       493 ~~~~ililDEpts~lD~~~~~~i~~~l~~~~~~~t~IiitH~  534 (576)
T TIGR02204       493 KDAPILLLDEATSALDAESEQLVQQALETLMKGRTTLIIAHR  534 (576)
T ss_pred             hCCCeEEEeCcccccCHHHHHHHHHHHHHHhCCCEEEEEecc
Confidence            456889999998887776666666655555444444444433

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>PF12846 AAA_10: AAA-like domain

Probab=93.41  E-value=0.1  Score=44.89  Aligned_cols=41  Identities=17%  Similarity=0.386  Sum_probs=27.6

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTREL  113 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l  113 (354)
                      ++++++.|+||+|||......+.+.+..+   ..++++=|..+.
T Consensus         1 n~h~~i~G~tGsGKT~~~~~l~~~~~~~g---~~~~i~D~~g~~   41 (304)
T PF12846_consen    1 NPHTLILGKTGSGKTTLLKNLLEQLIRRG---PRVVIFDPKGDY   41 (304)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHcC---CCEEEEcCCchH
Confidence            35789999999999977775555554444   346666554333

>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=93.38  E-value=1.9  Score=38.06  Aligned_cols=50  Identities=14%  Similarity=0.212  Sum_probs=28.6

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .+.+-+.|+.|.|||...-+. .+.+.. +.+.+    ++-.+...++.+.+.++.
T Consensus        62 ~~GlYl~G~vG~GKT~Lmd~f-~~~lp~-~~k~R----~HFh~Fm~~vh~~l~~~~  111 (362)
T PF03969_consen   62 PKGLYLWGPVGRGKTMLMDLF-YDSLPI-KRKRR----VHFHEFMLDVHSRLHQLR  111 (362)
T ss_pred             CceEEEECCCCCchhHHHHHH-HHhCCc-ccccc----ccccHHHHHHHHHHHHHh
Confidence            578999999999999533322 222222 11122    344566666666665543

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

>PRK13695 putative NTPase; Provisional

Probab=93.38  E-value=1.5  Score=34.14  Aligned_cols=18  Identities=22%  Similarity=0.409  Sum_probs=14.6

Q ss_pred             cEEEEcCCCCchhhHhHH
Q 018574           72 DVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~   89 (354)
                      .+++.+++|+|||+....
T Consensus         2 ~i~ltG~~G~GKTTll~~   19 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLK   19 (174)
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            478899999999975554

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=93.33  E-value=0.071  Score=50.73  Aligned_cols=42  Identities=14%  Similarity=0.242  Sum_probs=28.0

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      ++-+++++||+=..+|......+...+..+.++.-++.+|=-
T Consensus       502 ~~~~IliLDE~TSaLD~~te~~i~~~l~~~~~~~TvIiItHr  543 (588)
T PRK11174        502 QPCQLLLLDEPTASLDAHSEQLVMQALNAASRRQTTLMVTHQ  543 (588)
T ss_pred             cCCCEEEEeCCccCCCHHHHHHHHHHHHHHhCCCEEEEEecC
Confidence            456889999999888876666666666655445444444433

>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type

Probab=93.32  E-value=0.19  Score=51.70  Aligned_cols=56  Identities=18%  Similarity=0.215  Sum_probs=46.6

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .++++|.|+.|||||.+...-++..+..+.....+++++-|+.-+..+.+++....
T Consensus        10 ~~~~~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~~L   65 (1141)
T TIGR02784        10 KTSAWVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFDRL   65 (1141)
T ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHHHH
Confidence            56899999999999998888888777665555689999999999988888776544

AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=93.26  E-value=0.21  Score=39.76  Aligned_cols=63  Identities=16%  Similarity=0.235  Sum_probs=38.2

Q ss_pred             hHhhhh-cCCcEEEEcCCCCchhhHhHHHHhhccccC-------CCceeEEEEcCCHHHHHHHHHHHHHhcc
Q 018574           63 AVMPII-KGRDVIAQAQSGTGKTSMIALTVCQTVDTS-------SREVQALILSPTRELATQTEKVILAIGD  126 (354)
Q Consensus        63 ~~~~~~-~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~-------~~~~~~lil~p~~~l~~q~~~~~~~~~~  126 (354)
                      ++..++ .|.-+++.||+|+|||...+..+...+...       ..+.+++|+..-.. ..++.+++.....
T Consensus        24 li~g~~~~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~~   94 (193)
T PF13481_consen   24 LIDGLLPRGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALLQ   94 (193)
T ss_dssp             EETTEE-TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHHT
T ss_pred             eECCcccCCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHhc
Confidence            333344 577799999999999977766666555311       13456888776544 5566677766553

>cd03239 ABC_SMC_head The structural maintenance of chromosomes (SMC) proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms

Probab=93.18  E-value=0.18  Score=39.57  Aligned_cols=41  Identities=22%  Similarity=0.351  Sum_probs=27.2

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCC-CCcEEEEEe
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPP-DLQVVLISA  214 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~-~~~~i~lSa  214 (354)
                      .+.+++++||...-++......+...+..+.. +.++++.|-
T Consensus       115 ~~p~llilDEp~~~LD~~~~~~i~~~L~~~~~~g~tiIiiSH  156 (178)
T cd03239         115 KPSPFYVLDEIDAALDPTNRRRVSDMIKEMAKHTSQFIVITL  156 (178)
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHHHHHHhCCCEEEEEEC
Confidence            45689999999988877666666666555433 355555443

SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and each has five distinct domains: amino- and carboxy-terminal globular domains, which contain sequences characteristic of ATPases, two coiled-coil regions separating the terminal domains , and a central flexible hinge. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair, and epigenetic silencing of gene expression.

>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]

Probab=93.18  E-value=0.15  Score=52.28  Aligned_cols=56  Identities=25%  Similarity=0.300  Sum_probs=46.3

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccC--CCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTS--SREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~--~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      .+++++|.|..|||||.+....++..+...  -.-..+|+++.|++-+..+..++..-
T Consensus        15 ~~~~~lveASAGSGKT~vL~~r~lrlLl~~~~~~v~~ILvvTFT~aAa~Emk~RI~~~   72 (1139)
T COG1074          15 PGQSVLVEASAGTGKTFVLAERVLRLLLEGGPLDVDEILVVTFTKAAAAEMKERIRDR   72 (1139)
T ss_pred             CCCcEEEEEcCCCCchhHHHHHHHHHHhhcCCCChhHeeeeeccHHHHHHHHHHHHHH
Confidence            367899999999999999998888888774  34457999999998888888776543

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=93.17  E-value=0.15  Score=48.40  Aligned_cols=42  Identities=21%  Similarity=0.281  Sum_probs=28.5

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      ++-+++++||.-..++......+...+..+..++-++.+|--
T Consensus       497 ~~~~ililDEptsaLD~~t~~~i~~~l~~~~~~~tvI~VtHr  538 (582)
T PRK11176        497 RDSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHR  538 (582)
T ss_pred             hCCCEEEEECccccCCHHHHHHHHHHHHHHhCCCEEEEEecc
Confidence            456889999999888877666666666665455555555533

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=93.16  E-value=0.11  Score=43.67  Aligned_cols=29  Identities=31%  Similarity=0.394  Sum_probs=21.6

Q ss_pred             HhHhhhhcCCcEEEEcCCCCchhhHhHHH
Q 018574           62 RAVMPIIKGRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        62 ~~~~~~~~~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      ++...+..++++++.||+|+|||..+...
T Consensus        13 ~~l~~l~~g~~vLL~G~~GtGKT~lA~~l   41 (262)
T TIGR02640        13 RALRYLKSGYPVHLRGPAGTGKTTLAMHV   41 (262)
T ss_pred             HHHHHHhcCCeEEEEcCCCCCHHHHHHHH
Confidence            33444556899999999999999755543

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).

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	354
2xb2_A	411	Crystal Structure Of The Core Mago-Y14-Eif4aiii-Bar		1e-152
2hyi_C	413	Structure Of The Human Exon Junction Complex With A		1e-152
2j0q_A	410	The Crystal Structure Of The Exon Junction Complex		1e-152
2hxy_A	391	Crystal Structure Of Human Apo-Eif4aiii Length = 39		1e-152
2j0u_B	374	The Crystal Structure Of Eif4aiii-Barentsz Complex		1e-149
2j0u_A	374	The Crystal Structure Of Eif4aiii-Barentsz Complex		1e-149
2zu6_A	388	Crystal Structure Of The Eif4a-Pdcd4 Complex Length		1e-122
3eiq_A	414	Crystal Structure Of Pdcd4-eif4a Length = 414		1e-122
2vso_A	395	Crystal Structure Of A Translation Initiation Compl		1e-111
1fuu_A	394	Yeast Initiation Factor 4a Length = 394		1e-106
3bor_A	237	Crystal Structure Of The Deadc Domain Of Human Tran		6e-71
1qde_A	224	Crystal Structure Of The Atpase Domain Of Translati		9e-70
1qva_A	223	Yeast Initiation Factor 4a N-Terminal Domain Length		3e-65
1s2m_A	400	Crystal Structure Of The Dead Box Protein Dhh1p Len		8e-64
2g9n_A	221	Structure Of The Dead Domain Of Human Eukaryotic In		1e-63
3pew_A	395	S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3		1e-58
3pey_A	395	S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3 Length		2e-58
3fmp_B	479	Crystal Structure Of The Nucleoporin Nup214 In Comp		2e-56
3g0h_A	424	Human Dead-box Rna Helicase Ddx19, In Complex With		2e-56
3fht_A	412	Crystal Structure Of Human Dbp5 In Complex With Amp		3e-56
3ews_A	445	Human Dead-Box Rna-Helicase Ddx19 In Complex With A		3e-56
3fho_B	508	Structure Of S. Pombe Dbp5 Length = 508		1e-51
1hv8_A	367	Crystal Structure Of A Dead Box Protein From The Hy		4e-48
1xtk_A	390	Structure Of Decd To Dead Mutation Of Human Uap56 L		5e-48
1xti_A	391	Structure Of Wildtype Human Uap56 Length = 391		1e-47
1xtj_A	386	Structure Of Human Uap56 In Complex With Adp Length		1e-47
2i4i_A	417	Crystal Structure Of Human Dead-Box Rna Helicase Dd		1e-37
2db3_A	434	Structural Basis For Rna Unwinding By The Dead-Box		9e-36
1fuk_A	165	Crystal Structure Of The Carboxy Terminal Domain Of		2e-35
2kbe_A	226	Solution Structure Of Amino-Terminal Domain Of Dbp5		2e-34
1vec_A	206	Crystal Structure Of The N-Terminal Domain Of RckP5		8e-34
2oxc_A	230	Human Dead-Box Rna Helicase Ddx20, Dead Domain In C		5e-31
1t6n_A	220	Crystal Structure Of The N-Terminal Domain Of Human		1e-30
3fhc_B	235	Crystal Structure Of Human Dbp5 In Complex With Nup		2e-30
3fmo_B	300	Crystal Structure Of The Nucleoporin Nup214 In Comp		7e-30
2gxq_A	207	Hera N-Terminal Domain In Complex With Amp, Crystal		9e-30
3mwj_A	207	Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Ap		2e-29
3ber_A	249	Human Dead-Box Rna-Helicase Ddx47, Conserved Domain		3e-28
1q0u_A	219	Crystal Structure Of The Bstdead N-Terminal Domain		4e-27
1wrb_A	253	Crystal Structure Of The N-Terminal Reca-Like Domai		3e-26
2z0m_A	337	Crystal Structure Of Hypothetical Atp-Dependent Rna		3e-26
3fe2_A	242	Human Dead-Box Rna Helicase Ddx5 (P68), Conserved D		2e-23
3iuy_A	228	Crystal Structure Of Ddx53 Dead-Box Domain Length =		3e-23
4a4d_A	253	Crystal Structure Of The N-Terminal Domain Of The H		3e-23
3ly5_A	262	Ddx18 Dead-Domain Length = 262		4e-21
3sqx_A	512	Structure Of Mss116p (Nte And C-Tail Double Deletio		8e-21
3i5x_A	563	Structure Of Mss116p Bound To Ssrna And Amp-Pnp Len		9e-21
3sqw_A	579	Structure Of Mss116p (Nte Deletion) Bound To Ssrna		1e-20
2rb4_A	175	Crystal Structure Of The Helicase Domain Of Human D		4e-20
2pl3_A	236	Human Dead-Box Rna Helicase Ddx10, Dead Domain In C		4e-20
2kbf_A	187	Solution Structure Of Carboxyl-Terminal Domain Of D		1e-17
3peu_A	188	S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To		3e-17
3gfp_A	189	Structure Of The C-Terminal Domain Of The Dead-Box		5e-17
2wax_A	193	Structure Of The Human Ddx6 C-Terminal Domain In Co		3e-16
3dkp_A	245	Human Dead-Box Rna-Helicase Ddx52, Conserved Domain		3e-16
2hjv_A	163	Structure Of The Second Domain (Residues 207-368) O		5e-13
3i32_A	300	Dimeric Structure Of A Hera Helicase Fragment Inclu		2e-12
3eaq_A	212	Novel Dimerization Motif In The Dead Box Rna Helica		1e-11
1t5i_A	172	Crystal Structure Of The C-Terminal Domain Of Uap56		3e-10
2jgn_A	185	Ddx3 Helicase Domain Length = 185		2e-08
2yjt_D	170	Crystal Structure Of E. Coli Dead-Box Protein Srmb		6e-05
2p6n_A	191	Human Dead-box Rna Helicase Ddx41, Helicase Domain		2e-04

>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz- Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd Machinery Length = 411

Iteration: 1
 Score =  535 bits (1378), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 249/321 (77%), Positives = 289/321 (90%)
Query: 20  KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
           K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QS
Sbjct: 25  KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 84
Query: 80  GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
           GTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG 
Sbjct: 85  GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 144
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
           +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 145 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 204
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
           YRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 205 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 264
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
           FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFR
Sbjct: 265 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 324
Query: 320 SGTTRVLITTDVWARGLDVQQ 340
           SG +RVLI+TDVWARGLDV Q
Sbjct: 325 SGASRVLISTDVWARGLDVPQ 345

>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A Trapped Dead-Box Helicase Bound To Rna Length = 413

Iteration: 1
 Score =  535 bits (1378), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 249/321 (77%), Positives = 289/321 (90%)
Query: 20  KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
           K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QS
Sbjct: 25  KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 84
Query: 80  GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
           GTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG 
Sbjct: 85  GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 144
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
           +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 145 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 204
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
           YRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 205 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 264
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
           FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFR
Sbjct: 265 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 324
Query: 320 SGTTRVLITTDVWARGLDVQQ 340
           SG +RVLI+TDVWARGLDV Q
Sbjct: 325 SGASRVLISTDVWARGLDVPQ 345

>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2 A Resolution Length = 410

Iteration: 1
 Score =  535 bits (1378), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 249/321 (77%), Positives = 289/321 (90%)
Query: 20  KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
           K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QS
Sbjct: 24  KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 83
Query: 80  GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
           GTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG 
Sbjct: 84  GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 143
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
           +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 144 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 203
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
           YRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 204 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 263
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
           FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFR
Sbjct: 264 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 323
Query: 320 SGTTRVLITTDVWARGLDVQQ 340
           SG +RVLI+TDVWARGLDV Q
Sbjct: 324 SGASRVLISTDVWARGLDVPQ 344

>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii Length = 391

Iteration: 1
 Score =  534 bits (1375), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 249/321 (77%), Positives = 289/321 (90%)
Query: 20  KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
           K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QS
Sbjct: 3   KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 62
Query: 80  GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
           GTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG 
Sbjct: 63  GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 122
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
           +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 123 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 182
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
           YRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 183 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 242
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 319
           FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFR
Sbjct: 243 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR 302
Query: 320 SGTTRVLITTDVWARGLDVQQ 340
           SG +RVLI+TDVWARGLDV Q
Sbjct: 303 SGASRVLISTDVWARGLDVPQ 323

>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0 A Resolution Length = 374

Iteration: 1
 Score =  524 bits (1350), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 242/307 (78%), Positives = 281/307 (91%)
Query: 34  SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
           +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QSGTGKT+  +++V Q
Sbjct: 2   TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 94  TVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVH 153
            +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q+HAC+GG +VGEDIRKL++G H
Sbjct: 62  CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQH 121
Query: 154 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS 213
           VV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDVYRYLPP  QVVLIS
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 214 ATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 273
           ATLPHE+LEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT
Sbjct: 182 ATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 274 QAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWA 333
           QAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFRSG +RVLI+TDVWA
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 334 RGLDVQQ 340
           RGLDV Q
Sbjct: 302 RGLDVPQ 308

>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0 A Resolution Length = 374

Iteration: 1
 Score =  523 bits (1347), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 243/307 (79%), Positives = 280/307 (91%)
Query: 34  SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
           +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ+QSGTGKT+  +++V Q
Sbjct: 2   TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 94  TVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVH 153
            +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG +VGEDIRKL++G H
Sbjct: 62  CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQH 121
Query: 154 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS 213
           VV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDVYRYLPP  QVVLIS
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 214 ATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 273
           ATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT
Sbjct: 182 ATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 274 QAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWA 333
           QAVIFCNTKRKVDWLTEKMR  NFTVSSMHGDMPQKER++IM EFRSG +RVLI+TDVWA
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 334 RGLDVQQ 340
           RGLDV Q
Sbjct: 302 RGLDVPQ 308

>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex Length = 388

Iteration: 1
 Score =  434 bits (1116), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 199/312 (63%), Positives = 256/312 (82%), Gaps = 1/312 (0%)
Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           E + SFD M + + LLRGIY YGFEKPSAIQQRA++P IKG DVIAQAQSGTGKT+  A+
Sbjct: 11  EIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAI 70
Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
           ++ Q ++   +  QAL+L+PTRELA Q +KV++A+GD++    HAC+GG +V  +++KL+
Sbjct: 71  SILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQ 130
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
               H++ GTPGRV DM+ R+ L  + IK+ VLDE+DEMLSRGFKDQIYD+++ L  + Q
Sbjct: 131 MEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 190
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
           VVL+SAT+P ++LE+T KFM DP++ILVK++ELTLEGI+QF++ VEREEWK DTLCDLY+
Sbjct: 191 VVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYE 250
Query: 269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT 328
           TLTITQAVIF NT+RKVDWLTEKM   +FTVS+MHGDM QKERD IM EFRSG++RVLIT
Sbjct: 251 TLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLIT 310
Query: 329 TDVWARGLDVQQ 340
           TD+ ARG+DVQQ
Sbjct: 311 TDLLARGIDVQQ 322

>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a Length = 414

Iteration: 1
 Score =  433 bits (1114), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 199/312 (63%), Positives = 256/312 (82%), Gaps = 1/312 (0%)
Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           E + SFD M + + LLRGIY YGFEKPSAIQQRA++P IKG DVIAQAQSGTGKT+  A+
Sbjct: 37  EIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAI 96
Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
           ++ Q ++   +  QAL+L+PTRELA Q +KV++A+GD++    HAC+GG +V  +++KL+
Sbjct: 97  SILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQ 156
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
               H++ GTPGRV DM+ R+ L  + IK+ VLDE+DEMLSRGFKDQIYD+++ L  + Q
Sbjct: 157 MEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 216
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
           VVL+SAT+P ++LE+T KFM DP++ILVK++ELTLEGI+QF++ VEREEWK DTLCDLY+
Sbjct: 217 VVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYE 276
Query: 269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT 328
           TLTITQAVIF NT+RKVDWLTEKM   +FTVS+MHGDM QKERD IM EFRSG++RVLIT
Sbjct: 277 TLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLIT 336
Query: 329 TDVWARGLDVQQ 340
           TD+ ARG+DVQQ
Sbjct: 337 TDLLARGIDVQQ 348

>pdb|2VSO|A Chain A, Crystal Structure Of A Translation Initiation Complex Length = 395

Iteration: 1
 Score =  399 bits (1024), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 183/309 (59%), Positives = 247/309 (79%), Gaps = 1/309 (0%)
Query: 32  ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
           +  FD M + ++LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT   ++  
Sbjct: 21  VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 80
Query: 92  CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
            Q +DTS +  QAL+L+PTRELA Q +KV++A+   ++I+ HAC+GG S  ED   L   
Sbjct: 81  LQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDA 140
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
             +V GTPGRV D I+R+  RT  IK+ +LDE+DEMLS GFK+QIY ++  LPP  QVVL
Sbjct: 141 -QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVL 199
Query: 212 ISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 271
           +SAT+P+++LE+TTKFM +PV+ILVK+DELTLEGIKQF+V VE EE+K++ L DLYD+++
Sbjct: 200 LSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSIS 259
Query: 272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDV 331
           +TQAVIFCNT+RKV+ LT K+R   FTVS+++ D+PQ+ERD IM EFRSG++R+LI+TD+
Sbjct: 260 VTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDL 319
Query: 332 WARGLDVQQ 340
            ARG+DVQQ
Sbjct: 320 LARGIDVQQ 328

>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a Length = 394

Iteration: 1
 Score =  380 bits (977), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 178/309 (57%), Positives = 237/309 (76%), Gaps = 1/309 (0%)
Query: 32  ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
           +  FD   + ++LLRG++ YGFE+PSAIQQRA+ PII+G DV+AQAQSGTGKT   ++  
Sbjct: 20  VYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 92  CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
            Q +DTS +  QAL L+PTRELA Q +KV+ A+    +I+ HAC+GG S  ED   L   
Sbjct: 80  LQRIDTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGLRDA 139
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
             +V GTPGRV D I+R+  RT  IK  +LDE+DE LS GFK+QIY ++  LPP  QVVL
Sbjct: 140 -QIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVL 198
Query: 212 ISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 271
           +SAT P+++LE+TTKF  +PV+ILVK+DELTLEGIKQF+V VE EE+K++ L DLYD+++
Sbjct: 199 LSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSIS 258
Query: 272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDV 331
           +TQAVIFCNT+RKV+ LT K+R   FTVS+++ D+PQ+ERD I  EFRSG++R+LI+TD+
Sbjct: 259 VTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDL 318
Query: 332 WARGLDVQQ 340
            ARG+DVQQ
Sbjct: 319 LARGIDVQQ 327

>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation Initiation Factor 4a-2 Length = 237

Iteration: 1
 Score =  264 bits (674), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 122/211 (57%), Positives = 167/211 (79%), Gaps = 1/211 (0%)
Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           E + +FD M +K+ LLRGIY YGFEKPSAIQQRA++P IKG DVIAQAQSGTGKT+  A+
Sbjct: 27  EIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAI 86
Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
           ++ Q ++   +E QAL+L+PTRELA Q +KVILA+GD++    HAC+GG +V  +++KL+
Sbjct: 87  SILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQ 146
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
               H+V GTPGRV DM+ R+ L  + IK+ VLDE+DEMLSRGFKDQIY++++ L   +Q
Sbjct: 147 AEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQ 206
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRD 239
           VVL+SAT+P ++LE+T KFM DP++ILVK++
Sbjct: 207 VVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237

>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation Initiation Factor 4a From Saccharomyces Cerevisiae-The Prototype Of The Dead Box Protein Family Length = 224

Iteration: 1
 Score =  260 bits (664), Expect = 9e-70,   Method: Compositional matrix adjust.
 Identities = 122/215 (56%), Positives = 165/215 (76%), Gaps = 1/215 (0%)
Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           + +  FD M + ++LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT   ++
Sbjct: 11  KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 70
Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
              Q +DTS +  QAL+L+PTRELA Q +KV++A+   ++I+ HAC+GG S  ED   L 
Sbjct: 71  AALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR 130
Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
               +V GTPGRV D I+R+  RT  IK+ +LDE+DEMLS GFK+QIY ++  LPP  QV
Sbjct: 131 DA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 189
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRDELTLE 244
           VL+SAT+P+++LE+TTKFM +PV+ILVK+DELTLE
Sbjct: 190 VLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224

>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain Length = 223

Iteration: 1
 Score =  245 bits (625), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 115/207 (55%), Positives = 156/207 (75%), Gaps = 1/207 (0%)
Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           + +  FD M + + LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT   ++
Sbjct: 18  KVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 77
Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
              Q +DTS +  QAL+L+PTRELA Q +KV++A+   ++I+ HAC+GG S  ED   L 
Sbjct: 78  AALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR 137
Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
               +V GTPGRV D I+R+  RT  IK+ +LDE+DEMLS GFK+QIY ++  LPP  QV
Sbjct: 138 DA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 196
Query: 210 VLISATLPHEILEMTTKFMTDPVKILV 236
           VL+SAT+P+++LE+TTKFM +PV+ILV
Sbjct: 197 VLLSATMPNDVLEVTTKFMRNPVRILV 223

>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p Length = 400

Iteration: 1
 Score =  240 bits (613), Expect = 8e-64,   Method: Compositional matrix adjust.
 Identities = 122/307 (39%), Positives = 183/307 (59%), Gaps = 2/307 (0%)
Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
            +F+   +K +LL GI++ GFEKPS IQ+ A+   I GRD++A+A++GTGKT+   +   
Sbjct: 21  NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL 80
Query: 93  QTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGV 152
           + V     ++QALI+ PTRELA QT +V+  +G    I      GG ++ +DI +L   V
Sbjct: 81  EKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETV 140
Query: 153 HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLI 212
           H++ GTPGRV D+  RK        L ++DE+D+MLSR FK  I  +  +LPP  Q +L 
Sbjct: 141 HILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLF 200
Query: 213 SATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTI 272
           SAT P  + E   K +  P +I +  +ELTL+GI Q++  VE E  K   L  L+  L I
Sbjct: 201 SATFPLTVKEFMVKHLHKPYEINL-MEELTLKGITQYYAFVE-ERQKLHCLNTLFSKLQI 258
Query: 273 TQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVW 332
            QA+IFCN+  +V+ L +K+    ++    H  M Q+ER+ +  EFR G  R L+ +D+ 
Sbjct: 259 NQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLL 318
Query: 333 ARGLDVQ 339
            RG+D+Q
Sbjct: 319 TRGIDIQ 325

>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic Initiation Factor 4a, Eif4a Length = 221

Iteration: 1
 Score =  239 bits (611), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 110/208 (52%), Positives = 152/208 (73%), Gaps = 1/208 (0%)
Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           E + SFD M + + LLRGIY YGFE PSAIQQRA++P I G DVIAQAQSGTG T+  A+
Sbjct: 12  EIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAI 71
Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
           ++ Q ++      QAL+L+PTRELA Q + V++A+GD++    HAC+GG +V  +++ L+
Sbjct: 72  SILQQIELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQ 131
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
               H++ GTPGRV DM+ R+ L    I + VLDE+DEMLSRGF DQIYD+++ L  + Q
Sbjct: 132 MEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQ 191
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILV 236
           VVL+SAT+P ++LE+T  FM DP++ILV
Sbjct: 192 VVLLSATMPSDVLEVTXXFMRDPIRILV 219

>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3 Length = 395

Iteration: 1
 Score =  223 bits (568), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 120/309 (38%), Positives = 190/309 (61%), Gaps = 9/309 (2%)
Query: 34  SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMIALT 90
           SFD +G+  +LL+GIY   F+KPS IQ+RA +P++     R++IAQ+QSGTGKT+  +LT
Sbjct: 6   SFDELGLAPELLKGIYAMKFQKPSKIQERA-LPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 91  VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH 150
           +   V+      QA+ L+P+RELA QT +V+  +G F  I +   V         +  + 
Sbjct: 65  MLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE----KNKQI 120
Query: 151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQV 209
              V+ GTPG V D+++RK ++ + IK+ VLDE+D ML  +G  DQ   V R+LP D Q+
Sbjct: 121 NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQL 180
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 269
           VL SAT    + +   K + +   + ++ +E+ ++ IKQ ++  + E  KFD L +LY  
Sbjct: 181 VLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGV 240
Query: 270 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT 329
           +TI  ++IF  TK+  + L  K++     VS +HGD+  +ERD ++ +FR G ++VLITT
Sbjct: 241 MTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITT 300
Query: 330 DVWARGLDV 338
           +V ARG+D+
Sbjct: 301 NVLARGIDI 309

>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3 Length = 395

Iteration: 1
 Score =  223 bits (567), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 120/309 (38%), Positives = 190/309 (61%), Gaps = 9/309 (2%)
Query: 34  SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMIALT 90
           SFD +G+  +LL+GIY   F+KPS IQ+RA +P++     R++IAQ+QSGTGKT+  +LT
Sbjct: 6   SFDELGLAPELLKGIYAMKFQKPSKIQERA-LPLLLHNPPRNMIAQSQSGTGKTAAFSLT 64
Query: 91  VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH 150
           +   V+      QA+ L+P+RELA QT +V+  +G F  I +   V         +  + 
Sbjct: 65  MLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE----KNKQI 120
Query: 151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQV 209
              V+ GTPG V D+++RK ++ + IK+ VLDE+D ML  +G  DQ   V R+LP D Q+
Sbjct: 121 NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQL 180
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 269
           VL SAT    + +   K + +   + ++ +E+ ++ IKQ ++  + E  KFD L +LY  
Sbjct: 181 VLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGL 240
Query: 270 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT 329
           +TI  ++IF  TK+  + L  K++     VS +HGD+  +ERD ++ +FR G ++VLITT
Sbjct: 241 MTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITT 300
Query: 330 DVWARGLDV 338
           +V ARG+D+
Sbjct: 301 NVLARGIDI 309

>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex With The Dead- Box Helicase Ddx19 Length = 479

Iteration: 1
 Score =  216 bits (549), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 125/318 (39%), Positives = 193/318 (60%), Gaps = 14/318 (4%)
Query: 31  AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
           ++ SF+ + +K  LL+G+Y  GF +PS IQ+ A +P++     +++IAQ+QSGTGKT+  
Sbjct: 90  SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 148
Query: 88  ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
            L +   V+ +++  Q L LSPT ELA QT KVI  +G F      A+A  G K   G+ 
Sbjct: 149 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 208
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
           I +      +V GTPG V D   K K +  + IK+ VLDE+D M++ +G +DQ   + R 
Sbjct: 209 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 263
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
           LP + Q++L SAT    + +   K + DP  I +KR+E TL+ IKQ++V     + KF  
Sbjct: 264 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 323
Query: 263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT 322
           LC+LY  +TI QA+IFC+T++   WL  ++      V+ + G+M  ++R A++  FR G 
Sbjct: 324 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGK 383
Query: 323 TRVLITTDVWARGLDVQQ 340
            +VL+TT+V ARG+DV+Q
Sbjct: 384 EKVLVTTNVCARGIDVEQ 401

>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An Atp-analogue And Rna Length = 424

Iteration: 1
 Score =  216 bits (549), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 125/318 (39%), Positives = 193/318 (60%), Gaps = 14/318 (4%)
Query: 31  AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
           ++ SF+ + +K  LL+G+Y  GF +PS IQ+ A +P++     +++IAQ+QSGTGKT+  
Sbjct: 39  SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 97
Query: 88  ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
            L +   V+ +++  Q L LSPT ELA QT KVI  +G F      A+A  G K   G+ 
Sbjct: 98  VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 157
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
           I +      +V GTPG V D   K K +  + IK+ VLDE+D M++ +G +DQ   + R 
Sbjct: 158 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 212
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
           LP + Q++L SAT    + +   K + DP  I +KR+E TL+ IKQ++V     + KF  
Sbjct: 213 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 272
Query: 263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT 322
           LC+LY  +TI QA+IFC+T++   WL  ++      V+ + G+M  ++R A++  FR G 
Sbjct: 273 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGK 332
Query: 323 TRVLITTDVWARGLDVQQ 340
            +VL+TT+V ARG+DV+Q
Sbjct: 333 EKVLVTTNVCARGIDVEQ 350

>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And Rna Length = 412

Iteration: 1
 Score =  215 bits (548), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 125/318 (39%), Positives = 193/318 (60%), Gaps = 14/318 (4%)
Query: 31  AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
           ++ SF+ + +K  LL+G+Y  GF +PS IQ+ A +P++     +++IAQ+QSGTGKT+  
Sbjct: 23  SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 81
Query: 88  ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
            L +   V+ +++  Q L LSPT ELA QT KVI  +G F      A+A  G K   G+ 
Sbjct: 82  VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 141
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
           I +      +V GTPG V D   K K +  + IK+ VLDE+D M++ +G +DQ   + R 
Sbjct: 142 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 196
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
           LP + Q++L SAT    + +   K + DP  I +KR+E TL+ IKQ++V     + KF  
Sbjct: 197 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 256
Query: 263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT 322
           LC+LY  +TI QA+IFC+T++   WL  ++      V+ + G+M  ++R A++  FR G 
Sbjct: 257 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGK 316
Query: 323 TRVLITTDVWARGLDVQQ 340
            +VL+TT+V ARG+DV+Q
Sbjct: 317 EKVLVTTNVCARGIDVEQ 334

>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp Length = 445

Iteration: 1
 Score =  215 bits (548), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 125/318 (39%), Positives = 193/318 (60%), Gaps = 14/318 (4%)
Query: 31  AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
           ++ SF+ + +K  LL+G+Y  GF +PS IQ+ A +P++     +++IAQ+QSGTGKT+  
Sbjct: 60  SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 118
Query: 88  ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
            L +   V+ +++  Q L LSPT ELA QT KVI  +G F      A+A  G K   G+ 
Sbjct: 119 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 178
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
           I +      +V GTPG V D   K K +  + IK+ VLDE+D M++ +G +DQ   + R 
Sbjct: 179 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 233
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
           LP + Q++L SAT    + +   K + DP  I +KR+E TL+ IKQ++V     + KF  
Sbjct: 234 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 293
Query: 263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT 322
           LC+LY  +TI QA+IFC+T++   WL  ++      V+ + G+M  ++R A++  FR G 
Sbjct: 294 LCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGK 353
Query: 323 TRVLITTDVWARGLDVQQ 340
            +VL+TT+V ARG+DV+Q
Sbjct: 354 EKVLVTTNVCARGIDVEQ 371

>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The Hyperthermophile Methanococcus Jannaschii Length = 367

Iteration: 1
 Score =  188 bits (477), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 105/308 (34%), Positives = 175/308 (56%), Gaps = 11/308 (3%)
Query: 34  SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTV 91
           +F+ + + D++L  I   GFEKP+ IQ + V+P+      +++AQA++G+GKT+  A+ +
Sbjct: 7   NFNELNLSDNILNAIRNKGFEKPTDIQXK-VIPLFLNDEYNIVAQARTGSGKTASFAIPL 65
Query: 92  CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
            + V+ ++  ++A+IL+PTRELA Q    I ++    N++     GGK++   I+ L++ 
Sbjct: 66  IELVNENN-GIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKNA 124
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
            ++V GTPGR+ D I R TL  + +K  +LDE+DE L+ GF   +  +      D +++L
Sbjct: 125 -NIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILL 183
Query: 212 ISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 271
            SAT P EIL +  K+  D   I  K +      I+Q +V V   E +F+ LC L     
Sbjct: 184 FSATXPREILNLAKKYXGDYSFIKAKIN----ANIEQSYVEVNENE-RFEALCRLLKNKE 238
Query: 272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDV 331
               ++FC TKR    L   +R   F   ++HGD+ Q +R+ ++  F+    R+LI TDV
Sbjct: 239 FY-GLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDV 297
Query: 332 WARGLDVQ 339
            +RG+DV 
Sbjct: 298 XSRGIDVN 305

>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56 Length = 390

Iteration: 1
 Score =  188 bits (477), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 107/313 (34%), Positives = 179/313 (57%), Gaps = 5/313 (1%)
Query: 32  ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
           ++ F    +K +LLR I   GFE PS +Q   +   I G DV+ QA+SG GKT++  L  
Sbjct: 6   MSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLAT 65
Query: 92  CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEH 150
            Q ++  + +V  L++  TRELA Q  K       ++ N++     GG S+ +D   L+ 
Sbjct: 66  LQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 125
Query: 151 GV-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQ 208
              H+V GTPGR+  + + K+L  + IK  +LDE+D+ML +   +  + +++R  P + Q
Sbjct: 126 NCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQ 185
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLY 267
           V++ SATL  EI  +  KFM DP++I V  + +LTL G++Q++V ++  E K   L DL 
Sbjct: 186 VMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE-KNRKLFDLL 244
Query: 268 DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLI 327
           D L   Q VIF  + ++   L + +   NF   ++H  MPQ+ER +   +F+    R+L+
Sbjct: 245 DVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILV 304
Query: 328 TTDVWARGLDVQQ 340
            T+++ RG+D+++
Sbjct: 305 ATNLFGRGMDIER 317

>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56 Length = 391

Iteration: 1
 Score =  187 bits (474), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 107/312 (34%), Positives = 177/312 (56%), Gaps = 5/312 (1%)
Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
           + F    +K +LLR I   GFE PS +Q   +   I G DV+ QA+SG GKT++  L   
Sbjct: 8   SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 67
Query: 93  QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
           Q ++  + +V  L++  TRELA Q  K       ++ N++     GG S+ +D   L+  
Sbjct: 68  QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKN 127
Query: 152 V-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQV 209
             H+V GTPGR+  + + K+L  + IK  +LDE D+ML +   +  + +++R  P + QV
Sbjct: 128 CPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQV 187
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
           ++ SATL  EI  +  KFM DP++I V  + +LTL G++Q++V ++  E K   L DL D
Sbjct: 188 MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE-KNRKLFDLLD 246
Query: 269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT 328
            L   Q VIF  + ++   L + +   NF   ++H  MPQ+ER +   +F+    R+L+ 
Sbjct: 247 VLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVA 306
Query: 329 TDVWARGLDVQQ 340
           T+++ RG+D+++
Sbjct: 307 TNLFGRGMDIER 318

>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp Length = 386

Iteration: 1
 Score =  186 bits (473), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 107/312 (34%), Positives = 177/312 (56%), Gaps = 5/312 (1%)
Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
           + F    +K +LLR I   GFE PS +Q   +   I G DV+ QA+SG GKT++  L   
Sbjct: 8   SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 67
Query: 93  QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
           Q ++  + +V  L++  TRELA Q  K       ++ N++     GG S+ +D   L+  
Sbjct: 68  QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKN 127
Query: 152 V-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQV 209
             H+V GTPGR+  + + K+L  + IK  +LDE D+ML +   +  + +++R  P + QV
Sbjct: 128 CPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQV 187
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
           ++ SATL  EI  +  KFM DP++I V  + +LTL G++Q++V ++  E K   L DL D
Sbjct: 188 MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE-KNRKLFDLLD 246
Query: 269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT 328
            L   Q VIF  + ++   L + +   NF   ++H  MPQ+ER +   +F+    R+L+ 
Sbjct: 247 VLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVA 306
Query: 329 TDVWARGLDVQQ 340
           T+++ RG+D+++
Sbjct: 307 TNLFGRGMDIER 318

>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x Length = 417

Iteration: 1
 Score =  153 bits (387), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 110/337 (32%), Positives = 172/337 (51%), Gaps = 34/337 (10%)
Query: 32  ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALT 90
           I SF  + + + ++  I    + +P+ +Q+ A+ PIIK  RD++A AQ+G+GKT+   L 
Sbjct: 14  IESFSDVEMGEIIMGNIELTRYTRPTPVQKHAI-PIIKEKRDLMACAQTGSGKTAAFLLP 72
Query: 91  VCQTV--DTSSREVQA----------------LILSPTRELATQTEKVILAIGDFINIQA 132
           +   +  D     ++A                L+L+PTRELA Q  +          ++ 
Sbjct: 73  ILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRP 132
Query: 133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF 192
               GG  +G+ IR LE G H++  TPGR+ DM++R  +     K LVLDE+D ML  GF
Sbjct: 133 CVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGF 192
Query: 193 KDQIYDVYRY--LPPD--LQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ 248
           + QI  +     +PP      ++ SAT P EI  +   F+ + + + V R   T E I Q
Sbjct: 193 EPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQ 252
Query: 249 FFVAVEREEWKFDTLCDLY-----DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMH 303
             V VE E  K   L DL      D+LT+    +F  TK+  D L + +    +  +S+H
Sbjct: 253 KVVWVE-ESDKRSFLLDLLNATGKDSLTL----VFVETKKGADSLEDFLYHEGYACTSIH 307
Query: 304 GDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           GD  Q++R+  + +FRSG + +L+ T V ARGLD+  
Sbjct: 308 GDRSQRDREEALHQFRSGKSPILVATAVAARGLDISN 344

>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein Drosophila Vasa Length = 434

Iteration: 1
 Score =  147 bits (371), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 98/323 (30%), Positives = 165/323 (51%), Gaps = 19/323 (5%)
Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           + I  F +  ++D ++  + + G++ P+ IQ+ ++  I  GRD++A AQ+G+GKT+   L
Sbjct: 53  QPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLL 112
Query: 90  TVCQTVDTSSREV-----QALILSPTRELATQ--TEKVILAIGDFINIQAHACVGGKSVG 142
            +   +     E+     Q +I+SPTRELA Q   E    A   ++ I      GG S  
Sbjct: 113 PILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGI--VYGGTSFR 170
Query: 143 EDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
                +  G HVV  TPGR+ D + R  +     + +VLDE+D ML  GF + +  +  +
Sbjct: 171 HQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTH 230
Query: 203 --LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKF 260
             + P+ Q ++ SAT P EI  M  +F+ + V + +         +KQ    V     K+
Sbjct: 231 VTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVN----KY 286
Query: 261 DTLCDLYDTLTITQA---VIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGE 317
                L + L+  QA   ++F  TKR  D+L   +    F  +S+HGD  Q +R+  + +
Sbjct: 287 AKRSKLIEILS-EQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRD 345
Query: 318 FRSGTTRVLITTDVWARGLDVQQ 340
           F++G+ +VLI T V +RGLD++ 
Sbjct: 346 FKNGSMKVLIATSVASRGLDIKN 368

>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast Eif4a Length = 165

Iteration: 1
 Score =  146 bits (369), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 63/98 (64%), Positives = 85/98 (86%)
Query: 243 LEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSM 302
           LEGIKQF+V VE EE+K++ L DLYD++++TQAVIFCNT+RKV+ LT K+R   FTVS++
Sbjct: 1   LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 303 HGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           + D+PQ+ERD IM EFRSG++R+LI+TD+ ARG+DVQQ
Sbjct: 61  YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQ 98

>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p Length = 226

Iteration: 1
 Score =  142 bits (359), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 81/202 (40%), Positives = 122/202 (60%), Gaps = 11/202 (5%)
Query: 34  SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMIALT 90
           SFD +G+  +LL+GIY   F+KPS IQ+RA +P++     R++IAQ+QSGTGKT+  +LT
Sbjct: 23  SFDELGLAPELLKGIYAMKFQKPSKIQERA-LPLLLHNPPRNMIAQSQSGTGKTAAFSLT 81
Query: 91  VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH 150
           +   V+      QA+ L+P+RELA QT +V+  +G F  I +        V +   K + 
Sbjct: 82  MLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLI-----VPDSFEKNKQ 136
Query: 151 -GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQ 208
               V+ GTPG V D+++RK ++ + IK+ VLDE+D ML  +G  DQ   V R+LP D Q
Sbjct: 137 INAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQ 196
Query: 209 VVLISATLPHEILEMTTKFMTD 230
           +VL SAT    + +   K + +
Sbjct: 197 LVLFSATFADAVRQYAKKIVPN 218

>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A Human Dead-Box Protein Length = 206

Iteration: 1
 Score =  140 bits (354), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 68/203 (33%), Positives = 124/203 (61%), Gaps = 1/203 (0%)
Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
             F+   +K +LL GI++ G+EKPS IQ+ ++   + GRD++A+A++GTGK+    + + 
Sbjct: 3   NEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL 62
Query: 93  QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
           + +D     +QA+++ PTRELA Q  ++ + +   +   +  A  GG ++ +DI +L+  
Sbjct: 63  ERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDT 122
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
           VHVV  TPGR+ D+IK+   +   ++++VLDE+D++LS+ F   + D+   LP + Q++L
Sbjct: 123 VHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILL 182
Query: 212 ISATLPHEILEMTTKFMTDPVKI 234
            SAT P  + +     +  P +I
Sbjct: 183 YSATFPLSVQKFMNSHLEKPYEI 205

>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex With Adp Length = 230

Iteration: 1
 Score =  131 bits (330), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 73/200 (36%), Positives = 120/200 (60%), Gaps = 5/200 (2%)
Query: 35  FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALTVCQ 93
           F+++ +   +L G+   GFE+PS +Q +A+ P+ + G D+I QA+SGTGKT + +     
Sbjct: 26  FESLLLSRPVLEGLRAAGFERPSPVQLKAI-PLGRCGLDLIVQAKSGTGKTCVFSTIALD 84
Query: 94  TVDTSSREVQALILSPTRELATQTEKVILAIG-DFINIQAHACVGGKSVGEDIRKLEHGV 152
           ++   +   Q LIL+PTRE+A Q   VI AIG     ++ H  +GG  + +D  +L+   
Sbjct: 85  SLVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK-C 143
Query: 153 HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-FKDQIYDVYRYLPPDLQVVL 211
           H+  G+PGR+  +I+   L   +I+L +LDE+D++L  G F++QI  +Y  LP   Q++ 
Sbjct: 144 HIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLA 203
Query: 212 ISATLPHEILEMTTKFMTDP 231
           +SAT P  +    TK+M DP
Sbjct: 204 VSATYPEFLANALTKYMRDP 223

>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56 Length = 220

Iteration: 1
 Score =  130 bits (327), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 74/207 (35%), Positives = 116/207 (56%), Gaps = 3/207 (1%)
Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
           + F    +K +LLR I   GFE PS +Q   +   I G DV+ QA+SG GKT++  L   
Sbjct: 14  SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 73
Query: 93  QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
           Q ++  + +V  L++  TRELA Q  K       ++ N++     GG S+ +D   L+  
Sbjct: 74  QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKN 133
Query: 152 V-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQV 209
             H+V GTPGR+  + + K+L  + IK  +LDE D+ML +   +  + +++R  P + QV
Sbjct: 134 CPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQV 193
Query: 210 VLISATLPHEILEMTTKFMTDPVKILV 236
           ++ SATL  EI  +  KFM DP++I V
Sbjct: 194 MMFSATLSKEIRPVCRKFMQDPMEIFV 220

>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214 Length = 235

Iteration: 1
 Score =  129 bits (325), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 84/218 (38%), Positives = 128/218 (58%), Gaps = 14/218 (6%)
Query: 31  AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
           ++ SF+ + +K  LL+G+Y  GF +PS IQ+ A +P++     +++IAQ+QSGTGKT+  
Sbjct: 23  SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 81
Query: 88  ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
            L +   V+ +++  Q L LSPT ELA QT KVI  +G F      A+A  G K   G+ 
Sbjct: 82  VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 141
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
           I +      +V GTPG V D   K K +  + IK+ VLDE+D M++ +G +DQ   + R 
Sbjct: 142 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 196
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE 240
           LP + Q++L SAT    + +   K + DP  I +KR+E
Sbjct: 197 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREE 234

>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex With The Dead- Box Helicase Ddx19 Length = 300

Iteration: 1
 Score =  127 bits (320), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 83/217 (38%), Positives = 127/217 (58%), Gaps = 14/217 (6%)
Query: 31  AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
           ++ SF+ + +K  LL+G+Y  GF +PS IQ+ A +P++     +++IAQ+QSGTGKT+  
Sbjct: 90  SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 148
Query: 88  ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
            L +   V+ +++  Q L LSPT ELA QT KVI  +G F      A+A  G K   G+ 
Sbjct: 149 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 208
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
           I +      +V GTPG V D   K K +  + IK+ VLDE+D M++ +G +DQ   + R 
Sbjct: 209 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 263
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRD 239
           LP + Q++L SAT    + +   K + DP  I +KR+
Sbjct: 264 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300

>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1 Length = 207

Iteration: 1
 Score =  127 bits (319), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 71/205 (34%), Positives = 113/205 (55%), Gaps = 5/205 (2%)
Query: 35  FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQT 94
           F    +K ++L  ++  G   P+ IQ  A+   ++G+D+I QA++GTGKT   AL + + 
Sbjct: 3   FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 95  VDTS---SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
           +  S    R+ +AL+L+PTRELA Q    + A+   + + A    GG   G+    L  G
Sbjct: 63  LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA--VYGGTGYGKQKEALLRG 120
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
              V  TPGR  D +++  L    +++ VLDE+DEMLS GF++++  +    PP  Q +L
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
Query: 212 ISATLPHEILEMTTKFMTDPVKILV 236
            SATLP     +  ++M +PV I V
Sbjct: 181 FSATLPSWAKRLAERYMKNPVLINV 205

>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form Length = 207

Iteration: 1
 Score =  126 bits (316), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 70/205 (34%), Positives = 113/205 (55%), Gaps = 5/205 (2%)
Query: 35  FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQT 94
           F    +K ++L  ++  G   P+ I+  A+   ++G+D+I QA++GTGKT   AL + + 
Sbjct: 3   FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 95  VDTS---SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
           +  S    R+ +AL+L+PTRELA Q    + A+   + + A    GG   G+    L  G
Sbjct: 63  LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA--VYGGTGYGKQKEALLRG 120
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
              V  TPGR  D +++  L    +++ VLDE+DEMLS GF++++  +    PP  Q +L
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
Query: 212 ISATLPHEILEMTTKFMTDPVKILV 236
            SATLP     +  ++M +PV I V
Sbjct: 181 FSATLPSWAKRLAERYMKNPVLINV 205

>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In Complex With Amp Length = 249

Iteration: 1
 Score =  122 bits (307), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 68/208 (32%), Positives = 115/208 (55%), Gaps = 1/208 (0%)
Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           E   +F  +G+ D L     Q G+ KP+ IQ  A+   ++GRD+I  A++G+GKT   AL
Sbjct: 40  EETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFAL 99
Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
            +   +  + + + AL+L+PTRELA Q  +   A+G  I +Q+   VGG         L 
Sbjct: 100 PILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALA 159
Query: 150 HGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
              H++  TPGR+ D ++  K    RA+K LV+DE+D +L+  F+ ++  + + +P D +
Sbjct: 160 KKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRK 219
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILV 236
             L SAT+  ++ ++    + +PVK  V
Sbjct: 220 TFLFSATMTKKVQKLQRAALKNPVKCAV 247

>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain Length = 219

Iteration: 1
 Score =  118 bits (296), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 70/210 (33%), Positives = 106/210 (50%), Gaps = 4/210 (1%)
Query: 31  AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALT 90
           A T F     +  ++  I    F KP+ IQ+R +   ++G   + Q+Q+GTGKT    L 
Sbjct: 2   AETQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLP 61
Query: 91  VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN----IQAHACVGGKSVGEDIR 146
           + + +     EVQA+I +PTRELATQ     L I  F      I A   +GG    + + 
Sbjct: 62  IXEKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALE 121
Query: 147 KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPD 206
           KL    H+V GTPGR+ D I+ + L      +LV+DE+D  L  GF   +  +    P D
Sbjct: 122 KLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKD 181
Query: 207 LQVVLISATLPHEILEMTTKFMTDPVKILV 236
           LQ ++ SAT+P ++     K+  +P  + V
Sbjct: 182 LQXLVFSATIPEKLKPFLKKYXENPTFVHV 211

>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of Djvlgb, A Pranarian Vasa-Like Rna Helicase Length = 253

Iteration: 1
 Score =  115 bits (289), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 75/237 (31%), Positives = 127/237 (53%), Gaps = 19/237 (8%)
Query: 28  GVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTS-- 85
               I +FD + +   +   I    +++P+ IQ+ A+  I++ RD++A AQ+G+GKT+  
Sbjct: 18  ATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAF 77
Query: 86  ---MIALTVCQTVD----TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHACV- 136
              +I   VCQ ++    + +   + LIL+PTRELA Q   ++     F +N    +CV 
Sbjct: 78  LIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQ---ILSESQKFSLNTPLRSCVV 134
Query: 137 -GGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQ 195
            GG      IR+++ G H++  TPGR+ D I++  +     K +VLDE+D ML  GF+ Q
Sbjct: 135 YGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQ 194
Query: 196 IYDVYR--YLPPDL--QVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ 248
           I  +     +P  +  Q ++ SAT P EI ++   F+ + + + V R   T + IKQ
Sbjct: 195 IRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQ 251

>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna Helicase From Sulfolobus Tokodaii Length = 337

Iteration: 1
 Score =  115 bits (289), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 80/295 (27%), Positives = 155/295 (52%), Gaps = 21/295 (7%)
Query: 46  RGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQAL 105
           + I + GF+  + +Q + +  +++G++V+ +A++G+GKT+  A+ + +        +++L
Sbjct: 7   QAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------GMKSL 60
Query: 106 ILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDM 165
           +++PTREL  Q    I  IG +++ +     GG      I ++ +   +V  TPGR+ D+
Sbjct: 61  VVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNA-DIVVATPGRLLDL 119
Query: 166 IKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTT 225
             +  +   + +++++DE+D M   GF D I  +           L SAT+P EI ++  
Sbjct: 120 WSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVK 179
Query: 226 KFMTDPVKILVKRDELTLEGIKQFFVAVEREEW--KFDTLCDLYDTLTITQAVIFCNTKR 283
            F+T+  +I      + L  ++  FV V +++W  K   L +  D       ++F  T+ 
Sbjct: 180 DFITNYEEIEAC---IGLANVEHKFVHV-KDDWRSKVQALRENKDK----GVIVFVRTRN 231
Query: 284 KVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
           +V  L   +R ++  +  + GD+PQ  R+  +  FR G   +LITTDV +RGLD+
Sbjct: 232 RVAKL---VRLFDNAIE-LRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDI 282

>pdb|3FE2|A Chain A, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I In Complex With Adp Length = 242

Iteration: 1
 Score =  106 bits (265), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 66/217 (30%), Positives = 107/217 (49%), Gaps = 5/217 (2%)
Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           + + +F       +++  I +  F +P+AIQ +     + G D++  AQ+G+GKT    L
Sbjct: 26  KPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLL 85
Query: 90  TVCQTVDTSSREVQA-----LILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED 144
                ++      +      L+L+PTRELA Q ++V         +++    GG   G  
Sbjct: 86  PAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 145
Query: 145 IRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP 204
           IR LE GV +   TPGR+ D ++      R    LVLDE+D ML  GF+ QI  +   + 
Sbjct: 146 IRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 205
Query: 205 PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL 241
           PD Q ++ SAT P E+ ++   F+ D + I +   EL
Sbjct: 206 PDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGALEL 242

>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain Length = 228

Iteration: 1
 Score =  105 bits (263), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 69/207 (33%), Positives = 111/207 (53%), Gaps = 7/207 (3%)
Query: 36  DAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTV 95
           DA     DLL+ I + G  KP+ IQ +A   I++G D+I  AQ+GTGKT    +     +
Sbjct: 23  DAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHL 82
Query: 96  DTS--SREVQA----LILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
           D+   SRE +     L+L+PTRELA   E        +  +++    GG++    I  + 
Sbjct: 83  DSQPISREQRNGPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQIEDIS 141
Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
            GV ++  TPGR+ D+    ++  R+I  LV+DE+D+ML   F+ QI  +   + PD Q 
Sbjct: 142 KGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQT 201
Query: 210 VLISATLPHEILEMTTKFMTDPVKILV 236
           V+ SAT P  + ++   ++ DP+ + V
Sbjct: 202 VMTSATWPDTVRQLALSYLKDPMIVYV 228

>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human Dead-Box Rna Helicase Ddx5 (P68) Length = 253

Iteration: 1
 Score =  105 bits (263), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 64/210 (30%), Positives = 104/210 (49%), Gaps = 5/210 (2%)
Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           + + +F       +++  I +  F +P+AIQ +     + G D++  AQ+G+GKT    L
Sbjct: 40  KPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLL 99
Query: 90  TVCQTVDTSSREVQA-----LILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED 144
                ++      +      L+L+PTRELA Q ++V         +++    GG   G  
Sbjct: 100 PAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 159
Query: 145 IRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP 204
           IR LE GV +   TPGR+ D ++      R    LVLDE+D ML  GF+ QI  +   + 
Sbjct: 160 IRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 219
Query: 205 PDLQVVLISATLPHEILEMTTKFMTDPVKI 234
           PD Q ++ SAT P E+ ++   F+ D + I
Sbjct: 220 PDRQTLMWSATWPKEVRQLAEDFLKDYIHI 249

>pdb|3LY5|A Chain A, Ddx18 Dead-Domain Length = 262

Iteration: 1
 Score = 98.6 bits (244), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 63/219 (28%), Positives = 119/219 (54%), Gaps = 21/219 (9%)
Query: 33  TSFDAMG--IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALT 90
           TSF ++   + ++ L+ I + GF   + IQ +++ P+++GRD++A A++G+GKT    + 
Sbjct: 52  TSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIP 111
Query: 91  VCQTVDT----SSREVQALILSPTRELATQTEKVILAIGDFINIQAHA---CVGGKSVGE 143
             + +             LILSPTRELA QT  V   + + +    H     +GG +   
Sbjct: 112 AVELIVKLRFMPRNGTGVLILSPTRELAMQTFGV---LKELMTHHVHTYGLIMGGSNRSA 168
Query: 144 DIRKLEHGVHVVSGTPGRVCDMIKRKT-LRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
           + +KL +G++++  TPGR+ D ++       + ++ LV+DE+D +L  GF++++  + + 
Sbjct: 169 EAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKL 228
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL 241
           LP   Q +L SAT         T+ + D  +I +K++ L
Sbjct: 229 LPTRRQTMLFSAT--------QTRKVEDLARISLKKEPL 259

>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion) Bound To Ssrna And Amp-Pnp Length = 512

Iteration: 1
 Score = 97.8 bits (242), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 87/332 (26%), Positives = 158/332 (47%), Gaps = 43/332 (12%)
Query: 43  DLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQ----TVD 96
           ++ + I +  F   + +QQ+ + PI+     DVIA+A++GTGKT    + + Q    T  
Sbjct: 31  EIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF 90
Query: 97  TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHACV---GGKSVGEDIRKLEH-G 151
            S   V+A+I++PTR+LA Q E  +  I D    ++ +ACV   GG      + K+    
Sbjct: 91  DSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 152 VHVVSGTPGRVCDMIKRKTLRT-RAIKLLVLDESDEMLSRGFKDQIYDVYRYL------- 203
            ++V  TPGR+ D++++ + +  R +   VLDE+D +L  GF+D +  +   L       
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 204 PPDLQVVLISATLPHEILEMTTKFMTDPVKILV----KRDELTLEGIKQ----------- 248
             +++ +L SATL  ++ ++    M     + +    K +    E I Q           
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANS 270
Query: 249 FFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRG---YNFTVSSMHGD 305
            F AVE  + +       Y      +A+IF  T +   +L   ++     +  +   HG 
Sbjct: 271 IFAAVEHIKKQIKERDSNY------KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 324
Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLD 337
           + Q +R +++  F+   + +L+ TDV ARG+D
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMD 356

>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp Length = 563

Iteration: 1
 Score = 97.8 bits (242), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 87/332 (26%), Positives = 158/332 (47%), Gaps = 43/332 (12%)
Query: 43  DLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQ----TVD 96
           ++ + I +  F   + +QQ+ + PI+     DVIA+A++GTGKT    + + Q    T  
Sbjct: 82  EIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF 141
Query: 97  TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHACV---GGKSVGEDIRKLEH-G 151
            S   V+A+I++PTR+LA Q E  +  I D    ++ +ACV   GG      + K+    
Sbjct: 142 DSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 201
Query: 152 VHVVSGTPGRVCDMIKRKTLRT-RAIKLLVLDESDEMLSRGFKDQIYDVYRYL------- 203
            ++V  TPGR+ D++++ + +  R +   VLDE+D +L  GF+D +  +   L       
Sbjct: 202 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 261
Query: 204 PPDLQVVLISATLPHEILEMTTKFMTDPVKILV----KRDELTLEGIKQ----------- 248
             +++ +L SATL  ++ ++    M     + +    K +    E I Q           
Sbjct: 262 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANS 321
Query: 249 FFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRG---YNFTVSSMHGD 305
            F AVE  + +       Y      +A+IF  T +   +L   ++     +  +   HG 
Sbjct: 322 IFAAVEHIKKQIKERDSNY------KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 375
Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLD 337
           + Q +R +++  F+   + +L+ TDV ARG+D
Sbjct: 376 ITQNKRTSLVKRFKKDESGILVCTDVGARGMD 407

>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And Amp-Pnp Length = 579

Iteration: 1
 Score = 97.1 bits (240), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 87/332 (26%), Positives = 158/332 (47%), Gaps = 43/332 (12%)
Query: 43  DLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQ----TVD 96
           ++ + I +  F   + +QQ+ + PI+     DVIA+A++GTGKT    + + Q    T  
Sbjct: 31  EIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF 90
Query: 97  TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHACV---GGKSVGEDIRKLEH-G 151
            S   V+A+I++PTR+LA Q E  +  I D    ++ +ACV   GG      + K+    
Sbjct: 91  DSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 152 VHVVSGTPGRVCDMIKRKTLRT-RAIKLLVLDESDEMLSRGFKDQIYDVYRYL------- 203
            ++V  TPGR+ D++++ + +  R +   VLDE+D +L  GF+D +  +   L       
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 204 PPDLQVVLISATLPHEILEMTTKFMTDPVKILV----KRDELTLEGIKQ----------- 248
             +++ +L SATL  ++ ++    M     + +    K +    E I Q           
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANS 270
Query: 249 FFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRG---YNFTVSSMHGD 305
            F AVE  + +       Y      +A+IF  T +   +L   ++     +  +   HG 
Sbjct: 271 IFAAVEHIKKQIKERDSNY------KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK 324
Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLD 337
           + Q +R +++  F+   + +L+ TDV ARG+D
Sbjct: 325 ITQNKRTSLVKRFKKDESGILVCTDVGARGMD 356

>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25 Rna Helicase Length = 175

Iteration: 1
 Score = 95.5 bits (236), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 44/100 (44%), Positives = 67/100 (67%)
Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS 300
           LTL  I+Q++V  E  + K+  LC++Y ++TI QA+IFC T+R   WLT +M      VS
Sbjct: 3   LTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVS 62
Query: 301 SMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
            + G++  ++R +I+  FR G  +VLITT+V ARG+DV+Q
Sbjct: 63  LLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQ 102

>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex With Adp Length = 236

Iteration: 1
 Score = 95.5 bits (236), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 61/214 (28%), Positives = 113/214 (52%), Gaps = 6/214 (2%)
Query: 28  GVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMI 87
            V  IT F    +    L+G+ +  +   + IQ++ +   ++G+DV+  A++G+GKT   
Sbjct: 20  NVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAF 79
Query: 88  ALTVCQTVD----TSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE 143
            + V + +     TS+  +  LI+SPTRELA QT +V+  +G   +  A   +GGK +  
Sbjct: 80  LVPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKH 139
Query: 144 DIRKLEHGVHVVSGTPGRVCD-MIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
           +  ++ + ++++  TPGR+   M +  +     +++LVLDE+D +L  GF D +  V   
Sbjct: 140 EAERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIEN 198
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILV 236
           LP   Q +L SAT    + ++    + +P  + V
Sbjct: 199 LPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232

>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p Length = 187

Iteration: 1
 Score = 87.0 bits (214), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 40/100 (40%), Positives = 66/100 (66%)
Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT 298
           +E+ ++ IKQ ++  + E  KFD L +LY  +TI  ++IF  TK+  + L  K++     
Sbjct: 2   NEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHE 61
Query: 299 VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
           VS +HGD+  +ERD ++ +FR G ++VLITT+V ARG+D+
Sbjct: 62  VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDI 101

>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1 H337r And Ip6 Length = 188

Iteration: 1
 Score = 85.9 bits (211), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 40/100 (40%), Positives = 64/100 (64%)
Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT 298
           +E+ ++ IKQ +   + E  KFD L +LY   TI  ++IF  TK+  + L  K++     
Sbjct: 3   NEVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHE 62
Query: 299 VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
           VS +HGD+  +ERD ++ +FR G ++VLITT+V ARG+D+
Sbjct: 63  VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDI 102

>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein Dbp5 Length = 189

Iteration: 1
 Score = 85.1 bits (209), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/100 (40%), Positives = 64/100 (64%)
Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT 298
           +E+ ++ IKQ +   + E  KFD L +LY   TI  ++IF  TK+  + L  K++     
Sbjct: 4   NEVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHE 63
Query: 299 VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
           VS +HGD+  +ERD ++ +FR G ++VLITT+V ARG+D+
Sbjct: 64  VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDI 103

>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex With An Edc3-Fdf Peptide Length = 193

Iteration: 1
 Score = 82.8 bits (203), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 39/110 (35%), Positives = 68/110 (61%), Gaps = 2/110 (1%)
Query: 230 DPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLT 289
           DP +I +  +ELTL+G+ Q++  V  E  K   L  L+  L I Q++IFCN+ ++V+ L 
Sbjct: 4   DPYEINLM-EELTLKGVTQYYAYVT-ERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLA 61
Query: 290 EKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQ 339
           +K+    ++   +H  M Q+ R+ +  +FR+G  R L+ TD++ RG+D+Q
Sbjct: 62  KKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQ 111

>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In Complex With Adp Length = 245

Iteration: 1
 Score = 82.8 bits (203), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 51/171 (29%), Positives = 94/171 (54%), Gaps = 13/171 (7%)
Query: 40  IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC-QTVDTS 98
           I   LL+ I   GF+ P+ IQ +A+  ++ GR+++A A +G+GKT   ++ +  Q    +
Sbjct: 36  INSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPA 95
Query: 99  SREVQALILSPTRELATQTEKVILAIGDFINIQAH----ACVGGKSVGEDIRKLEHGVHV 154
           ++  +ALI+SPTRELA+Q  + ++ I +    + H    A V  K  G    K      +
Sbjct: 96  NKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGP---KSSKKFDI 152
Query: 155 VSGTPGRVCDMIKRKT--LRTRAIKLLVLDESDEML---SRGFKDQIYDVY 200
           +  TP R+  ++K+    +   +++ LV+DESD++      GF+DQ+  ++
Sbjct: 153 LVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIF 203

>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The Bacillus Subtilis Yxin Protein Length = 163

Iteration: 1
 Score = 72.0 bits (175), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 38/100 (38%), Positives = 56/100 (56%), Gaps = 1/100 (1%)
Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS 300
           LT   I+   + V REE KF  L D+  T      +IFC TK  V+ LT+++    +   
Sbjct: 5   LTTRNIEHAVIQV-REENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCD 63
Query: 301 SMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
            +HG M Q++R  +M EF+ G  R L+ TDV ARG+D++ 
Sbjct: 64  KIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIEN 103

>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including The C-Terminal Reca Domain, The Dimerization Domain, And The Rna Binding Domain Length = 300

Iteration: 1
 Score = 70.1 bits (170), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 31/82 (37%), Positives = 48/82 (58%)
Query: 259 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEF 318
           + + L DL    +  +A++F  TK + + + + +        ++HGDM Q ER+ +MG F
Sbjct: 15  RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAF 74
Query: 319 RSGTTRVLITTDVWARGLDVQQ 340
           R G  RVL+ TDV ARGLD+ Q
Sbjct: 75  RQGEVRVLVATDVAARGLDIPQ 96

>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera Form 2, Complete Dimer, Symmetric Length = 212

Iteration: 1
 Score = 67.4 bits (163), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 48/82 (58%)
Query: 259 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEF 318
           + + L DL    +  +A++F  TK + + + + +        ++HGD+ Q ER+ ++G F
Sbjct: 18  RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAF 77
Query: 319 RSGTTRVLITTDVWARGLDVQQ 340
           R G  RVL+ TDV ARGLD+ Q
Sbjct: 78  RQGEVRVLVATDVAARGLDIPQ 99

>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56 Length = 172

Iteration: 1
 Score = 62.8 bits (151), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 31/99 (31%), Positives = 58/99 (58%), Gaps = 1/99 (1%)
Query: 242 TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSS 301
           +L G++Q++V ++  E K   L DL D L   Q VIF  + ++   L + +   NF   +
Sbjct: 2   SLHGLQQYYVKLKDNE-KNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIA 60
Query: 302 MHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           +H  MPQ+ER +   +F+    R+L+ T+++ RG+D+++
Sbjct: 61  IHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIER 99

>pdb|2JGN|A Chain A, Ddx3 Helicase Domain Length = 185

Iteration: 1
 Score = 56.6 bits (135), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 37/104 (35%), Positives = 56/104 (53%), Gaps = 10/104 (9%)
Query: 242 TLEGIKQFFVAVEREEWKFDTLCDLY-----DTLTITQAVIFCNTKRKVDWLTEKMRGYN 296
           T E I Q  V VE  + K   L DL      D+LT+    +F  TK+  D L + +    
Sbjct: 16  TSENITQKVVWVEESD-KRSFLLDLLNATGKDSLTL----VFVETKKGADSLEDFLYHEG 70
Query: 297 FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           +  +S+HGD  Q++R+  + +FRSG + +L+ T V ARGLD+  
Sbjct: 71  YACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISN 114

>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound To Regulator Of Ribonuclease Activity A (Rraa) Length = 170

Iteration: 1
 Score = 45.1 bits (105), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 25/93 (26%), Positives = 43/93 (46%)
Query: 246 IKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD 305
           I Q++   +  E K   L  L      T++++F   + +V  L   +R        + G+
Sbjct: 4   IHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGE 63
Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
           M Q +R+  +     G   VL+ TDV ARG+D+
Sbjct: 64  MVQGKRNEAIKRLTEGRVNVLVATDVAARGIDI 96

>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain Length = 191

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 32/62 (51%)
Query: 276 VIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARG 335
           +IF   K  VD + E +        ++HG   Q+ER   +  FR G   VL+ TDV ++G
Sbjct: 58  LIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKG 117
Query: 336 LD 337
           LD
Sbjct: 118 LD 119

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	354
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	0.0
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	0.0
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	0.0
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	0.0
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	0.0
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	0.0
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	0.0
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	0.0
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	1e-176
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	1e-135
3bor_A	237	Human initiation factor 4A-II; translation initiat	1e-130
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	1e-115
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	1e-112
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	1e-108
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	1e-100
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	4e-98
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	8e-97
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	3e-94
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	5e-93
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	5e-88
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	7e-86
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	2e-79
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	2e-69
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	2e-68
2rb4_A	175	ATP-dependent RNA helicase DDX25; rossmann fold, s	2e-65
1fuk_A	165	Eukaryotic initiation factor 4A; helicase, DEAD-bo	4e-64
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	2e-63
2hjv_A	163	ATP-dependent RNA helicase DBPA; parallel alpha-be	4e-58
1t5i_A	172	C_terminal domain of A probable ATP-dependent RNA	7e-58
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	2e-56
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	4e-55
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	6e-55
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	6e-55
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	9e-55
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	8e-49
3eaq_A	212	Heat resistant RNA dependent ATPase; DEAD box RNA	2e-28
2yjt_D	170	ATP-dependent RNA helicase SRMB, regulator of ribo	9e-28
3i32_A	300	Heat resistant RNA dependent ATPase; RNA helicase,	1e-27
2p6n_A	191	ATP-dependent RNA helicase DDX41; DEAD, structural	7e-27
2jgn_A	185	DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosp	2e-24
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	8e-14
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	2e-10
3o8b_A	666	HCV NS3 protease/helicase; ntpase, RNA, translocat	3e-11
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	3e-10
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	5e-09
3dmq_A	968	RNA polymerase-associated protein RAPA; SWF2/SNF2,	2e-08
3b6e_A	216	Interferon-induced helicase C domain-containing P;	3e-08
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	4e-08
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	5e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-08
2ykg_A	696	Probable ATP-dependent RNA helicase DDX58; hydrola	8e-08
1yks_A	440	Genome polyprotein [contains: flavivirin protease	9e-08
4a2q_A	797	RIG-I, retinoic acid inducible protein I; hydrolas	2e-07
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	8e-07
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	8e-07
4a2w_A	936	RIG-I, retinoic acid inducible protein I; hydrolas	6e-06
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	1e-05
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	6e-05
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	1e-04
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	3e-04
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	3e-04
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	8e-04

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A Length = 410

 Score =  577 bits (1490), Expect = 0.0
 Identities = 252/339 (74%), Positives = 294/339 (86%)

Query: 2   AAATAMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQ 61
            A +   R+      D  K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQ
Sbjct: 6   MATSGSARKRLLKEEDMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQ 65

Query: 62  RAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVI 121
           RA+  IIKGRDVIAQ+QSGTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +
Sbjct: 66  RAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGL 125

Query: 122 LAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVL 181
           LA+GD++N+Q HAC+GG +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVL
Sbjct: 126 LALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVL 185

Query: 182 DESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL 241
           DE+DEML++GFK+QIYDVYRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKRDEL
Sbjct: 186 DEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDEL 245

Query: 242 TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSS 301
           TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFTVSS
Sbjct: 246 TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSS 305

Query: 302 MHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           MHGDMPQKER++IM EFRSG +RVLI+TDVWARGLDV Q
Sbjct: 306 MHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQ 344

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens} Length = 414

 Score =  571 bits (1474), Expect = 0.0
 Identities = 201/333 (60%), Positives = 260/333 (78%), Gaps = 1/333 (0%)

Query: 9   RRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII 68
           R    G    +      +   E + SFD M + + LLRGIY YGFEKPSAIQQRA++P I
Sbjct: 16  RSRDNGPDGMEPEGVIESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCI 75

Query: 69  KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI 128
           KG DVIAQAQSGTGKT+  A+++ Q ++   +  QAL+L+PTRELA Q +KV++A+GD++
Sbjct: 76  KGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYM 135

Query: 129 NIQAHACVGGKSVGEDIRKLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM 187
               HAC+GG +V  +++KL+    H++ GTPGRV DM+ R+ L  + IK+ VLDE+DEM
Sbjct: 136 GASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEM 195

Query: 188 LSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIK 247
           LSRGFKDQIYD+++ L  + QVVL+SAT+P ++LE+T KFM DP++ILVK++ELTLEGI+
Sbjct: 196 LSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIR 255

Query: 248 QFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMP 307
           QF++ VEREEWK DTLCDLY+TLTITQAVIF NT+RKVDWLTEKM   +FTVS+MHGDM 
Sbjct: 256 QFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMD 315

Query: 308 QKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           QKERD IM EFRSG++RVLITTD+ ARG+DVQQ
Sbjct: 316 QKERDVIMREFRSGSSRVLITTDLLARGIDVQQ 348

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A* Length = 394

 Score =  562 bits (1450), Expect = 0.0
 Identities = 186/327 (56%), Positives = 254/327 (77%), Gaps = 2/327 (0%)

Query: 14  GGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDV 73
           G  D ++   +T    + +  FD M + ++LLRG++ YGFE+PSAIQQRA+MPII+G DV
Sbjct: 3   GITDIEESQIQTNY-DKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDV 61

Query: 74  IAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAH 133
           +AQAQSGTGKT   ++   Q +DTS +  QAL+L+PTRELA Q +KV++A+   ++I+ H
Sbjct: 62  LAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVH 121

Query: 134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFK 193
           AC+GG S  ED   L     +V GTPGRV D I+R+  RT  IK+ +LDE+DEMLS GFK
Sbjct: 122 ACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFK 180

Query: 194 DQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAV 253
           +QIY ++  LPP  QVVL+SAT+P+++LE+TTKFM +PV+ILVK+DELTLEGIKQF+V V
Sbjct: 181 EQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNV 240

Query: 254 EREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDA 313
           E EE+K++ L DLYD++++TQAVIFCNT+RKV+ LT K+R   FTVS+++ D+PQ+ERD 
Sbjct: 241 EEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDT 300

Query: 314 IMGEFRSGTTRVLITTDVWARGLDVQQ 340
           IM EFRSG++R+LI+TD+ ARG+DVQQ
Sbjct: 301 IMKEFRSGSSRILISTDLLARGIDVQQ 327

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A Length = 400

 Score =  534 bits (1378), Expect = 0.0
 Identities = 124/317 (39%), Positives = 186/317 (58%), Gaps = 4/317 (1%)

Query: 26  TEGVEAI--TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGK 83
           T+ V      +F+   +K +LL GI++ GFEKPS IQ+ A+   I GRD++A+A++GTGK
Sbjct: 12  TDDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGK 71

Query: 84  TSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE 143
           T+   +   + V     ++QALI+ PTRELA QT +V+  +G    I      GG ++ +
Sbjct: 72  TAAFVIPTLEKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRD 131

Query: 144 DIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL 203
           DI +L   VH++ GTPGRV D+  RK        L ++DE+D+MLSR FK  I  +  +L
Sbjct: 132 DILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFL 191

Query: 204 PPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTL 263
           PP  Q +L SAT P  + E   K +  P +I +  +ELTL+GI Q++  VE E  K   L
Sbjct: 192 PPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLM-EELTLKGITQYYAFVE-ERQKLHCL 249

Query: 264 CDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTT 323
             L+  L I QA+IFCN+  +V+ L +K+    ++    H  M Q+ER+ +  EFR G  
Sbjct: 250 NTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKV 309

Query: 324 RVLITTDVWARGLDVQQ 340
           R L+ +D+  RG+D+Q 
Sbjct: 310 RTLVCSDLLTRGIDIQA 326

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B Length = 412

 Score =  533 bits (1375), Expect = 0.0
 Identities = 120/329 (36%), Positives = 193/329 (58%), Gaps = 8/329 (2%)

Query: 17  DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVI 74
             + +  +    + ++ SF+ + +K  LL+G+Y  GF +PS IQ+ A+  ++    +++I
Sbjct: 9   QVEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLI 68

Query: 75  AQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAH 133
           AQ+QSGTGKT+   L +   V+ +++  Q L LSPT ELA QT KVI  +G F   ++  
Sbjct: 69  AQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLA 128

Query: 134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RG 191
             V G  +    +       +V GTPG V D   K K +  + IK+ VLDE+D M++ +G
Sbjct: 129 YAVRGNKLERGQKI---SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQG 185

Query: 192 FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFV 251
            +DQ   + R LP + Q++L SAT    + +   K + DP  I +KR+E TL+ IKQ++V
Sbjct: 186 HQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYV 245

Query: 252 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKER 311
                + KF  LC+LY  +TI QA+IFC+T++   WL  ++      V+ + G+M  ++R
Sbjct: 246 LCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQR 305

Query: 312 DAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
            A++  FR G  +VL+TT+V ARG+DV+Q
Sbjct: 306 AAVIERFREGKEKVLVTTNVCARGIDVEQ 334

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens} Length = 479

 Score =  527 bits (1360), Expect = 0.0
 Identities = 120/329 (36%), Positives = 193/329 (58%), Gaps = 8/329 (2%)

Query: 17  DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVI 74
             + +  +    + ++ SF+ + +K  LL+G+Y  GF +PS IQ+ A+  ++    +++I
Sbjct: 76  QVEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLI 135

Query: 75  AQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAH 133
           AQ+QSGTGKT+   L +   V+ +++  Q L LSPT ELA QT KVI  +G F   ++  
Sbjct: 136 AQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLA 195

Query: 134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RG 191
             V G  +    +       +V GTPG V D   K K +  + IK+ VLDE+D M++ +G
Sbjct: 196 YAVRGNKLERGQKI---SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQG 252

Query: 192 FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFV 251
            +DQ   + R LP + Q++L SAT    + +   K + DP  I +KR+E TL+ IKQ++V
Sbjct: 253 HQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYV 312

Query: 252 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKER 311
                + KF  LC+LY  +TI QA+IFC+T++   WL  ++      V+ + G+M  ++R
Sbjct: 313 LCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQR 372

Query: 312 DAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
            A++  FR G  +VL+TT+V ARG+DV+Q
Sbjct: 373 AAVIERFREGKEKVLVTTNVCARGIDVEQ 401

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A* Length = 395

 Score =  522 bits (1347), Expect = 0.0
 Identities = 119/312 (38%), Positives = 189/312 (60%), Gaps = 7/312 (2%)

Query: 32  ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIAL 89
             SFD +G+  +LL+GIY   F+KPS IQ+RA+  ++    R++IAQ+QSGTGKT+  +L
Sbjct: 4   AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 63

Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
           T+   V+      QA+ L+P+RELA QT +V+  +G F  I +   V         +  +
Sbjct: 64  TMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE----KNKQ 119

Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQ 208
               V+ GTPG V D+++RK ++ + IK+ VLDE+D ML  +G  DQ   V R+LP D Q
Sbjct: 120 INAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQ 179

Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
           +VL SAT    + +   K + +   + ++ +E+ ++ IKQ ++  + E  KFD L +LY 
Sbjct: 180 LVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYG 239

Query: 269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT 328
            +TI  ++IF  TK+  + L  K++     VS +HGD+  +ERD ++ +FR G ++VLIT
Sbjct: 240 LMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLIT 299

Query: 329 TDVWARGLDVQQ 340
           T+V ARG+D+  
Sbjct: 300 TNVLARGIDIPT 311

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A Length = 391

 Score =  494 bits (1273), Expect = e-176
 Identities = 106/315 (33%), Positives = 177/315 (56%), Gaps = 5/315 (1%)

Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
              + F    +K +LLR I   GFE PS +Q   +   I G DV+ QA+SG GKT++  L
Sbjct: 5   HMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVL 64

Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKL 148
              Q ++  + +V  L++  TRELA Q  K       ++ N++     GG S+ +D   L
Sbjct: 65  ATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVL 124

Query: 149 EHGV-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPD 206
           +    H+V GTPGR+  + + K+L  + IK  +LDE D+ML +   +  + +++R  P +
Sbjct: 125 KKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHE 184

Query: 207 LQVVLISATLPHEILEMTTKFMTDPVKILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCD 265
            QV++ SATL  EI  +  KFM DP++I V  + +LTL G++Q++V ++ +  K   L D
Sbjct: 185 KQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLK-DNEKNRKLFD 243

Query: 266 LYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRV 325
           L D L   Q VIF  + ++   L + +   NF   ++H  MPQ+ER +   +F+    R+
Sbjct: 244 LLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI 303

Query: 326 LITTDVWARGLDVQQ 340
           L+ T+++ RG+D+++
Sbjct: 304 LVATNLFGRGMDIER 318

>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 Length = 224

 Score =  382 bits (984), Expect = e-135
 Identities = 123/226 (54%), Positives = 169/226 (74%), Gaps = 2/226 (0%)

Query: 19  DKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQ 78
           ++   +T    + +  FD M + ++LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQ
Sbjct: 1   EESQIQTNY-DKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQ 59

Query: 79  SGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGG 138
           SGTGKT   ++   Q +DTS +  QAL+L+PTRELA Q +KV++A+   ++I+ HAC+GG
Sbjct: 60  SGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGG 119

Query: 139 KSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYD 198
            S  ED   L     +V GTPGRV D I+R+  RT  IK+ +LDE+DEMLS GFK+QIY 
Sbjct: 120 TSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQ 178

Query: 199 VYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLE 244
           ++  LPP  QVVL+SAT+P+++LE+TTKFM +PV+ILVK+DELTLE
Sbjct: 179 IFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A* Length = 237

 Score =  372 bits (957), Expect = e-130
 Identities = 125/229 (54%), Positives = 172/229 (75%), Gaps = 2/229 (0%)

Query: 12  GGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGR 71
           G   +     V E+    E + +FD M +K+ LLRGIY YGFEKPSAIQQRA++P IKG 
Sbjct: 10  GRENLYFQGGVIES-NWNEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGY 68

Query: 72  DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQ 131
           DVIAQAQSGTGKT+  A+++ Q ++   +E QAL+L+PTRELA Q +KVILA+GD++   
Sbjct: 69  DVIAQAQSGTGKTATFAISILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGAT 128

Query: 132 AHACVGGKSVGEDIRKLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR 190
            HAC+GG +V  +++KL+    H+V GTPGRV DM+ R+ L  + IK+ VLDE+DEMLSR
Sbjct: 129 CHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSR 188

Query: 191 GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRD 239
           GFKDQIY++++ L   +QVVL+SAT+P ++LE+T KFM DP++ILVK++
Sbjct: 189 GFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A* Length = 230

 Score =  333 bits (857), Expect = e-115
 Identities = 74/226 (32%), Positives = 124/226 (54%), Gaps = 4/226 (1%)

Query: 15  GMDDDKMVFETTEGV-EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDV 73
             D       T + +      F+++ +   +L G+   GFE+PS +Q +A+     G D+
Sbjct: 5   AQDLSSPRTRTGDVLLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDL 64

Query: 74  IAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQA 132
           I QA+SGTGKT + +     ++   +   Q LIL+PTRE+A Q   VI AIG  +  ++ 
Sbjct: 65  IVQAKSGTGKTCVFSTIALDSLVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLEC 124

Query: 133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG- 191
           H  +GG  + +D  +L+   H+  G+PGR+  +I+   L   +I+L +LDE+D++L  G 
Sbjct: 125 HVFIGGTPLSQDKTRLKK-CHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGS 183

Query: 192 FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVK 237
           F++QI  +Y  LP   Q++ +SAT P  +    TK+M DP  + + 
Sbjct: 184 FQEQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRLN 229

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens} Length = 300

 Score =  327 bits (840), Expect = e-112
 Identities = 78/228 (34%), Positives = 127/228 (55%), Gaps = 8/228 (3%)

Query: 17  DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVI 74
             + +  +    + ++ SF+ + +K  LL+G+Y  GF +PS IQ+ A+  ++    +++I
Sbjct: 76  QVEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLI 135

Query: 75  AQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAH 133
           AQ+QSGTGKT+   L +   V+ +++  Q L LSPT ELA QT KVI  +G F   ++  
Sbjct: 136 AQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLA 195

Query: 134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RG 191
             V G  +    +       +V GTPG V D   K K +  + IK+ VLDE+D M++ +G
Sbjct: 196 YAVRGNKLERGQKI---SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQG 252

Query: 192 FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRD 239
            +DQ   + R LP + Q++L SAT    + +   K + DP  I +KR+
Sbjct: 253 HQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300

>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 Length = 367

 Score =  319 bits (819), Expect = e-108
 Identities = 105/308 (34%), Positives = 173/308 (56%), Gaps = 9/308 (2%)

Query: 32  ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGR-DVIAQAQSGTGKTSMIALT 90
             +F+ + + D++L  I   GFEKP+ IQ + +   +    +++AQA++G+GKT+  A+ 
Sbjct: 5   YMNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIP 64

Query: 91  VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH 150
           + + V+ +   ++A+IL+PTRELA Q    I ++    N++     GGK++   I+ L+ 
Sbjct: 65  LIELVNEN-NGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALK- 122

Query: 151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVV 210
             ++V GTPGR+ D I R TL  + +K  +LDE+DEML+ GF   +  +      D +++
Sbjct: 123 NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRIL 182

Query: 211 LISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL 270
           L SAT+P EIL +  K+M D   I  K        I+Q +V V   E +F+ LC L    
Sbjct: 183 LFSATMPREILNLAKKYMGDYSFIKAK----INANIEQSYVEVNENE-RFEALCRLLKNK 237

Query: 271 TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD 330
                ++FC TKR    L   +R   F   ++HGD+ Q +R+ ++  F+    R+LI TD
Sbjct: 238 EF-YGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATD 296

Query: 331 VWARGLDV 338
           V +RG+DV
Sbjct: 297 VMSRGIDV 304

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19 Length = 206

 Score =  294 bits (755), Expect = e-100
 Identities = 68/203 (33%), Positives = 124/203 (61%), Gaps = 1/203 (0%)

Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
             F+   +K +LL GI++ G+EKPS IQ+ ++   + GRD++A+A++GTGK+    + + 
Sbjct: 3   NEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL 62

Query: 93  QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
           + +D     +QA+++ PTRELA Q  ++ + +   +   +  A  GG ++ +DI +L+  
Sbjct: 63  ERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDT 122

Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
           VHVV  TPGR+ D+IK+   +   ++++VLDE+D++LS+ F   + D+   LP + Q++L
Sbjct: 123 VHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILL 182

Query: 212 ISATLPHEILEMTTKFMTDPVKI 234
            SAT P  + +     +  P +I
Sbjct: 183 YSATFPLSVQKFMNSHLEKPYEI 205

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii} Length = 337

 Score =  293 bits (752), Expect = 4e-98
 Identities = 75/301 (24%), Positives = 147/301 (48%), Gaps = 17/301 (5%)

Query: 40  IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS 99
           + + + + I + GF+  + +Q + +  +++G++V+ +A++G+GKT+  A+ + +      
Sbjct: 1   MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE------ 54

Query: 100 REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTP 159
             +++L+++PTREL  Q    I  IG +++ +     GG      I ++     +V  TP
Sbjct: 55  LGMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVR-NADIVVATP 113

Query: 160 GRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHE 219
           GR+ D+  +  +   + +++++DE+D M   GF D I  +           L SAT+P E
Sbjct: 114 GRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEE 173

Query: 220 ILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFC 279
           I ++   F+T+  +I      + L  ++  FV V+     + +             ++F 
Sbjct: 174 IRKVVKDFITNYEEIEAC---IGLANVEHKFVHVKD---DWRSKVQALRENKDKGVIVFV 227

Query: 280 NTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQ 339
            T+ +V  L             + GD+PQ  R+  +  FR G   +LITTDV +RGLD+ 
Sbjct: 228 RTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIP 283

Query: 340 Q 340
            
Sbjct: 284 L 284

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19 Length = 220

 Score =  285 bits (732), Expect = 8e-97
 Identities = 74/207 (35%), Positives = 116/207 (56%), Gaps = 3/207 (1%)

Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
           + F    +K +LLR I   GFE PS +Q   +   I G DV+ QA+SG GKT++  L   
Sbjct: 14  SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 73

Query: 93  QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
           Q ++  + +V  L++  TRELA Q  K       ++ N++     GG S+ +D   L+  
Sbjct: 74  QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKN 133

Query: 152 V-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQV 209
             H+V GTPGR+  + + K+L  + IK  +LDE D+ML +   +  + +++R  P + QV
Sbjct: 134 CPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQV 193

Query: 210 VLISATLPHEILEMTTKFMTDPVKILV 236
           ++ SATL  EI  +  KFM DP++I V
Sbjct: 194 MMFSATLSKEIRPVCRKFMQDPMEIFV 220

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C} Length = 579

 Score =  291 bits (746), Expect = 3e-94
 Identities = 81/348 (23%), Positives = 161/348 (46%), Gaps = 35/348 (10%)

Query: 24  ETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII--KGRDVIAQAQSGT 81
           + ++ V   +  +   +  ++ + I +  F   + +QQ+ + PI+  +  DVIA+A++GT
Sbjct: 12  DNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGT 71

Query: 82  GKTSMIALTVCQTVDTSSRE----VQALILSPTRELATQTEKVILAIGDFI----NIQAH 133
           GKT    + + Q +  +  +    V+A+I++PTR+LA Q E  +  I D           
Sbjct: 72  GKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACV 131

Query: 134 ACVGGKSVGEDIRKLE-HGVHVVSGTPGRVCDMIKRKTLR-TRAIKLLVLDESDEMLSRG 191
           + VGG      + K+     ++V  TPGR+ D++++ + +  R +   VLDE+D +L  G
Sbjct: 132 SLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIG 191

Query: 192 FKDQIYDVYRYLP-------PDLQVVLISATLPHEILEMTTKFMTDPVKILV----KRDE 240
           F+D +  +   L         +++ +L SATL  ++ ++    M     + +    K + 
Sbjct: 192 FRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEP 251

Query: 241 LTLEGIKQFFVAVEREEWKF-----DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKM--- 292
              E I Q  V  E+               + +  +  +A+IF  T +   +L   +   
Sbjct: 252 EAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNE 311

Query: 293 --RGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
             +     +   HG + Q +R +++  F+   + +L+ TDV ARG+D 
Sbjct: 312 FKKDLP--ILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDF 357

>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA helicase, DEAD-BOX, ATP-binding, HE hydrolase, mitochondrion; HET: ANP; 1.90A {Saccharomyces cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A* Length = 563

 Score =  287 bits (736), Expect = 5e-93
 Identities = 81/348 (23%), Positives = 161/348 (46%), Gaps = 35/348 (10%)

Query: 24  ETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII--KGRDVIAQAQSGT 81
           + ++ V   +  +   +  ++ + I +  F   + +QQ+ + PI+  +  DVIA+A++GT
Sbjct: 63  DNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGT 122

Query: 82  GKTSMIALTVCQTVDTSSRE----VQALILSPTRELATQTEKVILAIGDF----INIQAH 133
           GKT    + + Q +  +  +    V+A+I++PTR+LA Q E  +  I D           
Sbjct: 123 GKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACV 182

Query: 134 ACVGGKSVGEDIRKLE-HGVHVVSGTPGRVCDMIKRKTLR-TRAIKLLVLDESDEMLSRG 191
           + VGG      + K+     ++V  TPGR+ D++++ + +  R +   VLDE+D +L  G
Sbjct: 183 SLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIG 242

Query: 192 FKDQIYDVYRYLP-------PDLQVVLISATLPHEILEMTTKFMTDPVKILV----KRDE 240
           F+D +  +   L         +++ +L SATL  ++ ++    M     + +    K + 
Sbjct: 243 FRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEP 302

Query: 241 LTLEGIKQFFVAVEREEWKF-----DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKM--- 292
              E I Q  V  E+               + +  +  +A+IF  T +   +L   +   
Sbjct: 303 EAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNE 362

Query: 293 --RGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
             +     +   HG + Q +R +++  F+   + +L+ TDV ARG+D 
Sbjct: 363 FKKDLP--ILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDF 408

>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster} Length = 434

 Score =  270 bits (693), Expect = 5e-88
 Identities = 91/317 (28%), Positives = 159/317 (50%), Gaps = 11/317 (3%)

Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII-KGRDVIAQAQSGTGKT---- 84
           + I  F +  ++D ++  + + G++ P+ IQ+ ++ P+I  GRD++A AQ+G+GKT    
Sbjct: 53  QPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSI-PVISSGRDLMACAQTGSGKTAAFL 111

Query: 85  -SMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE 143
             +++  +    +      Q +I+SPTRELA Q             ++     GG S   
Sbjct: 112 LPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRH 171

Query: 144 DIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY- 202
               +  G HVV  TPGR+ D + R  +     + +VLDE+D ML  GF + +  +  + 
Sbjct: 172 QNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHV 231

Query: 203 -LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFD 261
            + P+ Q ++ SAT P EI  M  +F+ + V + +         +KQ    V +   K  
Sbjct: 232 TMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYA-KRS 290

Query: 262 TLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSG 321
            L ++         ++F  TKR  D+L   +    F  +S+HGD  Q +R+  + +F++G
Sbjct: 291 KLIEILSE-QADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNG 349

Query: 322 TTRVLITTDVWARGLDV 338
           + +VLI T V +RGLD+
Sbjct: 350 SMKVLIATSVASRGLDI 366

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens} Length = 417

 Score =  264 bits (678), Expect = 7e-86
 Identities = 107/333 (32%), Positives = 168/333 (50%), Gaps = 26/333 (7%)

Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII-KGRDVIAQAQSGTGKT---- 84
             I SF  + + + ++  I    + +P+ +Q+ A+ PII + RD++A AQ+G+GKT    
Sbjct: 12  PHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAI-PIIKEKRDLMACAQTGSGKTAAFL 70

Query: 85  -----------SMIALTVCQTVDTSSREVQ---ALILSPTRELATQTEKVILAIGDFINI 130
                         AL   +      R  Q   +L+L+PTRELA Q  +          +
Sbjct: 71  LPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRV 130

Query: 131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR 190
           +     GG  +G+ IR LE G H++  TPGR+ DM++R  +     K LVLDE+D ML  
Sbjct: 131 RPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDM 190

Query: 191 GFKDQIYDV--YRYLPPDL--QVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGI 246
           GF+ QI  +     +PP      ++ SAT P EI  +   F+ + + + V R   T E I
Sbjct: 191 GFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENI 250

Query: 247 KQFFVAVEREEWKFDTLCD-LYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD 305
            Q  V VE  + K   L D L  T   +  ++F  TK+  D L + +    +  +S+HGD
Sbjct: 251 TQKVVWVEESD-KRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGD 309

Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
             Q++R+  + +FRSG + +L+ T V ARGLD+
Sbjct: 310 RSQRDREEALHQFRSGKSPILVATAVAARGLDI 342

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19 Length = 219

 Score =  241 bits (617), Expect = 2e-79
 Identities = 71/210 (33%), Positives = 110/210 (52%), Gaps = 4/210 (1%)

Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
           T F     +  ++  I    F KP+ IQ+R +   ++G  ++ Q+Q+GTGKT    L + 
Sbjct: 4   TQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPIM 63

Query: 93  QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI----NIQAHACVGGKSVGEDIRKL 148
           + +     EVQA+I +PTRELATQ     L I  F      I A   +GG    + + KL
Sbjct: 64  EKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKALEKL 123

Query: 149 EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
               H+V GTPGR+ D I+ + L      +LV+DE+D ML  GF   +  +   +P DLQ
Sbjct: 124 NVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLMLDMGFITDVDQIAARMPKDLQ 183

Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKR 238
           +++ SAT+P ++     K+M +P  + V  
Sbjct: 184 MLVFSATIPEKLKPFLKKYMENPTFVHVLE 213

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A* Length = 414

 Score =  222 bits (567), Expect = 2e-69
 Identities = 51/330 (15%), Positives = 111/330 (33%), Gaps = 45/330 (13%)

Query: 42  DDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSRE 101
           +D      +   +  +  Q+     I++G+     A +G GKT+   +T    +  + + 
Sbjct: 8   EDFRSFFKKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTA---LWLARKG 64

Query: 102 VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE----HGVHVVSG 157
            ++ ++ PT  L  QT + +  + D   ++           E  +  +       H++  
Sbjct: 65  KKSALVFPTVTLVKQTLERLQKLADE-KVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVF 123

Query: 158 TPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLP 217
           +   V     R+ L  +    + +D+ D +L          +   +P ++     S    
Sbjct: 124 STQFVSK--NREKLSQKRFDFVFVDDVDAVLKASRNIDTLLMMVGIPEEIIRKAFSTIKQ 181

Query: 218 HEILEM---------------------TTKFMTDPVKILVKRDELTLEGIKQFFVAVERE 256
            +I E                            D +   V R       I    ++   +
Sbjct: 182 GKIYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLNFTVGRLVSVARNITHVRISSRSK 241

Query: 257 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMG 316
           E K   L +++    +    IF  T+ +   L E ++ + F V     +  +   D    
Sbjct: 242 E-KLVELLEIFRDGIL----IFAQTEEEGKELYEYLKRFKFNVGETWSEFEKNFED---- 292

Query: 317 EFRSGTTRVLITTDVW----ARGLDVQQAI 342
            F+ G   +LI    +     RG+D+ + I
Sbjct: 293 -FKVGKINILIGVQAYYGKLTRGVDLPERI 321

>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 Length = 207

 Score =  212 bits (543), Expect = 2e-68
 Identities = 71/208 (34%), Positives = 114/208 (54%), Gaps = 5/208 (2%)

Query: 34  SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
            F    +K ++L  ++  G   P+ IQ  A+   ++G+D+I QA++GTGKT   AL + +
Sbjct: 2   EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61

Query: 94  TVDTS---SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH 150
            +  S    R+ +AL+L+PTRELA Q    + A+   + + A    GG   G+    L  
Sbjct: 62  RLAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA--VYGGTGYGKQKEALLR 119

Query: 151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVV 210
           G   V  TPGR  D +++  L    +++ VLDE+DEMLS GF++++  +    PP  Q +
Sbjct: 120 GADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTL 179

Query: 211 LISATLPHEILEMTTKFMTDPVKILVKR 238
           L SATLP     +  ++M +PV I V +
Sbjct: 180 LFSATLPSWAKRLAERYMKNPVLINVIK 207

>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural genomics, structural consortium, SGC, alternative initiation, ATP-binding, devel protein; 2.80A {Homo sapiens} Length = 175

 Score =  203 bits (520), Expect = 2e-65
 Identities = 44/101 (43%), Positives = 67/101 (66%)

Query: 240 ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTV 299
            LTL  I+Q++V  E  + K+  LC++Y ++TI QA+IFC T+R   WLT +M      V
Sbjct: 2   MLTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQV 61

Query: 300 SSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           S + G++  ++R +I+  FR G  +VLITT+V ARG+DV+Q
Sbjct: 62  SLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQ 102

>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein, translation; 1.75A {Saccharomyces cerevisiae} SCOP: c.37.1.19 Length = 165

 Score =  200 bits (510), Expect = 4e-64
 Identities = 63/98 (64%), Positives = 85/98 (86%)

Query: 243 LEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSM 302
           LEGIKQF+V VE EE+K++ L DLYD++++TQAVIFCNT+RKV+ LT K+R   FTVS++
Sbjct: 1   LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60

Query: 303 HGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           + D+PQ+ERD IM EFRSG++R+LI+TD+ ARG+DVQQ
Sbjct: 61  YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQ 98

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens} Length = 249

 Score =  201 bits (513), Expect = 2e-63
 Identities = 69/222 (31%), Positives = 117/222 (52%), Gaps = 1/222 (0%)

Query: 17  DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQ 76
           D      +     E   +F  +G+ D L     Q G+ KP+ IQ  A+   ++GRD+I  
Sbjct: 27  DSPTEASQPIVEEEETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGL 86

Query: 77  AQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACV 136
           A++G+GKT   AL +   +  + + + AL+L+PTRELA Q  +   A+G  I +Q+   V
Sbjct: 87  AETGSGKTGAFALPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIV 146

Query: 137 GGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDESDEMLSRGFKDQ 195
           GG         L    H++  TPGR+ D ++  K    RA+K LV+DE+D +L+  F+ +
Sbjct: 147 GGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETE 206

Query: 196 IYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVK 237
           +  + + +P D +  L SAT+  ++ ++    + +PVK  V 
Sbjct: 207 VDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAVS 248

>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase; 1.95A {Bacillus subtilis} Length = 163

 Score =  184 bits (470), Expect = 4e-58
 Identities = 38/101 (37%), Positives = 56/101 (55%), Gaps = 1/101 (0%)

Query: 240 ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTV 299
            LT   I+   + V REE KF  L D+  T      +IFC TK  V+ LT+++    +  
Sbjct: 4   GLTTRNIEHAVIQV-REENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPC 62

Query: 300 SSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
             +HG M Q++R  +M EF+ G  R L+ TDV ARG+D++ 
Sbjct: 63  DKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIEN 103

>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; 1.90A {Homo sapiens} SCOP: c.37.1.19 Length = 172

 Score =  184 bits (469), Expect = 7e-58
 Identities = 30/99 (30%), Positives = 58/99 (58%), Gaps = 1/99 (1%)

Query: 242 TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSS 301
           +L G++Q++V ++ +  K   L DL D L   Q VIF  + ++   L + +   NF   +
Sbjct: 2   SLHGLQQYYVKLK-DNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIA 60

Query: 302 MHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           +H  MPQ+ER +   +F+    R+L+ T+++ RG+D+++
Sbjct: 61  IHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIER 99

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens} Length = 236

 Score =  182 bits (465), Expect = 2e-56
 Identities = 62/224 (27%), Positives = 114/224 (50%), Gaps = 6/224 (2%)

Query: 18  DDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQA 77
              M       V  IT F    +    L+G+ +  +   + IQ++ +   ++G+DV+  A
Sbjct: 10  SRLMQNYEKINVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAA 69

Query: 78  QSGTGKTSMIALTVCQTVD----TSSREVQALILSPTRELATQTEKVILAIGDFINIQAH 133
           ++G+GKT    + V + +     TS+  +  LI+SPTRELA QT +V+  +G   +  A 
Sbjct: 70  KTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAG 129

Query: 134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCD-MIKRKTLRTRAIKLLVLDESDEMLSRGF 192
             +GGK +  +  ++ + ++++  TPGR+   M +  +     +++LVLDE+D +L  GF
Sbjct: 130 LIIGGKDLKHEAERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGF 188

Query: 193 KDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILV 236
            D +  V   LP   Q +L SAT    + ++    + +P  + V
Sbjct: 189 ADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens} Length = 245

 Score =  179 bits (457), Expect = 4e-55
 Identities = 51/219 (23%), Positives = 109/219 (49%), Gaps = 12/219 (5%)

Query: 30  EAITSFDAM----GIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTS 85
           + I +F  +     I   LL+ I   GF+ P+ IQ +A+  ++ GR+++A A +G+GKT 
Sbjct: 22  DPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTL 81

Query: 86  MIALTVCQTVDTSSRE-VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED 144
             ++ +   +   + +  +ALI+SPTRELA+Q  + ++ I +    + H         + 
Sbjct: 82  AFSIPILMQLKQPANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKK 141

Query: 145 I-RKLEHGVHVVSGTPGRVCDMIKRKTLRT--RAIKLLVLDESDEML---SRGFKDQIYD 198
              K      ++  TP R+  ++K+        +++ LV+DESD++      GF+DQ+  
Sbjct: 142 FGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLAS 201

Query: 199 VYRYL-PPDLQVVLISATLPHEILEMTTKFMTDPVKILV 236
           ++       ++  + SAT  +++ +     + + + + +
Sbjct: 202 IFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVSI 240

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens} Length = 228

 Score =  178 bits (455), Expect = 6e-55
 Identities = 68/212 (32%), Positives = 107/212 (50%), Gaps = 8/212 (3%)

Query: 32  ITSF-DAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTS----- 85
              F DA     DLL+ I + G  KP+ IQ +A   I++G D+I  AQ+GTGKT      
Sbjct: 18  TCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMP 77

Query: 86  MIALTVCQTVDTSSRE-VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED 144
                  Q +    R     L+L+PTRELA   E        +  +++    GG++    
Sbjct: 78  GFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQ 136

Query: 145 IRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP 204
           I  +  GV ++  TPGR+ D+    ++  R+I  LV+DE+D+ML   F+ QI  +   + 
Sbjct: 137 IEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVR 196

Query: 205 PDLQVVLISATLPHEILEMTTKFMTDPVKILV 236
           PD Q V+ SAT P  + ++   ++ DP+ + V
Sbjct: 197 PDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} Length = 242

 Score =  179 bits (456), Expect = 6e-55
 Identities = 66/211 (31%), Positives = 103/211 (48%), Gaps = 7/211 (3%)

Query: 32  ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII-KGRDVIAQAQSGTGKTS----- 85
           + +F       +++  I +  F +P+AIQ +   P+   G D++  AQ+G+GKT      
Sbjct: 28  VLNFYEANFPANVMDVIARQNFTEPTAIQAQGW-PVALSGLDMVGVAQTGSGKTLSYLLP 86

Query: 86  MIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDI 145
            I     Q           L+L+PTRELA Q ++V         +++    GG   G  I
Sbjct: 87  AIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQI 146

Query: 146 RKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPP 205
           R LE GV +   TPGR+ D ++      R    LVLDE+D ML  GF+ QI  +   + P
Sbjct: 147 RDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRP 206

Query: 206 DLQVVLISATLPHEILEMTTKFMTDPVKILV 236
           D Q ++ SAT P E+ ++   F+ D + I +
Sbjct: 207 DRQTLMWSATWPKEVRQLAEDFLKDYIHINI 237

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19 Length = 253

 Score =  179 bits (456), Expect = 9e-55
 Identities = 68/233 (29%), Positives = 116/233 (49%), Gaps = 15/233 (6%)

Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII-KGRDVIAQAQSGTGKT---- 84
             I +FD + +   +   I    +++P+ IQ+ A+ P I + RD++A AQ+G+GKT    
Sbjct: 20  NVIENFDELKLDPTIRNNILLASYQRPTPIQKNAI-PAILEHRDIMACAQTGSGKTAAFL 78

Query: 85  -----SMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
                 ++   + Q   + +   + LIL+PTRELA Q             +++    GG 
Sbjct: 79  IPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGA 138

Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
                IR+++ G H++  TPGR+ D I++  +     K +VLDE+D ML  GF+ QI  +
Sbjct: 139 DTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKI 198

Query: 200 YRYLPP----DLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ 248
                     + Q ++ SAT P EI ++   F+ + + + V R   T + IKQ
Sbjct: 199 IEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQ 251

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens} Length = 262

 Score =  164 bits (416), Expect = 8e-49
 Identities = 60/226 (26%), Positives = 114/226 (50%), Gaps = 8/226 (3%)

Query: 17  DDDKMVFETTEGVEAITSFDAMGIK--DDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVI 74
            +   +     G    TSF ++     ++ L+ I + GF   + IQ +++ P+++GRD++
Sbjct: 36  SEVPSLPLGLTGAFEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLL 95

Query: 75  AQAQSGTGKTSMIALTVCQ----TVDTSSREVQALILSPTRELATQTEKVILAIGDFINI 130
           A A++G+GKT    +   +               LILSPTRELA QT  V+  +      
Sbjct: 96  AAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVH 155

Query: 131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCD-MIKRKTLRTRAIKLLVLDESDEMLS 189
                +GG +   + +KL +G++++  TPGR+ D M        + ++ LV+DE+D +L 
Sbjct: 156 TYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILD 215

Query: 190 RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEM-TTKFMTDPVKI 234
            GF++++  + + LP   Q +L SAT   ++ ++       +P+ +
Sbjct: 216 VGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPLYV 261

>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer, ATP-binding, helicase, hydrolase, nucleotide-binding; 2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A Length = 212

 Score =  108 bits (273), Expect = 2e-28
 Identities = 29/93 (31%), Positives = 50/93 (53%), Gaps = 1/93 (1%)

Query: 246 IKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD 305
            ++  V       + + L DL    +  +A++F  TK + + + + +        ++HGD
Sbjct: 6   YEEEAVPAPVRG-RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGD 64

Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
           + Q ER+ ++G FR G  RVL+ TDV ARGLD+
Sbjct: 65  LSQGERERVLGAFRQGEVRVLVATDVAARGLDI 97

>2yjt_D ATP-dependent RNA helicase SRMB, regulator of ribonuclease activity A; hydrolase inhibitor-hydrolase complex, DEAD box RNA helicase; 2.90A {Escherichia coli} Length = 170

 Score =  105 bits (265), Expect = 9e-28
 Identities = 25/97 (25%), Positives = 44/97 (45%)

Query: 244 EGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMH 303
           + I Q++   +  E K   L  L      T++++F   + +V  L   +R        + 
Sbjct: 2   KKIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLE 61

Query: 304 GDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           G+M Q +R+  +     G   VL+ TDV ARG+D+  
Sbjct: 62  GEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPD 98

>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA recognition motif, ATP-BIND helicase, nucleotide-binding; 2.80A {Thermus thermophilus} Length = 300

 Score =  109 bits (273), Expect = 1e-27
 Identities = 31/93 (33%), Positives = 50/93 (53%), Gaps = 1/93 (1%)

Query: 246 IKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD 305
            ++  V       + + L DL    +  +A++F  TK + + + + +        ++HGD
Sbjct: 3   YEEEAVPAPVRG-RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGD 61

Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
           M Q ER+ +MG FR G  RVL+ TDV ARGLD+
Sbjct: 62  MSQGERERVMGAFRQGEVRVLVATDVAARGLDI 94

>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; 2.60A {Homo sapiens} Length = 191

 Score =  104 bits (261), Expect = 7e-27
 Identities = 28/122 (22%), Positives = 44/122 (36%), Gaps = 15/122 (12%)

Query: 227 FMTDPVKILVKRDELTL-------EGIKQFFVAVEREEWKFDTLCDL---YDTLTITQAV 276
                  + +  + L           + Q    V+ E  K   L +         +    
Sbjct: 4   HHHHSSGVDLGTENLYFQSMGAASLDVIQEVEYVKEEA-KMVYLLECLQKTPPPVL---- 58

Query: 277 IFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGL 336
           IF   K  VD + E +        ++HG   Q+ER   +  FR G   VL+ TDV ++GL
Sbjct: 59  IFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGL 118

Query: 337 DV 338
           D 
Sbjct: 119 DF 120

>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation, nucleotide-binding, hydrolase, RNA-binding, ATP-binding, DNA-binding, nuclear protein; 1.91A {Homo sapiens} Length = 185

 Score = 97.7 bits (244), Expect = 2e-24
 Identities = 32/94 (34%), Positives = 50/94 (53%), Gaps = 2/94 (2%)

Query: 246 IKQFFVAVEREEWKFDTLCDLYDTLTITQAV-IFCNTKRKVDWLTEKMRGYNFTVSSMHG 304
           I Q  V VE  + K   L DL +         +F  TK+  D L + +    +  +S+HG
Sbjct: 20  ITQKVVWVEESD-KRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHG 78

Query: 305 DMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
           D  Q++R+  + +FRSG + +L+ T V ARGLD+
Sbjct: 79  DRSQRDREEALHQFRSGKSPILVATAVAARGLDI 112

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19 Length = 494

 Score = 71.4 bits (174), Expect = 8e-14
 Identities = 36/246 (14%), Positives = 90/246 (36%), Gaps = 4/246 (1%)

Query: 61  QRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKV 120
           Q  +    K  + +    +G GKT +IA+ + +    +    + L+L+PT+ L  Q  + 
Sbjct: 14  QEVIYAKCKETNCLIVLPTGLGKT-LIAMMIAEYR-LTKYGGKVLMLAPTKPLVLQHAES 71

Query: 121 ILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLV 180
              + +    +  A  G KS  E+  K      V+  TP  + + +    +    + L+V
Sbjct: 72  FRRLFNLPPEKIVALTGEKSP-EERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIV 130

Query: 181 LDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE 240
            DE+   +       I   Y+    +  V+ ++A+      ++        ++ +  R E
Sbjct: 131 FDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEVINNLGIEHIEYRSE 190

Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS 300
            + + ++ +   +  E  + D      +   + + ++    K   +    +    +    
Sbjct: 191 NSPD-VRPYVKGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAETGLLESSSPDIPKK 249

Query: 301 SMHGDM 306
            +    
Sbjct: 250 EVLRAG 255

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19 Length = 494

 Score = 60.6 bits (146), Expect = 2e-10
 Identities = 30/171 (17%), Positives = 61/171 (35%), Gaps = 20/171 (11%)

Query: 179 LVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKR 238
           L L  + E+L       +    + L  + +     A+        + K M   + +LV+ 
Sbjct: 280 LKLHHAIELLETQGLSALRAYIKKLYEEAKAGSTKASKEI----FSDKRMKKAISLLVQA 335

Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT 298
            E+ L+  K         +   + + +       ++ ++F N +     +  ++      
Sbjct: 336 KEIGLDHPK--------MDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIK 387

Query: 299 VSSMHGD--------MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQA 341
                G         + Q+E+  I+ EF  G   VL+ T V   GLDV + 
Sbjct: 388 AKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEV 438

>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA compl protease/ntpase/helicase, hydrolase; 1.95A {Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4a92_A* 1cu1_A 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A* 3kqh_A 3kqk_A 8ohm_A 2f55_A 1jr6_A 1onb_A Length = 666

 Score = 63.5 bits (154), Expect = 3e-11
 Identities = 47/310 (15%), Positives = 96/310 (30%), Gaps = 67/310 (21%)

Query: 44  LLRGIYQYGFEKPSAIQQRAVMPII------------KGRDVIAQAQSGTGKTSMIALTV 91
             RG+ +     P    +  +   +              +     A +G+GK++ +    
Sbjct: 194 CTRGVAKAVDFVPVESMETTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAY 253

Query: 92  CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
                   +  + L+L+P+          +          + A     ++   +R +  G
Sbjct: 254 AA------QGYKVLVLNPSVAATLGFGAYM----------SKAHGIDPNIRTGVRTITTG 297

Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM-----LSRGFKDQIYDVYRYLPPD 206
             V   T G+    +        A  +++ DE         L  G    + D        
Sbjct: 298 APVTYSTYGK---FLADGGCSGGAYDIIICDECHSTDSTTILGIGT---VLDQAETAGAR 351

Query: 207 LQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDL 266
           L VVL +AT P          +T P              I++  ++   E   F      
Sbjct: 352 L-VVLATATPPGS--------VTVPHPN-----------IEEVALSNTGEI-PFYGKAIP 390

Query: 267 YDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVL 326
            + +   + +IFC++K+K D L  K+ G      + +  +        +    +    V+
Sbjct: 391 IEAIRGGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGLD-------VSVIPTIGDVVV 443

Query: 327 ITTDVWARGL 336
           + TD    G 
Sbjct: 444 VATDALMTGY 453

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A Length = 702

 Score = 60.6 bits (147), Expect = 3e-10
 Identities = 63/356 (17%), Positives = 121/356 (33%), Gaps = 86/356 (24%)

Query: 39  GIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS 98
            I    +  + + G E+    Q  AV  +  G++++    +  GKT +  + + +     
Sbjct: 9   SISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKG 68

Query: 99  SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE---DIRKLEHGVHVV 155
            +   +L + P R LA   EK       F   +      G S G+       L     ++
Sbjct: 69  GK---SLYVVPLRALA--GEKY----ESFKKWEKIGLRIGISTGDYESRDEHLGDC-DII 118

Query: 156 SGTPGRVCDMIKRKTLRTRAIKLLVLDE----SDE--------MLSRGFKDQIYDVYRYL 203
             T  +   +I+ +    +A+  LV+DE      E        ++++          R +
Sbjct: 119 VTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTK---------MRRM 169

Query: 204 PPDLQVVLISATLP--HEILE--MTTKFMTD--PVKILVKRDELTLEGIKQFFVAVEREE 257
              L+V+ +SAT P   EI E      +++D  PV          L         +E  +
Sbjct: 170 NKALRVIGLSATAPNVTEIAEWLDADYYVSDWRPVP---------LVEGVLCEGTLELFD 220

Query: 258 WKFDTLCDL-YDTLTIT------QAVIFCNTKRKV-----------------DWLTEKMR 293
             F T   + ++ L           ++F +T+R                   + L + + 
Sbjct: 221 GAFSTSRRVKFEELVEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAIL 280

Query: 294 GYNFTVSSM-------------HGDMPQKERDAIMGEFRSGTTRVLITTDVWARGL 336
             N    S              H  +   +R  +   FR G  +V++ T   A G+
Sbjct: 281 EENEGEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGV 336

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A* Length = 472

 Score = 56.4 bits (136), Expect = 5e-09
 Identities = 50/339 (14%), Positives = 107/339 (31%), Gaps = 86/339 (25%)

Query: 60  QQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEK 119
           Q++A+   +  +       +G+GKT +    + +           LI+ PT  LA Q ++
Sbjct: 98  QEKALERWLVDKRGCIVLPTGSGKTHVAMAAINE------LSTPTLIVVPTLALAEQWKE 151

Query: 120 VILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLL 179
            +   G+    +      G+   ++++       +   T        ++         LL
Sbjct: 152 RLGIFGE----EYVGEFSGRI--KELKP------LTVSTYDSAYVNAEK---LGNRFMLL 196

Query: 180 VLDE----SDEMLSR---------------------GFKDQIYD-----VYRYLPPDLQ- 208
           + DE      E   +                     G  + + +     V+   P  L  
Sbjct: 197 IFDEVHHLPAESYVQIAQMSIAPFRLGLTATFEREDGRHEILKEVVGGKVFELFPDSLAG 256

Query: 209 -------VVLISATLPHEILEMTTKFMTDPVKILVKRDE--LTLEGIKQFFVAVEREEW- 258
                  +  I   L  +      K      + L  R       E   +  +A   +E  
Sbjct: 257 KHLAKYTIKRIFVPLAEDERVEYEKREKVYKQFLRARGITLRRAEDFNKIVMASGYDERA 316

Query: 259 -------------------KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTV 299
                              K   L ++ +     + +IF      V  +++      F +
Sbjct: 317 YEALRAWEEARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKV-----FLI 371

Query: 300 SSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
            ++     ++ER+ I+  FR+G  R ++++ V   G+DV
Sbjct: 372 PAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDV 410

>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12} Length = 968

 Score = 54.7 bits (131), Expect = 2e-08
 Identities = 27/111 (24%), Positives = 41/111 (36%), Gaps = 7/111 (6%)

Query: 238 RDELTLEGIKQFFVAVEREEWKFDTLCD-LYDTLTI---TQAVIFCNTKRKVDWLTEKMR 293
           RD L  E I Q F       W FD   + L   LT     + ++ C        L + +R
Sbjct: 465 RDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLR 524

Query: 294 G-YNFTVSSMHGDMPQKERDAIMGEFRS--GTTRVLITTDVWARGLDVQQA 341
                  +  H  M   ERD     F       +VL+ +++ + G + Q A
Sbjct: 525 EREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFA 575

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens} Length = 216

 Score = 52.5 bits (126), Expect = 3e-08
 Identities = 19/134 (14%), Positives = 46/134 (34%), Gaps = 11/134 (8%)

Query: 60  QQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC----QTVDTSSREVQALILSPTRELAT 115
           Q     P ++G+++I    +G+GKT  +A+ +          +S   + ++L     L  
Sbjct: 38  QMEVAQPALEGKNIIICLPTGSGKT-RVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVE 96

Query: 116 QTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRA 175
           Q  +           +     G   +     ++     ++  T   + + +        A
Sbjct: 97  QLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENGEDA 156

Query: 176 ------IKLLVLDE 183
                   L+++DE
Sbjct: 157 GVQLSDFSLIIIDE 170

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A* Length = 720

 Score = 53.7 bits (129), Expect = 4e-08
 Identities = 58/350 (16%), Positives = 127/350 (36%), Gaps = 77/350 (22%)

Query: 42  DDLLRGIYQ-YGFEKPSAIQQRAVMPII-KGRDVIAQAQSGTGKTSMIALTVCQTVDTSS 99
           D+ ++   +  G E     Q  A+   I +G++ +    + +GKT +  + +   +   +
Sbjct: 9   DERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRI--LT 66

Query: 100 REVQALILSPTRELATQTEKVILAIGDF-----INIQAHACVGGKSVGEDIRKLEHGVHV 154
           +  +A+ + P + LA   EK      +F     I ++     G     ++         +
Sbjct: 67  QGGKAVYIVPLKALAE--EKF----QEFQDWEKIGLRVAMATGDYDSKDEWLG---KYDI 117

Query: 155 VSGTPGRVCDMIKRKTLRTRAIKLLVLDE----SDEMLSRGFKDQIYDVYRYLPPDLQVV 210
           +  T  +   +++  +   + +K+LV DE          RG    +  +  ++    Q++
Sbjct: 118 IIATAEKFDSLLRHGSSWIKDVKILVADEIHLIGSR--DRG--ATLEVILAHMLGKAQII 173

Query: 211 LISATLP--HEILE--MTTKFMTD--PVKI--LVKRDELTLEGIKQFFVAVEREEWKFDT 262
            +SAT+    E+ E       ++D  PVK+   V          + F    +    +F +
Sbjct: 174 GLSATIGNPEELAEWLNAELIVSDWRPVKLRRGVF--------YQGFVTWEDGSIDRFSS 225

Query: 263 LCDL-YDTL-TITQAVIFCNTKR--------------------KVDWLTEKMRGYNFTVS 300
             +L YD +     A+IF N +R                    ++  L E         +
Sbjct: 226 WEELVYDAIRKKKGALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPT 285

Query: 301 SM-------------HGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLD 337
           +              H  + + ER  +   FR G  + ++ T   + G++
Sbjct: 286 NEKLAKAIRGGVAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGIN 335

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4} Length = 510

 Score = 53.4 bits (127), Expect = 5e-08
 Identities = 47/310 (15%), Positives = 98/310 (31%), Gaps = 34/310 (10%)

Query: 55  KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELA 114
           +P   Q+ AV   +  R  I    +  G++ + AL     ++    E + LI+ PT  L 
Sbjct: 113 EPHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQALLARYYLEN--YEGKILIIVPTTALT 170

Query: 115 TQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTR 174
           TQ     +    F +       GG        K ++   VV GT      ++K+      
Sbjct: 171 TQMADDFVDYRLFSHAMIKKIGGGA---SKDDKYKNDAPVVVGT---WQTVVKQPKEWFS 224

Query: 175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLP-PDLQVVLISATLPHEILEMT--TKFMTDP 231
              +++ DE      +     I  +   +    L   L                 F    
Sbjct: 225 QFGMMMNDECHLATGKSISSIISGLNNCMFKFGLSGSLRDGKANIMQYVGMFGEIFKPVT 284

Query: 232 VKILVKRDELTLEGIKQFFVA---VEREEWKFDTLCDLYDTLTITQ-------------- 274
              L++  ++T   I   F+        + K  T  +    +T                 
Sbjct: 285 TSKLMEDGQVTELKINSIFLRYPDEFTTKLKGKTYQEEIKIITGLSKRNKWIAKLAIKLA 344

Query: 275 -----AVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT 329
                A +          + + ++     V  + G++  + R+ +     +G   +++ +
Sbjct: 345 QKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVAS 404

Query: 330 -DVWARGLDV 338
             V++ G+ V
Sbjct: 405 YGVFSTGISV 414

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 53.3 bits (127), Expect = 8e-08
 Identities = 47/314 (14%), Positives = 106/314 (33%), Gaps = 95/314 (30%)

Query: 61  QRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQT-------------VDTSSREVQALIL 107
           ++A++ +   ++V+     G+GKT + AL VC +             ++  +      +L
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWV-ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL 199

Query: 108 SPTRELATQTEKVILAIGDF-INIQAHACVGGKSVGEDIRKL------EHGVHVVSGTPG 160
              ++L  Q +    +  D   NI+        S+  ++R+L      E+ + V+     
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKLRI----HSIQAELRRLLKSKPYENCLLVLLN--- 252

Query: 161 RVCDM-------IKRKTL---RTRAI------------------KLLVLDESDEMLSRGF 192
            V +        +  K L   R + +                    L  DE   +L +  
Sbjct: 253 -VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL 311

Query: 193 KDQIYDVYRYLPPD------LQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGI 246
             +  D    LP +       ++ +I+ ++   +         D  K  V  D+LT   I
Sbjct: 312 DCRPQD----LPREVLTTNPRRLSIIAESIRDGLA------TWDNWK-HVNCDKLT-TII 359

Query: 247 KQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDM 306
           +     +E  E++      ++D L      +F         +          +S +  D+
Sbjct: 360 ESSLNVLEPAEYR-----KMFDRL-----SVF----PPSAHIPTI------LLSLIWFDV 399

Query: 307 PQKERDAIMGEFRS 320
            + +   ++ +   
Sbjct: 400 IKSDVMVVVNKLHK 413

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A* Length = 696

 Score = 53.1 bits (126), Expect = 8e-08
 Identities = 38/245 (15%), Positives = 86/245 (35%), Gaps = 12/245 (4%)

Query: 55  KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTV---DTSSREVQALILSPTR 111
           KP   Q    +P +KG++ I  A +G GKT  ++L +C+         ++ + +  +   
Sbjct: 13  KPRNYQLELALPAMKGKNTIICAPTGCGKT-FVSLLICEHHLKKFPQGQKGKVVFFANQI 71

Query: 112 ELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL 171
            +  Q + V     +    +     G  +    + ++     ++  TP  + + +K+ T+
Sbjct: 72  PVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTI 131

Query: 172 -RTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTD 230
                  L++ DE      +   + I   Y     D ++   S  LP  ++ +T      
Sbjct: 132 PSLSIFTLMIFDECHNTSKQHPYNMIMFNYL----DQKLGGSSGPLPQ-VIGLTASVGVG 186

Query: 231 PVKILVKRDE--LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWL 288
             K   +  +    L       V    +    +    +Y      + V    + +    +
Sbjct: 187 DAKTTDEALDYICKLCASLDASVIATVKHNLEELEQVVYKPQKFFRKVESRISDKFKYII 246

Query: 289 TEKMR 293
            + MR
Sbjct: 247 AQLMR 251

>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic subunit]; helicase, flavivirus, DEAD-BOX, ATPase, rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP: c.37.1.14 c.37.1.14 PDB: 1ymf_A* Length = 440

 Score = 52.5 bits (126), Expect = 9e-08
 Identities = 40/278 (14%), Positives = 87/278 (31%), Gaps = 53/278 (19%)

Query: 67  IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGD 126
           + KG   +     G GKT      +             L+L+PTR + ++ ++       
Sbjct: 5   LKKGMTTVLDFHPGAGKTRRFLPQILAECARRRLRT--LVLAPTRVVLSEMKEA------ 56

Query: 127 FINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRA--------IKL 178
                      G  V    +          G+   V D +   TL  R          ++
Sbjct: 57  ---------FHGLDVKFHTQAFS-----AHGSGREVIDAMCHATLTYRMLEPTRVVNWEV 102

Query: 179 LVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKR 238
           +++DE+  +       + +  +R    +   +L++AT P    E    F     +I   +
Sbjct: 103 IIMDEAHFLDPASIAARGWAAHRARANESATILMTATPPGTSDE----FPHSNGEIEDVQ 158

Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT 298
            ++  E        +  ++           T        F  + R  + +   +R    +
Sbjct: 159 TDIPSEPWNTGHDWILADK---------RPTA------WFLPSIRAANVMAASLRKAGKS 203

Query: 299 VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGL 336
           V  ++    ++E   I    +      ++ TD+   G 
Sbjct: 204 VVVLNRKTFEREYPTI----KQKKPDFILATDIAEMGA 237

>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos} Length = 797

 Score = 51.9 bits (123), Expect = 2e-07
 Identities = 28/188 (14%), Positives = 62/188 (32%), Gaps = 3/188 (1%)

Query: 16  MDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIA 75
             +  M +      +   S +     + + +    Y  +K  + Q     P I G++ + 
Sbjct: 209 CLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIELAQPAINGKNALI 268

Query: 76  QAQSGTGKTSMIALTVCQTVDT--SSREVQALILSPTRELATQTEKVILAIGDFINIQAH 133
            A +G+GKT +  L          + R+ + + L+    +  Q + V     +       
Sbjct: 269 CAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQ 328

Query: 134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL-RTRAIKLLVLDESDEMLSRGF 192
              G       + K+     ++  TP  + +  +  TL       L++ DE         
Sbjct: 329 GISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHP 388

Query: 193 KDQIYDVY 200
            + +   Y
Sbjct: 389 YNVLMTRY 396

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A* Length = 556

 Score = 49.6 bits (117), Expect = 8e-07
 Identities = 26/182 (14%), Positives = 63/182 (34%), Gaps = 8/182 (4%)

Query: 55  KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT--SSREVQALILSPTRE 112
           K  + Q     P I G++ +  A +G+GKT +  L          + R+ + + L+    
Sbjct: 7   KARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVP 66

Query: 113 LATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL- 171
           +  Q + V     +          G       + K+     ++  TP  + +  +  TL 
Sbjct: 67  VYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLT 126

Query: 172 RTRAIKLLVLDES-----DEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTK 226
                 L++ DE      +   +      +   +       Q++ ++A++     +   +
Sbjct: 127 SLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEE 186

Query: 227 FM 228
            +
Sbjct: 187 TI 188

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus} Length = 555

 Score = 49.5 bits (117), Expect = 8e-07
 Identities = 35/259 (13%), Positives = 82/259 (31%), Gaps = 10/259 (3%)

Query: 60  QQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT--SSREVQALILSPTRELATQT 117
           Q    +P  KG++ I  A +G GKT +  L     +      ++ + +  +    +  Q 
Sbjct: 9   QLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIPVYEQQ 68

Query: 118 EKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL-RTRAI 176
             V     + +     +  G  S    ++ +     ++  TP  + + +    +      
Sbjct: 69  ATVFSRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVF 128

Query: 177 KLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILV 236
            L++ DE          +QI  ++RYL  D ++      LP  ++ +T        K   
Sbjct: 129 TLMIFDECHNTSKNHPYNQI--MFRYL--DHKLGESRDPLPQ-VVGLTASVGVGDAKTAE 183

Query: 237 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYN 296
           +  +   +                D + +L   +   Q +      R  +     +    
Sbjct: 184 EAMQHICKLCAALD--ASVIATVRDNVAELEQVVYKPQKISRKVASRTSNTFKCIISQLM 241

Query: 297 FTVSSMHGDMPQKERDAIM 315
                +  D+ ++      
Sbjct: 242 KETEKLAKDVSEELGKLFQ 260

>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos} Length = 936

 Score = 47.3 bits (111), Expect = 6e-06
 Identities = 27/176 (15%), Positives = 59/176 (33%), Gaps = 3/176 (1%)

Query: 16  MDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIA 75
             +  M +      +   S +     + + +    Y  +K  + Q     P I G++ + 
Sbjct: 209 CLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIELAQPAINGKNALI 268

Query: 76  QAQSGTGKTSMIALTVCQTVDT--SSREVQALILSPTRELATQTEKVILAIGDFINIQAH 133
            A +G+GKT +  L          + R+ + + L+    +  Q + V     +       
Sbjct: 269 CAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQ 328

Query: 134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL-RTRAIKLLVLDESDEML 188
              G       + K+     ++  TP  + +  +  TL       L++ DE     
Sbjct: 329 GISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTT 384

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A Length = 431

 Score = 45.6 bits (108), Expect = 1e-05
 Identities = 37/268 (13%), Positives = 85/268 (31%), Gaps = 47/268 (17%)

Query: 69  KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI 128
           K    +     G GKT  +   + +  +   + ++ +IL+PTR +A    ++  A+    
Sbjct: 1   KRELTVLDLHPGAGKTRRVLPQLVR--EAVKKRLRTVILAPTRVVA---SEMYEALRG-- 53

Query: 129 NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDE----- 183
                         +  R     V  +          + +   R     L ++DE     
Sbjct: 54  ----EPIRYMTPAVQSERTGNEIVDFM--CHSTFTMKLLQGV-RVPNYNLYIMDEAHFLD 106

Query: 184 SDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTL 243
              + +RG+ +      R    D   + ++AT P      T  F      I+ +   +  
Sbjct: 107 PASVAARGYIET-----RVSMGDAGAIFMTATPP----GTTEAFPPSNSPIIDEETRIPD 157

Query: 244 EGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMH 303
           +     +  +   +                + V F ++ ++   +   ++     V  ++
Sbjct: 158 KAWNSGYEWITEFD---------------GRTVWFVHSIKQGAEIGTCLQKAGKKVLYLN 202

Query: 304 GDMPQKERDAIMGEFRSGTTRVLITTDV 331
               + E        +S     +ITTD+
Sbjct: 203 RKTFESEYPKC----KSEKWDFVITTDI 226

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19 Length = 780

 Score = 43.8 bits (104), Expect = 6e-05
 Identities = 14/36 (38%), Positives = 22/36 (61%)

Query: 296 NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDV 331
            F +  MHG + Q+E+D +M EF  G   +L++T V
Sbjct: 613 EFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTV 648

>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding, viral nucleoprotein, endoplasmic reticulum, helicase, hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A 2bhr_A Length = 451

 Score = 42.5 bits (100), Expect = 1e-04
 Identities = 40/268 (14%), Positives = 79/268 (29%), Gaps = 47/268 (17%)

Query: 69  KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI 128
           K R  I     G GKT  I  ++ +  +   R ++ LIL+PTR +A + E+ +       
Sbjct: 18  KKRLTIMDLHPGAGKTKRILPSIVR--EALLRRLRTLILAPTRVVAAEMEEAL------- 68

Query: 129 NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDE----- 183
                  +  ++           +  +          +   T       L+V+DE     
Sbjct: 69  ---RGLPIRYQTPAVKSDHTGREIVDLM-CHATFTTRLLSSTRVPN-YNLIVMDEAHFTD 123

Query: 184 SDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTL 243
              + +RG+        R    +   + ++AT P                I     E+  
Sbjct: 124 PCSVAARGYIST-----RVEMGEAAAIFMTATPPGSTDPFPQSNSP----IEDIEREIPE 174

Query: 244 EGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMH 303
                 F  +   + K                V F  + +  + +   +R     V  + 
Sbjct: 175 RSWNTGFDWITDYQGKT---------------VWFVPSIKAGNDIANCLRKSGKRVIQLS 219

Query: 304 GDMPQKERDAIMGEFRSGTTRVLITTDV 331
                 E        +      ++TTD+
Sbjct: 220 RKTFDTEYPKT----KLTDWDFVVTTDI 243

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae} Length = 1010

 Score = 41.7 bits (97), Expect = 3e-04
 Identities = 40/180 (22%), Positives = 65/180 (36%), Gaps = 35/180 (19%)

Query: 49  YQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIA-LTVCQTVDTSSREVQALIL 107
             Y F      Q  A+  I +G  V+  A +  GKT ++A   + Q++    R    +  
Sbjct: 81  RTYPFT-LDPFQDTAISCIDRGESVLVSAHTSAGKT-VVAEYAIAQSLKNKQR---VIYT 135

Query: 108 SPTRELATQT--------EKVILAIGDF-INIQAHACVGGKSVGEDIRKLEHGVHVVSGT 158
           SP + L+ Q           V L  GD  IN  A   V                     T
Sbjct: 136 SPIKALSNQKYRELLAEFGDVGLMTGDITINPDAGCLV--------------------MT 175

Query: 159 PGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPH 218
              +  M+ R +   R +  ++ DE   M  +       +    LP  ++ V +SAT+P+
Sbjct: 176 TEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPN 235

>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase, ATP-binding, reticulum, nucleotidyltransferase, multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4} PDB: 2vbc_A 2wzq_A Length = 618

 Score = 41.5 bits (97), Expect = 3e-04
 Identities = 42/274 (15%), Positives = 80/274 (29%), Gaps = 59/274 (21%)

Query: 69  KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI 128
           K R  I     G GKT  I  ++ +  +   R ++ LIL+PTR +A +            
Sbjct: 185 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAE------------ 230

Query: 129 NIQAHACVGGKSVGEDIRKLEHG------VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLD 182
                  + G  +      ++        V ++          +   T R     L+V+D
Sbjct: 231 ---MEEALRGLPIRYQTPAVKSDHTGREIVDLM--CHATFTTRLLSST-RVPNYNLIVMD 284

Query: 183 E-----SDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVK 237
           E        + +RG+        R    +   + ++AT P                I   
Sbjct: 285 EAHFTDPCSVAARGYIST-----RVEMGEAAAIFMTATPPGSTDPFPQSNSP----IEDI 335

Query: 238 RDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNF 297
             E+        F  +   + K                V F  + +  + +   +R    
Sbjct: 336 EREIPERSWNTGFDWITDYQGKT---------------VWFVPSIKAGNDIANCLRKSGK 380

Query: 298 TVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDV 331
            V  +       E        +      ++TTD+
Sbjct: 381 RVIQLSRKTFDTEYPKT----KLTDWDFVVTTDI 410

>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae} Length = 1108

 Score = 40.6 bits (94), Expect = 8e-04
 Identities = 40/180 (22%), Positives = 65/180 (36%), Gaps = 35/180 (19%)

Query: 49  YQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIA-LTVCQTVDTSSREVQALIL 107
             Y F      Q  A+  I +G  V+  A +  GKT ++A   + Q++    R    +  
Sbjct: 179 RTYPFT-LDPFQDTAISCIDRGESVLVSAHTSAGKT-VVAEYAIAQSLKNKQR---VIYT 233

Query: 108 SPTRELATQT--------EKVILAIGDF-INIQAHACVGGKSVGEDIRKLEHGVHVVSGT 158
           SP + L+ Q           V L  GD  IN  A   V                     T
Sbjct: 234 SPIKALSNQKYRELLAEFGDVGLMTGDITINPDAGCLV--------------------MT 273

Query: 159 PGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPH 218
              +  M+ R +   R +  ++ DE   M  +       +    LP  ++ V +SAT+P+
Sbjct: 274 TEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPN 333

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	354
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	100.0
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	100.0
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	100.0
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	100.0
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	100.0
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	100.0
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	100.0
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	100.0
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	100.0
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	100.0
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	100.0
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	100.0
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	100.0
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	100.0
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	100.0
2v1x_A	591	ATP-dependent DNA helicase Q1; DNA strand annealin	100.0
1oyw_A	523	RECQ helicase, ATP-dependent DNA helicase; winged	100.0
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	100.0
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	100.0
2ykg_A	696	Probable ATP-dependent RNA helicase DDX58; hydrola	100.0
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	100.0
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	100.0
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	100.0
4a2q_A	797	RIG-I, retinoic acid inducible protein I; hydrolas	100.0
4ddu_A	1104	Reverse gyrase; topoisomerase, DNA supercoiling, a	100.0
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	100.0
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	100.0
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	100.0
4a2w_A	936	RIG-I, retinoic acid inducible protein I; hydrolas	100.0
4gl2_A	699	Interferon-induced helicase C domain-containing P;	100.0
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	100.0
1gku_B	1054	Reverse gyrase, TOP-RG; topoisomerase, DNA superco	100.0
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	100.0
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	100.0
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	100.0
3bor_A	237	Human initiation factor 4A-II; translation initiat	100.0
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	100.0
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	100.0
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	100.0
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	100.0
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	100.0
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	100.0
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	100.0
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	100.0
1tf5_A	844	Preprotein translocase SECA subunit; ATPase, helic	100.0
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	100.0
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	100.0
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	100.0
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	100.0
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	100.0
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	100.0
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	100.0
2fsf_A	853	Preprotein translocase SECA subunit; ATPase, DNA-R	100.0
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	100.0
1nkt_A	922	Preprotein translocase SECA 1 subunit; preprotein	100.0
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	100.0
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	100.0
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	100.0
3h1t_A	590	Type I site-specific restriction-modification syst	100.0
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	100.0
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	100.0
3o8b_A	666	HCV NS3 protease/helicase; ntpase, RNA, translocat	100.0
3dmq_A	968	RNA polymerase-associated protein RAPA; SWF2/SNF2,	100.0
1z63_A	500	Helicase of the SNF2/RAD54 hamily; protein-DNA com	100.0
2wv9_A	673	Flavivirin protease NS2B regulatory subunit, FLAV	99.98
1yks_A	440	Genome polyprotein [contains: flavivirin protease	99.98
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	99.98
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	99.97
3mwy_W	800	Chromo domain-containing protein 1; SWI2/SNF2 ATPa	99.97
1z3i_X	644	Similar to RAD54-like; recombination ATPase helica	99.97
2w00_A	1038	HSDR, R.ECOR124I; ATP-binding, DNA-binding, restri	99.97
3rc3_A	677	ATP-dependent RNA helicase SUPV3L1, mitochondrial;	99.97
3jux_A	822	Protein translocase subunit SECA; protein transloc	99.96
2ipc_A	997	Preprotein translocase SECA subunit; nucleotide bi	99.93
3b6e_A	216	Interferon-induced helicase C domain-containing P;	99.92
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	99.89
1c4o_A	664	DNA nucleotide excision repair enzyme UVRB; uvrabc	99.89
2vl7_A	540	XPD; helicase, unknown function; 2.25A {Sulfolobus	99.89
3crv_A	551	XPD/RAD3 related DNA helicase; XPD helicase DNA re	99.88
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	99.88
2d7d_A	661	Uvrabc system protein B; helicase, protein-DNA-ADP	99.86
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	99.86
2hjv_A	163	ATP-dependent RNA helicase DBPA; parallel alpha-be	99.82
1t5i_A	172	C_terminal domain of A probable ATP-dependent RNA	99.82
1fuk_A	165	Eukaryotic initiation factor 4A; helicase, DEAD-bo	99.82
2p6n_A	191	ATP-dependent RNA helicase DDX41; DEAD, structural	99.81
2rb4_A	175	ATP-dependent RNA helicase DDX25; rossmann fold, s	99.81
4a15_A	620	XPD helicase, ATP-dependent DNA helicase TA0057; h	99.8
2jgn_A	185	DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosp	99.79
3eaq_A	212	Heat resistant RNA dependent ATPase; DEAD box RNA	99.76
3i32_A	300	Heat resistant RNA dependent ATPase; RNA helicase,	99.75
2yjt_D	170	ATP-dependent RNA helicase SRMB, regulator of ribo	99.57
1z5z_A	271	Helicase of the SNF2/RAD54 family; hydrolase, reco	99.54
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	98.93
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	98.76
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	98.71
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	98.67
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	98.63
3lfu_A	647	DNA helicase II; SF1 helicase, ATP-binding, DNA da	98.61
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	98.6
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	98.59
2o0j_A	385	Terminase, DNA packaging protein GP17; nucleotide-	97.84
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	97.81
3cpe_A	592	Terminase, DNA packaging protein GP17; large termi	97.74
1uaa_A	673	REP helicase, protein (ATP-dependent DNA helicase	97.58
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.58
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.41
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.38
1pjr_A	724	PCRA; DNA repair, DNA replication, SOS response, h	97.34
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	97.29
3u4q_A	1232	ATP-dependent helicase/nuclease subunit A; helicas	97.27
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.26
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.25
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.22
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.21
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	97.15
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.06
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	97.05
3co5_A	143	Putative two-component system transcriptional RES	97.02
3hgt_A	328	HDA1 complex subunit 3; RECA-like domain, SWI2/SNF	96.97
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.91
2zpa_A	671	Uncharacterized protein YPFI; RNA modification enz	96.85
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	96.8
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	96.74
3bos_A	242	Putative DNA replication factor; P-loop containing	96.72
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.67
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.66
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.61
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.61
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.58
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.55
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	96.52
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.5
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	96.44
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.41
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.39
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.35
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	96.33
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.31
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.31
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	96.3
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	96.25
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	96.24
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	96.22
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	96.15
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.11
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.07
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.06
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.04
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.95
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.88
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.87
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	95.79
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	95.78
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.75
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.71
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.67
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	95.64
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	95.63
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.59
3pvs_A	447	Replication-associated recombination protein A; ma	95.52
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	95.48
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	95.42
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	95.4
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.28
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	95.17
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	95.15
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	95.03
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.83
2chq_A	319	Replication factor C small subunit; DNA-binding pr	94.79
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	94.77
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	94.75
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	94.75
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	94.43
4ddu_A	1104	Reverse gyrase; topoisomerase, DNA supercoiling, a	94.38
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	94.23
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	94.2
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	94.2
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	94.02
1xp8_A	366	RECA protein, recombinase A; recombination, radior	94.0
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	93.98
2r6a_A	454	DNAB helicase, replicative helicase; replication,	93.94
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	93.69
2l8b_A	189	Protein TRAI, DNA helicase I; RECD, hydrolase; NMR	93.45
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	93.38
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	93.37
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	93.28
1u94_A	356	RECA protein, recombinase A; homologous recombinat	93.16
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	92.61
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	92.53
3io5_A	333	Recombination and repair protein; storage dimer, i	92.36
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	92.2
1oyw_A	523	RECQ helicase, ATP-dependent DNA helicase; winged	92.04
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	91.94
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	91.9
3bor_A	237	Human initiation factor 4A-II; translation initiat	91.71
2v1x_A	591	ATP-dependent DNA helicase Q1; DNA strand annealin	91.43
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	91.42
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	91.36
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	91.32
2qgz_A	308	Helicase loader, putative primosome component; str	91.24
1w36_B	1180	RECB, exodeoxyribonuclease V beta chain; recombina	91.23
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	90.99
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	90.54
2hjv_A	163	ATP-dependent RNA helicase DBPA; parallel alpha-be	90.3
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	90.26
2rb4_A	175	ATP-dependent RNA helicase DDX25; rossmann fold, s	90.25
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	90.17
3u4q_B	1166	ATP-dependent helicase/deoxyribonuclease subunit;	89.8
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	89.76
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	89.74
2l82_A	162	Designed protein OR32; structural genomics, northe	89.72
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	89.71
3hjh_A	483	Transcription-repair-coupling factor; MFD, mutatio	89.7
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	89.66
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	89.61
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	89.52
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	89.45
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	89.38
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	89.33
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	89.12
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	89.04
1p9r_A	418	General secretion pathway protein E; bacterial typ	88.88
1fuk_A	165	Eukaryotic initiation factor 4A; helicase, DEAD-bo	88.85
2z43_A	324	DNA repair and recombination protein RADA; archaea	88.8
2eyu_A	261	Twitching motility protein PILT; pilus retraction	88.68
1t5i_A	172	C_terminal domain of A probable ATP-dependent RNA	88.65
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	88.54
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	88.5
2cvh_A	220	DNA repair and recombination protein RADB; filamen	88.47
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	88.43
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	88.39
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	88.39
1tue_A	212	Replication protein E1; helicase, replication, E1E	88.27
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	88.26
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	88.11
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	88.09
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	88.06
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	87.94
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	87.87
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	87.75
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	87.68
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	87.67
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	87.63
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	87.62
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	87.58
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	87.55
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	87.52
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	87.52
3eaq_A	212	Heat resistant RNA dependent ATPase; DEAD box RNA	87.5
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	87.47
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	87.39
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	87.26
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	87.25
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	87.09
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	86.97
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	86.9
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	86.9
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	86.82
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	86.8
2r44_A	331	Uncharacterized protein; putative ATPase, structur	86.75
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	86.67
2p6n_A	191	ATP-dependent RNA helicase DDX41; DEAD, structural	86.62
1gku_B	1054	Reverse gyrase, TOP-RG; topoisomerase, DNA superco	86.55
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	86.52
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	86.48
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	86.41
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	86.41
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	86.4
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	86.39
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	86.35
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	86.29
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	86.26
2jgn_A	185	DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosp	86.07
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	86.06
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	86.05
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	86.04
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	85.96
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	85.89
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	85.72
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	85.71
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	85.55
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	85.53
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	85.52
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	85.48
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	85.42
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	85.39
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	85.24
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	85.14
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	85.06
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	85.05
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	84.81
2ewv_A	372	Twitching motility protein PILT; pilus retraction	84.74
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	84.69
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	84.67
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	84.57
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	84.43
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	84.38
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	84.35
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	84.27
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	84.04
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	84.03
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	83.84
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	83.76
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	83.63
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	83.5
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	83.39
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	83.27
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	82.95
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	82.93
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	82.82
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	82.77
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	82.63
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	82.63
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	82.56
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	82.52
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	82.49
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	82.46
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	82.35
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	82.33
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	82.08
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	81.93
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	81.91
3nwn_A	359	Kinesin-like protein KIF9; motor domain, ADP, stru	81.87
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	81.57
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	81.57
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	81.51
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	81.48
1via_A	175	Shikimate kinase; structural genomics, transferase	81.34
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	81.25
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	81.23
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	81.22
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	81.16
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	81.15
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	81.13
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	81.12
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	81.12
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	81.1
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	80.95
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	80.93
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	80.89
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	80.86
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	80.86
4a74_A	231	DNA repair and recombination protein RADA; hydrola	80.85
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	80.84
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	80.8
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	80.77
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	80.72
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	80.65
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	80.63
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	80.61
1bg2_A	325	Kinesin; motor protein, ATPase, microtubule associ	80.56
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	80.48
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	80.41
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	80.31
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	80.22
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	80.21
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	80.19

>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster}

Probab=100.00  E-value=2.8e-55  Score=394.56  Aligned_cols=330  Identities=28%  Similarity=0.440  Sum_probs=299.1

Q ss_pred             eeecccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC--
Q 018574           22 VFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS--   99 (354)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~--   99 (354)
                      .......+.+..+|+++++++.+.+++++.||..|+++|.++++.+++|+++++.+|||+|||.+|++|++..+....  
T Consensus        45 ~~~~~~~p~~~~~f~~~~l~~~l~~~l~~~g~~~pt~iQ~~ai~~i~~g~d~i~~a~TGsGKT~a~~lpil~~l~~~~~~  124 (434)
T 2db3_A           45 KVTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHE  124 (434)
T ss_dssp             EEESSSCCCCCCCGGGSCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHHHHHSCCC
T ss_pred             EecCCCCCCCcCChhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCEEEECCCCCCchHHHHHHHHHHHHhcccc
Confidence            344455667889999999999999999999999999999999999999999999999999999999999998875432  


Q ss_pred             ---CceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCc
Q 018574          100 ---REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAI  176 (354)
Q Consensus       100 ---~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~  176 (354)
                         .++++||++|+++|+.|+.+.++++....++++..+.|+.....+...+..+++|+|+||++|.+.+......+.++
T Consensus       125 ~~~~~~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~l~~~~~Ivv~Tp~~l~~~l~~~~~~l~~~  204 (434)
T 2db3_A          125 LELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDT  204 (434)
T ss_dssp             CCTTCCSEEEECSSHHHHHHHHHHHHHHTTTSSCCCCEECTTSCHHHHHHHHTTCCSEEEECHHHHHHHHHTTSCCCTTC
T ss_pred             cccCCccEEEEecCHHHHHHHHHHHHHHhccCCcEEEEEECCCCHHHHHHHhhcCCCEEEEChHHHHHHHHhCCcccccC
Confidence               35689999999999999999999999888889999999998888877788889999999999999998888888999


Q ss_pred             cEEEEecchhhhccCcHHHHHHHHhhC--CCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEec
Q 018574          177 KLLVLDESDEMLSRGFKDQIYDVYRYL--PPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVE  254 (354)
Q Consensus       177 ~~vvvDE~h~~~~~~~~~~~~~i~~~~--~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (354)
                      ++||+||||++.+.+|...+..++..+  +.+.|++++|||++.....+...++.++..+...........+.+.+..+.
T Consensus       205 ~~lVlDEah~~~~~gf~~~~~~i~~~~~~~~~~q~l~~SAT~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~i~~~~~~~~  284 (434)
T 2db3_A          205 RFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVN  284 (434)
T ss_dssp             CEEEEETHHHHTSTTTHHHHHHHHHCTTSCSSCEEEEEESCCCHHHHHHHHTTCSSCEEEEESSTTCCCTTEEEEEEECC
T ss_pred             CeEEEccHhhhhccCcHHHHHHHHHhcCCCCCceEEEEeccCCHHHHHHHHHhccCCEEEEeccccccccccceEEEEeC
Confidence            999999999999999999999999875  578899999999999999999999999888887766666677777777776


Q ss_pred             cccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcccccc
Q 018574          255 REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWAR  334 (354)
Q Consensus       255 ~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~  334 (354)
                      ... +...+..++..... ++||||++++.++.+++.|++.++.+..+||++++.+|.++++.|++|+.+|||||+++++
T Consensus       285 ~~~-k~~~l~~~l~~~~~-~~lVF~~t~~~a~~l~~~L~~~~~~~~~lhg~~~~~~R~~~l~~F~~g~~~vLvaT~v~~r  362 (434)
T 2db3_A          285 KYA-KRSKLIEILSEQAD-GTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASR  362 (434)
T ss_dssp             GGG-HHHHHHHHHHHCCT-TEEEECSSHHHHHHHHHHHHHTTCCEEEESTTSCHHHHHHHHHHHHTSSCSEEEECGGGTS
T ss_pred             cHH-HHHHHHHHHHhCCC-CEEEEEeCcHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEchhhhC
Confidence            655 88888888887764 4999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcCCCcEEEecCCCCCC
Q 018574          335 GLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       335 Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+|+|++++||+||+|.|+
T Consensus       363 GlDi~~v~~VI~~d~p~~~  381 (434)
T 2db3_A          363 GLDIKNIKHVINYDMPSKI  381 (434)
T ss_dssp             SCCCTTCCEEEESSCCSSH
T ss_pred             CCCcccCCEEEEECCCCCH
Confidence            9999999999999999875

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A

Probab=100.00  E-value=5.5e-55  Score=391.77  Aligned_cols=335  Identities=75%  Similarity=1.164  Sum_probs=307.0

Q ss_pred             CcceeecccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC
Q 018574           19 DKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS   98 (354)
Q Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~   98 (354)
                      .....+....++...+|+++++++.+.+.+.++||..|+++|.++++.+++++++++.+|||+|||.+++++++..+...
T Consensus        23 ~~~~~~~~~~~~~~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~ai~~i~~~~~~lv~a~TGsGKT~~~~~~~~~~l~~~  102 (410)
T 2j0s_A           23 TKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQ  102 (410)
T ss_dssp             SSCCCCCCTTCCCCCSGGGGCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHTCCTT
T ss_pred             cccccCCCCCccCCCCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCCCchHHHHHHHHHHHhhc
Confidence            33444455566778899999999999999999999999999999999999999999999999999999999999988766


Q ss_pred             CCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccE
Q 018574           99 SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKL  178 (354)
Q Consensus        99 ~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~  178 (354)
                      ..+.++||++|+++|+.|+.+.+.+++...++.+..+.++.....+...+..+++|+|+||+.+.+.+....+...++++
T Consensus       103 ~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ivv~Tp~~l~~~l~~~~~~~~~~~~  182 (410)
T 2j0s_A          103 VRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKM  182 (410)
T ss_dssp             SCSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECTTSCHHHHHHHHHHCCSEEEECHHHHHHHHHTTSSCCTTCCE
T ss_pred             cCCceEEEEcCcHHHHHHHHHHHHHHhccCCeEEEEEECCCCHHHHHHHhhcCCCEEEcCHHHHHHHHHhCCccHhheeE
Confidence            56778999999999999999999999988899999999999888877777778999999999999999888788889999


Q ss_pred             EEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccc
Q 018574          179 LVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEW  258 (354)
Q Consensus       179 vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  258 (354)
                      ||+||+|++.+.++...+..++..++++.|++++|||++.........++.++..+...........+.+.+........
T Consensus       183 vViDEah~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  262 (410)
T 2j0s_A          183 LVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEW  262 (410)
T ss_dssp             EEEETHHHHTSTTTHHHHHHHHTTSCTTCEEEEEESCCCHHHHTTGGGTCSSCEEECCCGGGCSCTTEEEEEEEESSTTH
T ss_pred             EEEccHHHHHhhhhHHHHHHHHHhCccCceEEEEEcCCCHHHHHHHHHHcCCCEEEEecCccccCCCceEEEEEeCcHHh
Confidence            99999999999999999999999999999999999999998888888888888877776666777788888888888777


Q ss_pred             hHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCc
Q 018574          259 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV  338 (354)
Q Consensus       259 ~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi  338 (354)
                      +...+..++.....+++||||++++.++.+++.|++.++.+..+||+++..+|.++++.|++|+.+|||||+++++|+|+
T Consensus       263 k~~~l~~~~~~~~~~~~lVf~~~~~~~~~l~~~L~~~~~~~~~~h~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi  342 (410)
T 2j0s_A          263 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDV  342 (410)
T ss_dssp             HHHHHHHHHHHHTSSEEEEECSSHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHHTSSCEEEECGGGSSSCCC
T ss_pred             HHHHHHHHHHhcCCCcEEEEEcCHHHHHHHHHHHHhCCCceEEeeCCCCHHHHHHHHHHHHCCCCCEEEECChhhCcCCc
Confidence            89999999998888899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcEEEecCCCCCC
Q 018574          339 QQAILFFFLFLFCNV  353 (354)
Q Consensus       339 ~~~~~Vi~~~~p~s~  353 (354)
                      |++++||++|+|+|+
T Consensus       343 ~~v~~Vi~~~~p~s~  357 (410)
T 2j0s_A          343 PQVSLIINYDLPNNR  357 (410)
T ss_dssp             TTEEEEEESSCCSSH
T ss_pred             ccCCEEEEECCCCCH
Confidence            999999999999874

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}

Probab=100.00  E-value=1.1e-52  Score=377.84  Aligned_cols=330  Identities=31%  Similarity=0.468  Sum_probs=291.2

Q ss_pred             eecccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC---
Q 018574           23 FETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS---   99 (354)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~---   99 (354)
                      ......+....+|+++++++.+.+.+...||..|+++|.++++.+++++++++.+|||+|||++|++|++..+....   
T Consensus         5 ~~~~~~p~~~~~f~~~~l~~~l~~~l~~~~~~~~~~~Q~~~i~~i~~~~~~lv~a~TGsGKT~~~~~~~l~~~~~~~~~~   84 (417)
T 2i4i_A            5 ATGNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGE   84 (417)
T ss_dssp             EESTTCCCCCSSGGGSCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHHHHHHCCCH
T ss_pred             cCCCcCCcccCCHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHccCCCEEEEcCCCCHHHHHHHHHHHHHHHhccccc
Confidence            34455667788999999999999999999999999999999999999999999999999999999999988764322   


Q ss_pred             ---------------CceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHH
Q 018574          100 ---------------REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCD  164 (354)
Q Consensus       100 ---------------~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~  164 (354)
                                     .++++||++|+++|+.|+++.++++....++.+..+.|+.........+..+++|+|+||+++.+
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~v~Tp~~l~~  164 (417)
T 2i4i_A           85 ALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVD  164 (417)
T ss_dssp             HHHHHHHCBTTBSCSBCCSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCHHHHHHHHTTCCSEEEECHHHHHH
T ss_pred             hhhccccccccccccCCccEEEECCcHHHHHHHHHHHHHHhCcCCceEEEEECCCCHHHHHHHhhCCCCEEEEChHHHHH
Confidence                           22579999999999999999999998888899999999998888877888889999999999999


Q ss_pred             HHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhC--CC--CCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCc
Q 018574          165 MIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL--PP--DLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE  240 (354)
Q Consensus       165 ~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~--~~--~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~  240 (354)
                      .+....+.+.++++||+||+|++.+.++...+..++...  +.  ..|++++|||++.........++..+..+......
T Consensus       165 ~l~~~~~~~~~~~~iViDEah~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~  244 (417)
T 2i4i_A          165 MMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVG  244 (417)
T ss_dssp             HHHTTSBCCTTCCEEEESSHHHHHHTTCHHHHHHHHTSSSCCCBTTBEEEEEESCCCHHHHHHHHHHCSSCEEEEEC---
T ss_pred             HHHcCCcChhhCcEEEEEChhHhhccCcHHHHHHHHHhccCCCcCCcEEEEEEEeCCHHHHHHHHHHcCCCEEEEeCCCC
Confidence            998888888899999999999999999999999998853  32  57899999999999888888888888877766665


Q ss_pred             ccccCceeEEEEeccccchHHHHHHHHhhC-CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHh
Q 018574          241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTL-TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR  319 (354)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~  319 (354)
                      .....+.+.+..+.... +...+..+++.. ..+++||||++++.++.+++.|++.++.+..+||+++.++|.++++.|+
T Consensus       245 ~~~~~i~~~~~~~~~~~-~~~~l~~~l~~~~~~~~~lVf~~~~~~~~~l~~~L~~~~~~~~~~h~~~~~~~r~~~~~~f~  323 (417)
T 2i4i_A          245 STSENITQKVVWVEESD-KRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFR  323 (417)
T ss_dssp             -CCSSEEEEEEECCGGG-HHHHHHHHHHTCCTTCEEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCccCceEEEEEeccHh-HHHHHHHHHHhcCCCCeEEEEECCHHHHHHHHHHHHHCCCCeeEecCCCCHHHHHHHHHHHH
Confidence            66667777777666554 788888888876 4678999999999999999999999999999999999999999999999


Q ss_pred             CCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          320 SGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       320 ~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +|+.+|||||+++++|+|+|++++||++|+|.|+
T Consensus       324 ~g~~~vlvaT~~~~~Gidip~v~~Vi~~~~p~s~  357 (417)
T 2i4i_A          324 SGKSPILVATAVAARGLDISNVKHVINFDLPSDI  357 (417)
T ss_dssp             HTSSCEEEECHHHHTTSCCCCEEEEEESSCCSSH
T ss_pred             cCCCCEEEECChhhcCCCcccCCEEEEEcCCCCH
Confidence            9999999999999999999999999999999874

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}

Probab=100.00  E-value=8.3e-53  Score=378.22  Aligned_cols=326  Identities=62%  Similarity=1.002  Sum_probs=294.8

Q ss_pred             CcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEE
Q 018574           28 GVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALIL  107 (354)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil  107 (354)
                      ..+...+|+++++++.+.+.++++|+..|+++|.++++.+++++++++.+|||+|||.+++++++..+.....+.+++|+
T Consensus        35 ~~~~~~~f~~~~l~~~~~~~l~~~~~~~~~~~Q~~~i~~~~~~~~~lv~a~TGsGKT~~~~~~~~~~~~~~~~~~~~lil  114 (414)
T 3eiq_A           35 WNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVL  114 (414)
T ss_dssp             CCCCCCCGGGGCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHTTCCEEECCCSCSSSHHHHHHHHHHHCCTTSCSCCEEEE
T ss_pred             ccchhcCHhhCCCCHHHHHHHHHcCCCCCCHHHHHHhHHHhCCCCEEEECCCCCcccHHHHHHHHHHHhhcCCceeEEEE
Confidence            34556889999999999999999999999999999999999999999999999999999999999988776667789999


Q ss_pred             cCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc-CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          108 SPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       108 ~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      +|+++|+.|+.+.+..++...+..+..+.++.........+. .+++|+|+||+++.+.+....+...++++||+||||+
T Consensus       115 ~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~~vViDEah~  194 (414)
T 3eiq_A          115 APTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADE  194 (414)
T ss_dssp             CSSHHHHHHHHHHHHHHGGGSCCCEEECCCCTTHHHHHHHHTTTCCSEEEECHHHHHHHHHHTSSCSTTCCEEEECSHHH
T ss_pred             eChHHHHHHHHHHHHHHhcccCceEEEEECCcchHHHHHHHhcCCCCEEEECHHHHHHHHHcCCcccccCcEEEEECHHH
Confidence            999999999999999999888889999999888777766665 6689999999999999988888888899999999999


Q ss_pred             hhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHH
Q 018574          187 MLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDL  266 (354)
Q Consensus       187 ~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  266 (354)
                      +.+.++...+..++..++++.|++++|||++.........++.++..+...........+.+.+........+...+..+
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  274 (414)
T 3eiq_A          195 MLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDL  274 (414)
T ss_dssp             HHHTTTHHHHHHHHTTSCTTCEEEEECSCCCHHHHHHHTTTCSSCEEECCCCCCCCTTSCCEEEEECSSSTTHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHhCCCCCeEEEEEEecCHHHHHHHHHHcCCCEEEEecCCccCCCCceEEEEEeChHHhHHHHHHHH
Confidence            99999999999999999999999999999999999999999999988887777777888888888888888899999999


Q ss_pred             HhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          267 YDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       267 l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      +.....+++||||++++.++.+++.|++.++.+..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++++||+
T Consensus       275 ~~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~h~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidip~v~~Vi~  354 (414)
T 3eiq_A          275 YETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVIN  354 (414)
T ss_dssp             HHSSCCSSCEEECSCHHHHHHHHHHHHTTTCCCEEC---CHHHHHHHHHHHHSCC---CEEECSSCC--CCGGGCSCEEE
T ss_pred             HHhCCCCcEEEEeCCHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHHHcCCCcEEEECCccccCCCccCCCEEEE
Confidence            99998899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCC
Q 018574          347 LFLFCNV  353 (354)
Q Consensus       347 ~~~p~s~  353 (354)
                      +|.|.|+
T Consensus       355 ~~~p~s~  361 (414)
T 3eiq_A          355 YDLPTNR  361 (414)
T ss_dssp             SSCCSST
T ss_pred             eCCCCCH
Confidence            9999885

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=100.00  E-value=2.4e-51  Score=367.05  Aligned_cols=322  Identities=38%  Similarity=0.646  Sum_probs=287.3

Q ss_pred             ccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      ....+|+++++++.+.+.+.+.||..|+++|.++++.+++++++++.+|||+|||.+++++++..+.....+.+++|++|
T Consensus        18 ~~~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~i~~~~~~li~a~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~P   97 (400)
T 1s2m_A           18 TKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQALIMVP   97 (400)
T ss_dssp             ---CCGGGGCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHHTCCEEEECCTTSCHHHHHHHHHHHHCCTTSCSCCEEEECS
T ss_pred             cccCChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEEECCCCcHHHHHHHHHHHHHHhhccCCccEEEEcC
Confidence            34578999999999999999999999999999999999999999999999999999999999988876656678999999


Q ss_pred             CHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc
Q 018574          110 TRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       110 ~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      +++|+.|+.+.++.+....++.+..+.++.....+.......++|+|+||+.+.+.+......+.++++||+||+|++.+
T Consensus        98 ~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~Ivv~T~~~l~~~~~~~~~~~~~~~~vIiDEaH~~~~  177 (400)
T 1s2m_A           98 TRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLS  177 (400)
T ss_dssp             SHHHHHHHHHHHHHHTTTTTCCEEEECSSSCHHHHHHHTTSCCSEEEECHHHHHHHHHTTCSCCTTCCEEEEESHHHHSS
T ss_pred             CHHHHHHHHHHHHHHhcccCceEEEEeCCcchHHHHHHhcCCCCEEEEchHHHHHHHHhCCcccccCCEEEEeCchHhhh
Confidence            99999999999999998888999999999888777777777899999999999998887777788999999999999988


Q ss_pred             cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhh
Q 018574          190 RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT  269 (354)
Q Consensus       190 ~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~  269 (354)
                      .++...+..+...+++..|++++|||++..........+..+..+.... ......+.+.+....... +...+..++..
T Consensus       178 ~~~~~~~~~i~~~~~~~~~~i~lSAT~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~-k~~~l~~~~~~  255 (400)
T 1s2m_A          178 RDFKTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLME-ELTLKGITQYYAFVEERQ-KLHCLNTLFSK  255 (400)
T ss_dssp             HHHHHHHHHHHTTSCSSCEEEEEESCCCHHHHHHHHHHCSSCEEESCCS-SCBCTTEEEEEEECCGGG-HHHHHHHHHHH
T ss_pred             hchHHHHHHHHHhCCcCceEEEEEecCCHHHHHHHHHHcCCCeEEEecc-ccccCCceeEEEEechhh-HHHHHHHHHhh
Confidence            8888999999999988999999999999998888888888776554332 244455666666555444 88888899988


Q ss_pred             CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          270 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       270 ~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      ...+++||||++++.++.+++.|++.++.+..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++++||++|+
T Consensus       256 ~~~~~~lVf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gidip~~~~Vi~~~~  335 (400)
T 1s2m_A          256 LQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDF  335 (400)
T ss_dssp             SCCSEEEEECSSHHHHHHHHHHHHHHTCCEEEECTTSCHHHHHHHHHHHHTTSSSEEEESSCSSSSCCCTTEEEEEESSC
T ss_pred             cCCCcEEEEEecHHHHHHHHHHHHhcCCCeEEecCCCCHHHHHHHHHHHhcCCCcEEEEcCccccCCCccCCCEEEEeCC
Confidence            88889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCC
Q 018574          350 FCNV  353 (354)
Q Consensus       350 p~s~  353 (354)
                      |+|+
T Consensus       336 p~s~  339 (400)
T 1s2m_A          336 PKTA  339 (400)
T ss_dssp             CSSH
T ss_pred             CCCH
Confidence            9874

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A

Probab=100.00  E-value=1e-50  Score=361.92  Aligned_cols=320  Identities=34%  Similarity=0.577  Sum_probs=283.7

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      .+|+++++++.+.+.+.++|+..|+++|.++++.+++++++++.+|||+|||.+++++++..+.....+.++||++|+++
T Consensus         8 ~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~lv~a~TGsGKT~~~~~~~~~~l~~~~~~~~~lil~P~~~   87 (391)
T 1xti_A            8 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRE   87 (391)
T ss_dssp             -CGGGGCCCHHHHHHHHHHSCCSCCHHHHHHHHHHTTTCCEEEECSSCSSHHHHHHHHHHHHCCCCTTCCCEEEECSCHH
T ss_pred             CChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHhhcccCCCeeEEEECCCHH
Confidence            57999999999999999999999999999999999999999999999999999999999988876666678999999999


Q ss_pred             HHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcC-CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc
Q 018574          113 LATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEH-GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      |+.|+.+.+.++.... ++++..+.|+.........+.. .++|+|+||+++...+......+.++++||+||||++.+.
T Consensus        88 L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vViDEaH~~~~~  167 (391)
T 1xti_A           88 LAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQ  167 (391)
T ss_dssp             HHHHHHHHHHHHTTTCTTCCEEEECTTSCHHHHHHHHHHSCCSEEEECHHHHHHHHHTTSSCCTTCSEEEECSHHHHTSS
T ss_pred             HHHHHHHHHHHHHhhCCCeEEEEEeCCCCHHHHHHHHhcCCCCEEEECHHHHHHHHHcCCccccccCEEEEeCHHHHhhc
Confidence            9999999999987665 7888889988876666555543 4799999999999988887778889999999999999874


Q ss_pred             -CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCc-ccccCceeEEEEeccccchHHHHHHHHh
Q 018574          191 -GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE-LTLEGIKQFFVAVEREEWKFDTLCDLYD  268 (354)
Q Consensus       191 -~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~  268 (354)
                       ++...+..++...+...|++++|||+++........++..+..+...... .....+.+.+....... +...+..++.
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~l~  246 (391)
T 1xti_A          168 LDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE-KNRKLFDLLD  246 (391)
T ss_dssp             HHHHHHHHHHHHTSCSSSEEEEEESSCCSTHHHHHHHHCSSCEEEECCCCCCCCCTTCEEEEEECCGGG-HHHHHHHHHH
T ss_pred             cchHHHHHHHHhhCCCCceEEEEEeeCCHHHHHHHHHHcCCCeEEEecCccccCcccceEEEEEcCchh-HHHHHHHHHH
Confidence             67888888998888899999999999999888888888888777655443 23445566666555444 8888889998


Q ss_pred             hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       269 ~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      ....+++||||++++.++.+++.|++.++.+..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++++||++|
T Consensus       247 ~~~~~~~lvf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gidi~~~~~Vi~~~  326 (391)
T 1xti_A          247 VLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYD  326 (391)
T ss_dssp             HSCCSEEEEECSCHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTCCSEEEESCCCSSCBCCTTEEEEEESS
T ss_pred             hcCCCcEEEEeCcHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCcEEEECChhhcCCCcccCCEEEEeC
Confidence            88889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCC
Q 018574          349 LFCNV  353 (354)
Q Consensus       349 ~p~s~  353 (354)
                      +|+|+
T Consensus       327 ~p~s~  331 (391)
T 1xti_A          327 MPEDS  331 (391)
T ss_dssp             CCSSH
T ss_pred             CCCCH
Confidence            99875

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=100.00  E-value=1.4e-50  Score=361.47  Aligned_cols=316  Identities=38%  Similarity=0.634  Sum_probs=287.5

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      ..+|+++++++.+.+.+.+.|+..|+++|.++++.++++  +++++.+|||+|||.+++++++..+.....+.++||++|
T Consensus         4 ~~~f~~~~l~~~l~~~l~~~~~~~~~~~Q~~~i~~~~~~~~~~~lv~a~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~P   83 (395)
T 3pey_A            4 AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQAICLAP   83 (395)
T ss_dssp             CCSSTTSCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHCSSCCCEEEECCTTSCHHHHHHHHHHHHCCTTCCSCCEEEECS
T ss_pred             ccCHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHhccCCCCccEEEECC
Confidence            478999999999999999999999999999999999998  899999999999999999999998877666778999999


Q ss_pred             CHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc
Q 018574          110 TRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       110 ~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      +++|+.|+.+.+.+++...++.+....++......    ..+++|+|+||+.+...+......+.++++||+||||++.+
T Consensus        84 ~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~iIiDEah~~~~  159 (395)
T 3pey_A           84 SRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNK----QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLD  159 (395)
T ss_dssp             SHHHHHHHHHHHHHHTTTSCCCEEEESTTSSCTTS----CBCCSEEEECHHHHHHHHHTTCBCCTTCCEEEEETHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhcccCeeEEEEecCchhhhc----cCCCCEEEEcHHHHHHHHHcCCcccccCCEEEEEChhhhcC
Confidence            99999999999999988888888777766543321    23589999999999999888878888999999999999987


Q ss_pred             -cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh
Q 018574          190 -RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD  268 (354)
Q Consensus       190 -~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~  268 (354)
                       .++...+..+...++.+.|++++|||+++........+...+..+...........+.+.+........+...+..++.
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  239 (395)
T 3pey_A          160 QQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYG  239 (395)
T ss_dssp             STTHHHHHHHHHHTSCTTCEEEEEESCCCHHHHHHHHHHSCSCEEECCCGGGCSCTTEEEEEEECSSHHHHHHHHHHHHT
T ss_pred             ccccHHHHHHHHHhCCCCcEEEEEEecCCHHHHHHHHHhCCCCeEEEccccccccccccEEEEEcCchHHHHHHHHHHHH
Confidence             5788889999999999999999999999999999999888888777777777777788888887777778899999999


Q ss_pred             hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       269 ~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      ....+++||||+++++++.+++.|++.+..+..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++++||++|
T Consensus       240 ~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidip~~~~Vi~~~  319 (395)
T 3pey_A          240 LMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYD  319 (395)
T ss_dssp             TTTSSEEEEECSCHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHTTSCCEEEECGGGSSSCCCTTEEEEEESS
T ss_pred             hccCCCEEEEeCCHHHHHHHHHHHHhcCCcEEEeCCCCCHHHHHHHHHHHHCCCCCEEEECChhhcCCCcccCCEEEEcC
Confidence            88889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCC
Q 018574          349 LFC  351 (354)
Q Consensus       349 ~p~  351 (354)
                      +|+
T Consensus       320 ~p~  322 (395)
T 3pey_A          320 LPT  322 (395)
T ss_dssp             CCB
T ss_pred             CCC
Confidence            997

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B

Probab=100.00  E-value=1.3e-50  Score=363.63  Aligned_cols=323  Identities=37%  Similarity=0.632  Sum_probs=288.6

Q ss_pred             cCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeE
Q 018574           27 EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQA  104 (354)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~  104 (354)
                      .......+|+++++++.+.+.+.+.|+..|+++|.++++.++++  +++++.+|||+|||.+|+++++..+.....++++
T Consensus        19 ~~~~~~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~~~lv~apTGsGKT~~~~~~~~~~~~~~~~~~~~   98 (412)
T 3fht_A           19 SPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQC   98 (412)
T ss_dssp             STTCCSSCTGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHHSSSCCCEEEECCTTSCHHHHHHHHHHHHCCTTSCSCCE
T ss_pred             CCccccCCHhhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCCeEEEECCCCchHHHHHHHHHHHHhhhcCCCCCE
Confidence            34456789999999999999999999999999999999999987  8999999999999999999999988877777789


Q ss_pred             EEEcCCHHHHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc-CCccCCCccEEEEe
Q 018574          105 LILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLD  182 (354)
Q Consensus       105 lil~p~~~l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~-~~~~~~~~~~vvvD  182 (354)
                      ||++|+++|+.|+.+.+.++.... ++.+....++......   ...+++|+|+||+++.+.+.. ..+.+.++++||+|
T Consensus        99 lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~ivv~T~~~l~~~~~~~~~~~~~~~~~iViD  175 (412)
T 3fht_A           99 LCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG---QKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLD  175 (412)
T ss_dssp             EEECSSHHHHHHHHHHHHHHTTTSTTCCEEEECTTCCCCTT---CCCCCSEEEECHHHHHHHHTTSCSSCGGGCCEEEEE
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhcccceEEEeecCcchhhh---hcCCCCEEEECchHHHHHHHhcCCcChhhCcEEEEe
Confidence            999999999999999999987654 5677777766554332   234579999999999988855 55666889999999


Q ss_pred             cchhhhc-cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHH
Q 018574          183 ESDEMLS-RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFD  261 (354)
Q Consensus       183 E~h~~~~-~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  261 (354)
                      |||++.+ .++...+..+...++.+.|++++|||+++........++.++..+...........+.+.+........+..
T Consensus       176 Eah~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  255 (412)
T 3fht_A          176 EADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQ  255 (412)
T ss_dssp             THHHHHSTTTTHHHHHHHHHTSCTTCEEEEEESCCCHHHHHHHHHHSSSCEEECCCGGGSSCTTEEEEEEECSSHHHHHH
T ss_pred             CHHHHhhcCCcHHHHHHHHhhCCCCceEEEEEeecCHHHHHHHHHhcCCCeEEeeccccccccCceEEEEEcCChHHHHH
Confidence            9999987 678888999999999999999999999999999999999998887777777777788888888877777899


Q ss_pred             HHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCC
Q 018574          262 TLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQA  341 (354)
Q Consensus       262 ~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~  341 (354)
                      .+..++.....+++||||+++++++.+++.|++.++.+..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++
T Consensus       256 ~l~~~~~~~~~~~~lvf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidip~~  335 (412)
T 3fht_A          256 ALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQV  335 (412)
T ss_dssp             HHHHHHHHHSSSEEEEECSSHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHTTSCSEEEECGGGTSSCCCTTE
T ss_pred             HHHHHHhhcCCCCEEEEeCCHHHHHHHHHHHHhCCCeEEEecCCCCHHHHHHHHHHHHCCCCcEEEEcCccccCCCccCC
Confidence            99999998888999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEecCCCCC
Q 018574          342 ILFFFLFLFCN  352 (354)
Q Consensus       342 ~~Vi~~~~p~s  352 (354)
                      ++||++|+|.+
T Consensus       336 ~~Vi~~~~p~~  346 (412)
T 3fht_A          336 SVVINFDLPVD  346 (412)
T ss_dssp             EEEEESSCCBC
T ss_pred             CEEEEECCCCC
Confidence            99999999965

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A*

Probab=100.00  E-value=6.6e-52  Score=370.01  Aligned_cols=324  Identities=57%  Similarity=0.934  Sum_probs=189.5

Q ss_pred             cccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc
Q 018574           29 VEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS  108 (354)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~  108 (354)
                      .+...+|+++++++.+.+.+..+|+..|+++|.++++.+++++++++.+|||+|||++++++++..+.....++++||++
T Consensus        17 ~~~~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~i~~~~~~lv~~~TGsGKT~~~~~~~~~~l~~~~~~~~~lil~   96 (394)
T 1fuu_A           17 DKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLA   96 (394)
T ss_dssp             CCCCCSSGGGCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHHTCCEEECCCSSHHHHHHHHHHHHHHCCTTCCSCCEEEEC
T ss_pred             ccccCChhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHhhccCCCCCEEEEc
Confidence            44567899999999999999999999999999999999999999999999999999999999999887766677899999


Q ss_pred             CCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhh
Q 018574          109 PTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML  188 (354)
Q Consensus       109 p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~  188 (354)
                      |+++|+.|+.+.+.++....++.+..+.|+.........+. +++|+|+||+.+...+....+...++++||+||+|++.
T Consensus        97 P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~-~~~i~v~T~~~l~~~~~~~~~~~~~~~~vIiDEah~~~  175 (394)
T 1fuu_A           97 PTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEML  175 (394)
T ss_dssp             SSHHHHHHHHHHHHHHTTTSCCCEEEECSSCCHHHHHHHHH-HCSEEEECHHHHHHHHHTTSSCCTTCCEEEEETHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhccCCeeEEEEeCCCchHHHHhhcC-CCCEEEECHHHHHHHHHhCCcchhhCcEEEEEChHHhh
Confidence            99999999999999998888899999999887665554443 58999999999999888877778899999999999999


Q ss_pred             ccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh
Q 018574          189 SRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD  268 (354)
Q Consensus       189 ~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~  268 (354)
                      +.++...+..++..+++..|++++|||+++........++..+..+...........+.+.+........+...+..++.
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  255 (394)
T 1fuu_A          176 SSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYD  255 (394)
T ss_dssp             HTTCHHHHHHHHHHSCTTCEEEEECSSCCHHHHHHHHHHCCSCEEEEECC------------------------------
T ss_pred             CCCcHHHHHHHHHhCCCCceEEEEEEecCHHHHHHHHHhcCCCeEEEecCccccCCCceEEEEEcCchhhHHHHHHHHHh
Confidence            88899999999999999999999999999998888888899888888777766667777777766666667778888888


Q ss_pred             hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          269 TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       269 ~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      ....+++||||++++.++.+++.|++.++.+..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++++||++|
T Consensus       256 ~~~~~~~lVf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gldi~~~~~Vi~~~  335 (394)
T 1fuu_A          256 SISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYD  335 (394)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cCCCCcEEEEECCHHHHHHHHHHHHHcCCeEEEeeCCCCHHHHHHHHHHHHCCCCcEEEECChhhcCCCcccCCEEEEeC
Confidence            77778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCC
Q 018574          349 LFCNV  353 (354)
Q Consensus       349 ~p~s~  353 (354)
                      .|.|+
T Consensus       336 ~p~s~  340 (394)
T 1fuu_A          336 LPANK  340 (394)
T ss_dssp             -----
T ss_pred             CCCCH
Confidence            99885

>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=100.00  E-value=9.4e-49  Score=346.32  Aligned_cols=314  Identities=34%  Similarity=0.589  Sum_probs=275.8

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcC-CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG-RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT  110 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~  110 (354)
                      ..+|+++++++.+.+.+++.|+..|+++|.++++.++++ +++++.+|||+|||.+++.+++..+... .+.+++|++|+
T Consensus         5 ~~~f~~~~l~~~~~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~~l~~~~TGsGKT~~~~~~~~~~~~~~-~~~~~lil~P~   83 (367)
T 1hv8_A            5 YMNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIELVNEN-NGIEAIILTPT   83 (367)
T ss_dssp             CCCGGGSSCCHHHHHHHHHHTCCSCCHHHHHHHHHHHHTCSEEEEECCSSSSHHHHHHHHHHHHSCSS-SSCCEEEECSC
T ss_pred             cCchhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHHHhccc-CCCcEEEEcCC
Confidence            467999999999999999999999999999999999988 6999999999999999999988876543 45679999999


Q ss_pred             HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc
Q 018574          111 RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       111 ~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      ++|+.|+.+.+..+....++.+..+.++.........+. .++|+|+||+.+.+.+......+.++++||+||+|++.+.
T Consensus        84 ~~L~~q~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~iIiDEah~~~~~  162 (367)
T 1hv8_A           84 RELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALK-NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEMLNM  162 (367)
T ss_dssp             HHHHHHHHHHHHHHHCSSCCCEEEECTTSCHHHHHHHHH-TCSEEEECHHHHHHHHHTTCSCTTSCCEEEEETHHHHHTT
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCcchHHHHhhcC-CCCEEEecHHHHHHHHHcCCcccccCCEEEEeCchHhhhh
Confidence            999999999999998777888888888887766655544 5899999999999998887777889999999999999999


Q ss_pred             CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhC
Q 018574          191 GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL  270 (354)
Q Consensus       191 ~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~  270 (354)
                      ++...+..++..++++.+++++|||++.........++.++..+.....    ..+.+.+....... +...+.+++. .
T Consensus       163 ~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~-~~~~l~~~l~-~  236 (367)
T 1hv8_A          163 GFIKDVEKILNACNKDKRILLFSATMPREILNLAKKYMGDYSFIKAKIN----ANIEQSYVEVNENE-RFEALCRLLK-N  236 (367)
T ss_dssp             TTHHHHHHHHHTSCSSCEEEEECSSCCHHHHHHHHHHCCSEEEEECCSS----SSSEEEEEECCGGG-HHHHHHHHHC-S
T ss_pred             chHHHHHHHHHhCCCCceEEEEeeccCHHHHHHHHHHcCCCeEEEecCC----CCceEEEEEeChHH-HHHHHHHHHh-c
Confidence            9999999999999899999999999999988888888776654443222    24555555554444 7888888887 4


Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      ..+++||||++++.++.+++.|++.+..+..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++++||++|.|
T Consensus       237 ~~~~~lvf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gid~~~~~~Vi~~~~~  316 (367)
T 1hv8_A          237 KEFYGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVMSRGIDVNDLNCVINYHLP  316 (367)
T ss_dssp             TTCCEEEECSSHHHHHHHHHHHHHTTCCEEEECSSSCHHHHHHHHHHHHTTSSSEEEECTTHHHHCCCSCCSEEEESSCC
T ss_pred             CCCcEEEEECCHHHHHHHHHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHcCCCeEEEECChhhcCCCcccCCEEEEecCC
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCC
Q 018574          351 CNV  353 (354)
Q Consensus       351 ~s~  353 (354)
                      +|+
T Consensus       317 ~s~  319 (367)
T 1hv8_A          317 QNP  319 (367)
T ss_dssp             SCH
T ss_pred             CCH
Confidence            874

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens}

Probab=100.00  E-value=4e-50  Score=366.69  Aligned_cols=320  Identities=38%  Similarity=0.638  Sum_probs=177.9

Q ss_pred             ccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEE
Q 018574           30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALIL  107 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil  107 (354)
                      ....+|.++++++.+.+.+.++||..|+++|.++++.++++  +++++.+|||+|||.+|+++++..+.....++++||+
T Consensus        89 ~~~~~f~~~~l~~~l~~~l~~~g~~~p~~~Q~~ai~~il~~~~~~~l~~a~TGsGKT~~~~l~il~~l~~~~~~~~~lil  168 (479)
T 3fmp_B           89 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCL  168 (479)
T ss_dssp             CCCCCSGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHTSBSCCEEEEECCSSSSHHHHHHHHHHTTCCTTSCSCCEEEE
T ss_pred             cCcCCHHHcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCCcEEEEcCCCCchhHHHHHHHHHHHhhcCCCCcEEEE
Confidence            34678999999999999999999999999999999999987  8999999999999999999999998877777789999


Q ss_pred             cCCHHHHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc-CCccCCCccEEEEecch
Q 018574          108 SPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDESD  185 (354)
Q Consensus       108 ~p~~~l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~-~~~~~~~~~~vvvDE~h  185 (354)
                      +|+++|+.|+.+.++.+.... ++.+....++......   ....++|+|+||+++.+.+.. ..+.+.++++||+||+|
T Consensus       169 ~Pt~~La~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~Ivv~Tp~~l~~~l~~~~~~~~~~~~~iViDEah  245 (479)
T 3fmp_B          169 SPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG---QKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD  245 (479)
T ss_dssp             CSSHHHHHHHHHHHHHHHTTSTTCCEEEESTTCCCCTT---CCCCCSEEEECHHHHHHHHTTSCCCCGGGCCEEEECCHH
T ss_pred             eChHHHHHHHHHHHHHHHhhCCCceEEEEeCCcccccc---ccCCCCEEEECchHHHHHHHhcCCcCcccCCEEEEECHH
Confidence            999999999999999887653 5666666666544322   233578999999999988865 45666899999999999


Q ss_pred             hhhc-cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHH
Q 018574          186 EMLS-RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLC  264 (354)
Q Consensus       186 ~~~~-~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  264 (354)
                      ++.+ .++...+..+.+.++.+.|++++|||++.....+...++.++..+...........+.+.+..+.....+...+.
T Consensus       246 ~~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  325 (479)
T 3fmp_B          246 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALC  325 (479)
T ss_dssp             HHHTSTTHHHHHHHHHTTSCTTSEEEEEESCCCHHHHHHHHHHSSSEEEEEEC---------------------------
T ss_pred             HHhhcCCcHHHHHHHHhhCCccceEEEEeCCCCHHHHHHHHHHcCCCeEEeccccccCcCCceEEEEEeCCHHHHHHHHH
Confidence            9986 578888889999999999999999999999999999999998888887777777778888887777666888888


Q ss_pred             HHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEE
Q 018574          265 DLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILF  344 (354)
Q Consensus       265 ~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~V  344 (354)
                      .++.....+++||||++++.++.+++.|...+..+..+||+++..+|..+++.|++|+.+|||||+++++|+|+|++++|
T Consensus       326 ~~~~~~~~~~~lvF~~s~~~~~~l~~~L~~~~~~v~~lh~~~~~~~R~~~~~~f~~g~~~iLv~T~~~~~GlDip~v~~V  405 (479)
T 3fmp_B          326 NLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVV  405 (479)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHhhccCCceEEEeCcHHHHHHHHHHHHhCCccEEEecCCCCHHHHHHHHHHHHcCCCcEEEEccccccCCccccCCEE
Confidence            88888888899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCCC
Q 018574          345 FFLFLFCN  352 (354)
Q Consensus       345 i~~~~p~s  352 (354)
                      |+||+|.+
T Consensus       406 I~~d~p~~  413 (479)
T 3fmp_B          406 INFDLPVD  413 (479)
T ss_dssp             --------
T ss_pred             EEecCCCC
Confidence            99999964

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}

Probab=100.00  E-value=8.1e-48  Score=358.49  Aligned_cols=324  Identities=25%  Similarity=0.407  Sum_probs=263.9

Q ss_pred             ccccCcccCC----CCHHHHHHHHHCCCCCChHHHHHhHhhhh--cCCcEEEEcCCCCchhhHhHHHHhhccccCC----
Q 018574           30 EAITSFDAMG----IKDDLLRGIYQYGFEKPSAIQQRAVMPII--KGRDVIAQAQSGTGKTSMIALTVCQTVDTSS----   99 (354)
Q Consensus        30 ~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~--~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~----   99 (354)
                      ....+|+++.    +++++.+.++.+||..|+++|.++++.++  .++++++.+|||+|||++|++|++..+....    
T Consensus        14 ~~~~~~~~l~~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~il~~~~~dvlv~apTGsGKTl~~~lpil~~l~~~~~~~~   93 (579)
T 3sqw_A           14 SKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ   93 (579)
T ss_dssp             CCCCCHHHHHHTTSSCHHHHHHHHTTTCSSCCHHHHHHHHHHHCSSSEEEEEECCTTSCHHHHHHHHHHHHHHHTTTSST
T ss_pred             CCCcCHHHHhhcCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHccCCCeEEEEcCCCcHHHHHHHHHHHHHHHhcccccc
Confidence            3344555543    99999999999999999999999999999  6789999999999999999999998876542    


Q ss_pred             CceeEEEEcCCHHHHHHHHHHHHHhcc----CcCeEEEEEeCCcchHHhHHhhc-CCCeEEEeCcHHHHHHHhcC-CccC
Q 018574          100 REVQALILSPTRELATQTEKVILAIGD----FINIQAHACVGGKSVGEDIRKLE-HGVHVVSGTPGRVCDMIKRK-TLRT  173 (354)
Q Consensus       100 ~~~~~lil~p~~~l~~q~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~-~~~~iiv~T~~~l~~~~~~~-~~~~  173 (354)
                      .++++||++|+++|+.|+.+.+.++..    .....+..+.++.........+. .+++|+|+||+++...+... ...+
T Consensus        94 ~~~~~lvl~Ptr~La~Q~~~~~~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~l~~~~~~IlV~Tp~~l~~~l~~~~~~~~  173 (579)
T 3sqw_A           94 YMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFF  173 (579)
T ss_dssp             TSCCEEEECSSHHHHHHHHHHHHHHHHHCGGGTTSCEEEECTTSCHHHHHHHHHHHCCSEEEECHHHHHHHHHHHHHHHC
T ss_pred             CCCeEEEEcchHHHHHHHHHHHHHHHhhcccccceEEEEEECCccHHHHHHHHhcCCCCEEEECHHHHHHHHHhcccccc
Confidence            345799999999999999999998752    23466777888887776666553 36899999999998877653 4456


Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCC-------CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCc----cc
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLP-------PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE----LT  242 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~-------~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~----~~  242 (354)
                      ..+++||+||||++.+++|...+..++..++       ...|++++|||+++........++..+..+......    ..
T Consensus       174 ~~~~~lViDEah~l~~~gf~~~~~~i~~~l~~~~~~~~~~~~~l~~SAT~~~~v~~~~~~~l~~~~~~~~~~~~~~~~~~  253 (579)
T 3sqw_A          174 RFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEA  253 (579)
T ss_dssp             TTCCEEEEETHHHHTSTTTHHHHHHHHHHHHHHCSSCTTCCEEEEEESSCCTHHHHHTTTTCCSSEEEEEESSCSSSCSS
T ss_pred             ccCCEEEEEChHHhhcCCCHHHHHHHHHHhhhhhcccccCceEEEEeccCChHHHHHHHHHcCCCceEEEeecCcccccc
Confidence            7899999999999999999988888877653       367999999999999999888888887766554322    22


Q ss_pred             ccCceeEEEEeccccch----HHHHHHHHhh-CCCCcEEEEcCchhhHHHHHHHHhcC---CCeEEEeecCCCHHHHHHH
Q 018574          243 LEGIKQFFVAVEREEWK----FDTLCDLYDT-LTITQAVIFCNTKRKVDWLTEKMRGY---NFTVSSMHGDMPQKERDAI  314 (354)
Q Consensus       243 ~~~~~~~~~~~~~~~~~----~~~l~~~l~~-~~~~~~lvf~~~~~~~~~l~~~l~~~---~~~~~~~~~~~~~~~r~~~  314 (354)
                      ...+.+.+.........    ...+...+.. ....++||||++++.++.+++.|++.   ++.+..+||++++.+|.++
T Consensus       254 ~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iVF~~t~~~~~~l~~~L~~~~~~~~~v~~~hg~~~~~~R~~~  333 (579)
T 3sqw_A          254 HERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSL  333 (579)
T ss_dssp             CTTEEEEEEEESSTTHHHHHHHHHHHHHHHHTTTCCEEEEECSSHHHHHHHHHHHHHHHTTTSCEEEESTTSCHHHHHHH
T ss_pred             ccccceEEEEecchhhhHHHHHHHHHHHHhhcCCCCcEEEECCcHHHHHHHHHHHHHhhcCCCcEEEecCCCCHHHHHHH
Confidence            33445555544433222    2233333333 45679999999999999999999876   8899999999999999999


Q ss_pred             HHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          315 MGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       315 ~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ++.|++|+.+|||||+++++|+|+|++++||++|+|.|+
T Consensus       334 ~~~F~~g~~~vLVaT~~~~~GiDip~v~~VI~~~~p~s~  372 (579)
T 3sqw_A          334 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSEL  372 (579)
T ss_dssp             HHHHHHCSSEEEEECGGGTSSCCCTTCCEEEEESCCSST
T ss_pred             HHHhhcCCCeEEEEcchhhcCCCcccCCEEEEcCCCCCH
Confidence            999999999999999999999999999999999999986

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}

Probab=100.00  E-value=2.1e-46  Score=327.37  Aligned_cols=297  Identities=25%  Similarity=0.447  Sum_probs=257.5

Q ss_pred             CCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHH
Q 018574           40 IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEK  119 (354)
Q Consensus        40 ~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~  119 (354)
                      +++.+.+.++++|+..|+++|.++++.+++++++++.+|||+|||.+++.+++..      +.+++|++|+++|+.|+.+
T Consensus         1 l~~~i~~~l~~~g~~~l~~~Q~~~i~~i~~~~~~lv~~~TGsGKT~~~~~~~~~~------~~~~liv~P~~~L~~q~~~   74 (337)
T 2z0m_A            1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------GMKSLVVTPTRELTRQVAS   74 (337)
T ss_dssp             CCHHHHHHHHHTTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHH------TCCEEEECSSHHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCEEEEcCCCCcHHHHHHHHHHhh------cCCEEEEeCCHHHHHHHHH
Confidence            5789999999999999999999999999999999999999999999999998764      4569999999999999999


Q ss_pred             HHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHH
Q 018574          120 VILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV  199 (354)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i  199 (354)
                      .++++....+..+..+.++.........+. .++|+|+||+.+.+.+........++++||+||+|++.+.++...+..+
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~i~v~T~~~l~~~~~~~~~~~~~~~~iViDEah~~~~~~~~~~~~~~  153 (337)
T 2z0m_A           75 HIRDIGRYMDTKVAEVYGGMPYKAQINRVR-NADIVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKII  153 (337)
T ss_dssp             HHHHHTTTSCCCEEEECTTSCHHHHHHHHT-TCSEEEECHHHHHHHHHTTSCCGGGCSEEEEESHHHHHHTTCHHHHHHH
T ss_pred             HHHHHhhhcCCcEEEEECCcchHHHHhhcC-CCCEEEECHHHHHHHHHcCCcchhhCcEEEEEChHHhhccccHHHHHHH
Confidence            999998888888988998887766655554 4899999999999988877777788999999999999999999999999


Q ss_pred             HhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEc
Q 018574          200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFC  279 (354)
Q Consensus       200 ~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~  279 (354)
                      +...+...+++++|||++.........++..+..+...   .....+.+.+.......   ......+....++++||||
T Consensus       154 ~~~~~~~~~~~~~SAT~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~lvf~  227 (337)
T 2z0m_A          154 LAQTSNRKITGLFSATIPEEIRKVVKDFITNYEEIEAC---IGLANVEHKFVHVKDDW---RSKVQALRENKDKGVIVFV  227 (337)
T ss_dssp             HHHCTTCSEEEEEESCCCHHHHHHHHHHSCSCEEEECS---GGGGGEEEEEEECSSSS---HHHHHHHHTCCCSSEEEEC
T ss_pred             HhhCCcccEEEEEeCcCCHHHHHHHHHhcCCceeeecc---cccCCceEEEEEeChHH---HHHHHHHHhCCCCcEEEEE
Confidence            99999899999999999999888888888877655322   33444555555544432   2223556666778999999


Q ss_pred             CchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          280 NTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       280 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +++++++.+++.|+    .+..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++++||++|.|+|+
T Consensus       228 ~~~~~~~~l~~~l~----~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gid~~~~~~Vi~~~~~~s~  297 (337)
T 2z0m_A          228 RTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDL  297 (337)
T ss_dssp             SCHHHHHHHHTTCT----TEEEECTTSCHHHHHHHHHHHHTTSCSEEEECHHHHTTCCCCCBSEEEESSCCSSH
T ss_pred             cCHHHHHHHHHHhh----hhhhhcCCCCHHHHHHHHHHHHcCCCcEEEEcCccccCCCccCCCEEEEecCCCCH
Confidence            99999999999887    48899999999999999999999999999999999999999999999999999874

>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA helicase, DEAD-BOX, ATP-binding, HE hydrolase, mitochondrion; HET: ANP; 1.90A {Saccharomyces cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A* 4db2_A 4db4_A

Probab=100.00  E-value=8.6e-47  Score=351.49  Aligned_cols=314  Identities=25%  Similarity=0.416  Sum_probs=257.5

Q ss_pred             CCHHHHHHHHHCCCCCChHHHHHhHhhhh--cCCcEEEEcCCCCchhhHhHHHHhhccccCC----CceeEEEEcCCHHH
Q 018574           40 IKDDLLRGIYQYGFEKPSAIQQRAVMPII--KGRDVIAQAQSGTGKTSMIALTVCQTVDTSS----REVQALILSPTREL  113 (354)
Q Consensus        40 ~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~--~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~----~~~~~lil~p~~~l  113 (354)
                      +++.+.+.+..+||..|+++|.++++.++  .++++++.+|||+|||++|++|++..+....    .+.++||++|+++|
T Consensus        79 l~~~l~~~l~~~g~~~~~~~Q~~~i~~~l~~~~~~~lv~apTGsGKTl~~~lpil~~l~~~~~~~~~~~~~lil~Ptr~L  158 (563)
T 3i5x_A           79 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDL  158 (563)
T ss_dssp             SCHHHHHHHHTTCCSSCCHHHHHHHHHHHSSSSEEEEEECCTTSCHHHHHHHHHHHHHHHTTTSSTTSCCEEEECSSHHH
T ss_pred             CCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCCeEEEECCCCCCccHHHHHHHHHHHHhccccccCCeeEEEEcCcHHH
Confidence            99999999999999999999999999999  6789999999999999999999998886543    23579999999999


Q ss_pred             HHHHHHHHHHhcc----CcCeEEEEEeCCcchHHhHHhh-cCCCeEEEeCcHHHHHHHhcC-CccCCCccEEEEecchhh
Q 018574          114 ATQTEKVILAIGD----FINIQAHACVGGKSVGEDIRKL-EHGVHVVSGTPGRVCDMIKRK-TLRTRAIKLLVLDESDEM  187 (354)
Q Consensus       114 ~~q~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~-~~~~~iiv~T~~~l~~~~~~~-~~~~~~~~~vvvDE~h~~  187 (354)
                      +.|+.+.+.++..    .....+..+.++.........+ ..+++|+|+||+++...+... ...+..+++||+||||++
T Consensus       159 a~Q~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~Iiv~Tp~~l~~~l~~~~~~~~~~~~~lViDEah~l  238 (563)
T 3i5x_A          159 ALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRL  238 (563)
T ss_dssp             HHHHHHHHHHHHHHCGGGTTSCEEEECTTSCHHHHHHHHHHHCCSEEEECHHHHHHHHHHHHHHHCTTCCEEEEETHHHH
T ss_pred             HHHHHHHHHHHHhhccccCceeEEEEECCcCHHHHHHHHhcCCCCEEEECcHHHHHHHHhccccccccceEEEEeCHHHH
Confidence            9999999998643    2245677788887776666555 346899999999998877653 335678999999999999


Q ss_pred             hccCcHHHHHHHHhhCC-------CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcc----cccCceeEEEEeccc
Q 018574          188 LSRGFKDQIYDVYRYLP-------PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL----TLEGIKQFFVAVERE  256 (354)
Q Consensus       188 ~~~~~~~~~~~i~~~~~-------~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~  256 (354)
                      .+++|...+..+...++       .+.|++++|||+++.+......++..+..+.......    ....+.+.+......
T Consensus       239 ~~~~f~~~~~~i~~~l~~~~~~~~~~~~~l~~SAT~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (563)
T 3i5x_A          239 LEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF  318 (563)
T ss_dssp             TSTTTHHHHHHHHHHHHHHCSSCTTCCEEEEEESSCCTHHHHHTTTTCCSSEEEEEESSCSSSCSSCTTEEEEEEEESST
T ss_pred             hccchHHHHHHHHHhhhhccccCccCceEEEEEccCCHHHHHHHHHhcCCCceEEEeccCCCCccccccCceEEEECchh
Confidence            99999888888876652       3678999999999998888888888876665543222    233445555554443


Q ss_pred             cchH----HHHHHHHhh-CCCCcEEEEcCchhhHHHHHHHHhcC---CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEE
Q 018574          257 EWKF----DTLCDLYDT-LTITQAVIFCNTKRKVDWLTEKMRGY---NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT  328 (354)
Q Consensus       257 ~~~~----~~l~~~l~~-~~~~~~lvf~~~~~~~~~l~~~l~~~---~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~  328 (354)
                      ....    ..+...+.. ...+++||||++++.++.+++.|++.   ++.+..+||++++.+|..+++.|++|+.+||||
T Consensus       319 ~~~~~~~~~~l~~~~~~~~~~~~~iVF~~s~~~~~~l~~~L~~~~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vLva  398 (563)
T 3i5x_A          319 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVC  398 (563)
T ss_dssp             THHHHHHHHHHHHHHHHTTTCCEEEEECSCHHHHHHHHHHHHHHHTTTSCEEEESTTSCHHHHHHHHHHHHHCSSEEEEE
T ss_pred             HhhHHHHHHHHHHHHhhcCCCCcEEEEcCcHHHHHHHHHHHHHhccCCceEEEecCCCCHHHHHHHHHHHhcCCCCEEEE
Confidence            3222    222333332 45679999999999999999999876   889999999999999999999999999999999


Q ss_pred             ccccccCCCcCCCcEEEecCCCCCC
Q 018574          329 TDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       329 T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+++++|+|+|++++||++|+|.|+
T Consensus       399 T~~~~~GiDip~v~~VI~~~~p~s~  423 (563)
T 3i5x_A          399 TDVGARGMDFPNVHEVLQIGVPSEL  423 (563)
T ss_dssp             CGGGTSSCCCTTCCEEEEESCCSST
T ss_pred             cchhhcCCCcccCCEEEEECCCCch
Confidence            9999999999999999999999986

>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch repair, nucleotide-binding, DNA-binding, polymorphism, nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens} PDB: 2wwy_A*

Probab=100.00  E-value=3.3e-45  Score=338.09  Aligned_cols=314  Identities=12%  Similarity=0.213  Sum_probs=246.2

Q ss_pred             cccccCcc--cCCCCHHHHHHHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEE
Q 018574           29 VEAITSFD--AMGIKDDLLRGIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQAL  105 (354)
Q Consensus        29 ~~~~~~~~--~~~~~~~~~~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~l  105 (354)
                      +.....|.  ++++++.+.+.+++ +|+..|+++|.++++.+++|+++++.+|||+|||++|++|++..      ...+|
T Consensus        15 ~~~~~~w~~~~~~l~~~l~~~L~~~fg~~~~rp~Q~~~i~~il~g~d~lv~~pTGsGKTl~~~lpal~~------~g~~l   88 (591)
T 2v1x_A           15 DSSPAAWNKEDFPWSGKVKDILQNVFKLEKFRPLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPALCS------DGFTL   88 (591)
T ss_dssp             -CCGGGGCCSCSTTHHHHHHHHHHTSCCCSCCTTHHHHHHHHHTTCCEEEECCTTSCTTHHHHHHHHTS------SSEEE
T ss_pred             CcchhccccccCCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHcCCCEEEEECCCChHHHHHHHHHHHc------CCcEE
Confidence            34445565  47899999999998 79999999999999999999999999999999999999998753      34699


Q ss_pred             EEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---h---hcCCCeEEEeCcHHHHH---HHh--cCCccCC
Q 018574          106 ILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---K---LEHGVHVVSGTPGRVCD---MIK--RKTLRTR  174 (354)
Q Consensus       106 il~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~---~~~~~~iiv~T~~~l~~---~~~--~~~~~~~  174 (354)
                      |++|+++|+.|+.+.+..+    ++.+..+.++....+...   .   ....++|+|+||+++..   ++.  .......
T Consensus        89 VisP~~~L~~q~~~~l~~~----gi~~~~l~~~~~~~~~~~~~~~l~~~~~~~~Ilv~Tpe~L~~~~~~~~~l~~~~~~~  164 (591)
T 2v1x_A           89 VICPLISLMEDQLMVLKQL----GISATMLNASSSKEHVKWVHAEMVNKNSELKLIYVTPEKIAKSKMFMSRLEKAYEAR  164 (591)
T ss_dssp             EECSCHHHHHHHHHHHHHH----TCCEEECCSSCCHHHHHHHHHHHHCTTCCCCEEEECHHHHHSCHHHHHHHHHHHHTT
T ss_pred             EEeCHHHHHHHHHHHHHhc----CCcEEEEeCCCCHHHHHHHHHHhhcccCCCCEEEEChhHhhccHHHHHHHHhhhhcc
Confidence            9999999999999999887    477778887766544322   1   23568999999998742   221  1233456


Q ss_pred             CccEEEEecchhhhccC--cHHHHHH--HHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEE
Q 018574          175 AIKLLVLDESDEMLSRG--FKDQIYD--VYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFF  250 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~--~~~~~~~--i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (354)
                      ++++||+||||++..++  |...+..  .+....++.+++++|||+++.....+..++..+....... ....+++...+
T Consensus       165 ~i~~iViDEAH~is~~g~dfr~~~~~l~~l~~~~~~~~ii~lSAT~~~~v~~~i~~~l~~~~~~~~~~-~~~r~nl~~~v  243 (591)
T 2v1x_A          165 RFTRIAVDEVHCCSQWGHDFRPDYKALGILKRQFPNASLIGLTATATNHVLTDAQKILCIEKCFTFTA-SFNRPNLYYEV  243 (591)
T ss_dssp             CEEEEEEETGGGGSTTCTTCCGGGGGGGHHHHHCTTSEEEEEESSCCHHHHHHHHHHTTCCSCEEEEC-CCCCTTEEEEE
T ss_pred             CCcEEEEECcccccccccccHHHHHHHHHHHHhCCCCcEEEEecCCCHHHHHHHHHHhCCCCcEEEec-CCCCcccEEEE
Confidence            88999999999998765  5444433  2333345789999999999988777777766554333332 23344443333


Q ss_pred             EEecc-ccchHHHHHHHHhh-CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEE
Q 018574          251 VAVER-EEWKFDTLCDLYDT-LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT  328 (354)
Q Consensus       251 ~~~~~-~~~~~~~l~~~l~~-~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~  328 (354)
                      ..... .......+.+++.. ..++++||||++++.++.+++.|++.++.+..+||++++.+|.++++.|++|+.+||||
T Consensus       244 ~~~~~~~~~~~~~l~~~l~~~~~~~~~IVf~~sr~~~e~la~~L~~~g~~~~~~h~~l~~~~R~~~~~~F~~g~~~VlVA  323 (591)
T 2v1x_A          244 RQKPSNTEDFIEDIVKLINGRYKGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVA  323 (591)
T ss_dssp             EECCSSHHHHHHHHHHHHTTTTTTCEEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSSSEEEE
T ss_pred             EeCCCcHHHHHHHHHHHHHHhccCCCeEEEeCcHHHHHHHHHHHHHCCCCEEEecCCCCHHHHHHHHHHHHcCCCeEEEE
Confidence            32221 12245666666654 35679999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccCCCcCCCcEEEecCCCCCC
Q 018574          329 TDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       329 T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+++++|+|+|++++|||+|+|.|+
T Consensus       324 T~a~~~GID~p~V~~VI~~~~p~s~  348 (591)
T 2v1x_A          324 TVAFGMGIDKPDVRFVIHHSMSKSM  348 (591)
T ss_dssp             CTTSCTTCCCSCEEEEEESSCCSSH
T ss_pred             echhhcCCCcccccEEEEeCCCCCH
Confidence            9999999999999999999999985

>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix, helix-turn-helix, ATP binding, Zn(2+) binding, hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43 c.37.1.19 c.37.1.19 PDB: 1oyy_A*

Probab=100.00  E-value=1.1e-44  Score=331.65  Aligned_cols=304  Identities=14%  Similarity=0.275  Sum_probs=242.9

Q ss_pred             cCcccCCCCHHHHHHHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           33 TSFDAMGIKDDLLRGIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      .+|+++++++.+.+.+++ +|+..|+++|.++++.+++|+++++.+|||+|||++|.+|++..      +..+||++|++
T Consensus         2 ~~fe~l~L~~~~~~~l~~~~g~~~~r~~Q~~~i~~il~g~d~lv~apTGsGKTl~~~lp~l~~------~g~~lvi~P~~   75 (523)
T 1oyw_A            2 AQAEVLNLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLL------NGLTVVVSPLI   75 (523)
T ss_dssp             CCCCCSSHHHHHHHHHHHTTCCSSCCTTHHHHHHHHHTTCCEEEECSCHHHHHHHHHHHHHHS------SSEEEEECSCH
T ss_pred             CChhhCCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHcCCCEEEECCCCcHHHHHHHHHHHHh------CCCEEEECChH
Confidence            579999999999999999 89999999999999999999999999999999999999998744      23589999999


Q ss_pred             HHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hh-cCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhh
Q 018574          112 ELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KL-EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM  187 (354)
Q Consensus       112 ~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~  187 (354)
                      +|+.|+.+.+..++    +.+..+.++....+...   .+ ...++|+++||+++........+...++++||+||+|++
T Consensus        76 aL~~q~~~~l~~~g----i~~~~l~~~~~~~~~~~~~~~~~~~~~~ilv~Tpe~l~~~~~~~~l~~~~~~~vViDEaH~i  151 (523)
T 1oyw_A           76 SLMKDQVDQLQANG----VAAACLNSTQTREQQLEVMTGCRTGQIRLLYIAPERLMLDNFLEHLAHWNPVLLAVDEAHCI  151 (523)
T ss_dssp             HHHHHHHHHHHHTT----CCEEEECTTSCHHHHHHHHHHHHHTCCSEEEECHHHHTSTTHHHHHTTSCEEEEEESSGGGG
T ss_pred             HHHHHHHHHHHHcC----CcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHhChHHHHHHhhCCCCEEEEeCcccc
Confidence            99999999998764    67777777665443321   22 345899999999985322222233468899999999999


Q ss_pred             hccC--cHHHHH---HHHhhCCCCCcEEEEEeeCchhHHHHHHhcc--CCCeEEEecCCcccccCceeEEEEeccccchH
Q 018574          188 LSRG--FKDQIY---DVYRYLPPDLQVVLISATLPHEILEMTTKFM--TDPVKILVKRDELTLEGIKQFFVAVEREEWKF  260 (354)
Q Consensus       188 ~~~~--~~~~~~---~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  260 (354)
                      .+++  |...+.   .+...+ ++.+++++|||+++.....+...+  .++..+. .  ....+++.  +..... ..+.
T Consensus       152 ~~~g~~fr~~~~~l~~l~~~~-~~~~~i~lSAT~~~~~~~~i~~~l~~~~~~~~~-~--~~~r~~l~--~~v~~~-~~~~  224 (523)
T 1oyw_A          152 SQWGHDFRPEYAALGQLRQRF-PTLPFMALTATADDTTRQDIVRLLGLNDPLIQI-S--SFDRPNIR--YMLMEK-FKPL  224 (523)
T ss_dssp             CTTSSCCCHHHHGGGGHHHHC-TTSCEEEEESCCCHHHHHHHHHHHTCCSCEEEE-C--CCCCTTEE--EEEEEC-SSHH
T ss_pred             CcCCCccHHHHHHHHHHHHhC-CCCCEEEEeCCCCHHHHHHHHHHhCCCCCeEEe-C--CCCCCceE--EEEEeC-CCHH
Confidence            8765  544443   344444 468899999999987665444433  2333222 2  12233333  222223 3377


Q ss_pred             HHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCC
Q 018574          261 DTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ  340 (354)
Q Consensus       261 ~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~  340 (354)
                      ..+..++....++++||||++++.++.+++.|++.++.+..+||++++++|..+++.|++|+.+|||||+++++|+|+|+
T Consensus       225 ~~l~~~l~~~~~~~~IVf~~sr~~~e~l~~~L~~~g~~~~~~h~~l~~~~R~~~~~~f~~g~~~vlVaT~a~~~GiD~p~  304 (523)
T 1oyw_A          225 DQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPN  304 (523)
T ss_dssp             HHHHHHHHHTTTCCEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEECTTSCTTTCCTT
T ss_pred             HHHHHHHHhcCCCcEEEEeCCHHHHHHHHHHHHHCCCCEEEecCCCCHHHHHHHHHHHHcCCCeEEEEechhhCCCCccC
Confidence            78888888877789999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcEEEecCCCCCC
Q 018574          341 AILFFFLFLFCNV  353 (354)
Q Consensus       341 ~~~Vi~~~~p~s~  353 (354)
                      +++|||+|+|.|+
T Consensus       305 v~~VI~~~~p~s~  317 (523)
T 1oyw_A          305 VRFVVHFDIPRNI  317 (523)
T ss_dssp             CCEEEESSCCSSH
T ss_pred             ccEEEEECCCCCH
Confidence            9999999999985

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=100.00  E-value=2.1e-43  Score=316.56  Aligned_cols=289  Identities=19%  Similarity=0.261  Sum_probs=227.4

Q ss_pred             HHHHHHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHH
Q 018574           43 DLLRGIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVI  121 (354)
Q Consensus        43 ~~~~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~  121 (354)
                      ++.+.+++ +++ +|+++|.++++.+++++++++.+|||+|||.+++++++...   ..++++||++|+++|+.|+.+.+
T Consensus         9 ~~~~~l~~~~~~-~~~~~Q~~~i~~i~~~~~~lv~apTGsGKT~~~l~~~~~~~---~~~~~~lil~Pt~~L~~q~~~~~   84 (414)
T 3oiy_A            9 DFRSFFKKKFGK-DLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA---RKGKKSALVFPTVTLVKQTLERL   84 (414)
T ss_dssp             HHHHHHHHHHSS-CCCHHHHHHHHHHTTTCCEECCSCSSSSHHHHHHHHHHHHH---TTTCCEEEEESSHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCC-CCCHHHHHHHHHHhcCCCEEEEeCCCCCHHHHHHHHHHHHh---cCCCEEEEEECCHHHHHHHHHHH
Confidence            44555655 466 89999999999999999999999999999999998888766   33467999999999999999999


Q ss_pred             HHhccCcCeEEEEEeCCcch---HHhHHhhcCC-CeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc--------
Q 018574          122 LAIGDFINIQAHACVGGKSV---GEDIRKLEHG-VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS--------  189 (354)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~-~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~--------  189 (354)
                      +.++. .++++..++|+.+.   ......+..+ ++|+|+||+.+.+.+..  +...++++||+||||++..        
T Consensus        85 ~~~~~-~~~~v~~~~g~~~~~~~~~~~~~l~~~~~~Iiv~Tp~~l~~~l~~--~~~~~~~~iViDEaH~~~~~~~~~d~~  161 (414)
T 3oiy_A           85 QKLAD-EKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSKNREK--LSQKRFDFVFVDDVDAVLKASRNIDTL  161 (414)
T ss_dssp             HHHCC-SSCCEEECCTTSCHHHHHHHHHHHHHTCCSEEEEEHHHHHHCHHH--HTTCCCSEEEESCHHHHHHCHHHHHHH
T ss_pred             HHHcc-CCceEEEEECCCChhhHHHHHHHhhcCCCCEEEECHHHHHHHHHH--hccccccEEEEeChHhhhhccchhhhH
Confidence            99887 78899999999887   4445555555 89999999999877664  5567899999999998753        


Q ss_pred             ---cCcHHH-HHHHHhhCC-----------CCCcEEEEEee-CchhHH-HHHHhccCCCeEEEecCCcccccCceeEEEE
Q 018574          190 ---RGFKDQ-IYDVYRYLP-----------PDLQVVLISAT-LPHEIL-EMTTKFMTDPVKILVKRDELTLEGIKQFFVA  252 (354)
Q Consensus       190 ---~~~~~~-~~~i~~~~~-----------~~~~~i~lSaT-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  252 (354)
                         .+|... +..++..++           .+.|++++||| .+.... .....+..    +...........+.+.+..
T Consensus       162 l~~~~~~~~~~~~i~~~~~~~~~~~~l~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~----~~~~~~~~~~~~i~~~~~~  237 (414)
T 3oiy_A          162 LMMVGIPEEIIRKAFSTIKQGKIYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLN----FTVGRLVSVARNITHVRIS  237 (414)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHTCCCCCCTTCCCCEEEESSCCSSCCSSTTHHHHHHHS----CCSSCCCCCCCSEEEEEES
T ss_pred             HhhcCCcHHHHHHHHHhcccchhhhhcccCCCceEEEEecCCCcchhHHHHHHHhhc----cCcCccccccccchheeec
Confidence               455555 677777665           78899999999 444332 22222222    1112222334455555544


Q ss_pred             eccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEE-EeecCCCHHHHHHHHHHHhCCCCcEEEE---
Q 018574          253 VEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS-SMHGDMPQKERDAIMGEFRSGTTRVLIT---  328 (354)
Q Consensus       253 ~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~-~~~~~~~~~~r~~~~~~f~~g~~~vlv~---  328 (354)
                      .    .+...+..+++. .++++||||++++.++.++..|++.++.+. .+||.    +|.  ++.|++|+.+||||   
T Consensus       238 ~----~~~~~l~~~l~~-~~~~~lVF~~~~~~~~~l~~~L~~~~~~~~~~~h~~----~r~--~~~f~~g~~~vLvat~s  306 (414)
T 3oiy_A          238 S----RSKEKLVELLEI-FRDGILIFAQTEEEGKELYEYLKRFKFNVGETWSEF----EKN--FEDFKVGKINILIGVQA  306 (414)
T ss_dssp             S----CCHHHHHHHHHH-HCSSEEEEESSHHHHHHHHHHHHHTTCCEEESSSCH----HHH--HHHHHTTSCSEEEEECC
T ss_pred             c----CHHHHHHHHHHH-cCCCEEEEECCHHHHHHHHHHHHHcCCceehhhcCc----chH--HHHHhCCCCeEEEEecC
Confidence            4    255666777766 348999999999999999999999999998 88884    344  99999999999999   


Q ss_pred             -ccccccCCCcCC-CcEEEecCCC--CCC
Q 018574          329 -TDVWARGLDVQQ-AILFFFLFLF--CNV  353 (354)
Q Consensus       329 -T~~~~~Gidi~~-~~~Vi~~~~p--~s~  353 (354)
                       |+++++|+|+|+ +++||+||+|  .|+
T Consensus       307 ~T~~~~~GiDip~~v~~VI~~~~p~~~~~  335 (414)
T 3oiy_A          307 YYGKLTRGVDLPERIKYVIFWGTPSGPDV  335 (414)
T ss_dssp             TTCCCCCCCCCTTTCCEEEEESCCTTTCH
T ss_pred             cCchhhccCccccccCEEEEECCCCCCCH
Confidence             999999999999 9999999999  663

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*

Probab=100.00  E-value=3.2e-42  Score=320.81  Aligned_cols=301  Identities=17%  Similarity=0.215  Sum_probs=184.3

Q ss_pred             CCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCC--ceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           53 FEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSR--EVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        53 ~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~--~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      ..+|+++|.++++.+++++++++.+|||+|||++++++++..+.....  +.++||++|+++|+.||.+.+.++....++
T Consensus         5 ~~~~~~~Q~~~i~~~~~~~~~l~~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~   84 (556)
T 4a2p_A            5 TKKARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGY   84 (556)
T ss_dssp             ---CCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHGGGTC
T ss_pred             CCCCCHHHHHHHHHHHcCCCEEEEcCCCChHHHHHHHHHHHHHHhCcccCCCeEEEEeCCHHHHHHHHHHHHHHhcccCc
Confidence            348999999999999999999999999999999999999988765432  567999999999999999999999887789


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCc-cCCCccEEEEecchhhhccCcHHHH-HHHHhh----CC
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL-RTRAIKLLVLDESDEMLSRGFKDQI-YDVYRY----LP  204 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~-~~~~~~~vvvDE~h~~~~~~~~~~~-~~i~~~----~~  204 (354)
                      .+..++|+.........+..+++|+|+||+.+.+.+....+ .+.++++||+||||++.+.+....+ ..++..    ..
T Consensus        85 ~~~~~~g~~~~~~~~~~~~~~~~i~v~T~~~l~~~~~~~~~~~~~~~~~vViDEah~~~~~~~~~~~~~~~~~~~~~~~~  164 (556)
T 4a2p_A           85 SVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSAS  164 (556)
T ss_dssp             CEEECCCC-----CHHHHHHHCSEEEECHHHHHHHHHSSSCCCSTTCSEEEEETGGGCSTTSHHHHHHHHHHHHHHCC--
T ss_pred             eEEEEeCCCCcchhHHHhhCCCCEEEECHHHHHHHHHhCcccccccCCEEEEECCcccCCcchHHHHHHHHHHhhhcccC
Confidence            99999998877666666666789999999999999888776 7889999999999999876533322 222222    13


Q ss_pred             CCCcEEEEEeeCchh-----------HHHHHHhc------------------cCCCeEEEecCCcccccC----------
Q 018574          205 PDLQVVLISATLPHE-----------ILEMTTKF------------------MTDPVKILVKRDELTLEG----------  245 (354)
Q Consensus       205 ~~~~~i~lSaT~~~~-----------~~~~~~~~------------------~~~~~~~~~~~~~~~~~~----------  245 (354)
                      +..+++++|||++..           +..+...+                  ...+..............          
T Consensus       165 ~~~~~l~lSAT~~~~~~~~~~~~~~~i~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (556)
T 4a2p_A          165 QLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNLMS  244 (556)
T ss_dssp             -CCEEEEEESCCCCTTCSSHHHHHHHHHHHHHHHTCSEEECCCTTHHHHHHHTCCCCEEEEECCCCSCCHHHHHHHHHHH
T ss_pred             CCCeEEEEeCCcccCchhhHHHHHHHHHHHHHhcCCeEecchhcchHHHHhcCCCCceEEEEcCCCcCChHHHHHHHHHH
Confidence            568899999999431           11111111                  111111111100000000          


Q ss_pred             ----c-e----------------------eEEE-----------------------------------------------
Q 018574          246 ----I-K----------------------QFFV-----------------------------------------------  251 (354)
Q Consensus       246 ----~-~----------------------~~~~-----------------------------------------------  251 (354)
                          . .                      .+..                                               
T Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  324 (556)
T 4a2p_A          245 ETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYNDALIISEDARII  324 (556)
T ss_dssp             HHHHHHHHHCC---------CCCSSHHHHHHHHHHHHHHHHC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHH
T ss_pred             HHHHHHHHHhhhhhhhcccccccchhhHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHHHHHHHHHHhhhhhHH
Confidence                0 0                      0000                                               


Q ss_pred             -----------------------------------------EeccccchHHHHHHHHhh----CCCCcEEEEcCchhhHH
Q 018574          252 -----------------------------------------AVEREEWKFDTLCDLYDT----LTITQAVIFCNTKRKVD  286 (354)
Q Consensus       252 -----------------------------------------~~~~~~~~~~~l~~~l~~----~~~~~~lvf~~~~~~~~  286 (354)
                                                               .......+...+.+++..    ..++++||||++++.++
T Consensus       325 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~K~~~L~~~l~~~~~~~~~~k~lVF~~~~~~~~  404 (556)
T 4a2p_A          325 DALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVS  404 (556)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTHHHHHHHHHCSSSCCHHHHHHHHHHHHHHHHCTTCCEEEEESSHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCHHHHHHHHHHhhHHHHhhhhccCCCCCChHHHHHHHHHHHHhcCCCCceEEEEEccHHHHH
Confidence                                                     000012244555555543    45689999999999999


Q ss_pred             HHHHHHhcC------------CCeEEEeecCCCHHHHHHHHHHHhC-CCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          287 WLTEKMRGY------------NFTVSSMHGDMPQKERDAIMGEFRS-GTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       287 ~l~~~l~~~------------~~~~~~~~~~~~~~~r~~~~~~f~~-g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+++.|++.            |.....+||+++..+|.++++.|++ |+.+|||||+++++|+|+|++++||+||+|+|+
T Consensus       405 ~l~~~L~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~R~~~~~~F~~~g~~~vLvaT~~~~~GiDip~v~~VI~~d~p~s~  484 (556)
T 4a2p_A          405 ALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNV  484 (556)
T ss_dssp             HHHHHHTTCSGGGSCCEEC------------------------------CCEEEEEC-----------CEEEEETCCSCH
T ss_pred             HHHHHHHhCCCcceeeeeEEEccCCcccccccCHHHHHHHHHHhcccCceEEEEEcCchhcCCCchhCCEEEEeCCCCCH
Confidence            999999875            4455566788999999999999999 999999999999999999999999999999985

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*

Probab=100.00  E-value=2.7e-42  Score=329.04  Aligned_cols=309  Identities=20%  Similarity=0.291  Sum_probs=206.3

Q ss_pred             HHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCC--ceeEEEEcCCHHHHHHHHHHHH
Q 018574           45 LRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSR--EVQALILSPTRELATQTEKVIL  122 (354)
Q Consensus        45 ~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~--~~~~lil~p~~~l~~q~~~~~~  122 (354)
                      .+.+..+|+..|+++|.++++++++|+++++.+|||+|||++++++++..+.....  +.++||++|+++|+.||.+.++
T Consensus         3 ~~~l~~~g~~~lr~~Q~~~i~~~l~g~~~iv~~~TGsGKTl~~~~~i~~~l~~~~~~~~~~~lvl~Pt~~L~~Q~~~~~~   82 (696)
T 2ykg_A            3 VSDTNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFS   82 (696)
T ss_dssp             ----CTTC--CCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHHHHHSCTTCCCCEEEECSSHHHHHHHHHHHH
T ss_pred             CCcccccCCCCccHHHHHHHHHHHcCCCEEEEcCCCchHHHHHHHHHHHHHHhCccCCCCeEEEEECCHHHHHHHHHHHH
Confidence            45677889999999999999999999999999999999999999999987765432  2579999999999999999999


Q ss_pred             HhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCc-cCCCccEEEEecchhhhccC-cHHHHHHHH
Q 018574          123 AIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL-RTRAIKLLVLDESDEMLSRG-FKDQIYDVY  200 (354)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~-~~~~~~~vvvDE~h~~~~~~-~~~~~~~i~  200 (354)
                      ++....++.+..+.|+.........+..+++|+|+||+.|.+.+....+ .+.++++||+||||++.... +...+..++
T Consensus        83 ~~~~~~~~~v~~~~g~~~~~~~~~~~~~~~~Iiv~Tp~~L~~~l~~~~~~~l~~~~~vViDEaH~~~~~~~~~~i~~~~l  162 (696)
T 2ykg_A           83 KYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYL  162 (696)
T ss_dssp             HHTTTTTCCEEEECSSSCSSSCHHHHHHTCSEEEECHHHHHHHHHTTSSCCGGGCSEEEEETGGGCSTTCHHHHHHHHHH
T ss_pred             HHhccCCceEEEEeCCccccccHHHhccCCCEEEECHHHHHHHHhcCcccccccccEEEEeCCCcccCcccHHHHHHHHH
Confidence            9988778999999998766555555556799999999999999887666 67889999999999987553 333333233


Q ss_pred             hh-----CCCCCcEEEEEeeCc-------hhHHHHHHh----------------------ccCCCeEEEecCCcccc---
Q 018574          201 RY-----LPPDLQVVLISATLP-------HEILEMTTK----------------------FMTDPVKILVKRDELTL---  243 (354)
Q Consensus       201 ~~-----~~~~~~~i~lSaT~~-------~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~---  243 (354)
                      ..     .++..++++||||+.       ......+..                      +...|............   
T Consensus       163 ~~~~~~~~~~~~~il~LTATp~~~~~~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~l~~~~~~p~~~~~~~~~~~~~~f  242 (696)
T 2ykg_A          163 DQKLGGSSGPLPQVIGLTASVGVGDAKTTDEALDYICKLCASLDASVIATVKHNLEELEQVVYKPQKFFRKVESRISDKF  242 (696)
T ss_dssp             HHHHTTCCSCCCEEEEEESCCCCSSCCSHHHHHHHHHHHHHHTTCCEEECCCTTHHHHHHHSCCCEEEEEECCCCSCCHH
T ss_pred             HHhhcccCCCCCeEEEEeCccccCccccHHHHHHHHHHHHHhcCCceEeecccchHHHHhhcCCCceeEEecCcccCChH
Confidence            22     246789999999996       221111111                      11112111100000000   


Q ss_pred             --------------------------------------------------------------------------------
Q 018574          244 --------------------------------------------------------------------------------  243 (354)
Q Consensus       244 --------------------------------------------------------------------------------  243 (354)
                                                                                                      
T Consensus       243 s~~~~~l~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~  322 (696)
T 2ykg_A          243 KYIIAQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMVFQMPDKDEESRICKALFLYTSHLRKYNDA  322 (696)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTGGGSSSCCSCCSSSHHHHHHHHHHHHTSCC------CCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhccccccccchhHHHHHHHHHHHHHHhhcccchhhhHHHHHHHHHHHHHHHHhHH
Confidence                                                                                            


Q ss_pred             ----------------------------cCceeEEEE---------------eccccchHHHHHHHHhhC----CCCcEE
Q 018574          244 ----------------------------EGIKQFFVA---------------VEREEWKFDTLCDLYDTL----TITQAV  276 (354)
Q Consensus       244 ----------------------------~~~~~~~~~---------------~~~~~~~~~~l~~~l~~~----~~~~~l  276 (354)
                                                  ..+.+.+..               ......+...+..++...    .++++|
T Consensus       323 ~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~k~~~L~~ll~~~~~~~~~~~~I  402 (696)
T 2ykg_A          323 LIISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITI  402 (696)
T ss_dssp             HHHHHHSCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHTTHHHHHHHHHCGGGCCHHHHHHHHHHHHHHTTCTTCCEE
T ss_pred             HhccchhhHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHhccCCCCcEE
Confidence                                        000000000               001233666677777654    567999


Q ss_pred             EEcCchhhHHHHHHHHhcCC----CeEEEe--------ecCCCHHHHHHHHHHHhC-CCCcEEEEccccccCCCcCCCcE
Q 018574          277 IFCNTKRKVDWLTEKMRGYN----FTVSSM--------HGDMPQKERDAIMGEFRS-GTTRVLITTDVWARGLDVQQAIL  343 (354)
Q Consensus       277 vf~~~~~~~~~l~~~l~~~~----~~~~~~--------~~~~~~~~r~~~~~~f~~-g~~~vlv~T~~~~~Gidi~~~~~  343 (354)
                      |||++++.++.+++.|++.+    +++..+        |++++..+|.++++.|++ |+.+|||||+++++|+|+|++++
T Consensus       403 IF~~~~~~~~~l~~~L~~~~~~~~~~~~~l~G~~~~~~h~~~~~~eR~~v~~~F~~~g~~~vLVaT~v~~~GiDip~v~~  482 (696)
T 2ykg_A          403 LFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNL  482 (696)
T ss_dssp             EECSCHHHHHHHHHHHHHCTTCCSCCEEC-----------------------------CCSCSEEEESSCCC---CCCSE
T ss_pred             EEeCcHHHHHHHHHHHHhCCCccccceeEEEccCCCccccCCCHHHHHHHHHHHHhcCCccEEEEechhhcCCcCccCCE
Confidence            99999999999999999887    788888        459999999999999998 99999999999999999999999


Q ss_pred             EEecCCCCCC
Q 018574          344 FFFLFLFCNV  353 (354)
Q Consensus       344 Vi~~~~p~s~  353 (354)
                      ||+||+|+|+
T Consensus       483 VI~~d~p~s~  492 (696)
T 2ykg_A          483 VILYEYVGNV  492 (696)
T ss_dssp             EEEESCC--C
T ss_pred             EEEeCCCCCH
Confidence            9999999986

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=100.00  E-value=5.8e-41  Score=312.29  Aligned_cols=298  Identities=18%  Similarity=0.243  Sum_probs=202.8

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCC--ceeEEEEcCCHHHHHHHHHHHHHhccCcCeEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSR--EVQALILSPTRELATQTEKVILAIGDFINIQA  132 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~--~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~  132 (354)
                      +|+++|.++++.++.++++++.+|||+|||++++++++..+.....  +.++||++|+++|+.||.+.+.++....++.+
T Consensus         4 ~~~~~Q~~~i~~~~~~~~~l~~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~   83 (555)
T 3tbk_A            4 KPRNYQLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIPVYEQQATVFSRYFERLGYNI   83 (555)
T ss_dssp             CCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHHTTTCCE
T ss_pred             CCcHHHHHHHHHHhCCCCEEEEeCCCChHHHHHHHHHHHHHHhcccCCCCEEEEEeCCHHHHHHHHHHHHHHhccCCcEE
Confidence            7999999999999999999999999999999999999988876432  56799999999999999999999988778999


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCc-cCCCccEEEEecchhhhccC-cHHHHHHHHhhC-----CC
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL-RTRAIKLLVLDESDEMLSRG-FKDQIYDVYRYL-----PP  205 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~-~~~~~~~vvvDE~h~~~~~~-~~~~~~~i~~~~-----~~  205 (354)
                      ..++|+.........+..+++|+|+||+.+...+....+ .+.++++||+||||++...+ +...+...+...     ..
T Consensus        84 ~~~~g~~~~~~~~~~~~~~~~i~v~T~~~l~~~~~~~~~~~~~~~~~vViDEah~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (555)
T 3tbk_A           84 ASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVFTLMIFDECHNTSKNHPYNQIMFRYLDHKLGESRDP  163 (555)
T ss_dssp             EEECTTTGGGSCHHHHHHHCSEEEECHHHHHHHHHTSSSCCGGGCSEEEETTGGGCSTTCHHHHHHHHHHHHHTSSCCSC
T ss_pred             EEEcCCCcchhhHHHHhcCCCEEEECHHHHHHHHhcCcccccccCCEEEEECccccCCcchHHHHHHHHHHhhhccccCC
Confidence            999999877766666666789999999999998887766 67889999999999997764 333333333332     24


Q ss_pred             CCcEEEEEeeCchh-----------HHHHHHhccCCCeEEEecCCc-------ccccCceeEEEE---------------
Q 018574          206 DLQVVLISATLPHE-----------ILEMTTKFMTDPVKILVKRDE-------LTLEGIKQFFVA---------------  252 (354)
Q Consensus       206 ~~~~i~lSaT~~~~-----------~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~---------------  252 (354)
                      ..+++++|||+...           +..+... +... .+......       ...+........               
T Consensus       164 ~~~~l~lSAT~~~~~~~~~~~~~~~~~~l~~~-l~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (555)
T 3tbk_A          164 LPQVVGLTASVGVGDAKTAEEAMQHICKLCAA-LDAS-VIATVRDNVAELEQVVYKPQKISRKVASRTSNTFKCIISQLM  241 (555)
T ss_dssp             CCEEEEEESCCCCTTCCSHHHHHHHHHHHHHH-TTCS-EEECCCSCHHHHHTTCCCCCEEEEECCCCSCCHHHHHHHHHH
T ss_pred             CCeEEEEecCcccCccccHHHHHHHHHHHHHh-cCCe-eeeccccCHHHHHhhcCCCceEEEEecCcccChHHHHHHHHH
Confidence            57899999999542           1111111 1101 11100000       000000000000               


Q ss_pred             --------------------------------------------------------------------------------
Q 018574          253 --------------------------------------------------------------------------------  252 (354)
Q Consensus       253 --------------------------------------------------------------------------------  252 (354)
                                                                                                      
T Consensus       242 ~~~~~~~~~~~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  321 (555)
T 3tbk_A          242 KETEKLAKDVSEELGKLFQIQNREFGTQKYEQWIVGVHKACSVFQMADKEEESRVCKALFLYTSHLRKYNDALIISEDAQ  321 (555)
T ss_dssp             HHHHHHHHTSCHHHHGGGGCCSCCSSSHHHHHHHHHHHHHHHTCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHhhhhhhhcccccccchhhhHHHHHHHHHhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence                                                                                            


Q ss_pred             --------------------------------------------eccccchHHHHHHHHhh----CCCCcEEEEcCchhh
Q 018574          253 --------------------------------------------VEREEWKFDTLCDLYDT----LTITQAVIFCNTKRK  284 (354)
Q Consensus       253 --------------------------------------------~~~~~~~~~~l~~~l~~----~~~~~~lvf~~~~~~  284 (354)
                                                                  ......+...+.+++..    ...+++||||++++.
T Consensus       322 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~l~~~l~~~~~~~~~~k~lVF~~~~~~  401 (555)
T 3tbk_A          322 MTDALNYLKAFFHDVREAAFDETERELTRRFEEKLEELEKVSRDPSNENPKLRDLYLVLQEEYHLKPETKTILFVKTRAL  401 (555)
T ss_dssp             HHHHHHHHHHHHHHHCC-----HHHHHHHHHHTTHHHHHHHHHCGGGCCHHHHHHHHHHHHHHHHCTTCCEEEECSSHHH
T ss_pred             HHHHHHHHHHHHHHHhhcccchHHHHHHHHHhhhhhhhhhhccCCCcCCHHHHHHHHHHHHHhccCCCceEEEEeCcHHH
Confidence                                                        00012244555555543    456899999999999


Q ss_pred             HHHHHHHHhcCC----C--------eEEEeecCCCHHHHHHHHHHHhC-CCCcEEEEccccccCCCcCCCcEEEecCCCC
Q 018574          285 VDWLTEKMRGYN----F--------TVSSMHGDMPQKERDAIMGEFRS-GTTRVLITTDVWARGLDVQQAILFFFLFLFC  351 (354)
Q Consensus       285 ~~~l~~~l~~~~----~--------~~~~~~~~~~~~~r~~~~~~f~~-g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~  351 (354)
                      ++.++..|++.+    +        ....+||+++..+|.++++.|++ |+.+|||||+++++|+|+|++++||+||+|+
T Consensus       402 ~~~l~~~L~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~R~~~~~~F~~~g~~~vLvaT~~~~~GlDlp~v~~VI~~d~p~  481 (555)
T 3tbk_A          402 VDALKKWIEENPALSFLKPGILTGRGRTNRATGMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVG  481 (555)
T ss_dssp             HHHHHHHHHHCGGGTTCCEEECCC--------------------------CCSEEEECCCTTCCEETTSCSEEEEESCCS
T ss_pred             HHHHHHHHhhCcCcCceeeeEEEecCCcccccccCHHHHHHHHHHHhcCCCeeEEEEcchhhcCCccccCCEEEEeCCCC
Confidence            999999998763    2        34455669999999999999999 9999999999999999999999999999999


Q ss_pred             CCC
Q 018574          352 NVF  354 (354)
Q Consensus       352 s~~  354 (354)
                      |+.
T Consensus       482 s~~  484 (555)
T 3tbk_A          482 NVI  484 (555)
T ss_dssp             SCC
T ss_pred             CHH
Confidence            973

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=100.00  E-value=2.8e-40  Score=315.21  Aligned_cols=305  Identities=15%  Similarity=0.218  Sum_probs=235.4

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhh-hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMP-IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT  110 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~-~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~  110 (354)
                      ..+|+++++++++.+.+++.||..|+++|.++++. +.+++++++.+|||+|||+++.++++..+...  +.+++|++|+
T Consensus         7 ~~~~~~l~l~~~~~~~l~~~g~~~l~~~Q~~~i~~~~~~~~~~lv~apTGsGKT~~~~l~il~~~~~~--~~~il~i~P~   84 (715)
T 2va8_A            7 WMPIEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKN--GGKAIYVTPL   84 (715)
T ss_dssp             CCBGGGSSSCHHHHHHHHTTSCCBCCHHHHHHHHTTTTTTCCEEEECCTTSCHHHHHHHHHHHHHHHS--CSEEEEECSC
T ss_pred             cCcHHHcCCCHHHHHHHHhCCCCCCCHHHHHHHHHHhcCCCcEEEEcCCCCcHHHHHHHHHHHHHHHC--CCeEEEEeCc
Confidence            35799999999999999999999999999999999 78899999999999999999999998776532  3579999999


Q ss_pred             HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc
Q 018574          111 RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       111 ~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      ++|+.|+++.++.+. ..++++..++|+.......  . ..++|+|+||+++...+......+.++++||+||+|.+.+.
T Consensus        85 r~La~q~~~~~~~~~-~~g~~v~~~~G~~~~~~~~--~-~~~~Iiv~Tpe~l~~~~~~~~~~l~~~~~vIiDE~H~l~~~  160 (715)
T 2va8_A           85 RALTNEKYLTFKDWE-LIGFKVAMTSGDYDTDDAW--L-KNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDP  160 (715)
T ss_dssp             HHHHHHHHHHHGGGG-GGTCCEEECCSCSSSCCGG--G-GGCSEEEECHHHHHHHHHHCCGGGGGEEEEEECSGGGGGCT
T ss_pred             HHHHHHHHHHHHHhh-cCCCEEEEEeCCCCCchhh--c-CCCCEEEEcHHHHHHHHhCChhHhhccCEEEEechhhcCCc
Confidence            999999999996443 3478888888876654432  2 35899999999999988876666789999999999998877


Q ss_pred             CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCccccc---------CceeEEE-------Eec
Q 018574          191 GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLE---------GIKQFFV-------AVE  254 (354)
Q Consensus       191 ~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~-------~~~  254 (354)
                      .+...+..++..++ +.|++++|||+++. ..+.. ++..+. +..........         .......       .+.
T Consensus       161 ~~~~~l~~i~~~~~-~~~ii~lSATl~n~-~~~~~-~l~~~~-~~~~~r~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  236 (715)
T 2va8_A          161 ERGPVVESVTIRAK-RRNLLALSATISNY-KQIAK-WLGAEP-VATNWRPVPLIEGVIYPERKKKEYNVIFKDNTTKKVH  236 (715)
T ss_dssp             TTHHHHHHHHHHHH-TSEEEEEESCCTTH-HHHHH-HHTCEE-EECCCCSSCEEEEEEEECSSTTEEEEEETTSCEEEEE
T ss_pred             ccchHHHHHHHhcc-cCcEEEEcCCCCCH-HHHHH-HhCCCc-cCCCCCCCCceEEEEecCCcccceeeecCcchhhhcc
Confidence            77888888877765 88999999999752 33333 332211 11111000000         0000000       011


Q ss_pred             cccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCC------------------------------------Ce
Q 018574          255 REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYN------------------------------------FT  298 (354)
Q Consensus       255 ~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~------------------------------------~~  298 (354)
                      ........+.+.+.  .++++||||+++++++.++..|.+..                                    ..
T Consensus       237 ~~~~~~~~~~~~~~--~~~~~LVF~~s~~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~~  314 (715)
T 2va8_A          237 GDDAIIAYTLDSLS--KNGQVLVFRNSRKMAESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSDEKELLKSLISKG  314 (715)
T ss_dssp             SSSHHHHHHHHHHT--TTCCEEEECSSHHHHHHHHHHHHHTTTSSCCCHHHHHHHHHHHHTCCSSCHHHHHHHHHHHTTT
T ss_pred             cchHHHHHHHHHHh--cCCCEEEEECCHHHHHHHHHHHHHHHhhccCChHHHHHHHHHHHHhhhccccccHHHHHHHhcC
Confidence            11224455555554  45899999999999999999997642                                    24


Q ss_pred             EEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe----cC
Q 018574          299 VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF----LF  348 (354)
Q Consensus       299 ~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~----~~  348 (354)
                      +..+||+++.++|..+++.|++|+.+|||||+++++|+|+|++++||+    ||
T Consensus       315 v~~~h~~l~~~~r~~v~~~f~~g~~~vlvaT~~l~~Gidip~~~~VI~~~~~~d  368 (715)
T 2va8_A          315 VAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFN  368 (715)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHTTCSCEEEECGGGGGSSCCCBSEEEECCC----
T ss_pred             EEEECCCCCHHHHHHHHHHHHcCCCeEEEEChHHhcccCCCceEEEEeCCeecc
Confidence            889999999999999999999999999999999999999999999999    88

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=100.00  E-value=4.5e-41  Score=320.56  Aligned_cols=299  Identities=16%  Similarity=0.231  Sum_probs=235.5

Q ss_pred             CcccCCCCHHHHHHHHHCCCCCChHHHHHhHhh-hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMP-IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        34 ~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~-~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      +|+++++++.+.+.+++.|+..|+++|.++++. +.+++++++.+|||+|||.++.++++..+...  +.+++|++|+++
T Consensus         2 ~f~~l~l~~~~~~~l~~~g~~~l~~~Q~~~i~~~~~~~~~~lv~apTGsGKT~~~~l~il~~~~~~--~~~~l~i~P~ra   79 (720)
T 2zj8_A            2 RVDELRVDERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQ--GGKAVYIVPLKA   79 (720)
T ss_dssp             BGGGCCSCHHHHHHHHHTTCCBCCHHHHHHHTTTGGGTCEEEEECCGGGCHHHHHHHHHHHHHHHH--CSEEEEECSSGG
T ss_pred             cHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCcEEEEcCCccHHHHHHHHHHHHHHHhC--CCEEEEEcCcHH
Confidence            689999999999999999999999999999998 88899999999999999999999998776532  357999999999


Q ss_pred             HHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc
Q 018574          113 LATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF  192 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~  192 (354)
                      |+.|+++.++.+. ..++++..++|+.......   ...++|+|+||+++...+......+.++++||+||+|.+.+...
T Consensus        80 La~q~~~~~~~l~-~~g~~v~~~~G~~~~~~~~---~~~~~Iiv~Tpe~l~~~~~~~~~~l~~~~~vIiDE~H~l~~~~r  155 (720)
T 2zj8_A           80 LAEEKFQEFQDWE-KIGLRVAMATGDYDSKDEW---LGKYDIIIATAEKFDSLLRHGSSWIKDVKILVADEIHLIGSRDR  155 (720)
T ss_dssp             GHHHHHHHTGGGG-GGTCCEEEECSCSSCCCGG---GGGCSEEEECHHHHHHHHHHTCTTGGGEEEEEEETGGGGGCTTT
T ss_pred             HHHHHHHHHHHHH-hcCCEEEEecCCCCccccc---cCCCCEEEECHHHHHHHHHcChhhhhcCCEEEEECCcccCCCcc
Confidence            9999999996554 3478888888876554332   23589999999999988887666678899999999999988778


Q ss_pred             HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEE-----Eecc-----ccchHHH
Q 018574          193 KDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFV-----AVER-----EEWKFDT  262 (354)
Q Consensus       193 ~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~-----~~~~~~~  262 (354)
                      ...+..++..++.+.|++++|||+++. ..+. .++.... +.....   +..+...+.     ....     .......
T Consensus       156 ~~~~~~ll~~l~~~~~ii~lSATl~n~-~~~~-~~l~~~~-~~~~~r---p~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  229 (720)
T 2zj8_A          156 GATLEVILAHMLGKAQIIGLSATIGNP-EELA-EWLNAEL-IVSDWR---PVKLRRGVFYQGFVTWEDGSIDRFSSWEEL  229 (720)
T ss_dssp             HHHHHHHHHHHBTTBEEEEEECCCSCH-HHHH-HHTTEEE-EECCCC---SSEEEEEEEETTEEEETTSCEEECSSTTHH
T ss_pred             cHHHHHHHHHhhcCCeEEEEcCCcCCH-HHHH-HHhCCcc-cCCCCC---CCcceEEEEeCCeeeccccchhhhhHHHHH
Confidence            888888888877789999999999752 3333 3333211 111100   000111100     0111     1224455


Q ss_pred             HHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC---------------------------------CCeEEEeecCCCHH
Q 018574          263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY---------------------------------NFTVSSMHGDMPQK  309 (354)
Q Consensus       263 l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~---------------------------------~~~~~~~~~~~~~~  309 (354)
                      +.+.+.  .++++||||++++.++.++..|.+.                                 ...+..+||+++.+
T Consensus       230 ~~~~~~--~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~l~~~~~~~v~~~h~~l~~~  307 (720)
T 2zj8_A          230 VYDAIR--KKKGALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGVAFHHAGLGRD  307 (720)
T ss_dssp             HHHHHH--TTCCEEEECSCHHHHHHHHHHHHHHHGGGSCHHHHHHHHHHHHTSCSCHHHHHHHHHHTTTEEEECTTSCHH
T ss_pred             HHHHHh--CCCCEEEEecCHHHHHHHHHHHHHHHHHhcChhhHHHHHHHHHHHhcccchHHHHHHHhcCeeeecCCCCHH
Confidence            555554  3589999999999999999998753                                 12488999999999


Q ss_pred             HHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          310 ERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       310 ~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      +|..+++.|++|+.+|||||+++++|+|+|++++||+
T Consensus       308 ~R~~v~~~f~~g~~~vlvaT~~l~~Gvdip~~~~VI~  344 (720)
T 2zj8_A          308 ERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIR  344 (720)
T ss_dssp             HHHHHHHHHHTTSSCEEEECSTTGGGCCCCBSEEEEC
T ss_pred             HHHHHHHHHHCCCCeEEEECcHhhccCCCCceEEEEc
Confidence            9999999999999999999999999999999999999

>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos}

Probab=100.00  E-value=1.1e-40  Score=320.76  Aligned_cols=304  Identities=17%  Similarity=0.215  Sum_probs=191.3

Q ss_pred             HCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCC--ceeEEEEcCCHHHHHHHHHHHHHhccC
Q 018574           50 QYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSR--EVQALILSPTRELATQTEKVILAIGDF  127 (354)
Q Consensus        50 ~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~--~~~~lil~p~~~l~~q~~~~~~~~~~~  127 (354)
                      .+|+..|+++|.++++.++.|+++++.+|||+|||.+++++++..+.....  +.++||++|+++|+.||.+.++++...
T Consensus       243 ~~g~~~l~~~Q~~~i~~~l~~~~~ll~~~TGsGKTl~~~~~i~~~l~~~~~~~~~~~Lvl~Pt~~L~~Q~~~~~~~~~~~  322 (797)
T 4a2q_A          243 VYETKKARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFER  322 (797)
T ss_dssp             -----CCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHGG
T ss_pred             hcCCCCCCHHHHHHHHHHHhCCCEEEEeCCCChHHHHHHHHHHHHHHhccccCCCeEEEEeCCHHHHHHHHHHHHHhccc
Confidence            457889999999999999999999999999999999999999988866432  567999999999999999999999887


Q ss_pred             cCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCc-cCCCccEEEEecchhhhccCc-HHHHHHHHhh---
Q 018574          128 INIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL-RTRAIKLLVLDESDEMLSRGF-KDQIYDVYRY---  202 (354)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~-~~~~~~~vvvDE~h~~~~~~~-~~~~~~i~~~---  202 (354)
                      .++.+..++|+.........+..+++|+|+||+++.+.+....+ .+.++++||+||||++...+. ...+..+...   
T Consensus       323 ~~~~v~~~~g~~~~~~~~~~~~~~~~Ivv~Tp~~l~~~l~~~~~~~~~~~~~iViDEaH~~~~~~~~~~i~~~~~~~~~~  402 (797)
T 4a2q_A          323 QGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFN  402 (797)
T ss_dssp             GTCCEEEECCC-----CHHHHHHTCSEEEECHHHHHHHHHSSSCCCGGGCSEEEETTGGGCSTTSHHHHHHHHHHHHHHT
T ss_pred             CCceEEEEeCCcchhhhHHHhhCCCCEEEEchHHHHHHHHhccccccccCCEEEEECccccCCCccHHHHHHHHHHHhhc
Confidence            78999999999877766666667799999999999998887766 678899999999999876643 3333233322   


Q ss_pred             -CCCCCcEEEEEeeCch-----------hHHHHHH------------------hccCCCeEEEecCCcccccC-------
Q 018574          203 -LPPDLQVVLISATLPH-----------EILEMTT------------------KFMTDPVKILVKRDELTLEG-------  245 (354)
Q Consensus       203 -~~~~~~~i~lSaT~~~-----------~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~-------  245 (354)
                       ..+..+++++|||+..           .+..+..                  .+...+..............       
T Consensus       403 ~~~~~~~~l~lSATp~~~~~~~~~~~~~~i~~l~~~L~~~~i~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  482 (797)
T 4a2q_A          403 SASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISN  482 (797)
T ss_dssp             TCCCCCEEEEEESCCCCTTCCSHHHHHHHHHHHHHHHTCSEEECCCTTHHHHHHHSCCCCCEEEECCCCSCCHHHHHHHH
T ss_pred             cCCCCCeEEEEcCCccccccccHHHHHHHHHHHHHhcCCcEEecccccHHHHHHhcCCCceEEEecCCCCCcHHHHHHHH
Confidence             1456899999999952           1111111                  11122211111000000000       


Q ss_pred             --------ceeE--------E--EEe------------------------------------------------------
Q 018574          246 --------IKQF--------F--VAV------------------------------------------------------  253 (354)
Q Consensus       246 --------~~~~--------~--~~~------------------------------------------------------  253 (354)
                              ....        .  ...                                                      
T Consensus       483 l~~~i~~~~~~~~~l~~l~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~  562 (797)
T 4a2q_A          483 LMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYNDALIISEDA  562 (797)
T ss_dssp             HHHHHHHHHHHC------------CCSSHHHHHHHHHHHHHHHHCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHhhHHhhhhccccccchhHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence                    0000        0  000                                                      


Q ss_pred             ----------------------------------------------ccccchHHHHHHHHhh----CCCCcEEEEcCchh
Q 018574          254 ----------------------------------------------EREEWKFDTLCDLYDT----LTITQAVIFCNTKR  283 (354)
Q Consensus       254 ----------------------------------------------~~~~~~~~~l~~~l~~----~~~~~~lvf~~~~~  283 (354)
                                                                    .....+...+..++..    ..++++||||++++
T Consensus       563 ~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~K~~~L~~lL~~~~~~~~~~kvLIF~~~~~  642 (797)
T 4a2q_A          563 RIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRA  642 (797)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHTTHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHHCSSCCEEEEESSHH
T ss_pred             cHHHHHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHhhcCCCCCChHHHHHHHHHHHHhccCCCCeEEEEECcHH
Confidence                                                          0012244455555543    55689999999999


Q ss_pred             hHHHHHHHHhcC------------CCeEEEeecCCCHHHHHHHHHHHhC-CCCcEEEEccccccCCCcCCCcEEEecCCC
Q 018574          284 KVDWLTEKMRGY------------NFTVSSMHGDMPQKERDAIMGEFRS-GTTRVLITTDVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       284 ~~~~l~~~l~~~------------~~~~~~~~~~~~~~~r~~~~~~f~~-g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      .++.++..|++.            |.....+||+++..+|.++++.|++ |+.+|||||+++++|+|+|++++||+||+|
T Consensus       643 ~~~~L~~~L~~~~~~~~~~~~~l~G~~~~~~hg~~~~~eR~~~l~~F~~~g~~~vLVaT~~~~~GIDlp~v~~VI~yd~p  722 (797)
T 4a2q_A          643 LVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYS  722 (797)
T ss_dssp             HHHHHHHHHHTCSTTCSCCCEEC----------------------------CCSEEEEECC-------CCCSEEEEESCC
T ss_pred             HHHHHHHHHHhCcccccccceEEEecCCcccCCCCCHHHHHHHHHHhhccCCceEEEEcCchhcCCCchhCCEEEEeCCC
Confidence            999999999763            4556667888999999999999999 999999999999999999999999999999


Q ss_pred             CCC
Q 018574          351 CNV  353 (354)
Q Consensus       351 ~s~  353 (354)
                      +|+
T Consensus       723 ~s~  725 (797)
T 4a2q_A          723 GNV  725 (797)
T ss_dssp             SCH
T ss_pred             CCH
Confidence            985

>4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A

Probab=100.00  E-value=7.2e-41  Score=327.49  Aligned_cols=285  Identities=18%  Similarity=0.240  Sum_probs=229.1

Q ss_pred             HHHHH-HCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHH
Q 018574           45 LRGIY-QYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        45 ~~~l~-~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      .+.+. .+|| +|+++|.++++.+++|+++++.+|||+|||.+++.+++..+   ..+.++||++|+++|+.|+.+.+..
T Consensus        68 ~~~~~~~~gf-~pt~iQ~~ai~~il~g~dvlv~ApTGSGKTl~~l~~il~~~---~~~~~~Lil~PtreLa~Q~~~~l~~  143 (1104)
T 4ddu_A           68 RSFFKKKFGK-DLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA---RKGKKSALVFPTVTLVKQTLERLQK  143 (1104)
T ss_dssp             HHHHHHHSSS-CCCHHHHHHHHHHTTTCCEEECCSTTCCHHHHHHHHHHHHH---TTTCCEEEEESSHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCC-CCCHHHHHHHHHHHcCCCEEEEeCCCCcHHHHHHHHHHHHH---hcCCeEEEEechHHHHHHHHHHHHH
Confidence            33443 3688 79999999999999999999999999999998888887776   3345799999999999999999999


Q ss_pred             hccCcCeEEEEEeCCcch---HHhHHhhcCC-CeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc----------
Q 018574          124 IGDFINIQAHACVGGKSV---GEDIRKLEHG-VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS----------  189 (354)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~---~~~~~~~~~~-~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~----------  189 (354)
                      ++ ..++++..++|+.+.   ......+..+ ++|+|+||++|.+++..  +...++++||+||+|++..          
T Consensus       144 l~-~~~i~v~~l~Gg~~~~er~~~~~~l~~g~~~IlV~Tp~rL~~~l~~--l~~~~l~~lViDEaH~l~~~~r~~Dr~L~  220 (1104)
T 4ddu_A          144 LA-DEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSKNREK--LSQKRFDFVFVDDVDAVLKASRNIDTLLM  220 (1104)
T ss_dssp             TS-CTTSCEEEECTTCCTTHHHHHHHHHHTSCCSEEEEEHHHHHHSHHH--HHTSCCSEEEESCHHHHTTSSHHHHHHHH
T ss_pred             hh-CCCCeEEEEeCCCCHHHHHHHHHHHhCCCCCEEEECHHHHHHHHHh--hcccCcCEEEEeCCCccccccccchhhhH
Confidence            77 778899999999877   5556666665 99999999999877664  5567899999999987654          


Q ss_pred             -cCcHHH-HHHHHhhCC-----------CCCcEEEEEeeC-chhHH-HHHHhccCCCeEEEecCCcccccCceeEEEEec
Q 018574          190 -RGFKDQ-IYDVYRYLP-----------PDLQVVLISATL-PHEIL-EMTTKFMTDPVKILVKRDELTLEGIKQFFVAVE  254 (354)
Q Consensus       190 -~~~~~~-~~~i~~~~~-----------~~~~~i~lSaT~-~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (354)
                       .+|... +..+++.++           .+.|++++|||+ +.... ......+.    +..........++.+.+... 
T Consensus       221 ~~gf~~~~i~~il~~l~~~~~~~~~~~~~~~q~ll~SAT~~p~~~~~~~~~~~l~----i~v~~~~~~~~~i~~~~~~~-  295 (1104)
T 4ddu_A          221 MVGIPEEIIRKAFSTIKQGKIYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLN----FTVGRLVSVARNITHVRISS-  295 (1104)
T ss_dssp             TSSCCHHHHHHHHHHHHHTSCCCCCSSCCCCEEEEECBSSCCCSSTTHHHHHHTC----CCCCBCCCCCCCEEEEEESC-
T ss_pred             hcCCCHHHHHHHHHhcccchhhhhhccCCCceEEEEcCCCCcHHHHHHHhhccee----EEeccCCCCcCCceeEEEec-
Confidence             566666 778887766           789999999994 44332 22223222    22223334455666666554 


Q ss_pred             cccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEE-EeecCCCHHHHHHHHHHHhCCCCcEEEE----c
Q 018574          255 REEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS-SMHGDMPQKERDAIMGEFRSGTTRVLIT----T  329 (354)
Q Consensus       255 ~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~-~~~~~~~~~~r~~~~~~f~~g~~~vlv~----T  329 (354)
                         .+...+..++... ++++||||++++.++.++..|+..++.+. .+||     +|.+ ++.|++|+.+||||    |
T Consensus       296 ---~k~~~L~~ll~~~-~~~~LVF~~s~~~a~~l~~~L~~~g~~~~~~lhg-----~rr~-l~~F~~G~~~VLVatas~T  365 (1104)
T 4ddu_A          296 ---RSKEKLVELLEIF-RDGILIFAQTEEEGKELYEYLKRFKFNVGETWSE-----FEKN-FEDFKVGKINILIGVQAYY  365 (1104)
T ss_dssp             ---CCHHHHHHHHHHH-CSSEEEEESSSHHHHHHHHHHHHTTCCEEESSSS-----HHHH-HHHHHHTSCSEEEEETTTH
T ss_pred             ---CHHHHHHHHHHhc-CCCEEEEECcHHHHHHHHHHHHhCCCCeeeEecC-----cHHH-HHHHHCCCCCEEEEecCCC
Confidence               2556667777664 38999999999999999999999999998 9998     2555 99999999999999    9


Q ss_pred             cccccCCCcCC-CcEEEecCCCC
Q 018574          330 DVWARGLDVQQ-AILFFFLFLFC  351 (354)
Q Consensus       330 ~~~~~Gidi~~-~~~Vi~~~~p~  351 (354)
                      +++++|+|+|+ +++|||||+|.
T Consensus       366 dvlarGIDip~~V~~VI~~d~P~  388 (1104)
T 4ddu_A          366 GKLTRGVDLPERIKYVIFWGTPS  388 (1104)
T ss_dssp             HHHCCSCCCTTTCCEEEEESCCE
T ss_pred             CeeEecCcCCCCCCEEEEECCCC
Confidence            99999999999 99999999998

>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.4e-40  Score=325.54  Aligned_cols=306  Identities=18%  Similarity=0.247  Sum_probs=240.5

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      ...|...++++.+...+...+...|+++|.++++.+.+++++++.+|||+|||.+|.++++..+..   +.+++|++|++
T Consensus       161 ~~~~~~~~l~~~~~~~~~~~~~f~ltp~Q~~AI~~i~~g~dvLV~ApTGSGKTlva~l~i~~~l~~---g~rvlvl~Ptr  237 (1108)
T 3l9o_A          161 PPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKN---KQRVIYTSPIK  237 (1108)
T ss_dssp             SSCCCSSTTTTTCCCSCSSCCSSCCCHHHHHHHHHHTTTCCEEEECCSSSHHHHHHHHHHHHHHHT---TCEEEEEESSH
T ss_pred             CCCcccCCCChhhhHHHHHhCCCCCCHHHHHHHHHHHcCCCEEEECCCCCChHHHHHHHHHHHHhc---CCeEEEEcCcH
Confidence            346777777777777776666668999999999999999999999999999999999999988744   35699999999


Q ss_pred             HHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC
Q 018574          112 ELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG  191 (354)
Q Consensus       112 ~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~  191 (354)
                      +|+.|+++.+.....    .+..++|+...       ..+++|+|+||+.|.+.+......+.++++|||||||++.+.+
T Consensus       238 aLa~Q~~~~l~~~~~----~VglltGd~~~-------~~~~~IlV~Tpe~L~~~L~~~~~~l~~l~lVVIDEaH~l~d~~  306 (1108)
T 3l9o_A          238 ALSNQKYRELLAEFG----DVGLMTGDITI-------NPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKE  306 (1108)
T ss_dssp             HHHHHHHHHHHHHTS----SEEEECSSCBC-------CCSCSEEEEEHHHHHHHHHHCSSHHHHEEEEEEETGGGTTSHH
T ss_pred             HHHHHHHHHHHHHhC----CccEEeCcccc-------CCCCCEEEeChHHHHHHHHcCccccccCCEEEEhhhhhccccc
Confidence            999999999998774    45567777653       2458999999999999888877767889999999999999888


Q ss_pred             cHHHHHHHHhhCCCCCcEEEEEeeCchh--HHHHHHhccCCCeEEEecCCcccccCceeEEEE---------eccc----
Q 018574          192 FKDQIYDVYRYLPPDLQVVLISATLPHE--ILEMTTKFMTDPVKILVKRDELTLEGIKQFFVA---------VERE----  256 (354)
Q Consensus       192 ~~~~~~~i~~~~~~~~~~i~lSaT~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~----  256 (354)
                      +...+..++..++.+.|++++|||++..  ...........+..+........  .+.+++..         +...    
T Consensus       307 rg~~~e~ii~~l~~~~qvl~lSATipn~~e~a~~l~~~~~~~~~vi~~~~rp~--pl~~~~~~~~~~~~~~~vd~~~~~~  384 (1108)
T 3l9o_A          307 RGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRPT--PLQHYLFPAHGDGIYLVVDEKSTFR  384 (1108)
T ss_dssp             HHHHHHHHHHHSCTTSEEEEEECSCSSCHHHHHHHHHHTCSCEEEEEECCCSS--CEEEEEEETTSSCCEEEEETTTEEC
T ss_pred             hHHHHHHHHHhcCCCceEEEEcCCCCCHHHHHHHHHhhcCCCeEEEecCCCcc--cceEEEeecCCcceeeeeccccchh
Confidence            9999999999999999999999998764  33555555555554443332111  11111110         0000    


Q ss_pred             -----------------------------------------cchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC
Q 018574          257 -----------------------------------------EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY  295 (354)
Q Consensus       257 -----------------------------------------~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~  295 (354)
                                                               ......+...+.....+++||||++++.++.++..|...
T Consensus       385 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~li~~l~~~~~~~vIVF~~sr~~~e~la~~L~~~  464 (1108)
T 3l9o_A          385 EENFQKAMASISNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKL  464 (1108)
T ss_dssp             HHHHHHHHTTC-----------------------------CHHHHHHHHHHHHHTTCCCEEEEESCHHHHHHHHHHTCSH
T ss_pred             hhhHHHHHHHHHhhhcccccccccccccccccccccccccchhHHHHHHHHHHhcCCCCEEEEeCcHHHHHHHHHHHHhc
Confidence                                                     112333444555556679999999999999999998653


Q ss_pred             CCe---------------------------------------EEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCC
Q 018574          296 NFT---------------------------------------VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGL  336 (354)
Q Consensus       296 ~~~---------------------------------------~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  336 (354)
                      ++.                                       +..+||++++.+|..+++.|++|..+|||||+++++|+
T Consensus       465 ~~~~~~e~~~i~~~~~~~~~~l~~~d~~l~~~~~l~~~l~~gV~~~Hg~l~~~~R~~v~~~F~~G~ikVLVAT~vla~GI  544 (1108)
T 3l9o_A          465 DFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGL  544 (1108)
T ss_dssp             HHHCC----CHHHHGGGSCTHHHHHTTCCHHHHHHTHHHHHTEEEECSCSCHHHHHHHHHHHHHTCCCEEEEESCCCSCC
T ss_pred             cCCCHHHHHHHHHHHHHHHhhcchhhhhhhhHHHHHHhhhcCeeeecCCCCHHHHHHHHHHHhCCCCeEEEECcHHhcCC
Confidence            222                                       78899999999999999999999999999999999999


Q ss_pred             CcCCCcEEEecCCCCCC
Q 018574          337 DVQQAILFFFLFLFCNV  353 (354)
Q Consensus       337 di~~~~~Vi~~~~p~s~  353 (354)
                      |+|++++||+++.|.+.
T Consensus       545 DiP~v~~VI~~~~~~d~  561 (1108)
T 3l9o_A          545 NMPAKTVVFTSVRKWDG  561 (1108)
T ss_dssp             CC--CEEEESCSEEESS
T ss_pred             CCCCceEEEecCcccCc
Confidence            99999999999887653

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=100.00  E-value=1.3e-39  Score=298.60  Aligned_cols=295  Identities=19%  Similarity=0.240  Sum_probs=222.2

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      +|+++|.++++.++++ ++++.+|||+|||++++.++...+.  ..+.++||++|+++|+.||.+++.++.......+..
T Consensus         9 ~l~~~Q~~~i~~~~~~-~~ll~~~tG~GKT~~~~~~~~~~~~--~~~~~~liv~P~~~L~~q~~~~~~~~~~~~~~~v~~   85 (494)
T 1wp9_A            9 QPRIYQEVIYAKCKET-NCLIVLPTGLGKTLIAMMIAEYRLT--KYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIVA   85 (494)
T ss_dssp             CCCHHHHHHHHHGGGS-CEEEECCTTSCHHHHHHHHHHHHHH--HSCSCEEEECSSHHHHHHHHHHHHHHBCSCGGGEEE
T ss_pred             CccHHHHHHHHHHhhC-CEEEEcCCCCCHHHHHHHHHHHHHh--cCCCeEEEEECCHHHHHHHHHHHHHHhCcchhheEE
Confidence            7999999999999999 9999999999999999999888765  234579999999999999999999987544557888


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEe
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISA  214 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSa  214 (354)
                      ++|+....... .....++|+|+||+.+...+....+...++++||+||||++........+...+....+..+++++||
T Consensus        86 ~~g~~~~~~~~-~~~~~~~ivv~T~~~l~~~~~~~~~~~~~~~~vIiDEaH~~~~~~~~~~~~~~~~~~~~~~~~l~lTa  164 (494)
T 1wp9_A           86 LTGEKSPEERS-KAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTA  164 (494)
T ss_dssp             ECSCSCHHHHH-HHHHHCSEEEECHHHHHHHHHTTSCCTTSCSEEEEETGGGCSTTCHHHHHHHHHHHHCSSCCEEEEES
T ss_pred             eeCCcchhhhh-hhccCCCEEEecHHHHHHHHhcCCcchhhceEEEEECCcccCCCCcHHHHHHHHHhcCCCCeEEEEec
Confidence            88877655432 23335899999999999988877778889999999999999765444445555555567889999999


Q ss_pred             eCchh---HHHHHHhccCCCeEEEecCCcccc---cCceeEEEE------------------------------------
Q 018574          215 TLPHE---ILEMTTKFMTDPVKILVKRDELTL---EGIKQFFVA------------------------------------  252 (354)
Q Consensus       215 T~~~~---~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~------------------------------------  252 (354)
                      |+...   ...+...+................   ......+..                                    
T Consensus       165 Tp~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (494)
T 1wp9_A          165 SPGSTPEKIMEVINNLGIEHIEYRSENSPDVRPYVKGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAETGLLESSSP  244 (494)
T ss_dssp             CSCSSHHHHHHHHHHTTCCEEEECCTTSTTTGGGCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHTSSSCCCT
T ss_pred             CCCCCcHHHHHHHHhcChheeeccCCCcHHHHHhcCCCceeEEecCCcHHHHHHHHHHHHHHHHHHHHHHHhccccccCC
Confidence            99743   333333322211111100000000   000000000                                    


Q ss_pred             --------------------------------------------------------------------------------
Q 018574          253 --------------------------------------------------------------------------------  252 (354)
Q Consensus       253 --------------------------------------------------------------------------------  252 (354)
                                                                                                      
T Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  324 (494)
T 1wp9_A          245 DIPKKEVLRAGQIINEEMAKGNHDLRGLLLYHAMALKLHHAIELLETQGLSALRAYIKKLYEEAKAGSTKASKEIFSDKR  324 (494)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTCCSTTTHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTCCHHHHHHHTSHH
T ss_pred             CcchhHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHhhccccchhhhhhhhhHH
Confidence                                                                                            


Q ss_pred             -------------eccccchHHHHHHHHhh----CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeec--------CCC
Q 018574          253 -------------VEREEWKFDTLCDLYDT----LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHG--------DMP  307 (354)
Q Consensus       253 -------------~~~~~~~~~~l~~~l~~----~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~--------~~~  307 (354)
                                   ......+...+.+++..    ..++++||||++++.++.+++.|++.++.+..+||        +++
T Consensus       325 ~~~~~~~~~~~~~~~~~~~k~~~l~~~l~~~~~~~~~~k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~~~~~~  404 (494)
T 1wp9_A          325 MKKAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLS  404 (494)
T ss_dssp             HHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHHCTTCCEEEECSCHHHHHHHHHHHHHTTCCEEEECCSSCC-------
T ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhccCCCCeEEEEEccHHHHHHHHHHHHHcCCCcEEEeccccccccccCC
Confidence                         00122355566666665    46789999999999999999999999999999999        999


Q ss_pred             HHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          308 QKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       308 ~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ..+|.++++.|++|+.+|||+|+++++|+|+|++++||++|.|+|+
T Consensus       405 ~~~r~~~~~~F~~~~~~vLv~T~~~~~Gldl~~~~~Vi~~d~~~~~  450 (494)
T 1wp9_A          405 QREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSA  450 (494)
T ss_dssp             CCHHHHHHHHHHHTSCSEEEECGGGGGGGGSTTCCEEEESSCCHHH
T ss_pred             HHHHHHHHHHHhcCCceEEEECCccccCCCchhCCEEEEeCCCCCH
Confidence            9999999999999999999999999999999999999999999874

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A

Probab=100.00  E-value=8.6e-41  Score=317.73  Aligned_cols=301  Identities=16%  Similarity=0.201  Sum_probs=229.2

Q ss_pred             CcccCC--CCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           34 SFDAMG--IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        34 ~~~~~~--~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      +|++++  +++.+.+.+++.||..|+++|.++++.+.+++++++.+|||+|||.++.++++..+..   +.+++|++|++
T Consensus         2 ~f~~l~~~l~~~~~~~l~~~g~~~l~~~Q~~~i~~i~~~~~~lv~apTGsGKT~~~~l~il~~~~~---~~~~l~i~P~r   78 (702)
T 2p6r_A            2 KVEELAESISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIK---GGKSLYVVPLR   78 (702)
T ss_dssp             CSHHHHHHHHHHHHHHHHCC---CCCCCCHHHHHHHTTCSCEEEECSSHHHHHHHHHHHHHHHHHT---TCCEEEEESSH
T ss_pred             chhhhhhccCHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCcEEEEcCCccHHHHHHHHHHHHHHHh---CCcEEEEeCcH
Confidence            578888  9999999999999999999999999999999999999999999999999999887654   34699999999


Q ss_pred             HHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC
Q 018574          112 ELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG  191 (354)
Q Consensus       112 ~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~  191 (354)
                      +|+.|+++.++.+. ..++++..++|+......   ....++|+|+||+++...+......+.++++||+||+|.+.+.+
T Consensus        79 ~La~q~~~~~~~~~-~~g~~v~~~~G~~~~~~~---~~~~~~Iiv~Tpe~l~~~l~~~~~~l~~~~~vIiDE~H~l~~~~  154 (702)
T 2p6r_A           79 ALAGEKYESFKKWE-KIGLRIGISTGDYESRDE---HLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEK  154 (702)
T ss_dssp             HHHHHHHHHHTTTT-TTTCCEEEECSSCBCCSS---CSTTCSEEEEEHHHHHHHHHTTCSGGGGCCEEEETTGGGGGCTT
T ss_pred             HHHHHHHHHHHHHH-hcCCEEEEEeCCCCcchh---hccCCCEEEECHHHHHHHHHcChhHHhhcCEEEEeeeeecCCCC
Confidence            99999999996544 447888888887665432   12368999999999999888766657889999999999998777


Q ss_pred             cHHHHHHHHhhC---CCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCccccc-----CceeEEEEec----cccch
Q 018574          192 FKDQIYDVYRYL---PPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLE-----GIKQFFVAVE----REEWK  259 (354)
Q Consensus       192 ~~~~~~~i~~~~---~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~----~~~~~  259 (354)
                      ....+..++..+   +++.|++++|||+++ ...+.. ++..+. +..........     .....+....    .....
T Consensus       155 r~~~~~~ll~~l~~~~~~~~ii~lSATl~n-~~~~~~-~l~~~~-~~~~~r~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  231 (702)
T 2p6r_A          155 RGATLEILVTKMRRMNKALRVIGLSATAPN-VTEIAE-WLDADY-YVSDWRPVPLVEGVLCEGTLELFDGAFSTSRRVKF  231 (702)
T ss_dssp             THHHHHHHHHHHHHHCTTCEEEEEECCCTT-HHHHHH-HTTCEE-EECCCCSSCEEEEEECSSEEEEEETTEEEEEECCH
T ss_pred             cccHHHHHHHHHHhcCcCceEEEECCCcCC-HHHHHH-HhCCCc-ccCCCCCccceEEEeeCCeeeccCcchhhhhhhhH
Confidence            666666665544   578999999999985 233333 343221 11111111000     0000011000    00114


Q ss_pred             HHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC------------------------------CCeEEEeecCCCHH
Q 018574          260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY------------------------------NFTVSSMHGDMPQK  309 (354)
Q Consensus       260 ~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~------------------------------~~~~~~~~~~~~~~  309 (354)
                      ...+.+.+.  .++++||||+++++++.++..|.+.                              +..+..+||+++.+
T Consensus       232 ~~~~~~~~~--~~~~~LVF~~s~~~~~~~a~~L~~~~~~~~~~~~~~~~i~~~~~~~~~~~l~~~~~~~v~~~h~~l~~~  309 (702)
T 2p6r_A          232 EELVEECVA--ENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHHAGLLNG  309 (702)
T ss_dssp             HHHHHHHHH--TTCCEEEECSSHHHHHHHHHHHHHHHHTTCCCSSHHHHHHTTCCSHHHHHHHHHHHTTCCEECTTSCHH
T ss_pred             HHHHHHHHh--cCCCEEEEcCCHHHHHHHHHHHHHHHHhhcChHHHHHHHHhhccccccHHHHHHHhcCeEEecCCCCHH
Confidence            455555554  4589999999999999999988642                              13477899999999


Q ss_pred             HHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          310 ERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       310 ~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      +|..+++.|++|+.+|||||+++++|+|+|++++||+
T Consensus       310 ~R~~v~~~f~~g~~~vlvaT~~l~~Gidip~~~~VI~  346 (702)
T 2p6r_A          310 QRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVR  346 (702)
T ss_dssp             HHHHHHHHHHTTSCCEEEECSTTTSSSCCCBSEEEEC
T ss_pred             HHHHHHHHHHCCCCeEEEECcHHhccCCCCceEEEEc
Confidence            9999999999999999999999999999999999999

>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos}

Probab=100.00  E-value=5.3e-40  Score=319.13  Aligned_cols=308  Identities=18%  Similarity=0.221  Sum_probs=191.2

Q ss_pred             HHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCC--ceeEEEEcCCHHHHHHHHHHHHH
Q 018574           46 RGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSR--EVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        46 ~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~--~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      ....-.|+..|+++|.++++.++.|+++++.+|||+|||++++++++..+.....  +.++||++|+++|+.||.+.+++
T Consensus       239 ~~~~l~~~~~~r~~Q~~ai~~il~g~~~ll~a~TGsGKTl~~~~~i~~~l~~~~~~~~~~vLvl~Pt~~L~~Q~~~~~~~  318 (936)
T 4a2w_A          239 KPPPVYETKKARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKH  318 (936)
T ss_dssp             ---------CCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHTTTTTCCSSCCCCEEEECSSHHHHHHHHHHHHH
T ss_pred             CcccccCCCCCCHHHHHHHHHHHcCCCEEEEeCCCchHHHHHHHHHHHHHHhccccCCCeEEEEeCCHHHHHHHHHHHHH
Confidence            3333456779999999999999999999999999999999999999988766432  56799999999999999999999


Q ss_pred             hccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCc-cCCCccEEEEecchhhhccC-cHHHHHHHHh
Q 018574          124 IGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTL-RTRAIKLLVLDESDEMLSRG-FKDQIYDVYR  201 (354)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~-~~~~~~~vvvDE~h~~~~~~-~~~~~~~i~~  201 (354)
                      +....++.+..++|+.........+..+++|+|+||+++.+.+....+ .+.++++||+||||++...+ +...+..+..
T Consensus       319 ~~~~~~~~v~~~~G~~~~~~~~~~~~~~~~IvI~Tp~~L~~~l~~~~~~~l~~~~liViDEaH~~~~~~~~~~i~~~~~~  398 (936)
T 4a2w_A          319 HFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLE  398 (936)
T ss_dssp             HHHTTTCCEEEECCC-----CCHHHHHHCSEEEECHHHHHHHHHSSSCCCGGGCSEEEEETGGGCSTTCHHHHHHHHHHH
T ss_pred             HhcccCceEEEEECCcchhhHHHHhccCCCEEEecHHHHHHHHHcCccccccCCCEEEEECccccCCCccHHHHHHHHHH
Confidence            987778999999998866655455555689999999999998887666 67789999999999987654 3333333333


Q ss_pred             h----CCCCCcEEEEEeeCch-----------hHHHHHH------------------hccCCCeEEEecCCcccccC---
Q 018574          202 Y----LPPDLQVVLISATLPH-----------EILEMTT------------------KFMTDPVKILVKRDELTLEG---  245 (354)
Q Consensus       202 ~----~~~~~~~i~lSaT~~~-----------~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~---  245 (354)
                      .    ..+..+++++|||+..           .+..+..                  .+...+..............   
T Consensus       399 ~~~~~~~~~~~~l~LSATp~~~~~~~l~~~~~~i~~L~~~L~~~~i~~~~~~~~~l~~~~~~p~~~~~~~~~~~~~~~~~  478 (936)
T 4a2w_A          399 QKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAA  478 (936)
T ss_dssp             HHHTTCSCCCEEEEEESCCCCTTCCSHHHHHHHHHHHHHHHTCSEEECCCSSHHHHHHHSCCCCEEEEECCCCSCCHHHH
T ss_pred             HhhccCCCcCeEEEecCCcccccchhHHHHHHHHHHHHHhcCCceeecccccHHHHHHhccCCcceEEecccccCcHHHH
Confidence            2    1456889999999942           1111111                  11122221111111000000   


Q ss_pred             ------------------------cee----------EEEE---------------------------------------
Q 018574          246 ------------------------IKQ----------FFVA---------------------------------------  252 (354)
Q Consensus       246 ------------------------~~~----------~~~~---------------------------------------  252 (354)
                                              +..          +...                                       
T Consensus       479 ~l~~l~~~i~~~~~~~l~~~~l~~~~~~~~g~~~y~~~l~~l~k~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~al~i  558 (936)
T 4a2w_A          479 IISNLMSETEALMRTIAYVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYNDALII  558 (936)
T ss_dssp             HHHHHHHHHHHHHHHC------------CCSSHHHHHHHHHHHHHHHHCCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhccccccchHHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHhh
Confidence                                    000          0000                                       


Q ss_pred             -------------------------------------------------eccccchHHHHHHHHhh----CCCCcEEEEc
Q 018574          253 -------------------------------------------------VEREEWKFDTLCDLYDT----LTITQAVIFC  279 (354)
Q Consensus       253 -------------------------------------------------~~~~~~~~~~l~~~l~~----~~~~~~lvf~  279 (354)
                                                                       ......+...+..++..    ..++++||||
T Consensus       559 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~e~~l~~~~~~~~~~l~~~~~~~~~~~~K~~~L~~lL~~~~~~~~~~rvLIF~  638 (936)
T 4a2w_A          559 SEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFA  638 (936)
T ss_dssp             HHHSCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHTSTTCCCHHHHHHHHHHHHTTTSCTTCCEEEEE
T ss_pred             hcchhHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHhhhccCCCCHHHHHHHHHHHHHhccCCCCeEEEEe
Confidence                                                             00012244445555554    3457999999


Q ss_pred             CchhhHHHHHHHHhcC------------CCeEEEeecCCCHHHHHHHHHHHhC-CCCcEEEEccccccCCCcCCCcEEEe
Q 018574          280 NTKRKVDWLTEKMRGY------------NFTVSSMHGDMPQKERDAIMGEFRS-GTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       280 ~~~~~~~~l~~~l~~~------------~~~~~~~~~~~~~~~r~~~~~~f~~-g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      ++++.++.++..|++.            |.....+||+++..+|.++++.|++ |+.+|||||+++++|+|+|++++||+
T Consensus       639 ~t~~~ae~L~~~L~~~~~l~~ik~~~l~G~~~~~~hg~m~~~eR~~il~~Fr~~g~~~VLVaT~~~~eGIDlp~v~~VI~  718 (936)
T 4a2w_A          639 KTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVL  718 (936)
T ss_dssp             SSHHHHHHHHHHHHHCSTTSSCCCEEC----------------------------CCSEEEEECC------CCCCSEEEE
T ss_pred             CCHHHHHHHHHHHhhCccccccceeEEecCCCcccCCCCCHHHHHHHHHHhhccCCeeEEEEeCchhcCCcchhCCEEEE
Confidence            9999999999999875            4455566888999999999999999 99999999999999999999999999


Q ss_pred             cCCCCCC
Q 018574          347 LFLFCNV  353 (354)
Q Consensus       347 ~~~p~s~  353 (354)
                      ||+|+|+
T Consensus       719 yD~p~s~  725 (936)
T 4a2w_A          719 YEYSGNV  725 (936)
T ss_dssp             ESCCSCS
T ss_pred             eCCCCCH
Confidence            9999986

>4gl2_A Interferon-induced helicase C domain-containing P; MDA5, dsRNA, anti-viral signaling, RIG-I, MAVS, oligomerizat helicase, ATPase; HET: ANP; 3.56A {Homo sapiens}

Probab=100.00  E-value=2.7e-40  Score=315.39  Aligned_cols=298  Identities=16%  Similarity=0.238  Sum_probs=206.0

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC---CceeEEEEcCCHHHHHHH-HHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS---REVQALILSPTRELATQT-EKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~---~~~~~lil~p~~~l~~q~-~~~~~~~~~~~~~  130 (354)
                      .|+++|.++++.+++|+++++.+|||+|||++|+++++..+....   .+.++||++|+++|+.|| .+.++++... ++
T Consensus         7 ~l~~~Q~~~i~~il~g~~~ll~~~TGsGKTl~~~~~i~~~l~~~~~~~~~~~vlvl~P~~~L~~Q~~~~~l~~~~~~-~~   85 (699)
T 4gl2_A            7 QLRPYQMEVAQPALEGKNIIICLPTGCGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVEQLFRKEFQPFLKK-WY   85 (699)
T ss_dssp             CCCHHHHHHHHHHHSSCCEEECCCTTSCHHHHHHHHHHHHHHHHHHHTCCCCBCCEESCSHHHHHHHHHTHHHHHTT-TS
T ss_pred             CccHHHHHHHHHHHhCCCEEEEcCCCCcHHHHHHHHHHHHHHhccccCCCCeEEEEECCHHHHHHHHHHHHHHHcCc-Cc
Confidence            899999999999999999999999999999999999988765431   225699999999999999 9999998754 47


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHH------hcCCccCCCccEEEEecchhhhccC-cHHHHHHHHhh-
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMI------KRKTLRTRAIKLLVLDESDEMLSRG-FKDQIYDVYRY-  202 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~------~~~~~~~~~~~~vvvDE~h~~~~~~-~~~~~~~i~~~-  202 (354)
                      .+..+.|+.........+...++|+|+||+.|.+.+      ....+.+.++++||+||||++.... +...+..++.. 
T Consensus        86 ~v~~~~g~~~~~~~~~~~~~~~~Ilv~Tp~~L~~~l~~~~~~~~~~~~~~~~~lvViDEaH~~~~~~~~~~i~~~~l~~~  165 (699)
T 4gl2_A           86 RVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFSLIIIDECHHTNKEAVYNNIMRHYLMQK  165 (699)
T ss_dssp             CEEEEC----CCCCHHHHHHSCSEEEEEHHHHHHHTC--------CCCGGGCSEEEEESGGGCBTTBSSCSHHHHHHHHH
T ss_pred             eEEEEeCCcchhhHHHhhhcCCCEEEECHHHHHHHHhccccccccceecccCcEEEEECccccCccchHHHHHHHHHHhh
Confidence            888888887766555555567999999999999877      4445677889999999999985432 33333322221 


Q ss_pred             ---C---------CCCCcEEEEEeeCchh-----------HHHHHHhcc------------------CCCeEEEec-CCc
Q 018574          203 ---L---------PPDLQVVLISATLPHE-----------ILEMTTKFM------------------TDPVKILVK-RDE  240 (354)
Q Consensus       203 ---~---------~~~~~~i~lSaT~~~~-----------~~~~~~~~~------------------~~~~~~~~~-~~~  240 (354)
                         .         .+..+++++|||+...           +..+...+.                  ..|...... ...
T Consensus       166 ~~~~~~~~~~~~~~~~~~il~lTATp~~~~~~~~~~~~~~i~~l~~~l~~~~i~~~~~~~~~l~~~~~~p~~~~~~~~~~  245 (699)
T 4gl2_A          166 LKNNRLKKENKPVIPLPQILGLTASPGVGGATKQAKAEEHILKLCANLDAFTIKTVKENLDQLKNQIQEPCKKFAIADAT  245 (699)
T ss_dssp             HHHHHHHC----CCCCCEEEEECSCCCCCSCCSHHHHHHHHHHHHHHHTCSCCCCCCTTHHHHHHHSCCCEEEEEEEC--
T ss_pred             hcccccccccccCCCCCEEEEecccccccccccHHHHHHHHHHHHhhcCCCEEEeecCchHHHhhhcCCCceEEEEcccc
Confidence               1         1567899999999762           121211111                  111111100 000


Q ss_pred             cc-c---------------------cCce-eEEE----------------------------------------------
Q 018574          241 LT-L---------------------EGIK-QFFV----------------------------------------------  251 (354)
Q Consensus       241 ~~-~---------------------~~~~-~~~~----------------------------------------------  251 (354)
                      .. .                     .... ..|.                                              
T Consensus       246 ~~~~~~~~l~~l~~~i~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  325 (699)
T 4gl2_A          246 REDPFKEKLLEIMTRIQTYCQMSPMSDFGTQPYEQWAIQMEKKAAKEGNRKERVCAEHLRKYNEALQINDTIRMIDAYTH  325 (699)
T ss_dssp             ---CHHHHHHHHHHHHHHHHTCCCCSCSSSHHHHHHHHHHHHHHHHHTCTTTHHHHHHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             cCChHHHHHHHHHHHHHHHhccCcchhccchHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            00 0                     0000 0000                                              


Q ss_pred             -----------------------------------------------------EeccccchHHHHHHHHhhCC-CCcEEE
Q 018574          252 -----------------------------------------------------AVEREEWKFDTLCDLYDTLT-ITQAVI  277 (354)
Q Consensus       252 -----------------------------------------------------~~~~~~~~~~~l~~~l~~~~-~~~~lv  277 (354)
                                                                           .......-...+...+...+ ++++||
T Consensus       326 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~k~~~L~~~L~~~~~~~~~~~~~IV  405 (699)
T 4gl2_A          326 LETFYNEEKDKKFAVIEDDLKKPLKLDETDRFLMTLFFENNKMLKRLAENPEYENEKLTKLRNTIMEQYTRTEESARGII  405 (699)
T ss_dssp             HHHHHHHHHHHHC------------CCHHHHHHHHHHHHHHHHHHHHHTCCC----CSSCSHHHHHHHHHHSSSCCCEEE
T ss_pred             HHHHHHHHHhhhccccccccccccccchhHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhcCCCCCcEEE
Confidence                                                                 00000001122222233333 689999


Q ss_pred             EcCchhhHHHHHHHHhcC------CCeEEEeecC--------CCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcE
Q 018574          278 FCNTKRKVDWLTEKMRGY------NFTVSSMHGD--------MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAIL  343 (354)
Q Consensus       278 f~~~~~~~~~l~~~l~~~------~~~~~~~~~~--------~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~  343 (354)
                      ||++++.++.+++.|++.      |+++..+||+        ++..+|.++++.|++|+.+|||||+++++|+|+|++++
T Consensus       406 F~~s~~~~~~l~~~L~~~~~l~~~g~~~~~lhg~~~~~~~~~~~~~eR~~~~~~F~~g~~~VLVaT~~~~~GIDip~v~~  485 (699)
T 4gl2_A          406 FTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNI  485 (699)
T ss_dssp             ECSCHHHHHHHHHHHHSSCSCC-----CEECCCSCCCTTCCCCCHHHHHHHHHHHCC---CCSEEECSCCTTSCCCSCCC
T ss_pred             EECcHHHHHHHHHHHHhCccccccCcceEEEECCCCccCCCCCCHHHHHHHHHHHhcCCCcEEEEccccccCCccccCCE
Confidence            999999999999999987      8999999999        99999999999999999999999999999999999999


Q ss_pred             EEecCCCCCC
Q 018574          344 FFFLFLFCNV  353 (354)
Q Consensus       344 Vi~~~~p~s~  353 (354)
                      ||+||+|+|+
T Consensus       486 VI~~d~p~s~  495 (699)
T 4gl2_A          486 VIRYGLVTNE  495 (699)
T ss_dssp             CEEESCCCCH
T ss_pred             EEEeCCCCCH
Confidence            9999999985

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=100.00  E-value=8.1e-38  Score=303.64  Aligned_cols=285  Identities=19%  Similarity=0.288  Sum_probs=224.1

Q ss_pred             HHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccC
Q 018574           48 IYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDF  127 (354)
Q Consensus        48 l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~  127 (354)
                      ...++| +|+++|.++++.+.+++++++.+|||+|||.++.++++..+..   +.+++|++|+++|+.|+++.+..... 
T Consensus        80 ~~~~~f-~L~~~Q~eai~~l~~g~~vLV~apTGSGKTlva~lai~~~l~~---g~rvL~l~PtkaLa~Q~~~~l~~~~~-  154 (1010)
T 2xgj_A           80 ARTYPF-TLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKN---KQRVIYTSPIKALSNQKYRELLAEFG-  154 (1010)
T ss_dssp             SCCCSS-CCCHHHHHHHHHHHHTCEEEEECCTTSCHHHHHHHHHHHHHHT---TCEEEEEESSHHHHHHHHHHHHHHHS-
T ss_pred             HHhCCC-CCCHHHHHHHHHHHcCCCEEEECCCCCChHHHHHHHHHHHhcc---CCeEEEECChHHHHHHHHHHHHHHhC-
Confidence            344677 6999999999999999999999999999999999888877643   35799999999999999999988764 


Q ss_pred             cCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCC
Q 018574          128 INIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDL  207 (354)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~  207 (354)
                         .+..++|+....       ..++|+|+||+.|.+.+.+....+.++++||+||+|.+.+.+++..+..++..++.+.
T Consensus       155 ---~vglltGd~~~~-------~~~~IvV~Tpe~L~~~L~~~~~~l~~l~lVViDEaH~l~d~~rg~~~e~il~~l~~~~  224 (1010)
T 2xgj_A          155 ---DVGLMTGDITIN-------PDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKV  224 (1010)
T ss_dssp             ---CEEEECSSCEEC-------TTCSEEEEEHHHHHHHHHHTCTTGGGEEEEEEETGGGGGCTTTHHHHHHHHHHSCTTC
T ss_pred             ---CEEEEeCCCccC-------CCCCEEEEcHHHHHHHHHcCcchhhcCCEEEEechhhhcccchhHHHHHHHHhcCCCC
Confidence               566677776543       2479999999999988887777778999999999999998888888999999999999


Q ss_pred             cEEEEEeeCchhHH--HHHHhccCCCeEEEecCCcccccCceeEEEE---------eccc--------------------
Q 018574          208 QVVLISATLPHEIL--EMTTKFMTDPVKILVKRDELTLEGIKQFFVA---------VERE--------------------  256 (354)
Q Consensus       208 ~~i~lSaT~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~--------------------  256 (354)
                      |++++|||+++...  ..+......+..+.......  ..+.+++..         +...                    
T Consensus       225 ~il~LSATi~n~~e~a~~l~~~~~~~~~vi~~~~rp--~pl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  302 (1010)
T 2xgj_A          225 RYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRP--TPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISNQIG  302 (1010)
T ss_dssp             EEEEEECCCTTHHHHHHHHHHHHTSCEEEEEECCCS--SCEEEEEEETTSSCCEEEECTTCCBCHHHHHHHHHTCC----
T ss_pred             eEEEEcCCCCCHHHHHHHHHhhcCCCeEEEecCCCc--ccceEEEEecCCcceeeeeccccccchHHHHHHHHHHhhhhc
Confidence            99999999976422  23333334444443332211  111221111         0000                    


Q ss_pred             -------------------------cchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCe-------------
Q 018574          257 -------------------------EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT-------------  298 (354)
Q Consensus       257 -------------------------~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~-------------  298 (354)
                                               ......+...+......++||||+++..++.++..|...++.             
T Consensus       303 ~~~~~~~~~g~~~~~~k~~~~~~~~~~~l~~l~~~l~~~~~~~~IVF~~sr~~~e~la~~L~~~~~~~~~e~~~i~~~~~  382 (1010)
T 2xgj_A          303 DDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFN  382 (1010)
T ss_dssp             --------------------------CHHHHHHHHHHHHTCCSEEEEESSHHHHHHHHHTTTTSCCCCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccchHHHHHHHHHHHhcCCCCEEEEECCHHHHHHHHHHHHhCCCCChHHHHHHHHHHH
Confidence                                     112334445555555579999999999999999999775432             


Q ss_pred             --------------------------EEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe----cC
Q 018574          299 --------------------------VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF----LF  348 (354)
Q Consensus       299 --------------------------~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~----~~  348 (354)
                                                +..+||++++.+|..+++.|++|..+|||||+++++|+|+|++++||+    ||
T Consensus       383 ~~~~~l~~~d~~l~~~~~l~~~l~~gI~~~Hggl~~~eR~~ve~~F~~G~ikVLVAT~~la~GIDiP~~~vVI~~~~kfd  462 (1010)
T 2xgj_A          383 NAIALLPETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWD  462 (1010)
T ss_dssp             HHHTTSCGGGTTCHHHHHHHHHHHHTEEEESTTSCHHHHHHHHHHHHTTCCSEEEEEGGGGGSTTCCBSEEEESCSEEEC
T ss_pred             HHHHhcchhhhcchhHHHHHHHHhCCeeEECCCCCHHHHHHHHHHHhcCCCcEEEEehHhhccCCCCCceEEEeCCcccC
Confidence                                      788999999999999999999999999999999999999999999999    99


Q ss_pred             C
Q 018574          349 L  349 (354)
Q Consensus       349 ~  349 (354)
                      .
T Consensus       463 ~  463 (1010)
T 2xgj_A          463 G  463 (1010)
T ss_dssp             S
T ss_pred             C
Confidence            8

>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16 c.37.1.16 e.10.1.1 PDB: 1gl9_B*

Probab=100.00  E-value=5.6e-40  Score=321.42  Aligned_cols=281  Identities=17%  Similarity=0.240  Sum_probs=218.3

Q ss_pred             HHHHH-CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           46 RGIYQ-YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        46 ~~l~~-~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      +.+.+ +||. | ++|.++++.+++|+++++.+|||+|||. +.++++..+..  .++++||++|+++|+.|+.+.++.+
T Consensus        48 ~~~~~~~g~~-p-~iQ~~ai~~il~g~dvlv~apTGSGKTl-~~lp~l~~~~~--~~~~~lil~PtreLa~Q~~~~l~~l  122 (1054)
T 1gku_B           48 EFFRKCVGEP-R-AIQKMWAKRILRKESFAATAPTGVGKTS-FGLAMSLFLAL--KGKRCYVIFPTSLLVIQAAETIRKY  122 (1054)
T ss_dssp             HHHHTTTCSC-C-HHHHHHHHHHHTTCCEECCCCBTSCSHH-HHHHHHHHHHT--TSCCEEEEESCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCC-H-HHHHHHHHHHHhCCCEEEEcCCCCCHHH-HHHHHHHHHhh--cCCeEEEEeccHHHHHHHHHHHHHH
Confidence            44444 8998 9 9999999999999999999999999997 77777776654  3567999999999999999999999


Q ss_pred             ccCcCe----EEEEEeCCcchHHh---HHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHH
Q 018574          125 GDFINI----QAHACVGGKSVGED---IRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIY  197 (354)
Q Consensus       125 ~~~~~~----~~~~~~~~~~~~~~---~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~  197 (354)
                      +...++    .+..++|+.+...+   ...+.. ++|+|+||++|.+.+..    +.++++||+||||++.+  +...+.
T Consensus       123 ~~~~~i~~~~~v~~~~Gg~~~~~~~~~~~~l~~-~~IlV~TP~~L~~~l~~----L~~l~~lViDEah~~l~--~~~~~~  195 (1054)
T 1gku_B          123 AEKAGVGTENLIGYYHGRIPKREKENFMQNLRN-FKIVITTTQFLSKHYRE----LGHFDFIFVDDVDAILK--ASKNVD  195 (1054)
T ss_dssp             HTTTCCSGGGSEEECCSSCCSHHHHHHHHSGGG-CSEEEEEHHHHHHCSTT----SCCCSEEEESCHHHHHT--STHHHH
T ss_pred             HhhcCCCccceEEEEeCCCChhhHHHHHhhccC-CCEEEEcHHHHHHHHHH----hccCCEEEEeChhhhhh--ccccHH
Confidence            888788    88899998877653   344455 99999999999886664    55899999999999987  457777


Q ss_pred             HHHhhCC-----------CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHH
Q 018574          198 DVYRYLP-----------PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDL  266 (354)
Q Consensus       198 ~i~~~~~-----------~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  266 (354)
                      .++..+.           ...|.+++|||++.. ......+...+..+...........+.+.+..    ..+...+..+
T Consensus       196 ~i~~~lgf~~~~~~~~~~~~~q~~l~SAT~t~~-~~~~~~~~~~~~~i~v~~~~~~~~~i~~~~~~----~~k~~~L~~l  270 (1054)
T 1gku_B          196 KLLHLLGFHYDLKTKSWVGEARGCLMVSTATAK-KGKKAELFRQLLNFDIGSSRITVRNVEDVAVN----DESISTLSSI  270 (1054)
T ss_dssp             HHHHHTTEEEETTTTEEEECCSSEEEECCCCSC-CCTTHHHHHHHHCCCCSCCEECCCCEEEEEES----CCCTTTTHHH
T ss_pred             HHHHHhCcchhhhhhhcccCCceEEEEecCCCc-hhHHHHHhhcceEEEccCcccCcCCceEEEec----hhHHHHHHHH
Confidence            7777663           467899999999876 32222222222222223333334455555542    3356666777


Q ss_pred             HhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEE----ccccccCCCcCCC-
Q 018574          267 YDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT----TDVWARGLDVQQA-  341 (354)
Q Consensus       267 l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~----T~~~~~Gidi~~~-  341 (354)
                      ++.. ++++||||++++.++.+++.|++. +.+..+||++     .++++.|++|+.+||||    |+++++|+|+|+| 
T Consensus       271 l~~~-~~~~LVF~~t~~~a~~l~~~L~~~-~~v~~lhg~~-----~~~l~~F~~G~~~VLVaTas~Tdv~~rGIDip~VI  343 (1054)
T 1gku_B          271 LEKL-GTGGIIYARTGEEAEEIYESLKNK-FRIGIVTATK-----KGDYEKFVEGEIDHLIGTAHYYGTLVRGLDLPERI  343 (1054)
T ss_dssp             HTTS-CSCEEEEESSHHHHHHHHHTTTTS-SCEEECTTSS-----SHHHHHHHHTSCSEEEEECC------CCSCCTTTC
T ss_pred             Hhhc-CCCEEEEEcCHHHHHHHHHHHhhc-cCeeEEeccH-----HHHHHHHHcCCCcEEEEecCCCCeeEeccccCCcc
Confidence            7765 478999999999999999999988 8999999997     47789999999999999    8999999999996 


Q ss_pred             cEEEecCCC
Q 018574          342 ILFFFLFLF  350 (354)
Q Consensus       342 ~~Vi~~~~p  350 (354)
                      ++||++|+|
T Consensus       344 ~~VI~~~~P  352 (1054)
T 1gku_B          344 RFAVFVGCP  352 (1054)
T ss_dssp             CEEEEESCC
T ss_pred             cEEEEeCCC
Confidence            999999999

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=100.00  E-value=1.1e-37  Score=258.64  Aligned_cols=220  Identities=29%  Similarity=0.459  Sum_probs=199.5

Q ss_pred             cceeecccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC-
Q 018574           20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS-   98 (354)
Q Consensus        20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~-   98 (354)
                      ++.......+....+|.++++++.+.+.+.++||..|+++|.++++.+++|+++++.+|||+|||.+|++|++..+... 
T Consensus        16 ~i~~~~~~~p~~~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~g~~~l~~apTGsGKT~~~~l~~l~~l~~~~   95 (242)
T 3fe2_A           16 EITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQP   95 (242)
T ss_dssp             TEEEESSCCCCCCSSTTTTTCCHHHHHHHHTTTCCSCCHHHHHHHHHHHHTCCEEEEECTTSCHHHHHHHHHHHHHHTSC
T ss_pred             ceEEeCCCCCCccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCcCHHHHHHHHHHHHHHHhcc
Confidence            3344555677888999999999999999999999999999999999999999999999999999999999999877532 


Q ss_pred             ----CCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCC
Q 018574           99 ----SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTR  174 (354)
Q Consensus        99 ----~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~  174 (354)
                          ..++++||++|+++|+.|+.+.++.+....++.+..+.|+.........+..+++|+|+||+++.+.+......+.
T Consensus        96 ~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~v~Tp~~l~~~l~~~~~~~~  175 (242)
T 3fe2_A           96 FLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLR  175 (242)
T ss_dssp             CCCTTCCCSEEEECSSHHHHHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHCCSEEEECHHHHHHHHHHTSCCCT
T ss_pred             ccccCCCCEEEEEeCcHHHHHHHHHHHHHHHhhcCceEEEEECCCChHHHHHHhcCCCCEEEECHHHHHHHHHcCCCCcc
Confidence                3466799999999999999999999988888999999999988888887888899999999999999988888889


Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCC
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRD  239 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~  239 (354)
                      ++++||+||||++.+.+|...+..+++.++++.|++++|||+++....+...++.++..+.....
T Consensus       176 ~~~~lViDEah~l~~~~~~~~~~~i~~~~~~~~q~~~~SAT~~~~~~~~~~~~l~~~~~i~~~~~  240 (242)
T 3fe2_A          176 RTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGAL  240 (242)
T ss_dssp             TCCEEEETTHHHHHHTTCHHHHHHHHTTSCSSCEEEEEESCCCHHHHHHHHHHCSSCEEEEECC-
T ss_pred             cccEEEEeCHHHHhhhCcHHHHHHHHHhCCccceEEEEEeecCHHHHHHHHHHCCCCEEEEecCC
Confidence            99999999999999999999999999999999999999999999999999999999988876654

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=100.00  E-value=1.6e-36  Score=245.86  Aligned_cols=202  Identities=34%  Similarity=0.640  Sum_probs=186.1

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      .+|+++++++.+.+.+.++|+..|+++|.++++.+++++++++.+|||+|||.+++.+++..+.....+.+++|++|+++
T Consensus         3 ~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~lv~apTGsGKT~~~~~~~~~~~~~~~~~~~~lil~Pt~~   82 (206)
T 1vec_A            3 NEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIVPTRE   82 (206)
T ss_dssp             SSGGGSCCCHHHHHHHHTTTCCSCCHHHHHHHHHHHTTCCEEEECCSSSTTHHHHHHHHHHHCCTTSCSCCEEEECSCHH
T ss_pred             CChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHccCCCEEEECCCCCchHHHHHHHHHHHhcccCCCeeEEEEeCcHH
Confidence            57999999999999999999999999999999999999999999999999999999999988876666778999999999


Q ss_pred             HHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC
Q 018574          113 LATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG  191 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~  191 (354)
                      |+.|+.+.+..+.... +..+..+.++.........+..+++|+|+||+++...+......+.+++++|+||||++.+.+
T Consensus        83 L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~i~v~T~~~l~~~~~~~~~~~~~~~~lViDEah~~~~~~  162 (206)
T 1vec_A           83 LALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQD  162 (206)
T ss_dssp             HHHHHHHHHHHHTTTSSSCCEEEECSSSCHHHHHHHTTSCCSEEEECHHHHHHHHHTTCSCCTTCCEEEEETHHHHTSTT
T ss_pred             HHHHHHHHHHHHHhhcCCceEEEEeCCccHHHHHHhcCCCCCEEEeCHHHHHHHHHcCCcCcccCCEEEEEChHHhHhhC
Confidence            9999999999988766 788888999988877777777889999999999999888877778899999999999999989


Q ss_pred             cHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEE
Q 018574          192 FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKI  234 (354)
Q Consensus       192 ~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~  234 (354)
                      +...+..+...++++.|++++|||++.....+...++.+|..+
T Consensus       163 ~~~~l~~i~~~~~~~~~~l~~SAT~~~~~~~~~~~~l~~p~~i  205 (206)
T 1vec_A          163 FVQIMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEI  205 (206)
T ss_dssp             THHHHHHHHHHSCTTCEEEEEESCCCHHHHHHHHHHCSSCEEE
T ss_pred             cHHHHHHHHHhCCccceEEEEEeeCCHHHHHHHHHHcCCCeEe
Confidence            9999999999998899999999999999999999999888654

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=100.00  E-value=6.1e-38  Score=288.47  Aligned_cols=285  Identities=17%  Similarity=0.170  Sum_probs=211.8

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      +|+++|.++++.+++++++++.+|||+|||.+++.++...+...  +.++||++|+++|+.||.+.+.++....+..+..
T Consensus       113 ~l~~~Q~~ai~~~~~~~~~ll~~~tGsGKT~~~~~~~~~~~~~~--~~~vlvl~P~~~L~~Q~~~~~~~~~~~~~~~v~~  190 (510)
T 2oca_A          113 EPHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQALLARYYLENY--EGKILIIVPTTALTTQMADDFVDYRLFSHAMIKK  190 (510)
T ss_dssp             CCCHHHHHHHHHHHHHSEEEEECCSTTTHHHHHHHHHHHHHHHC--SSEEEEEESSHHHHHHHHHHHHHTTSSCGGGEEE
T ss_pred             CCCHHHHHHHHHHHhcCCcEEEeCCCCCHHHHHHHHHHHHHhCC--CCeEEEEECcHHHHHHHHHHHHHhhcCCccceEE
Confidence            89999999999999999999999999999999999888776543  2379999999999999999999987666677888


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEe
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISA  214 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSa  214 (354)
                      +.++......   ...+++|+|+|++.+..   .....+.++++||+||||++..    ..+..+++.+....+++++||
T Consensus       191 ~~~~~~~~~~---~~~~~~I~i~T~~~l~~---~~~~~~~~~~liIiDE~H~~~~----~~~~~il~~~~~~~~~l~lSA  260 (510)
T 2oca_A          191 IGGGASKDDK---YKNDAPVVVGTWQTVVK---QPKEWFSQFGMMMNDECHLATG----KSISSIISGLNNCMFKFGLSG  260 (510)
T ss_dssp             CGGGCCTTGG---GCTTCSEEEEEHHHHTT---SCGGGGGGEEEEEEETGGGCCH----HHHHHHGGGCTTCCEEEEEES
T ss_pred             EecCCccccc---cccCCcEEEEeHHHHhh---chhhhhhcCCEEEEECCcCCCc----ccHHHHHHhcccCcEEEEEEe
Confidence            8877665543   44568999999997643   2234456899999999999854    456777788878889999999


Q ss_pred             eCchhHHHHHH--hccCCCeEEEecCC------cccccCceeEEEEeccc--------------------cchHHHHHHH
Q 018574          215 TLPHEILEMTT--KFMTDPVKILVKRD------ELTLEGIKQFFVAVERE--------------------EWKFDTLCDL  266 (354)
Q Consensus       215 T~~~~~~~~~~--~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~--------------------~~~~~~l~~~  266 (354)
                      |++........  .++. +........      ......+.......+..                    ..+...+..+
T Consensus       261 Tp~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  339 (510)
T 2oca_A          261 SLRDGKANIMQYVGMFG-EIFKPVTTSKLMEDGQVTELKINSIFLRYPDEFTTKLKGKTYQEEIKIITGLSKRNKWIAKL  339 (510)
T ss_dssp             CGGGCSSCHHHHHHHHC-SEECCCCCC---------CCEEEEEEEECCHHHHHHHTTCCHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CCCCCcccHHHhHHhhC-CeEEeeCHHHHhhCCcCCCceEEEEeecCChHHhccccccchHHHHHHHhccHHHHHHHHHH
Confidence            99665322111  1111 111111111      01111111111111100                    0122334444


Q ss_pred             HhhC---CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEc-cccccCCCcCCCc
Q 018574          267 YDTL---TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT-DVWARGLDVQQAI  342 (354)
Q Consensus       267 l~~~---~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T-~~~~~Gidi~~~~  342 (354)
                      +...   ..++++|||+ .++++.+++.|++.+.++..+||+++..+|.++++.|++|+.+||||| +++++|+|+|+++
T Consensus       340 l~~~~~~~~~~~ivf~~-~~~~~~l~~~L~~~~~~v~~~~g~~~~~~r~~i~~~f~~g~~~vLv~T~~~~~~GiDip~v~  418 (510)
T 2oca_A          340 AIKLAQKDENAFVMFKH-VSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFSTGISVKNLH  418 (510)
T ss_dssp             HHHHHTTTCEEEEEESS-HHHHHHHHHHHHTTCSSEEEESSSTTHHHHHHHHHHHHHCCSCEEEEEHHHHHHSCCCCSEE
T ss_pred             HHHHHhcCCCeEEEEec-HHHHHHHHHHHHHcCCCeEEEECCCCHHHHHHHHHHHhCCCCCEEEEEcChhhcccccccCc
Confidence            4433   3345666666 899999999999988899999999999999999999999999999999 9999999999999


Q ss_pred             EEEecCCCCCC
Q 018574          343 LFFFLFLFCNV  353 (354)
Q Consensus       343 ~Vi~~~~p~s~  353 (354)
                      +||+++.|+|+
T Consensus       419 ~vi~~~~~~s~  429 (510)
T 2oca_A          419 HVVLAHGVKSK  429 (510)
T ss_dssp             EEEESSCCCSC
T ss_pred             EEEEeCCCCCH
Confidence            99999999885

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*

Probab=100.00  E-value=5.6e-37  Score=253.50  Aligned_cols=211  Identities=57%  Similarity=0.958  Sum_probs=179.4

Q ss_pred             ccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEE
Q 018574           26 TEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQAL  105 (354)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~l  105 (354)
                      +..++...+|+++++++.+.+.+..+||..|+++|.++++.+++++++++.+|||+|||.+|+++++..+.....+.++|
T Consensus        23 ~~~~~~~~~f~~l~l~~~l~~~l~~~g~~~~~~~Q~~ai~~i~~~~~~li~apTGsGKT~~~~l~~l~~l~~~~~~~~~l  102 (237)
T 3bor_A           23 SNWNEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIEFKETQAL  102 (237)
T ss_dssp             ----CCCCSGGGSCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEECCCSSHHHHHHHHHHHHHHCCTTSCSCCEE
T ss_pred             CCCCCccCChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHHHhcCCCceEE
Confidence            34456678999999999999999999999999999999999999999999999999999999999999887665667899


Q ss_pred             EEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCC-CeEEEeCcHHHHHHHhcCCccCCCccEEEEecc
Q 018574          106 ILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG-VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDES  184 (354)
Q Consensus       106 il~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~  184 (354)
                      |++|+++|+.|+.+.+++++...++.+..+.++.........+..+ ++|+|+||+++.+.+....+.+.++++||+|||
T Consensus       103 il~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~lViDEa  182 (237)
T 3bor_A          103 VLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEA  182 (237)
T ss_dssp             EECSSHHHHHHHHHHHHHHTTTTTCCEEEECC-------------CCCSEEEECHHHHHHHHHTTSSCSTTCCEEEEESH
T ss_pred             EEECcHHHHHHHHHHHHHHhhhcCceEEEEECCCchHHHHHHHhcCCCCEEEECHHHHHHHHHhCCcCcccCcEEEECCc
Confidence            9999999999999999999888888888888888776666666555 899999999999998887777888999999999


Q ss_pred             hhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEe
Q 018574          185 DEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILV  236 (354)
Q Consensus       185 h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~  236 (354)
                      |++.+.++...+..+++.++...|++++|||++++...+...++.+|..+..
T Consensus       183 h~~~~~~~~~~l~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~l~~p~~i~v  234 (237)
T 3bor_A          183 DEMLSRGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILV  234 (237)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCTTCEEEEECSSCCHHHHHHHHHHCSSCEEEC-
T ss_pred             hHhhccCcHHHHHHHHHhCCCCCeEEEEEEecCHHHHHHHHHHCCCCEEEEe
Confidence            9999999999999999999999999999999999999999999998876654

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=100.00  E-value=1.3e-36  Score=295.33  Aligned_cols=285  Identities=18%  Similarity=0.281  Sum_probs=221.4

Q ss_pred             HCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcC
Q 018574           50 QYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN  129 (354)
Q Consensus        50 ~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~  129 (354)
                      .++| +|+++|.++++.+++|+++++.+|||+|||+++++++...+..   +.+++|++|+++|+.|+++.+.+...  +
T Consensus        35 ~~~f-~l~~~Q~~aI~~il~g~~vlv~apTGsGKTlv~~~~i~~~~~~---g~~vlvl~PtraLa~Q~~~~l~~~~~--~  108 (997)
T 4a4z_A           35 SWPF-ELDTFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAMAHRN---MTKTIYTSPIKALSNQKFRDFKETFD--D  108 (997)
T ss_dssp             CCSS-CCCHHHHHHHHHHHTTCEEEEECCTTSCSHHHHHHHHHHHHHT---TCEEEEEESCGGGHHHHHHHHHTTC----
T ss_pred             hCCC-CCCHHHHHHHHHHHcCCCEEEEECCCCcHHHHHHHHHHHHHhc---CCeEEEEeCCHHHHHHHHHHHHHHcC--C
Confidence            3566 6899999999999999999999999999999988888776543   35699999999999999999987643  5


Q ss_pred             eEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcE
Q 018574          130 IQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV  209 (354)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~  209 (354)
                      +.+..++|+....       ..++|+|+||+.|.+.+......+.++++||+||+|++.++++...+..++..++++.++
T Consensus       109 ~~v~~l~G~~~~~-------~~~~IlV~Tpe~L~~~l~~~~~~l~~l~lvViDEaH~l~d~~~g~~~e~ii~~l~~~v~i  181 (997)
T 4a4z_A          109 VNIGLITGDVQIN-------PDANCLIMTTEILRSMLYRGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKF  181 (997)
T ss_dssp             CCEEEECSSCEEC-------TTSSEEEEEHHHHHHHHHHTCSGGGGEEEEEECCTTCCCTTCTTCCHHHHHHHSCTTCEE
T ss_pred             CeEEEEeCCCccC-------CCCCEEEECHHHHHHHHHhCchhhcCCCEEEEECcccccccchHHHHHHHHHhcccCCCE
Confidence            6777788876533       347999999999999888777777899999999999998888888899999999999999


Q ss_pred             EEEEeeCchhHHHHHHhc---cCCCeEEEecCCcccccCcee--------------------------------------
Q 018574          210 VLISATLPHEILEMTTKF---MTDPVKILVKRDELTLEGIKQ--------------------------------------  248 (354)
Q Consensus       210 i~lSaT~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~--------------------------------------  248 (354)
                      +++|||+++.. .+...+   ......+.......  ..+.+                                      
T Consensus       182 IlLSAT~~n~~-ef~~~l~~~~~~~~~vi~~~~r~--~pl~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  258 (997)
T 4a4z_A          182 ILLSATVPNTY-EFANWIGRTKQKNIYVISTPKRP--VPLEINIWAKKELIPVINQNSEFLEANFRKHKEILNGESAKGA  258 (997)
T ss_dssp             EEEECCCTTHH-HHHHHHHHHHTCCEEEEECSSCS--SCEEEEEEETTEEEEEECTTCCBCHHHHHHHHHHHC-------
T ss_pred             EEEcCCCCChH-HHHHHHhcccCCceEEEecCCCC--ccceEEEecCCcchhcccchhhhhHHHHHHHHHHhhccccccc
Confidence            99999987542 222222   11122111111100  00000                                      


Q ss_pred             ------------------------------------------------------EEEEeccccchHHHHHHHHhhCCCCc
Q 018574          249 ------------------------------------------------------FFVAVEREEWKFDTLCDLYDTLTITQ  274 (354)
Q Consensus       249 ------------------------------------------------------~~~~~~~~~~~~~~l~~~l~~~~~~~  274 (354)
                                                                            .+............+...+.....++
T Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~rg~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~l~~~~~~~  338 (997)
T 4a4z_A          259 PSKTDNGRGGSTARGGRGGSNTRDGRGGRGNSTRGGANRGGSRGAGAIGSNKRKFFTQDGPSKKTWPEIVNYLRKRELLP  338 (997)
T ss_dssp             ----------------------------------------------------------CCCCTTHHHHHHHHHHHTTCCS
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhHHHHHHHHHHhCCCCC
Confidence                                                                  00001112234667777788777789


Q ss_pred             EEEEcCchhhHHHHHHHHhcCCC---------------------------------------eEEEeecCCCHHHHHHHH
Q 018574          275 AVIFCNTKRKVDWLTEKMRGYNF---------------------------------------TVSSMHGDMPQKERDAIM  315 (354)
Q Consensus       275 ~lvf~~~~~~~~~l~~~l~~~~~---------------------------------------~~~~~~~~~~~~~r~~~~  315 (354)
                      +||||++++.++.++..|.+.++                                       .+..+||++++.+|..++
T Consensus       339 ~IVF~~sr~~~e~la~~L~~~~~~~~~e~~~i~~~~~~~~~~l~~~d~~l~~~~~l~~~l~~gi~~~H~gl~~~~R~~v~  418 (997)
T 4a4z_A          339 MVVFVFSKKRCEEYADWLEGINFCNNKEKSQIHMFIEKSITRLKKEDRDLPQILKTRSLLERGIAVHHGGLLPIVKELIE  418 (997)
T ss_dssp             EEEECSCHHHHHHHHHTTTTCCCCCHHHHHHHHHHHHHHHTTSCHHHHTCHHHHHHHHHHTTTEEEECTTSCHHHHHHHH
T ss_pred             EEEEECCHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhcchhhhcchhHHHHHHHhhcCeeeecCCCCHHHHHHHH
Confidence            99999999999999999977655                                       478999999999999999


Q ss_pred             HHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCC
Q 018574          316 GEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFC  351 (354)
Q Consensus       316 ~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~  351 (354)
                      +.|++|..+|||||+++++|+|+|+ ..||+.++|+
T Consensus       419 ~~F~~G~~kVLvAT~~~a~GIDiP~-~~VVi~~~~k  453 (997)
T 4a4z_A          419 ILFSKGFIKVLFATETFAMGLNLPT-RTVIFSSIRK  453 (997)
T ss_dssp             HHHHTTCCSEEEECTHHHHSCCCCC-SEEEESCSEE
T ss_pred             HHHHCCCCcEEEEchHhhCCCCCCC-ceEEEecccc
Confidence            9999999999999999999999999 6677766654

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=100.00  E-value=9.3e-37  Score=249.37  Aligned_cols=207  Identities=34%  Similarity=0.557  Sum_probs=186.1

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      ..+|+++++++.+.+.++++|+..|+++|.++++.+++++++++.+|||+|||.+|+++++..+.....+.++||++|++
T Consensus         3 ~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~lv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~   82 (219)
T 1q0u_A            3 ETQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPIMEKIKPERAEVQAVITAPTR   82 (219)
T ss_dssp             -CCGGGSCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHHTCCEEEECCSSHHHHHHHHHHHHHHCCTTSCSCCEEEECSSH
T ss_pred             CCCHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhCcCCceEEEEcCcH
Confidence            35799999999999999999999999999999999999999999999999999999999999887666677899999999


Q ss_pred             HHHHHHHHHHHHhccCc----CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhh
Q 018574          112 ELATQTEKVILAIGDFI----NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM  187 (354)
Q Consensus       112 ~l~~q~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~  187 (354)
                      +|+.|+.+.++++....    ++.+..+.|+.........+..+++|+|+||+++.+.+......+.++++||+||||++
T Consensus        83 ~L~~q~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~Iiv~Tp~~l~~~l~~~~~~~~~~~~lViDEah~~  162 (219)
T 1q0u_A           83 ELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLM  162 (219)
T ss_dssp             HHHHHHHHHHHHHHTTSCGGGCCCEEEECCCSHHHHTTCCCSSCCSEEEECHHHHHHHHHTTCCCGGGCCEEEECSHHHH
T ss_pred             HHHHHHHHHHHHHhhhcccccceEEEEEeCCCCHHHHHHHcCCCCCEEEeCHHHHHHHHHcCCCCcCcceEEEEcCchHH
Confidence            99999999999988665    67888888888776665556667899999999999988887777888999999999999


Q ss_pred             hccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecC
Q 018574          188 LSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKR  238 (354)
Q Consensus       188 ~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~  238 (354)
                      .+.++...+..++..++.+.|++++|||++.++..+...++.+|..+....
T Consensus       163 ~~~~~~~~l~~i~~~~~~~~~~l~~SAT~~~~~~~~~~~~~~~p~~~~~~~  213 (219)
T 1q0u_A          163 LDMGFITDVDQIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHVLE  213 (219)
T ss_dssp             HHTTCHHHHHHHHHTSCTTCEEEEEESCCCGGGHHHHHHHCSSCEEEECC-
T ss_pred             hhhChHHHHHHHHHhCCcccEEEEEecCCCHHHHHHHHHHcCCCeEEEeec
Confidence            999999999999999988999999999999999999999999998765443

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=100.00  E-value=1.4e-36  Score=252.56  Aligned_cols=208  Identities=33%  Similarity=0.543  Sum_probs=189.8

Q ss_pred             cccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc
Q 018574           29 VEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS  108 (354)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~  108 (354)
                      .....+|+++++++.+.+.++.+|+..|+++|.++++.+++++++++.+|||+|||.+|+++++..+.....+.++||++
T Consensus        39 ~~~~~~f~~l~l~~~l~~~l~~~g~~~~~~~Q~~~i~~i~~~~~~lv~a~TGsGKT~~~~~~il~~l~~~~~~~~~lil~  118 (249)
T 3ber_A           39 EEETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLT  118 (249)
T ss_dssp             HHHHCCTGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHHHHHSCCSSCEEEEC
T ss_pred             ccccCCHHHcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEEEcCCCCCchhHhHHHHHHHHhcCCCCceEEEEe
Confidence            34568899999999999999999999999999999999999999999999999999999999998887766667899999


Q ss_pred             CCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc-CCccCCCccEEEEecchhh
Q 018574          109 PTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDESDEM  187 (354)
Q Consensus       109 p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~-~~~~~~~~~~vvvDE~h~~  187 (354)
                      |+++|+.|+.+.++++....++.+..+.|+.....+...+..+++|+|+||+++.+.+.. ..+.+.++++||+||||++
T Consensus       119 Ptr~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~v~Tp~~l~~~l~~~~~~~l~~~~~lViDEah~l  198 (249)
T 3ber_A          119 PTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRI  198 (249)
T ss_dssp             SSHHHHHHHHHHHHHHHGGGTCCEEEECTTSCHHHHHHHHHTCCSEEEECHHHHHHHHHHSTTCCCTTCCEEEECSHHHH
T ss_pred             CCHHHHHHHHHHHHHHhccCCeeEEEEECCCChHHHHHHhcCCCCEEEECHHHHHHHHHcCCCcCccccCEEEEcChhhh
Confidence            999999999999999988888999999999887777777778899999999999988775 4566788999999999999


Q ss_pred             hccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEe
Q 018574          188 LSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILV  236 (354)
Q Consensus       188 ~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~  236 (354)
                      .+.++...+..++..++.+.|++++|||++..+..+...++.+|..+..
T Consensus       199 ~~~~~~~~l~~i~~~~~~~~~~l~~SAT~~~~v~~~~~~~l~~p~~i~v  247 (249)
T 3ber_A          199 LNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAV  247 (249)
T ss_dssp             HHTTCHHHHHHHHHSSCSSSEEEEEESSCCHHHHHHHHHHCSSCEEEEC
T ss_pred             hccChHHHHHHHHHhCCCCCeEEEEeccCCHHHHHHHHHHCCCCEEEEe
Confidence            9999999999999999989999999999999999999999999987654

>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=100.00  E-value=2.6e-36  Score=247.77  Aligned_cols=210  Identities=56%  Similarity=0.936  Sum_probs=181.3

Q ss_pred             cccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc
Q 018574           29 VEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS  108 (354)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~  108 (354)
                      +....+|+++++++.+.+.++.+|+..|+++|.++++.+++++++++.+|||+|||.+|+++++..+.....+.++||++
T Consensus        10 ~~~~~~f~~l~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~lv~~pTGsGKT~~~~~~~l~~l~~~~~~~~~lil~   89 (224)
T 1qde_A           10 DKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLA   89 (224)
T ss_dssp             CCCCCCGGGGTCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHHCCTTCCSCCEEEEC
T ss_pred             CcccCChhhcCCCHHHHHHHHHCCCCCCcHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHHhccCCCceEEEEE
Confidence            44567899999999999999999999999999999999999999999999999999999999999887766777899999


Q ss_pred             CCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhh
Q 018574          109 PTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML  188 (354)
Q Consensus       109 p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~  188 (354)
                      |+++|+.|+.+.+..+....++.+..+.|+.........+.. ++|+|+||+++.+.+........++++||+||||++.
T Consensus        90 Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~-~~iiv~Tp~~l~~~~~~~~~~~~~~~~iViDEah~~~  168 (224)
T 1qde_A           90 PTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD-AQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEML  168 (224)
T ss_dssp             SSHHHHHHHHHHHHHHTTTSCCCEEEECC----------CTT-CSEEEECHHHHHHHHHTTSSCCTTCCEEEEETHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhcccCceEEEEeCCcchHHHHhcCCC-CCEEEECHHHHHHHHHhCCcchhhCcEEEEcChhHHh
Confidence            999999999999999988888888888888776665554444 8999999999999888877778899999999999999


Q ss_pred             ccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCC
Q 018574          189 SRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRD  239 (354)
Q Consensus       189 ~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~  239 (354)
                      +.++...+..++..++++.|++++|||+++....+...++.+|..+.....
T Consensus       169 ~~~~~~~l~~i~~~~~~~~~~i~lSAT~~~~~~~~~~~~~~~p~~i~~~~~  219 (224)
T 1qde_A          169 SSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKD  219 (224)
T ss_dssp             HTTCHHHHHHHHHHSCTTCEEEEEESSCCHHHHHHHHHHCSSCEEEC----
T ss_pred             hhhhHHHHHHHHHhCCccCeEEEEEeecCHHHHHHHHHHCCCCEEEEecCC
Confidence            999999999999999999999999999999999999999999887765443

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19

Probab=100.00  E-value=1.3e-36  Score=254.18  Aligned_cols=218  Identities=31%  Similarity=0.503  Sum_probs=187.9

Q ss_pred             cccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC---------Cc
Q 018574           31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS---------RE  101 (354)
Q Consensus        31 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~---------~~  101 (354)
                      ...+|+++++++.+.+++...|+..|+++|.++++.+++++++++.+|||+|||.+|+++++..+....         .+
T Consensus        21 ~~~~f~~l~l~~~l~~~l~~~g~~~~~~~Q~~~i~~i~~~~~~l~~a~TGsGKT~~~~~~~l~~l~~~~~~~~~~~~~~~  100 (253)
T 1wrb_A           21 VIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAY  100 (253)
T ss_dssp             CCCSSGGGSCCCSTTTTTTTTTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHHHHTTCC------CCBC
T ss_pred             ccCCHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhhccccccccccCC
Confidence            678899999999999999999999999999999999999999999999999999999999998775432         23


Q ss_pred             eeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEE
Q 018574          102 VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVL  181 (354)
Q Consensus       102 ~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvv  181 (354)
                      +++||++|+++|+.|+.+.++.+....++.+..+.|+.....+...+..+++|+|+||+++.+.+......+.++++||+
T Consensus       101 ~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~Ivv~Tp~~l~~~l~~~~~~~~~~~~lVi  180 (253)
T 1wrb_A          101 PKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVL  180 (253)
T ss_dssp             CSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCSHHHHHHHSSCCSEEEECHHHHHHHHHTTSBCCTTCCEEEE
T ss_pred             ceEEEEECCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhCCCCCEEEECHHHHHHHHHcCCCChhhCCEEEE
Confidence            57999999999999999999999888888888999998888877778888999999999999998888778889999999


Q ss_pred             ecchhhhccCcHHHHHHHHhhC--CC--CCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCcee
Q 018574          182 DESDEMLSRGFKDQIYDVYRYL--PP--DLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ  248 (354)
Q Consensus       182 DE~h~~~~~~~~~~~~~i~~~~--~~--~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (354)
                      ||||++.+.+|...+..++..+  +.  +.|++++|||++++...+...++.++..+.........+++.+
T Consensus       181 DEah~~~~~~~~~~~~~i~~~~~~~~~~~~q~l~~SAT~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~i~q  251 (253)
T 1wrb_A          181 DEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQ  251 (253)
T ss_dssp             ETHHHHHHTTCHHHHHHHHHSSCCCCGGGCEEEEEESSCCHHHHHHHHHHCSSCEEEEEC-----------
T ss_pred             eCHHHHHhCchHHHHHHHHhhccCCCCCCcEEEEEEEeCCHHHHHHHHHHcCCCEEEEECCCCCCcCCcee
Confidence            9999999999999999999853  33  6799999999999999999999999988877766555555554

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19

Probab=100.00  E-value=2e-37  Score=292.03  Aligned_cols=290  Identities=20%  Similarity=0.235  Sum_probs=213.1

Q ss_pred             HHHHHHHHHCCCCCChHHHHHhHhhhhcC------CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHH
Q 018574           42 DDLLRGIYQYGFEKPSAIQQRAVMPIIKG------RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT  115 (354)
Q Consensus        42 ~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~------~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~  115 (354)
                      +.+.+.++.++| .|+++|.++++.+.++      .++++++|||+|||.+++++++..+..+   .+++|++|+++|+.
T Consensus       356 ~~~~~~~~~lpf-~lt~~Q~~ai~~I~~~l~~~~~~~~Ll~a~TGSGKTlvall~il~~l~~g---~qvlvlaPtr~La~  431 (780)
T 1gm5_A          356 KLAEEFIKSLPF-KLTNAQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNYEAG---FQTAFMVPTSILAI  431 (780)
T ss_dssp             HHHHHHHHHSSS-CCCHHHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHHHHHT---SCEEEECSCHHHHH
T ss_pred             HHHHHHHHhCCC-CCCHHHHHHHHHHHhhccccCCCcEEEEcCCCCCHHHHHHHHHHHHHHcC---CeEEEEeCcHHHHH
Confidence            455566678999 9999999999998874      5899999999999999999999887644   46999999999999


Q ss_pred             HHHHHHHHhccCcCeEEEEEeCCcchHHh---HHhhcC-CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC
Q 018574          116 QTEKVILAIGDFINIQAHACVGGKSVGED---IRKLEH-GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG  191 (354)
Q Consensus       116 q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~  191 (354)
                      |+++.+.++....++++..++|+....+.   ...+.. .++|+|+||+.+..     ...+.++++||+||+|++....
T Consensus       432 Q~~~~l~~~~~~~gi~v~~l~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~-----~~~~~~l~lVVIDEaHr~g~~q  506 (780)
T 1gm5_A          432 QHYRRTVESFSKFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALIQE-----DVHFKNLGLVIIDEQHRFGVKQ  506 (780)
T ss_dssp             HHHHHHHHHHTCSSCCEEECCSSSCHHHHHHHHHHHHSSCCCEEEECTTHHHH-----CCCCSCCCEEEEESCCCC----
T ss_pred             HHHHHHHHHhhhcCceEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHhh-----hhhccCCceEEecccchhhHHH
Confidence            99999999988888999999998766543   233444 48999999987743     4556789999999999963221


Q ss_pred             cHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHh-h-
Q 018574          192 FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD-T-  269 (354)
Q Consensus       192 ~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~-~-  269 (354)
                           ...+.......++++||||+.+....+..  ..+...............+...+   .... ....+...+. . 
T Consensus       507 -----r~~l~~~~~~~~vL~mSATp~p~tl~~~~--~g~~~~s~i~~~p~~r~~i~~~~---~~~~-~~~~l~~~i~~~l  575 (780)
T 1gm5_A          507 -----REALMNKGKMVDTLVMSATPIPRSMALAF--YGDLDVTVIDEMPPGRKEVQTML---VPMD-RVNEVYEFVRQEV  575 (780)
T ss_dssp             ------CCCCSSSSCCCEEEEESSCCCHHHHHHH--TCCSSCEEECCCCSSCCCCEECC---CCSS-THHHHHHHHHHHT
T ss_pred             -----HHHHHHhCCCCCEEEEeCCCCHHHHHHHH--hCCcceeeeeccCCCCcceEEEE---eccc-hHHHHHHHHHHHH
Confidence                 11222233568999999999876555443  22221111121111111222111   1122 2333333333 2 


Q ss_pred             CCCCcEEEEcCchh--------hHHHHHHHHhc---CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCc
Q 018574          270 LTITQAVIFCNTKR--------KVDWLTEKMRG---YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV  338 (354)
Q Consensus       270 ~~~~~~lvf~~~~~--------~~~~l~~~l~~---~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi  338 (354)
                      ..+++++|||+.++        .++.+++.|++   .+..+..+||+++..+|.++++.|++|+.+|||||+++++|+|+
T Consensus       576 ~~g~qvlVf~~~ie~se~l~~~~a~~l~~~L~~~~~~~~~v~~lHG~m~~~eR~~v~~~F~~G~~~ILVaT~vie~GIDi  655 (780)
T 1gm5_A          576 MRGGQAFIVYPLIEESDKLNVKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDV  655 (780)
T ss_dssp             TTSCCBCCBCCCC--------CHHHHHHHSGGGSCC---CBCCCCSSSCCSCSHHHHHHHTTTSSSBCCCSSCCCSCSCC
T ss_pred             hcCCcEEEEecchhhhhhhhHHHHHHHHHHHHhhhcCCCcEEEEeCCCCHHHHHHHHHHHHCCCCeEEEECCCCCccccC
Confidence            23568999999764        47888888887   36789999999999999999999999999999999999999999


Q ss_pred             CCCcEEEecCCCC
Q 018574          339 QQAILFFFLFLFC  351 (354)
Q Consensus       339 ~~~~~Vi~~~~p~  351 (354)
                      |++++||++|.|+
T Consensus       656 P~v~~VIi~d~~r  668 (780)
T 1gm5_A          656 PRANVMVIENPER  668 (780)
T ss_dssp             TTCCEEEBCSCSS
T ss_pred             CCCCEEEEeCCCC
Confidence            9999999999996

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=100.00  E-value=3e-36  Score=247.98  Aligned_cols=209  Identities=31%  Similarity=0.480  Sum_probs=183.0

Q ss_pred             ccCcccccCccc-CCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC------
Q 018574           26 TEGVEAITSFDA-MGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS------   98 (354)
Q Consensus        26 ~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~------   98 (354)
                      ...+++..+|.+ +++++.+.+++.+.|+..|+++|.++++.+++|+++++.+|||+|||.+|++|++..+...      
T Consensus        12 ~~~p~p~~~f~~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~l~~apTGsGKT~~~~l~~~~~l~~~~~~~~~   91 (228)
T 3iuy_A           12 RLIPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQ   91 (228)
T ss_dssp             CCCCCCCCSHHHHHTTCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHHHC--------
T ss_pred             CcCCCChhhHhhhhccCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHHhccchhhc
Confidence            345677889999 7999999999999999999999999999999999999999999999999999998876532      


Q ss_pred             CCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccE
Q 018574           99 SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKL  178 (354)
Q Consensus        99 ~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~  178 (354)
                      ..++++||++|+++|+.|+.+.++++. ..++.+..+.++.........+..+++|+|+||+++.+.+......+.++++
T Consensus        92 ~~~~~~lil~Pt~~L~~q~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~Tp~~l~~~~~~~~~~~~~~~~  170 (228)
T 3iuy_A           92 RNGPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITY  170 (228)
T ss_dssp             -CCCSEEEECSSHHHHHHHHHHHHHHC-CTTCCEEEECC------CHHHHHSCCSEEEECHHHHHHHHHTTCCCCTTCCE
T ss_pred             cCCCcEEEEeCCHHHHHHHHHHHHHhc-ccCceEEEEECCCChHHHHHHhcCCCCEEEECHHHHHHHHHcCCcCcccceE
Confidence            245679999999999999999999986 4577888888888877777777888999999999999988888888889999


Q ss_pred             EEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEE
Q 018574          179 LVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKIL  235 (354)
Q Consensus       179 vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~  235 (354)
                      ||+||||++.+.++...+..++..++++.|++++|||+++....+...++.+|..+.
T Consensus       171 lViDEah~~~~~~~~~~~~~i~~~~~~~~~~l~~SAT~~~~~~~~~~~~l~~p~~i~  227 (228)
T 3iuy_A          171 LVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVY  227 (228)
T ss_dssp             EEECCHHHHHHTTCHHHHHHHHHHSCSSCEEEEEESCCCHHHHHHHHTTCSSCEEEE
T ss_pred             EEEECHHHHhccchHHHHHHHHHhCCcCCeEEEEEeeCCHHHHHHHHHHCCCCEEEe
Confidence            999999999999999999999999999999999999999999999999999887654

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*

Probab=100.00  E-value=5.4e-36  Score=246.52  Aligned_cols=207  Identities=35%  Similarity=0.574  Sum_probs=182.4

Q ss_pred             CcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEE
Q 018574           28 GVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALIL  107 (354)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil  107 (354)
                      .+....+|+++++++.+.+.+++.||..|+++|.++++.+++|+++++.+|||+|||.+|+++++..+.....+.++||+
T Consensus        19 ~~~~~~~f~~l~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~l~~a~TGsGKT~~~~l~~l~~l~~~~~~~~~lil   98 (230)
T 2oxc_A           19 LLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQILIL   98 (230)
T ss_dssp             -----CCGGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHHCCTTSCSCCEEEE
T ss_pred             CCCCCCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHHHhcCCCceEEEE
Confidence            34556789999999999999999999999999999999999999999999999999999999999888766667789999


Q ss_pred             cCCHHHHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          108 SPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       108 ~p~~~l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      +|+++|+.|+.+.++.+.... ++++..+.|+.........+ .+++|+|+||+++.+.+....+.+.++++||+||||+
T Consensus        99 ~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~Iiv~Tp~~l~~~~~~~~~~~~~~~~lViDEah~  177 (230)
T 2oxc_A           99 APTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRL-KKCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADK  177 (230)
T ss_dssp             CSSHHHHHHHHHHHHHHTTTSTTCCEEEECTTSCHHHHHHHT-TSCSEEEECHHHHHHHHHTTSSCGGGCCEEEESSHHH
T ss_pred             eCCHHHHHHHHHHHHHHhcccCCceEEEEeCCCCHHHHHHhc-cCCCEEEECHHHHHHHHhcCCcccccCCEEEeCCchH
Confidence            999999999999999987655 78888888888766655544 4689999999999998887777778899999999999


Q ss_pred             hhccC-cHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEE
Q 018574          187 MLSRG-FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKIL  235 (354)
Q Consensus       187 ~~~~~-~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~  235 (354)
                      +.+.+ |...+..+++.++...|++++|||+++........++.+|..+.
T Consensus       178 ~~~~~~~~~~~~~i~~~~~~~~~~l~lSAT~~~~~~~~~~~~~~~p~~i~  227 (230)
T 2oxc_A          178 LLEEGSFQEQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVR  227 (230)
T ss_dssp             HHSTTSSHHHHHHHHHHSCSSCEEEEEESCCCHHHHHHHTTTCSSCEEEC
T ss_pred             hhcCcchHHHHHHHHHhCCCCCeEEEEEeccCHHHHHHHHHHcCCCeEEE
Confidence            99886 99999999999998999999999999999999999988887654

>1tf5_A Preprotein translocase SECA subunit; ATPase, helicase, translocation, secretion, protein transport; 2.18A {Bacillus subtilis} SCOP: a.162.1.1 a.172.1.1 c.37.1.19 c.37.1.19 PDB: 1tf2_A 3iqy_A 1m6n_A 1m74_A* 3iqm_A 3jv2_A* 2ibm_A* 3dl8_A 1sx0_A 1sx1_A 1tm6_A

Probab=100.00  E-value=1.1e-35  Score=275.53  Aligned_cols=294  Identities=17%  Similarity=0.181  Sum_probs=217.7

Q ss_pred             HCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcC
Q 018574           50 QYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN  129 (354)
Q Consensus        50 ~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~  129 (354)
                      ..|+ .|++.|..+++.+++|+  +..++||+|||++|.+|++.....   +..++|++||++|+.|.++.+..+...++
T Consensus        79 ~lG~-~pt~VQ~~~ip~ll~G~--Iaea~TGeGKTlaf~LP~~l~aL~---g~~vlVltptreLA~qd~e~~~~l~~~lg  152 (844)
T 1tf5_A           79 VTGM-FPFKVQLMGGVALHDGN--IAEMKTGEGKTLTSTLPVYLNALT---GKGVHVVTVNEYLASRDAEQMGKIFEFLG  152 (844)
T ss_dssp             HHSC-CCCHHHHHHHHHHHTTS--EEECCTTSCHHHHHHHHHHHHHTT---SSCEEEEESSHHHHHHHHHHHHHHHHHTT
T ss_pred             HcCC-CCcHHHHHhhHHHhCCC--EEEccCCcHHHHHHHHHHHHHHHc---CCCEEEEeCCHHHHHHHHHHHHHHHhhcC
Confidence            4799 99999999999999998  999999999999999999844333   34699999999999999999999999999


Q ss_pred             eEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcC------CccCCCccEEEEecchhhh-ccC----------
Q 018574          130 IQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRK------TLRTRAIKLLVLDESDEML-SRG----------  191 (354)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~------~~~~~~~~~vvvDE~h~~~-~~~----------  191 (354)
                      +++..+.||.+......  ..+++|+|+||+.| .+++...      .+.++.+.++|+||||+++ +.+          
T Consensus       153 l~v~~i~gg~~~~~r~~--~~~~dIv~gTpgrlgfD~L~D~m~~~~~~l~lr~~~~lVlDEaD~mLiDea~tplIisg~~  230 (844)
T 1tf5_A          153 LTVGLNLNSMSKDEKRE--AYAADITYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSILIDEARTPLIISGQA  230 (844)
T ss_dssp             CCEEECCTTSCHHHHHH--HHHSSEEEEEHHHHHHHHHHHTTCSSGGGCCCCCCCEEEEETHHHHHTTTTTCEEEEEEEE
T ss_pred             CeEEEEeCCCCHHHHHH--hcCCCEEEECchhhhHHHHHHhhhcchhhhcccCCCEEEECchhhhhhhccccchhhcCCc
Confidence            99999999987654433  34689999999999 5555432      3556889999999999987 443          


Q ss_pred             -----cHHHHHHHHhhCC---------CCCcEE-----------------EEEeeCchh---HHHHH--HhccC-CCeEE
Q 018574          192 -----FKDQIYDVYRYLP---------PDLQVV-----------------LISATLPHE---ILEMT--TKFMT-DPVKI  234 (354)
Q Consensus       192 -----~~~~~~~i~~~~~---------~~~~~i-----------------~lSaT~~~~---~~~~~--~~~~~-~~~~~  234 (354)
                           +...+..++..++         +..|++                 ++|||.+..   +....  ..++. +..++
T Consensus       231 ~~~~~~~~~i~~iv~~l~~~~~y~vd~k~rq~~lt~~g~~~~e~~~~i~~Lfsat~~~~~~~i~~al~A~~l~~~d~dYi  310 (844)
T 1tf5_A          231 AKSTKLYVQANAFVRTLKAEKDYTYDIKTKAVQLTEEGMTKAEKAFGIDNLFDVKHVALNHHINQALKAHVAMQKDVDYV  310 (844)
T ss_dssp             ECCCHHHHHHHHHHTTCCSSSSBCCCSSSCCCCBCHHHHHHHHHHTTCSCTTSGGGHHHHHHHHHHHHHHHTCCBTTTEE
T ss_pred             ccchhHHHHHHHHHHhCcccccceeccccceEEecHHHHHHHHHHhCccccCCCccchhHHHHHHHHHHHHHhhcCCceE
Confidence                 6678889999886         356776                 788987532   22221  11111 11111


Q ss_pred             Ee------------------------------------cCCcccccCc--------------------------------
Q 018574          235 LV------------------------------------KRDELTLEGI--------------------------------  246 (354)
Q Consensus       235 ~~------------------------------------~~~~~~~~~~--------------------------------  246 (354)
                      ..                                    .........+                                
T Consensus       311 v~dg~v~ivDe~tgr~m~grr~sdGLhqaieake~v~I~~e~~t~a~It~q~~fr~y~kl~GmTGTa~te~~e~~~iY~l  390 (844)
T 1tf5_A          311 VEDGQVVIVDSFTGRLMKGRRYSEGLHQAIEAKEGLEIQNESMTLATITFQNYFRMYEKLAGMTGTAKTEEEEFRNIYNM  390 (844)
T ss_dssp             EETTEEEEBCTTTCCBCTTCCCSTTHHHHHHHHTTCCCCCCEEEEEEEEHHHHHTTSSEEEEEESCCGGGHHHHHHHHCC
T ss_pred             EecCeeEEeecccccccCCCccchhhHHHHhhcccceecccccccceeeHHHHHHHHhhhccCCcccchhHHHHHHHhCC
Confidence            10                                    0000000000                                


Q ss_pred             --------------eeEEEEeccccchHHHHHHHHhh--CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHH
Q 018574          247 --------------KQFFVAVEREEWKFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKE  310 (354)
Q Consensus       247 --------------~~~~~~~~~~~~~~~~l~~~l~~--~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~  310 (354)
                                    .+..........|...+...+..  ..+.++||||+|++.++.++..|+..|+++..+||++...+
T Consensus       391 ~vv~IPtn~p~~r~d~~d~v~~~~~~K~~al~~~i~~~~~~~~pvLVft~s~~~se~Ls~~L~~~gi~~~vLhg~~~~rE  470 (844)
T 1tf5_A          391 QVVTIPTNRPVVRDDRPDLIYRTMEGKFKAVAEDVAQRYMTGQPVLVGTVAVETSELISKLLKNKGIPHQVLNAKNHERE  470 (844)
T ss_dssp             CEEECCCSSCCCCEECCCEEESSHHHHHHHHHHHHHHHHHHTCCEEEEESCHHHHHHHHHHHHTTTCCCEEECSSCHHHH
T ss_pred             ceEEecCCCCcccccCCcEEEeCHHHHHHHHHHHHHHHHhcCCcEEEEECCHHHHHHHHHHHHHCCCCEEEeeCCccHHH
Confidence                          00001112233477777776654  24578999999999999999999999999999999987666


Q ss_pred             HHHHHHHHhCCCCcEEEEccccccCCCcC--------CCcEEEecCCCCCC
Q 018574          311 RDAIMGEFRSGTTRVLITTDVWARGLDVQ--------QAILFFFLFLFCNV  353 (354)
Q Consensus       311 r~~~~~~f~~g~~~vlv~T~~~~~Gidi~--------~~~~Vi~~~~p~s~  353 (354)
                      +..+.+.|+.  ..|+|||+++++|+|++        ++.+||++|+|.|.
T Consensus       471 r~ii~~ag~~--g~VlIATdmAgRG~DI~l~~~V~~~ggl~VIn~d~p~s~  519 (844)
T 1tf5_A          471 AQIIEEAGQK--GAVTIATNMAGRGTDIKLGEGVKELGGLAVVGTERHESR  519 (844)
T ss_dssp             HHHHTTTTST--TCEEEEETTSSTTCCCCCCTTSGGGTSEEEEESSCCSSH
T ss_pred             HHHHHHcCCC--CeEEEeCCccccCcCccccchhhhcCCcEEEEecCCCCH
Confidence            6555444444  47999999999999999        78899999999984

>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP: b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19 d.315.1.1

Probab=100.00  E-value=2.9e-35  Score=289.84  Aligned_cols=293  Identities=17%  Similarity=0.206  Sum_probs=222.4

Q ss_pred             CCCCHHHHHHHHH-CCCCCChHHHHHhHhhhhc----CC--cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC
Q 018574           38 MGIKDDLLRGIYQ-YGFEKPSAIQQRAVMPIIK----GR--DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT  110 (354)
Q Consensus        38 ~~~~~~~~~~l~~-~~~~~~~~~Q~~~~~~~~~----~~--~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~  110 (354)
                      ++.++...+.+.. ++| .++++|.++++.+++    ++  ++++++|||+|||.+++.+++..+..   +.+++|++|+
T Consensus       586 ~~~~~~~~~~~~~~f~~-~~t~~Q~~ai~~il~~~~~g~p~d~ll~~~TGsGKT~val~aa~~~~~~---g~~vlvlvPt  661 (1151)
T 2eyq_A          586 FKHDREQYQLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDN---HKQVAVLVPT  661 (1151)
T ss_dssp             CCCCHHHHHHHHHTCCS-CCCHHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHTT---TCEEEEECSS
T ss_pred             CCCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHHhcCCcCcEEEECCCCCCHHHHHHHHHHHHHHh---CCeEEEEech
Confidence            4566777776654 677 679999999999886    55  89999999999999998888776543   3479999999


Q ss_pred             HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHh---HHhhcC-CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          111 RELATQTEKVILAIGDFINIQAHACVGGKSVGED---IRKLEH-GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       111 ~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      ++|+.|+++.+.+.....++++..+++.....+.   ...+.. .++|+|+||+.+.     ..+.+.++++||+||+|+
T Consensus       662 ~~La~Q~~~~~~~~~~~~~i~v~~l~~~~~~~~~~~~~~~l~~g~~dIvV~T~~ll~-----~~~~~~~l~lvIiDEaH~  736 (1151)
T 2eyq_A          662 TLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQ-----SDVKFKDLGLLIVDEEHR  736 (1151)
T ss_dssp             HHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHHHHHHHHHHTTCCSEEEECTHHHH-----SCCCCSSEEEEEEESGGG
T ss_pred             HHHHHHHHHHHHHHhhcCCCeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHh-----CCccccccceEEEechHh
Confidence            9999999999998887778888888776544332   233444 4899999997653     345678999999999999


Q ss_pred             hhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHH
Q 018574          187 MLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDL  266 (354)
Q Consensus       187 ~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  266 (354)
                      +.     ......+..++.+.++++||||+.+....+......+...  ..........+...+....    .......+
T Consensus       737 ~g-----~~~~~~l~~l~~~~~vl~lSATp~p~~l~~~~~~~~~~~~--i~~~~~~r~~i~~~~~~~~----~~~i~~~i  805 (1151)
T 2eyq_A          737 FG-----VRHKERIKAMRANVDILTLTATPIPRTLNMAMSGMRDLSI--IATPPARRLAVKTFVREYD----SMVVREAI  805 (1151)
T ss_dssp             SC-----HHHHHHHHHHHTTSEEEEEESSCCCHHHHHHHTTTSEEEE--CCCCCCBCBCEEEEEEECC----HHHHHHHH
T ss_pred             cC-----hHHHHHHHHhcCCCCEEEEcCCCChhhHHHHHhcCCCceE--EecCCCCccccEEEEecCC----HHHHHHHH
Confidence            52     2334455555677899999999988777666555443322  2222222223333333322    22222223


Q ss_pred             Hhh-CCCCcEEEEcCchhhHHHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcE
Q 018574          267 YDT-LTITQAVIFCNTKRKVDWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAIL  343 (354)
Q Consensus       267 l~~-~~~~~~lvf~~~~~~~~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~  343 (354)
                      +.. ..+++++|||++++.++.+++.|++.  +..+..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++++
T Consensus       806 l~~l~~g~qvlvf~~~v~~~~~l~~~L~~~~p~~~v~~lhg~~~~~eR~~il~~F~~g~~~VLVaT~v~e~GiDip~v~~  885 (1151)
T 2eyq_A          806 LREILRGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANT  885 (1151)
T ss_dssp             HHHHTTTCEEEEECCCSSCHHHHHHHHHHHCTTSCEEECCSSCCHHHHHHHHHHHHTTSCCEEEESSTTGGGSCCTTEEE
T ss_pred             HHHHhcCCeEEEEECCHHHHHHHHHHHHHhCCCCeEEEEeCCCCHHHHHHHHHHHHcCCCcEEEECCcceeeecccCCcE
Confidence            322 24579999999999999999999887  788999999999999999999999999999999999999999999999


Q ss_pred             EEecCCC
Q 018574          344 FFFLFLF  350 (354)
Q Consensus       344 Vi~~~~p  350 (354)
                      ||+++.+
T Consensus       886 VIi~~~~  892 (1151)
T 2eyq_A          886 IIIERAD  892 (1151)
T ss_dssp             EEETTTT
T ss_pred             EEEeCCC
Confidence            9988874

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=100.00  E-value=5.7e-37  Score=279.35  Aligned_cols=267  Identities=16%  Similarity=0.196  Sum_probs=201.1

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeE-EE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQ-AH  133 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~-~~  133 (354)
                      .|+++|.++++.+++++++++.+|||+|||.+++.++...      +.++||++|+++|+.||.+++.++    ++. +.
T Consensus        93 ~l~~~Q~~ai~~i~~~~~~ll~~~TGsGKT~~~l~~i~~~------~~~~Lvl~P~~~L~~Q~~~~~~~~----~~~~v~  162 (472)
T 2fwr_A           93 SLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAINEL------STPTLIVVPTLALAEQWKERLGIF----GEEYVG  162 (472)
T ss_dssp             CBCHHHHHHHHHHTTTTEEEEECCTTSCHHHHHHHHHHHH------CSCEEEEESSHHHHHHHHHHGGGG----CGGGEE
T ss_pred             CcCHHHHHHHHHHHhcCCEEEEeCCCCCHHHHHHHHHHHc------CCCEEEEECCHHHHHHHHHHHHhC----CCcceE
Confidence            6899999999999999999999999999999999887765      346999999999999999999874    466 77


Q ss_pred             EEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      .++++...         ..+|+|+|++.+......   ...++++||+||+|++.+..+..    +...+ ...+++++|
T Consensus       163 ~~~g~~~~---------~~~Ivv~T~~~l~~~~~~---~~~~~~liIvDEaH~~~~~~~~~----~~~~~-~~~~~l~lS  225 (472)
T 2fwr_A          163 EFSGRIKE---------LKPLTVSTYDSAYVNAEK---LGNRFMLLIFDEVHHLPAESYVQ----IAQMS-IAPFRLGLT  225 (472)
T ss_dssp             EBSSSCBC---------CCSEEEEEHHHHHHTHHH---HTTTCSEEEEETGGGTTSTTTHH----HHHTC-CCSEEEEEE
T ss_pred             EECCCcCC---------cCCEEEEEcHHHHHHHHH---hcCCCCEEEEECCcCCCChHHHH----HHHhc-CCCeEEEEe
Confidence            77766542         478999999998765542   12468999999999998877664    34444 467899999


Q ss_pred             eeCchh-------------------HHHHHHhccCCCeE--EEecCCcc------------------------cccCcee
Q 018574          214 ATLPHE-------------------ILEMTTKFMTDPVK--ILVKRDEL------------------------TLEGIKQ  248 (354)
Q Consensus       214 aT~~~~-------------------~~~~~~~~~~~~~~--~~~~~~~~------------------------~~~~~~~  248 (354)
                      ||+...                   ...+...++..+..  +.......                        ....+..
T Consensus       226 ATp~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  305 (472)
T 2fwr_A          226 ATFEREDGRHEILKEVVGGKVFELFPDSLAGKHLAKYTIKRIFVPLAEDERVEYEKREKVYKQFLRARGITLRRAEDFNK  305 (472)
T ss_dssp             SCCCCTTSGGGSHHHHTCCEEEECCHHHHTSCCCCSEEECCEEECCCHHHHHHTTTTTHHHHSCSSSCCCTTTCCSSSTT
T ss_pred             cCccCCCCHHHHHHHHhCCeEeecCHHHHhcCcCCCeEEEEEEcCCCHHHHHHHHHHHHHHHHHHHhcCccccchhhHHH
Confidence            999631                   22222222222111  11110000                        0000000


Q ss_pred             EEE--------------------EeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCH
Q 018574          249 FFV--------------------AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQ  308 (354)
Q Consensus       249 ~~~--------------------~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~  308 (354)
                      .+.                    .......+...+.+++....++++||||++.+.++.+++.|.     +..+||+++.
T Consensus       306 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~l~~~l~~~~~~k~lvF~~~~~~~~~l~~~l~-----~~~~~g~~~~  380 (472)
T 2fwr_A          306 IVMASGYDERAYEALRAWEEARRIAFNSKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFL-----IPAITHRTSR  380 (472)
T ss_dssp             TTTTTCCSSSSSTTTHHHHHHHHHHHSCSHHHHHHHHHHHHTSSSCBCCBCSCHHHHHHHHHHTT-----CCBCCSSSCS
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHhCCCCcEEEEECCHHHHHHHHHHhC-----cceeeCCCCH
Confidence            000                    001122366788888888778899999999999999999984     5678999999


Q ss_pred             HHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          309 KERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       309 ~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+|.++++.|++|+.+|||+|+++++|+|+|++++||++|.|+|+
T Consensus       381 ~~R~~~~~~F~~g~~~vLv~T~~~~~Gldlp~~~~Vi~~~~~~s~  425 (472)
T 2fwr_A          381 EEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSA  425 (472)
T ss_dssp             HHHHTHHHHHHHSSCSBCBCSSCCCSSSCSCCBSEEEEECCSSCC
T ss_pred             HHHHHHHHHHhCCCCCEEEEcCchhcCcccccCcEEEEECCCCCH
Confidence            999999999999999999999999999999999999999999985

>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=100.00  E-value=2.9e-35  Score=238.69  Aligned_cols=201  Identities=35%  Similarity=0.584  Sum_probs=180.8

Q ss_pred             CcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC---CCceeEEEEcCC
Q 018574           34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS---SREVQALILSPT  110 (354)
Q Consensus        34 ~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~---~~~~~~lil~p~  110 (354)
                      +|+++++++.+.+.+++.|+..|+++|.++++.+++++++++.+|||+|||.+++.+++..+...   ..+++++|++|+
T Consensus         2 ~f~~~~l~~~l~~~l~~~~~~~~~~~Q~~~i~~~~~~~~~li~~~TGsGKT~~~~~~~~~~l~~~~~~~~~~~~lil~P~   81 (207)
T 2gxq_A            2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPT   81 (207)
T ss_dssp             CGGGSCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHHCCCCCCTTCCCSEEEECSS
T ss_pred             ChhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHcCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCcEEEEECC
Confidence            69999999999999999999999999999999999999999999999999999999999887542   345689999999


Q ss_pred             HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc
Q 018574          111 RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       111 ~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      ++|+.|+.+.+.++...  +.+..+.++.........+..+++|+|+||+.+.+.+......+.++++||+||||++.+.
T Consensus        82 ~~L~~q~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~i~v~T~~~l~~~~~~~~~~~~~~~~iViDEah~~~~~  159 (207)
T 2gxq_A           82 RELALQVASELTAVAPH--LKVVAVYGGTGYGKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSM  159 (207)
T ss_dssp             HHHHHHHHHHHHHHCTT--SCEEEECSSSCSHHHHHHHHHCCSEEEECHHHHHHHHHHTSSCCTTCSEEEEESHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhhc--ceEEEEECCCChHHHHHHhhCCCCEEEECHHHHHHHHHcCCcchhhceEEEEEChhHhhcc
Confidence            99999999999998755  5667788887776666666678999999999999988887778889999999999999998


Q ss_pred             CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEe
Q 018574          191 GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILV  236 (354)
Q Consensus       191 ~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~  236 (354)
                      ++...+..++..++.+.|++++|||+++....+.+.++.+|..+..
T Consensus       160 ~~~~~~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~p~~i~~  205 (207)
T 2gxq_A          160 GFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINV  205 (207)
T ss_dssp             TCHHHHHHHHHTSCTTSEEEEECSSCCHHHHHHHHHHCSSCEEEEC
T ss_pred             chHHHHHHHHHhCCccCeEEEEEEecCHHHHHHHHHHcCCCeEEEc
Confidence            9999999999999989999999999999999999999998876653

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=100.00  E-value=3.6e-35  Score=240.26  Aligned_cols=204  Identities=36%  Similarity=0.605  Sum_probs=181.6

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      ..+|+++++++.+.+.+.+.|+..|+++|.++++.+++++++++.+|||+|||.+++.+++..+.....+.++||++|++
T Consensus        13 ~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~li~~~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~Pt~   92 (220)
T 1t6n_A           13 SSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTR   92 (220)
T ss_dssp             -CCSTTSCCCHHHHHHHHHTTCCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHHCCCCTTCCCEEEECSCH
T ss_pred             CCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCchhhhhhHHHHHhhhccCCCEEEEEEeCCH
Confidence            46799999999999999999999999999999999999999999999999999999999998887665566899999999


Q ss_pred             HHHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcC-CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc
Q 018574          112 ELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEH-GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       112 ~l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      +|+.|+.+.++++.... ++++..+.|+.........+.. .++|+|+||+.+...+....+.+.+++++|+||||++.+
T Consensus        93 ~L~~q~~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~~~~~~~~i~v~T~~~l~~~~~~~~~~~~~~~~lViDEah~~~~  172 (220)
T 1t6n_A           93 ELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLE  172 (220)
T ss_dssp             HHHHHHHHHHHHHTTTSTTCCEEEESCCSCHHHHHHHHHHSCCSEEEECHHHHHHHHHTTSSCCTTCCEEEEESHHHHHS
T ss_pred             HHHHHHHHHHHHHHhhCCCceEEEEeCCCChHHHHHHHhcCCCCEEEeCHHHHHHHHHhCCCCcccCCEEEEcCHHHHhc
Confidence            99999999999988765 7888888888876666555543 479999999999999888777888999999999999986


Q ss_pred             -cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEE
Q 018574          190 -RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKIL  235 (354)
Q Consensus       190 -~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~  235 (354)
                       .++...+..+++.++.+.|++++|||++.....+.+.++.+|..+.
T Consensus       173 ~~~~~~~~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~p~~i~  219 (220)
T 1t6n_A          173 QLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIF  219 (220)
T ss_dssp             SHHHHHHHHHHHHTSCSSSEEEEEESCCCTTTHHHHHTTCSSCEEEE
T ss_pred             ccCcHHHHHHHHHhCCCcCeEEEEEeecCHHHHHHHHHHcCCCeEEe
Confidence             4788889999999888999999999999999999999999887653

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=100.00  E-value=4.7e-35  Score=242.13  Aligned_cols=208  Identities=28%  Similarity=0.499  Sum_probs=182.7

Q ss_pred             cccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC----CCceeE
Q 018574           29 VEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS----SREVQA  104 (354)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~----~~~~~~  104 (354)
                      .....+|+++++++.+.+.+.+.|+..|+++|.++++.+++++++++.+|||+|||.+|+++++..+...    ..+.++
T Consensus        21 ~~~~~~f~~~~l~~~l~~~l~~~~~~~~~~~Q~~~i~~~~~~~~~li~a~TGsGKT~~~~~~~l~~l~~~~~~~~~~~~~  100 (236)
T 2pl3_A           21 VNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGV  100 (236)
T ss_dssp             GGGCSBGGGSCCCHHHHHHHHHTTCCBCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHHHHHTTCCGGGCCCE
T ss_pred             CcccCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEEeCCCCcHHHHHHHHHHHHHHhhcccccCCceE
Confidence            3456789999999999999999999999999999999999999999999999999999999998876432    235679


Q ss_pred             EEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC-CccCCCccEEEEec
Q 018574          105 LILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK-TLRTRAIKLLVLDE  183 (354)
Q Consensus       105 lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~-~~~~~~~~~vvvDE  183 (354)
                      ||++|+++|+.|+.+.++.++...++.+..+.|+.....+...+ .+++|+|+||+++.+.+... .+...++++||+||
T Consensus       101 lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~iiv~Tp~~l~~~l~~~~~~~~~~~~~lViDE  179 (236)
T 2pl3_A          101 LIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDE  179 (236)
T ss_dssp             EEECSSHHHHHHHHHHHHHHTTTSSCCEEEECCC--CHHHHHHH-TTCSEEEECHHHHHHHHHHCSSCCCTTCCEEEETT
T ss_pred             EEEeCCHHHHHHHHHHHHHHhCCCCeeEEEEECCCCHHHHHHhC-CCCCEEEECHHHHHHHHHhcCCcccccccEEEEeC
Confidence            99999999999999999999988888998999988776655554 46899999999998877654 46678899999999


Q ss_pred             chhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEec
Q 018574          184 SDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVK  237 (354)
Q Consensus       184 ~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~  237 (354)
                      ||++.+.++...+..++..++.+.|++++|||+++....+...++.+|..+...
T Consensus       180 ah~~~~~~~~~~~~~i~~~~~~~~~~l~~SAT~~~~~~~~~~~~~~~p~~i~~~  233 (236)
T 2pl3_A          180 ADRILDMGFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWVH  233 (236)
T ss_dssp             HHHHHHTTTHHHHHHHHHTSCTTSEEEEEESSCCHHHHHHHHHSCSSCEEEECC
T ss_pred             hHHHhcCCcHHHHHHHHHhCCCCCeEEEEEeeCCHHHHHHHHHhCCCCEEEEeC
Confidence            999999999999999999999999999999999999999999999998877643

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}

Probab=100.00  E-value=3.7e-35  Score=250.10  Aligned_cols=205  Identities=37%  Similarity=0.597  Sum_probs=182.8

Q ss_pred             ccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEE
Q 018574           30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALIL  107 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil  107 (354)
                      ....+|+++++++.+.+.+..+||..|+++|.++++.++.+  +++++.+|||+|||++|++|++..+.....++++||+
T Consensus        89 ~~~~~f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~~~~~~~l~~a~TGsGKT~a~~lp~l~~l~~~~~~~~~lil  168 (300)
T 3fmo_B           89 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCL  168 (300)
T ss_dssp             CCCCCSGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHTSSSCCCEEEECCTTSSHHHHHHHHHHHHCCTTSCSCCEEEE
T ss_pred             CCcCCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCCeEEEECCCCCCccHHHHHHHHHhhhccCCCceEEEE
Confidence            45689999999999999999999999999999999999987  9999999999999999999999998877777789999


Q ss_pred             cCCHHHHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhc-CCccCCCccEEEEecch
Q 018574          108 SPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDESD  185 (354)
Q Consensus       108 ~p~~~l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~-~~~~~~~~~~vvvDE~h  185 (354)
                      +|+++|+.|+.+.+..++... ++.+..+.++......   ...+++|+|+||+++.+++.. ..+.+.++++||+||+|
T Consensus       169 ~PtreLa~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~~~IlV~TP~~l~~~l~~~~~~~l~~l~~lVlDEad  245 (300)
T 3fmo_B          169 SPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG---QKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD  245 (300)
T ss_dssp             CSSHHHHHHHHHHHHHHTTTSTTCCEEEESTTCCCCTT---CCCCCSEEEECHHHHHHHHTTTCCCCGGGCSEEEETTHH
T ss_pred             cCcHHHHHHHHHHHHHHHhhCCCcEEEEEeCCccHhhh---hcCCCCEEEECHHHHHHHHHhcCCCChhhceEEEEeCHH
Confidence            999999999999999988754 6777778777654432   245689999999999998865 55667899999999999


Q ss_pred             hhhc-cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEec
Q 018574          186 EMLS-RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVK  237 (354)
Q Consensus       186 ~~~~-~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~  237 (354)
                      ++.+ .++...+..+.+.++.+.|++++|||++..+..+...++.+|..+...
T Consensus       246 ~l~~~~~~~~~~~~i~~~~~~~~q~i~~SAT~~~~v~~~a~~~l~~p~~i~~~  298 (300)
T 3fmo_B          246 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLK  298 (300)
T ss_dssp             HHHHSTTHHHHHHHHHTTSCTTCEEEEEESCCCHHHHHHHHHHSSSCEEEEEC
T ss_pred             HHhhccCcHHHHHHHHHhCCCCCEEEEEeccCCHHHHHHHHHHCCCCeEEEec
Confidence            9987 688999999999999999999999999999999999999999877654

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=100.00  E-value=2e-34  Score=241.37  Aligned_cols=200  Identities=29%  Similarity=0.506  Sum_probs=176.4

Q ss_pred             ccCcccCC--CCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC----CCceeEE
Q 018574           32 ITSFDAMG--IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS----SREVQAL  105 (354)
Q Consensus        32 ~~~~~~~~--~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~----~~~~~~l  105 (354)
                      ..+|.+++  +++.+.+.++++||..|+++|.++++.++.++++++.+|||+|||.+|+++++..+...    ..+.+++
T Consensus        51 ~~~f~~l~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~lv~a~TGsGKT~~~~l~~l~~l~~~~~~~~~~~~~l  130 (262)
T 3ly5_A           51 DTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGVL  130 (262)
T ss_dssp             GGCC-----CCCHHHHHHHHHTTCCBCCHHHHHHHHHHHHTCCCEECCCTTSCHHHHHHHHHHHHHHHTTCCGGGCCCEE
T ss_pred             cCChhHhccccCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCcEEEEccCCCCchHHHHHHHHHHHHhccccccCCceEE
Confidence            45566666  99999999999999999999999999999999999999999999999999999877542    1356799


Q ss_pred             EEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC-CccCCCccEEEEecc
Q 018574          106 ILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK-TLRTRAIKLLVLDES  184 (354)
Q Consensus       106 il~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~-~~~~~~~~~vvvDE~  184 (354)
                      |++|+++|+.|+.+.++++....+..+..+.|+.........+..+++|+|+||+++...+... .+.+.++++||+|||
T Consensus       131 il~Pt~~La~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~Iiv~Tp~~l~~~~~~~~~~~~~~l~~lViDEa  210 (262)
T 3ly5_A          131 ILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEA  210 (262)
T ss_dssp             EECSSHHHHHHHHHHHHHHTTTCCSCEEEECSSSCHHHHHHHHHHCCSEEEECHHHHHHHHHHCTTCCCTTCCEEEECSH
T ss_pred             EEeCCHHHHHHHHHHHHHHHhhcCceEEEEECCCCHHHHHHHhcCCCCEEEEcHHHHHHHHHccCCcccccCCEEEEcCh
Confidence            9999999999999999999988888999999998888877777778999999999998877664 466788999999999


Q ss_pred             hhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCC
Q 018574          185 DEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDP  231 (354)
Q Consensus       185 h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~  231 (354)
                      |++.+.++...+..+++.++...|++++|||+++++..+.+.++..+
T Consensus       211 h~l~~~~~~~~l~~i~~~~~~~~q~l~~SAT~~~~v~~~~~~~l~~~  257 (262)
T 3ly5_A          211 DRILDVGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKE  257 (262)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCSSSEEEEECSSCCHHHHHHHHHHCSSC
T ss_pred             HHHhhhhHHHHHHHHHHhCCCCCeEEEEEecCCHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999998877654

>2fsf_A Preprotein translocase SECA subunit; ATPase, DNA-RNA helicase, protein translocation, protein transport; 2.00A {Escherichia coli} PDB: 2fsg_A* 2fsh_A* 2fsi_A* 2vda_A 3bxz_A*

Probab=100.00  E-value=2.1e-34  Score=266.23  Aligned_cols=281  Identities=15%  Similarity=0.172  Sum_probs=186.1

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|. .|++.|...+..+++|+  +..++||+|||.+|++|++.....   +..++|++||++|+.|.++.+..+...+++
T Consensus        71 lg~-~p~~VQ~~~i~~ll~G~--Iaem~TGsGKTlaf~LP~l~~~l~---g~~vlVltPTreLA~Q~~e~~~~l~~~lgl  144 (853)
T 2fsf_A           71 FGM-RHFDVQLLGGMVLNERC--IAEMRTGEGKTLTATLPAYLNALT---GKGVHVVTVNDYLAQRDAENNRPLFEFLGL  144 (853)
T ss_dssp             HSC-CCCHHHHHHHHHHHSSE--EEECCTTSCHHHHHHHHHHHHHTT---SSCCEEEESSHHHHHHHHHHHHHHHHHTTC
T ss_pred             cCC-CCChHHHhhcccccCCe--eeeecCCchHHHHHHHHHHHHHHc---CCcEEEEcCCHHHHHHHHHHHHHHHHhcCC
Confidence            565 89999999999999997  999999999999999999855433   346999999999999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcC------CccCCCccEEEEecchhhh-ccC-----------
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRK------TLRTRAIKLLVLDESDEML-SRG-----------  191 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~------~~~~~~~~~vvvDE~h~~~-~~~-----------  191 (354)
                      ++..+.||.+....  ....+++|+|+||+.| .++++..      ....+.+.++|+||+|+++ +.+           
T Consensus       145 ~v~~i~GG~~~~~r--~~~~~~dIvvgTpgrl~fDyLrd~~~~~~~~~~~~~l~~lVlDEaD~mLiD~a~tpLIiSg~~~  222 (853)
T 2fsf_A          145 TVGINLPGMPAPAK--REAYAADITYGTNNEYGFDYLRDNMAFSPEERVQRKLHYALVDEVDSILIDEARTPLIISGPAE  222 (853)
T ss_dssp             CEEECCTTCCHHHH--HHHHHSSEEEEEHHHHHHHHHHHTTCSSGGGCCCCSCCEEEESCHHHHTTTTTTCEEEEEEC--
T ss_pred             eEEEEeCCCCHHHH--HHhcCCCEEEECCchhhHHHHHhhhhccHhHhcccCCcEEEECchHHHHHhcCcccccccCCCc
Confidence            99999999875433  3334689999999999 6776654      2556889999999999998 332           


Q ss_pred             ----cHHHHHHHHhhCCC--------------------CCcEE------------------------EEEeeCchhHHHH
Q 018574          192 ----FKDQIYDVYRYLPP--------------------DLQVV------------------------LISATLPHEILEM  223 (354)
Q Consensus       192 ----~~~~~~~i~~~~~~--------------------~~~~i------------------------~lSaT~~~~~~~~  223 (354)
                          +...+..++..++.                    ..|++                        ++|||.+......
T Consensus       223 ~~~~~y~~i~~iv~~L~~~~~~~~~~~~~~~dy~vdek~rqv~lte~g~~~~e~~l~~~~l~~~~~~Lfsat~~~~~~~i  302 (853)
T 2fsf_A          223 DSSEMYKRVNKIIPHLIRQEKEDSETFQGEGHFSVDEKSRQVNLTERGLVLIEELLVKEGIMDEGESLYSPANIMLMHHV  302 (853)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cchhHHHHHHHHHHhchhhhccccccccccccceeccccceEEEcHHHHHHHHHHHHhCCcccccccccCcccchHHHHH
Confidence                45667777777753                    34443                        6788864311111


Q ss_pred             ---H--HhccC-C-------C-----------------------------eEEEecCCcccccCcee-------------
Q 018574          224 ---T--TKFMT-D-------P-----------------------------VKILVKRDELTLEGIKQ-------------  248 (354)
Q Consensus       224 ---~--~~~~~-~-------~-----------------------------~~~~~~~~~~~~~~~~~-------------  248 (354)
                         +  ..++. +       .                             ..+.+.........+.+             
T Consensus       303 ~~al~A~~l~~~d~dYiV~d~~vviVde~tgR~m~grr~sdGLhQaieake~v~I~~e~~tla~It~qnyfr~Y~kl~Gm  382 (853)
T 2fsf_A          303 TAALRAHALFTRDVDYIVKDGEVIIVDEHTGRTMQGRRWSDGLHQAVEAKEGVQIQNENQTLASITFQNYFRLYEKLAGM  382 (853)
T ss_dssp             ------------------------------------------------------CCCCCEEEEEEEHHHHHTTSSEEEEE
T ss_pred             HHHHHHHHHhhcCccceeecCcEEEEecccCcccCCCccchhhhHHHHhcccceecccccccceeehHHHHhhhhhhhcC
Confidence               0  00000 0       0                             01111111111111110             


Q ss_pred             ---------------------------------EEEEeccccchHHHHHHHHhh--CCCCcEEEEcCchhhHHHHHHHHh
Q 018574          249 ---------------------------------FFVAVEREEWKFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMR  293 (354)
Q Consensus       249 ---------------------------------~~~~~~~~~~~~~~l~~~l~~--~~~~~~lvf~~~~~~~~~l~~~l~  293 (354)
                                                       ..........|...+...+..  ..+.++||||+|++.++.++..|+
T Consensus       383 TGTa~te~~ef~~iY~l~vv~IPtn~p~~R~d~~d~v~~~~~~K~~al~~~i~~~~~~gqpvLVft~sie~se~Ls~~L~  462 (853)
T 2fsf_A          383 TGTADTEAFEFSSIYKLDTVVVPTNRPMIRKDLPDLVYMTEAEKIQAIIEDIKERTAKGQPVLVGTISIEKSELVSNELT  462 (853)
T ss_dssp             ECTTCCCHHHHHHHHCCEEEECCCSSCCCCEECCCEEESSHHHHHHHHHHHHHHHHTTTCCEEEEESSHHHHHHHHHHHH
T ss_pred             CCCchhHHHHHHHHhCCcEEEcCCCCCceeecCCcEEEeCHHHHHHHHHHHHHHHhcCCCCEEEEECcHHHHHHHHHHHH
Confidence                                             001112233477777777754  345789999999999999999999


Q ss_pred             cCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCC
Q 018574          294 GYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQA  341 (354)
Q Consensus       294 ~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~  341 (354)
                      +.|+++.++||+....++..+.+.|+.|  .|+|||+++++|+||+..
T Consensus       463 ~~gi~~~vLnak~~~rEa~iia~agr~G--~VtIATnmAgRGtDI~l~  508 (853)
T 2fsf_A          463 KAGIKHNVLNAKFHANEAAIVAQAGYPA--AVTIATNMAGRGTDIVLG  508 (853)
T ss_dssp             HTTCCCEECCTTCHHHHHHHHHTTTSTT--CEEEEESCCSSCSCCCTT
T ss_pred             HCCCCEEEecCChhHHHHHHHHhcCCCC--eEEEecccccCCcCccCC
Confidence            9999999999998777777677778777  799999999999999974

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=100.00  E-value=6.5e-34  Score=236.64  Aligned_cols=218  Identities=24%  Similarity=0.447  Sum_probs=182.5

Q ss_pred             eeecccCcccccCcccC----CCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc
Q 018574           22 VFETTEGVEAITSFDAM----GIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT   97 (354)
Q Consensus        22 ~~~~~~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~   97 (354)
                      ..+....+....+|+++    ++++.+.+.+.+.||..|+++|.++++.+++|+++++.+|||+|||.+|++|++..+..
T Consensus        14 ~~~~~~~p~~~~~f~~l~~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~l~~a~TGsGKT~~~~l~~l~~l~~   93 (245)
T 3dkp_A           14 HVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQ   93 (245)
T ss_dssp             EEESSSCCCCCSSHHHHHHHHCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHHHCS
T ss_pred             EecCCCCCCcccCHHHhhhccCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHHhh
Confidence            34445667778888886    89999999999999999999999999999999999999999999999999999988764


Q ss_pred             -CCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhH-HhhcCCCeEEEeCcHHHHHHHhcC--CccC
Q 018574           98 -SSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDI-RKLEHGVHVVSGTPGRVCDMIKRK--TLRT  173 (354)
Q Consensus        98 -~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~iiv~T~~~l~~~~~~~--~~~~  173 (354)
                       ...+.+++|++|+++|+.|+.+.+.++....++.+..+.++....... .....+++|+|+||+++...+...  .+.+
T Consensus        94 ~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~v~Tp~~l~~~l~~~~~~~~~  173 (245)
T 3dkp_A           94 PANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDL  173 (245)
T ss_dssp             CCSSSCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEECCCHHHHHHTTTSTTSCCCCCEEEECHHHHHHHHHSSSCSCCC
T ss_pred             cccCCceEEEEeCCHHHHHHHHHHHHHHhcccCceEEEEecCccHHHHhhhhhcCCCCEEEECHHHHHHHHHhCCCCccc
Confidence             334568999999999999999999999888888877776654433222 123456899999999999988775  4667


Q ss_pred             CCccEEEEecchhhhc---cCcHHHHHHHHhhCC-CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCC
Q 018574          174 RAIKLLVLDESDEMLS---RGFKDQIYDVYRYLP-PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRD  239 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~---~~~~~~~~~i~~~~~-~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~  239 (354)
                      .++++||+||||++.+   .++...+..++..+. .+.|++++|||++.++..+...++.++..+.....
T Consensus       174 ~~~~~lViDEah~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~SAT~~~~v~~~~~~~l~~p~~i~~~~~  243 (245)
T 3dkp_A          174 ASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVSIGAR  243 (245)
T ss_dssp             TTCCEEEESSHHHHHHHC--CHHHHHHHHHHHCCCTTCEEEEEESSCCHHHHHHHHHHSSSCEEEEECC-
T ss_pred             ccCcEEEEeChHHhcccccccHHHHHHHHHHhcCCCCcEEEEEeccCCHHHHHHHHHhCCCCEEEEeCCC
Confidence            8899999999999987   468888888877664 57899999999999999999999999988876553

>1nkt_A Preprotein translocase SECA 1 subunit; preprotein translocation, ATPase, transmembrane transport, helicase-like motor domain; HET: ADP; 2.60A {Mycobacterium tuberculosis} SCOP: a.162.1.1 a.172.1.1 c.37.1.19 c.37.1.19 PDB: 1nl3_A

Probab=100.00  E-value=4.5e-33  Score=257.72  Aligned_cols=280  Identities=18%  Similarity=0.221  Sum_probs=208.0

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+ .|++.|..++..+++|+  +..++||+|||+++.+|++.....+   ..++|++|++.|+.|.++.+..+...+++
T Consensus       108 lG~-rP~~VQ~~~ip~Ll~G~--Iaem~TGeGKTLa~~LP~~l~aL~g---~~v~VvTpTreLA~Qdae~m~~l~~~lGL  181 (922)
T 1nkt_A          108 LDQ-RPFDVQVMGAAALHLGN--VAEMKTGEGKTLTCVLPAYLNALAG---NGVHIVTVNDYLAKRDSEWMGRVHRFLGL  181 (922)
T ss_dssp             HSC-CCCHHHHHHHHHHHTTE--EEECCTTSCHHHHTHHHHHHHHTTT---SCEEEEESSHHHHHHHHHHHHHHHHHTTC
T ss_pred             cCC-CCCHHHHHHHHhHhcCC--EEEecCCCccHHHHHHHHHHHHHhC---CCeEEEeCCHHHHHHHHHHHHHHHhhcCC
Confidence            688 99999999999999987  9999999999999999997544433   35999999999999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcC------CccCCCccEEEEecchhhh-cc------------
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRK------TLRTRAIKLLVLDESDEML-SR------------  190 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~------~~~~~~~~~vvvDE~h~~~-~~------------  190 (354)
                      ++..+.||.+......  ..+++|+|+||+.| .+++...      .+.++.+.++|+||+|+++ +.            
T Consensus       182 sv~~i~gg~~~~~r~~--~y~~DIvygTpgrlgfDyLrD~m~~~~~~l~lr~l~~lIVDEaDsmLiDeartPLiiSg~~~  259 (922)
T 1nkt_A          182 QVGVILATMTPDERRV--AYNADITYGTNNEFGFDYLRDNMAHSLDDLVQRGHHYAIVDEVDSILIDEARTPLIISGPAD  259 (922)
T ss_dssp             CEEECCTTCCHHHHHH--HHHSSEEEEEHHHHHHHHHHHTTCSSGGGCCCCCCCEEEETTHHHHHTTGGGSCEEEEEECC
T ss_pred             eEEEEeCCCCHHHHHH--hcCCCEEEECchHhhHHHHHhhhhccHhhhccCCCCEEEEeChHHHHHhcCccceeecCCCC
Confidence            9999999887544333  33589999999999 6666543      3556789999999999998 32            


Q ss_pred             ---CcHHHHHHHHhhCC---------CCCcEE-----------------EEEeeCchh---HHHHH--HhccC-CCeEE-
Q 018574          191 ---GFKDQIYDVYRYLP---------PDLQVV-----------------LISATLPHE---ILEMT--TKFMT-DPVKI-  234 (354)
Q Consensus       191 ---~~~~~~~~i~~~~~---------~~~~~i-----------------~lSaT~~~~---~~~~~--~~~~~-~~~~~-  234 (354)
                         ++...+..+...++         +..|++                 ++|||.+..   +...+  ..++. +..++ 
T Consensus       260 ~~~~~y~~i~~iv~~L~~~~dy~vDek~rqv~Lte~G~~~~e~~l~i~~Lfsat~~~l~~~i~~aL~A~~l~~~d~dYiV  339 (922)
T 1nkt_A          260 GASNWYTEFARLAPLMEKDVHYEVDLRKRTVGVHEKGVEFVEDQLGIDNLYEAANSPLVSYLNNALKAKELFSRDKDYIV  339 (922)
T ss_dssp             CCHHHHHHHHHHHHHSCBTTTEEEETTTTEEEECHHHHHHHHHHHTCSSTTCSTTCCHHHHHHHHHHHHHHCCBTTTEEE
T ss_pred             cchhHHHHHHHHHHhCcccccceeccCcceEEecHhHHHHHHHHhCCccccCCcchhHHHHHHHHHHHHHHhhcccceee
Confidence               46788999999997         677887                 788987642   22211  11111 11111 


Q ss_pred             ------EecC-----------------------------CcccccCce--------------------------------
Q 018574          235 ------LVKR-----------------------------DELTLEGIK--------------------------------  247 (354)
Q Consensus       235 ------~~~~-----------------------------~~~~~~~~~--------------------------------  247 (354)
                            .++.                             .......+.                                
T Consensus       340 ~dg~vviVDe~TGR~m~grr~sdGLHQaieaKe~V~I~~e~~TlatIt~Qnyfr~Y~kL~GMTGTa~te~~Ef~~iY~l~  419 (922)
T 1nkt_A          340 RDGEVLIVDEFTGRVLIGRRYNEGMHQAIEAKEHVEIKAENQTLATITLQNYFRLYDKLAGMTGTAQTEAAELHEIYKLG  419 (922)
T ss_dssp             CSSCEEEBCSSSCCBCTTCCCSTTHHHHHHHHTTCCCCCCEEEEEEECHHHHHTTSSEEEEEESCCGGGHHHHHHHHCCE
T ss_pred             ecCceEEEecccCcccCCccccchhhHHHhccccccccccccccceeehHHHHHhhhhhhccccCchhHHHHHHHHhCCC
Confidence                  1110                             000000011                                


Q ss_pred             --------------e-EEEEeccccchHHHHHHHHhh--CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHH
Q 018574          248 --------------Q-FFVAVEREEWKFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKE  310 (354)
Q Consensus       248 --------------~-~~~~~~~~~~~~~~l~~~l~~--~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~  310 (354)
                                    + .+... ....|...+...+..  ..+.++||||+|++.++.++..|++.|+++.++||+....+
T Consensus       420 vv~IPtn~p~~R~d~~d~v~~-t~~~K~~al~~~i~~~~~~gqpvLVft~Sie~sE~Ls~~L~~~Gi~~~vLnak~~~rE  498 (922)
T 1nkt_A          420 VVSIPTNMPMIREDQSDLIYK-TEEAKYIAVVDDVAERYAKGQPVLIGTTSVERSEYLSRQFTKRRIPHNVLNAKYHEQE  498 (922)
T ss_dssp             EEECCCSSCCCCEECCCEEES-CHHHHHHHHHHHHHHHHHTTCCEEEEESCHHHHHHHHHHHHHTTCCCEEECSSCHHHH
T ss_pred             eEEeCCCCCcccccCCcEEEe-CHHHHHHHHHHHHHHHHhcCCcEEEEECCHHHHHHHHHHHHHCCCCEEEecCChhHHH
Confidence                          0 11222 233477777776653  24568999999999999999999999999999999976666


Q ss_pred             HHHHHHHHhCCCCcEEEEccccccCCCcCCC
Q 018574          311 RDAIMGEFRSGTTRVLITTDVWARGLDVQQA  341 (354)
Q Consensus       311 r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~  341 (354)
                      +..+.+.|+.|  .|+|||+++++|+||+..
T Consensus       499 a~iia~agr~G--~VtIATnmAgRGtDI~l~  527 (922)
T 1nkt_A          499 ATIIAVAGRRG--GVTVATNMAGRGTDIVLG  527 (922)
T ss_dssp             HHHHHTTTSTT--CEEEEETTCSTTCCCCTT
T ss_pred             HHHHHhcCCCC--eEEEecchhhcCccccCC
Confidence            65566666665  799999999999999975

>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B

Probab=100.00  E-value=2.8e-33  Score=283.12  Aligned_cols=301  Identities=15%  Similarity=0.204  Sum_probs=221.1

Q ss_pred             CCHHHHHHHHHCCCCCChHHHHHhHhhhhc-CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHH
Q 018574           40 IKDDLLRGIYQYGFEKPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTE  118 (354)
Q Consensus        40 ~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~  118 (354)
                      +.+...+.+...+|..++|.|.++++.+.. ++++++.||||||||+++.++++..+.... +.+++|++|+++|+.|.+
T Consensus       911 L~~~~~e~l~~~~f~~fnpiQ~q~~~~l~~~~~nvlv~APTGSGKTliaelail~~l~~~~-~~kavyi~P~raLa~q~~  989 (1724)
T 4f92_B          911 LRNSAFESLYQDKFPFFNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSS-EGRCVYITPMEALAEQVY  989 (1724)
T ss_dssp             SCCHHHHTTTTTTCSBCCHHHHHHHHHHHSCCSCEEEECCTTSCCHHHHHHHHHHHHHHCT-TCCEEEECSCHHHHHHHH
T ss_pred             ccCHHHHHHHHhcCCCCCHHHHHHHHHHhcCCCcEEEEeCCCCCchHHHHHHHHHHHHhCC-CCEEEEEcChHHHHHHHH
Confidence            445666777777899999999999999876 578999999999999999999998886543 346999999999999999


Q ss_pred             HHHHH-hccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcC--CccCCCccEEEEecchhhhccCcHHH
Q 018574          119 KVILA-IGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRK--TLRTRAIKLLVLDESDEMLSRGFKDQ  195 (354)
Q Consensus       119 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~--~~~~~~~~~vvvDE~h~~~~~~~~~~  195 (354)
                      +.+.+ ++...++++..++|+...+...   ...++|+|+||+++..++++.  ...+.++++||+||+|.+.+. .+..
T Consensus       990 ~~~~~~f~~~~g~~V~~ltGd~~~~~~~---~~~~~IiV~TPEkld~llr~~~~~~~l~~v~lvViDE~H~l~d~-rg~~ 1065 (1724)
T 4f92_B          990 MDWYEKFQDRLNKKVVLLTGETSTDLKL---LGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGGE-NGPV 1065 (1724)
T ss_dssp             HHHHHHHTTTSCCCEEECCSCHHHHHHH---HHHCSEEEECHHHHHHHHTTTTTCHHHHSCSEEEECCGGGGGST-THHH
T ss_pred             HHHHHHhchhcCCEEEEEECCCCcchhh---cCCCCEEEECHHHHHHHHhCcccccccceeeEEEeechhhcCCC-CCcc
Confidence            98865 6677889999999887654332   234799999999997776542  223568999999999988654 3444


Q ss_pred             HHHH-------HhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccch------HHH
Q 018574          196 IYDV-------YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK------FDT  262 (354)
Q Consensus       196 ~~~i-------~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~  262 (354)
                      +..+       ....+.+.|++++|||+++. .++..++...+...........+..+...+.........      ...
T Consensus      1066 le~il~rl~~i~~~~~~~~riI~lSATl~N~-~dla~WL~~~~~~~~~~~~~~RPvpL~~~i~~~~~~~~~~~~~~~~~~ 1144 (1724)
T 4f92_B         1066 LEVICSRMRYISSQIERPIRIVALSSSLSNA-KDVAHWLGCSATSTFNFHPNVRPVPLELHIQGFNISHTQTRLLSMAKP 1144 (1724)
T ss_dssp             HHHHHHHHHHHHHTTSSCCEEEEEESCBTTH-HHHHHHHTCCSTTEEECCGGGCSSCEEEEEEEECCCSHHHHHHTTHHH
T ss_pred             HHHHHHHHHHHHhhcCCCceEEEEeCCCCCH-HHHHHHhCCCCCCeEEeCCCCCCCCeEEEEEeccCCCchhhhhhhcch
Confidence            4333       34456789999999999763 445544433332222222223333344444333332211      111


Q ss_pred             HHH-HHhhCCCCcEEEEcCchhhHHHHHHHHhcC----------------------------------CCeEEEeecCCC
Q 018574          263 LCD-LYDTLTITQAVIFCNTKRKVDWLTEKMRGY----------------------------------NFTVSSMHGDMP  307 (354)
Q Consensus       263 l~~-~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~----------------------------------~~~~~~~~~~~~  307 (354)
                      +.. +.+....+++||||++++.++.++..|...                                  ...+..+|++++
T Consensus      1145 ~~~~i~~~~~~~~~lVF~~sR~~~~~~A~~L~~~~~~~~~~~~~~~~~~~~l~~~l~~~~d~~L~~~l~~GIa~hHagL~ 1224 (1724)
T 4f92_B         1145 VYHAITKHSPKKPVIVFVPSRKQTRLTAIDILTTCAADIQRQRFLHCTEKDLIPYLEKLSDSTLKETLLNGVGYLHEGLS 1224 (1724)
T ss_dssp             HHHHHHHHCSSSCEEEEESSHHHHHHHHHHHHHHHHHTTCTTTTBCSCHHHHHHHHTTCCCHHHHHHHHTTEEEECTTSC
T ss_pred             HHHHHHHhcCCCCeeeeCCCHHHHHHHHHHHHHHHhhccchhhhhcccHHHHHHHHhhcccHHHHHHHhCCEEEECCCCC
Confidence            222 233445679999999999998888766321                                  124788999999


Q ss_pred             HHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          308 QKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       308 ~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      +.+|..+.+.|++|.++|||||+.+++|+|+|..++||.
T Consensus      1225 ~~~R~~VE~lF~~G~i~VLvaT~tlA~GVnlPa~~VVI~ 1263 (1724)
T 4f92_B         1225 PMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHLVIIM 1263 (1724)
T ss_dssp             HHHHHHHHHHHHHTSBCEEEEEGGGSSSCCCCBSEEEEE
T ss_pred             HHHHHHHHHHHHCCCCeEEEEChHHHcCCCCCccEEEEe
Confidence            999999999999999999999999999999999888883

>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B

Probab=100.00  E-value=8.3e-34  Score=287.02  Aligned_cols=290  Identities=16%  Similarity=0.286  Sum_probs=213.0

Q ss_pred             CCCCChHHHHHhHhhhhc-CCcEEEEcCCCCchhhHhHHHHhhccccC--------CCceeEEEEcCCHHHHHHHHHHHH
Q 018574           52 GFEKPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALTVCQTVDTS--------SREVQALILSPTRELATQTEKVIL  122 (354)
Q Consensus        52 ~~~~~~~~Q~~~~~~~~~-~~~~ii~~~tGsGKT~~~~~~~~~~~~~~--------~~~~~~lil~p~~~l~~q~~~~~~  122 (354)
                      ||..+++.|.++++.++. +++++++||||+|||.++.++++..+...        ..+.++||++|+++|+.|..+.+.
T Consensus        76 g~~~ln~iQs~~~~~al~~~~N~lv~APTGsGKTlva~l~il~~l~~~~~~~~~~~~~~~k~lyiaP~kALa~e~~~~l~  155 (1724)
T 4f92_B           76 GFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEMVGSFG  155 (1724)
T ss_dssp             TCSBCCHHHHHTHHHHHTCCCCEEEECCTTSCCHHHHHHHHHHHHGGGCCTTSSCCTTSCEEEEECSSHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHcCCCcEEEEeCCcchHHHHHHHHHHHHHHhhccccccccCCCCEEEEECCHHHHHHHHHHHHH
Confidence            788999999999998775 78999999999999999999999887542        245689999999999999999999


Q ss_pred             HhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCC--ccCCCccEEEEecchhhhccCcHHHHHHHH
Q 018574          123 AIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKT--LRTRAIKLLVLDESDEMLSRGFKDQIYDVY  200 (354)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~--~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~  200 (354)
                      +.....++++..++|+.......   ..+++|+|+||+++..+++...  ..+..+++||+||+|.+.+ ..+..+..++
T Consensus       156 ~~~~~~gi~V~~~tGd~~~~~~~---~~~~~IlVtTpEkld~llr~~~~~~~l~~v~~vIiDEvH~l~d-~RG~~lE~~l  231 (1724)
T 4f92_B          156 KRLATYGITVAELTGDHQLCKEE---ISATQIIVCTPEKWDIITRKGGERTYTQLVRLIILDEIHLLHD-DRGPVLEALV  231 (1724)
T ss_dssp             HHHTTTTCCEEECCSSCSSCCTT---GGGCSEEEECHHHHHHHTTSSTTHHHHTTEEEEEETTGGGGGS-TTHHHHHHHH
T ss_pred             HHHhhCCCEEEEEECCCCCCccc---cCCCCEEEECHHHHHHHHcCCccchhhcCcCEEEEecchhcCC-ccHHHHHHHH
Confidence            88888899999999987654321   2458999999999976665432  2357899999999998755 3444444333


Q ss_pred             -------hhCCCCCcEEEEEeeCchhHHHHHHhccCCC-eEEEecCCcccccCceeEEEEeccccc--hH----HHHHH-
Q 018574          201 -------RYLPPDLQVVLISATLPHEILEMTTKFMTDP-VKILVKRDELTLEGIKQFFVAVEREEW--KF----DTLCD-  265 (354)
Q Consensus       201 -------~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~----~~l~~-  265 (354)
                             ...+++.|++++|||+++. .++...+...+ ...........+-.+.+.+........  ..    ..+.. 
T Consensus       232 ~rl~~~~~~~~~~~riI~LSATl~N~-~dvA~wL~~~~~~~~~~~~~~~RPvpL~~~~~~~~~~~~~~~~~~~~~~~~~~  310 (1724)
T 4f92_B          232 ARAIRNIEMTQEDVRLIGLSATLPNY-EDVATFLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAIKRFQIMNEIVYEK  310 (1724)
T ss_dssp             HHHHHHHHHHTCCCEEEEEECSCTTH-HHHHHHTTCCHHHHEEECCGGGCSSCEEEECCEECCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCcEEEEecccCCH-HHHHHHhCCCCCCCeEEECCCCccCccEEEEeccCCcchhhhhHHHHHHHHHH
Confidence                   2346788999999999763 44444332221 111112222222233444333332221  11    12222 


Q ss_pred             HHhhCCCCcEEEEcCchhhHHHHHHHHhcC-------------------------------------CCeEEEeecCCCH
Q 018574          266 LYDTLTITQAVIFCNTKRKVDWLTEKMRGY-------------------------------------NFTVSSMHGDMPQ  308 (354)
Q Consensus       266 ~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~-------------------------------------~~~~~~~~~~~~~  308 (354)
                      +......+++||||++++.++.+++.|.+.                                     ...+..+||+++.
T Consensus       311 v~~~~~~~~~LVF~~sR~~~~~~A~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Gva~HHagL~~  390 (1724)
T 4f92_B          311 IMEHAGKNQVLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSASTEVLRTEAEQCKNLELKDLLPYGFAIHHAGMTR  390 (1724)
T ss_dssp             HTTCCSSCCEEEECSSTTTTHHHHHHHHHHHHHTTSTTCCSSCCTTCSSHHHHTTSCCSTHHHHHHTTTTEEEECSSSCT
T ss_pred             HHHHhcCCcEEEECCCHHHHHHHHHHHHHHHhhccchhhhcccchhHHHHHHhhhcccccHHHHHHhhcCEEEEcCCCCH
Confidence            223344578999999999998888877531                                     1237889999999


Q ss_pred             HHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          309 KERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       309 ~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      .+|..+.+.|++|.++|||||+.++.|+|+|..++||.
T Consensus       391 ~~R~~vE~~F~~G~i~vlvaTsTLa~GVNlPa~~vVI~  428 (1724)
T 4f92_B          391 VDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIK  428 (1724)
T ss_dssp             HHHHHHHHHHHTTCCCEEEECHHHHHHSCCCBSEEEEE
T ss_pred             HHHHHHHHHHHCCCCeEEEEcchhHhhCCCCCceEEEe
Confidence            99999999999999999999999999999999999985

>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=100.00  E-value=9.7e-34  Score=268.78  Aligned_cols=306  Identities=15%  Similarity=0.191  Sum_probs=217.3

Q ss_pred             cccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhc-CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEE
Q 018574           29 VEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALIL  107 (354)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil  107 (354)
                      .....+|.++++++.+.+.++..+ ..|.+.|++.+..++. ++++++.+|||+|||+.....+.........+.+++++
T Consensus        68 ~~~~~~f~~~~l~~~~~~~l~~r~-~lP~~~q~~~i~~~l~~~~~vii~gpTGSGKTtllp~ll~~~~~~~~~g~~ilvl  146 (773)
T 2xau_A           68 DGKINPFTGREFTPKYVDILKIRR-ELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLENTQVACT  146 (773)
T ss_dssp             HSSBCTTTCSBCCHHHHHHHHHHT-TSGGGGGHHHHHHHHHHCSEEEEECCTTSSHHHHHHHHHHHHHCGGGGTCEEEEE
T ss_pred             cCCCCCccccCCCHHHHHHHHHhh-cCChHHHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHhccccCCCceEEec
Confidence            345678999999999999999988 5788888888877665 67899999999999984333322222222224569999


Q ss_pred             cCCHHHHHHHHHHHHHhc-cCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          108 SPTRELATQTEKVILAIG-DFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       108 ~p~~~l~~q~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      +|+++|+.|+++.+.... ...+..+........      .....++|+++|++.+.+.+... ..+.++++||+||+|.
T Consensus       147 ~P~r~La~q~~~~l~~~~~~~v~~~vG~~i~~~~------~~~~~~~I~v~T~G~l~r~l~~~-~~l~~~~~lIlDEah~  219 (773)
T 2xau_A          147 QPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFEN------KTSNKTILKYMTDGMLLREAMED-HDLSRYSCIILDEAHE  219 (773)
T ss_dssp             ESCHHHHHHHHHHHHHHTTCCBTTTEEEEETTEE------ECCTTCSEEEEEHHHHHHHHHHS-TTCTTEEEEEECSGGG
T ss_pred             CchHHHHHHHHHHHHHHhCCchhheecceecccc------ccCCCCCEEEECHHHHHHHHhhC-ccccCCCEEEecCccc
Confidence            999999999998775543 222222221111111      11245789999999998876654 3467899999999996


Q ss_pred             -hhccC-cHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccch---HH
Q 018574          187 -MLSRG-FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK---FD  261 (354)
Q Consensus       187 -~~~~~-~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~  261 (354)
                       .++.. ....+..+.... ++.+++++|||++.+  .+ ..++.....+......   ..+...|.........   ..
T Consensus       220 R~ld~d~~~~~l~~l~~~~-~~~~iIl~SAT~~~~--~l-~~~~~~~~vi~v~gr~---~pv~~~~~~~~~~~~~~~~l~  292 (773)
T 2xau_A          220 RTLATDILMGLLKQVVKRR-PDLKIIIMSATLDAE--KF-QRYFNDAPLLAVPGRT---YPVELYYTPEFQRDYLDSAIR  292 (773)
T ss_dssp             CCHHHHHHHHHHHHHHHHC-TTCEEEEEESCSCCH--HH-HHHTTSCCEEECCCCC---CCEEEECCSSCCSCHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHhC-CCceEEEEeccccHH--HH-HHHhcCCCcccccCcc---cceEEEEecCCchhHHHHHHH
Confidence             44432 234445555443 578999999999653  23 3344443333333221   2234444333333322   33


Q ss_pred             HHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhc-----------CCCeEEEeecCCCHHHHHHHHHHHh-----CCCCcE
Q 018574          262 TLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRG-----------YNFTVSSMHGDMPQKERDAIMGEFR-----SGTTRV  325 (354)
Q Consensus       262 ~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~-----------~~~~~~~~~~~~~~~~r~~~~~~f~-----~g~~~v  325 (354)
                      .+..+......+++||||+++++++.+++.|++           .++.+..+||+++.++|.++++.|.     +|+.+|
T Consensus       293 ~l~~~~~~~~~g~iLVF~~~~~~i~~l~~~L~~~~~~l~~~~~~~~~~v~~lhg~l~~~eR~~v~~~f~~~~~~~g~~kV  372 (773)
T 2xau_A          293 TVLQIHATEEAGDILLFLTGEDEIEDAVRKISLEGDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKV  372 (773)
T ss_dssp             HHHHHHHHSCSCEEEEECSCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECTTCCHHHHGGGGSCCCCCSSSSCCEEE
T ss_pred             HHHHHHHhcCCCCEEEECCCHHHHHHHHHHHHHHHHhhcccccCCCeEEEEeCCCCCHHHHHHHHhhcccccCCCCceEE
Confidence            344444455678999999999999999999975           5788999999999999999999999     999999


Q ss_pred             EEEccccccCCCcCCCcEEEecCC
Q 018574          326 LITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       326 lv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      ||||+++++|+|+|++++||++|+
T Consensus       373 lVAT~iae~GidIp~v~~VId~g~  396 (773)
T 2xau_A          373 VISTNIAETSLTIDGIVYVVDPGF  396 (773)
T ss_dssp             EEECTHHHHTCCCTTEEEEEECSE
T ss_pred             EEeCcHHHhCcCcCCeEEEEeCCC
Confidence            999999999999999999999988

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=100.00  E-value=6.7e-34  Score=265.70  Aligned_cols=284  Identities=17%  Similarity=0.254  Sum_probs=172.4

Q ss_pred             CChHHHHHhHhhhhc----C-CcEEEEcCCCCchhhHhHHHHhhccccC------CCceeEEEEcCCHHHHHHHH-HHHH
Q 018574           55 KPSAIQQRAVMPIIK----G-RDVIAQAQSGTGKTSMIALTVCQTVDTS------SREVQALILSPTRELATQTE-KVIL  122 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~------~~~~~~lil~p~~~l~~q~~-~~~~  122 (354)
                      .|+++|.++++.+++    + +++++.+|||+|||.+++..+...+...      ..+.++||++|+++|+.|+. +.++
T Consensus       178 ~lr~~Q~~ai~~~~~~~~~~~~~~ll~~~TGsGKT~~~~~~~~~l~~~~~~~~~~~~~~~vlil~P~~~L~~Q~~~~~~~  257 (590)
T 3h1t_A          178 SPRYYQQIAINRAVQSVLQGKKRSLITMATGTGKTVVAFQISWKLWSARWNRTGDYRKPRILFLADRNVLVDDPKDKTFT  257 (590)
T ss_dssp             -CCHHHHHHHHHHHHHHHTTCSEEEEEECTTSCHHHHHHHHHHHHHHTTCCSSCSSSCCCEEEEEC-----------CCT
T ss_pred             CchHHHHHHHHHHHHHHhcCCCceEEEecCCCChHHHHHHHHHHHHhcccccccccCCCeEEEEeCCHHHHHHHHHHHHH
Confidence            699999999998876    4 6689999999999998766554444332      14568999999999999999 7776


Q ss_pred             HhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHh----cCCccCCCccEEEEecchhhhccCcHHHHHH
Q 018574          123 AIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIK----RKTLRTRAIKLLVLDESDEMLSRGFKDQIYD  198 (354)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~----~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~  198 (354)
                      .++.    .+..+.++        ....+.+|+|+|++.+.....    ...+....+++||+||||++.... ...+..
T Consensus       258 ~~~~----~~~~~~~~--------~~~~~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~lvIiDEaH~~~~~~-~~~~~~  324 (590)
T 3h1t_A          258 PFGD----ARHKIEGG--------KVVKSREIYFAIYQSIASDERRPGLYKEFPQDFFDLIIIDECHRGSARD-NSNWRE  324 (590)
T ss_dssp             TTCS----SEEECCC----------CCSSCSEEEEEGGGC------CCGGGGSCTTSCSEEEESCCC----------CHH
T ss_pred             hcch----hhhhhhcc--------CCCCCCcEEEEEhhhhccccccccccccCCCCccCEEEEECCccccccc-hHHHHH
Confidence            5542    23233222        123458999999999987654    234455678999999999986542 245556


Q ss_pred             HHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCccc---ccCceeEEEEe----------------------
Q 018574          199 VYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELT---LEGIKQFFVAV----------------------  253 (354)
Q Consensus       199 i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~----------------------  253 (354)
                      +++.++ ..+++++|||+..........++..+...........   ...........                      
T Consensus       325 il~~~~-~~~~l~lTATP~~~~~~~~~~~f~~~~~~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  403 (590)
T 3h1t_A          325 ILEYFE-PAFQIGMTATPLREDNRDTYRYFGNPIYTYSLRQGIDDGFLAPYRVHRVISEVDAAGWRPSKGDVDRFGREIP  403 (590)
T ss_dssp             HHHHST-TSEEEEEESSCSCTTTHHHHHHSCSCSEEECHHHHHHHTSSCCEEEEEEEETTCC------------------
T ss_pred             HHHhCC-cceEEEeccccccccchhHHHHcCCceEecCHHHHhhCCccCCcEEEEeeeeeeccccccccccccccccccc
Confidence            666664 4679999999875433323333333222110000000   00000000000                      


Q ss_pred             ----cccc--------ch----HHHHHHHHhh-CCCCcEEEEcCchhhHHHHHHHHhcCCC--------eEEEeecCCCH
Q 018574          254 ----EREE--------WK----FDTLCDLYDT-LTITQAVIFCNTKRKVDWLTEKMRGYNF--------TVSSMHGDMPQ  308 (354)
Q Consensus       254 ----~~~~--------~~----~~~l~~~l~~-~~~~~~lvf~~~~~~~~~l~~~l~~~~~--------~~~~~~~~~~~  308 (354)
                          ....        ..    ...+...+.. ...+++||||+++++++.+++.|++.+.        .+..+||.++ 
T Consensus       404 ~~~~~~~~~~~~~~~~~r~~~i~~~l~~~l~~~~~~~k~lVF~~~~~~a~~l~~~L~~~~~~~~~~~~~~~~~i~g~~~-  482 (590)
T 3h1t_A          404 DGEYQTKDFERVIALKARTDAFAKHLTDFMKRTDRFAKTIVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTSEEG-  482 (590)
T ss_dssp             -----CCSHHHHHHHHHTHHHHHHHHHHHHHHHCTTSEEEEEESSHHHHHHHHHHHHHHTHHHHTTCTTSEEECSSTTH-
T ss_pred             cccCCHHHhhhHhcChHHHHHHHHHHHHHHHhcCCCccEEEEECCHHHHHHHHHHHHHhhhhhhccCCCeEEEEeCCCh-
Confidence                0000        01    1123333333 3447999999999999999999976543        2677888865 


Q ss_pred             HHHHHHHHHHhCCCCc---EEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          309 KERDAIMGEFRSGTTR---VLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       309 ~~r~~~~~~f~~g~~~---vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ++|.++++.|++|+.+   ||+||+++++|+|+|++++||+++.|+|+
T Consensus       483 ~~r~~~l~~F~~~~~~~~~ilvtt~~l~~GiDip~v~~Vi~~~~~~s~  530 (590)
T 3h1t_A          483 KIGKGHLSRFQELETSTPVILTTSQLLTTGVDAPTCKNVVLARVVNSM  530 (590)
T ss_dssp             HHHHHHHHHHHCTTCCCCCEEEESSTTTTTCCCTTEEEEEEESCCCCH
T ss_pred             HHHHHHHHHHhCCCCCCCEEEEECChhhcCccchheeEEEEEecCCCh
Confidence            4699999999998766   88899999999999999999999999884

>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding, viral nucleoprotein, endoplasmic reticulum, helicase, hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A 2bhr_A

Probab=100.00  E-value=1.8e-33  Score=253.38  Aligned_cols=257  Identities=14%  Similarity=0.096  Sum_probs=181.9

Q ss_pred             CCCCChHHHHHhHhhhhcCCcE-EEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           52 GFEKPSAIQQRAVMPIIKGRDV-IAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        52 ~~~~~~~~Q~~~~~~~~~~~~~-ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      |+.++++.|. +++.+++++++ ++.+|||||||.+++++++..+...  +.+++|++|+++|+.|+.+.+..      .
T Consensus         1 G~~q~~~iq~-~i~~~l~~~~~~lv~a~TGsGKT~~~~~~~l~~~~~~--~~~~lvl~Ptr~La~Q~~~~l~g------~   71 (451)
T 2jlq_A            1 GSAMGEPDYE-VDEDIFRKKRLTIMDLHPGAGKTKRILPSIVREALLR--RLRTLILAPTRVVAAEMEEALRG------L   71 (451)
T ss_dssp             CCCCCSCCCC-CCGGGGSTTCEEEECCCTTSSCCTTHHHHHHHHHHHT--TCCEEEEESSHHHHHHHHHHTTT------S
T ss_pred             CCCCCCCcHH-HHHHHHhcCCeEEEECCCCCCHhhHHHHHHHHHHHhc--CCcEEEECCCHHHHHHHHHHhcC------c
Confidence            6778999985 78888888776 9999999999999999988766543  45799999999999999998742      2


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHh-hCCCCCcE
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYR-YLPPDLQV  209 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~-~~~~~~~~  209 (354)
                      .+.........     ....+..+.++|++.+.+.+... ..+.++++||+||+|++ +..+...+..+.. ...++.|+
T Consensus        72 ~v~~~~~~~~~-----~~~~~~~i~~~t~~~l~~~l~~~-~~l~~~~~iViDEah~~-~~~~~~~~~~~~~~~~~~~~~~  144 (451)
T 2jlq_A           72 PIRYQTPAVKS-----DHTGREIVDLMCHATFTTRLLSS-TRVPNYNLIVMDEAHFT-DPCSVAARGYISTRVEMGEAAA  144 (451)
T ss_dssp             CEEECCTTCSC-----CCCSSCCEEEEEHHHHHHHHHHC-SCCCCCSEEEEETTTCC-SHHHHHHHHHHHHHHHTTSCEE
T ss_pred             eeeeeeccccc-----cCCCCceEEEEChHHHHHHhhCc-ccccCCCEEEEeCCccC-CcchHHHHHHHHHhhcCCCceE
Confidence            22211111100     12334678899999887766543 44678999999999986 3322222222221 23457899


Q ss_pred             EEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHH
Q 018574          210 VLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLT  289 (354)
Q Consensus       210 i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~  289 (354)
                      +++|||++.....   .+...+..+..... .  +. .. +          ..+...+... .+++||||++++.++.++
T Consensus       145 i~~SAT~~~~~~~---~~~~~~~~~~~~~~-~--p~-~~-~----------~~~~~~l~~~-~~~~lVF~~s~~~a~~l~  205 (451)
T 2jlq_A          145 IFMTATPPGSTDP---FPQSNSPIEDIERE-I--PE-RS-W----------NTGFDWITDY-QGKTVWFVPSIKAGNDIA  205 (451)
T ss_dssp             EEECSSCTTCCCS---SCCCSSCEEEEECC-C--CS-SC-C----------SSSCHHHHHC-CSCEEEECSSHHHHHHHH
T ss_pred             EEEccCCCccchh---hhcCCCceEecCcc-C--Cc-hh-h----------HHHHHHHHhC-CCCEEEEcCCHHHHHHHH
Confidence            9999999764322   12222222222110 0  00 00 0          0011222222 469999999999999999


Q ss_pred             HHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          290 EKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       290 ~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      +.|++.++.+..+|+++.    .++++.|++|+.+|||||+++++|+|+|+ ++||++|
T Consensus       206 ~~L~~~g~~~~~lh~~~~----~~~~~~f~~g~~~vLVaT~v~~~GiDip~-~~VI~~~  259 (451)
T 2jlq_A          206 NCLRKSGKRVIQLSRKTF----DTEYPKTKLTDWDFVVTTDISEMGANFRA-GRVIDPR  259 (451)
T ss_dssp             HHHHTTTCCEEEECTTTH----HHHGGGGGSSCCSEEEECGGGGSSCCCCC-SEEEECC
T ss_pred             HHHHHcCCeEEECCHHHH----HHHHHhhccCCceEEEECCHHHhCcCCCC-CEEEECC
Confidence            999999999999999753    57899999999999999999999999999 9999999

>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase, ATP-binding, reticulum, nucleotidyltransferase, multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4} PDB: 2vbc_A 2wzq_A

Probab=100.00  E-value=3.9e-34  Score=265.06  Aligned_cols=272  Identities=15%  Similarity=0.093  Sum_probs=189.6

Q ss_pred             CCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHH
Q 018574           38 MGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQT  117 (354)
Q Consensus        38 ~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~  117 (354)
                      +++++.+.+.+... ...++|.|...++.+++++++++.+|||||||.+|+++++..+...  +.++||++|+++|+.|+
T Consensus       155 l~~~~~~~~~l~~~-~~~~lpiq~~~i~~l~~g~dvlv~a~TGSGKT~~~~lpil~~l~~~--~~~vLvl~PtreLa~Qi  231 (618)
T 2whx_A          155 VTKSGDYVSAITQA-ERIGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKRILPSIVREALKR--RLRTLILAPTRVVAAEM  231 (618)
T ss_dssp             -------CEECBCC-CCCCCCCCCCCGGGGSTTCEEEECCCTTSSTTTTHHHHHHHHHHHT--TCCEEEEESSHHHHHHH
T ss_pred             ccchHHHHHHHhhc-cccCCCccccCHHHHhcCCeEEEEcCCCCCHHHHHHHHHHHHHHhC--CCeEEEEcChHHHHHHH
Confidence            55666666555443 3677888888899999999999999999999999999998877543  45799999999999999


Q ss_pred             HHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHH
Q 018574          118 EKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIY  197 (354)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~  197 (354)
                      .+.++.      ..+. ..... ..   ..-..+..+.+.|.+.+.+.+... ..+.++++||+||||++ +.++...+.
T Consensus       232 ~~~l~~------~~v~-~~~~~-l~---~~~tp~~~i~~~t~~~l~~~l~~~-~~l~~~~~iViDEah~~-~~~~~~~~~  298 (618)
T 2whx_A          232 EEALRG------LPIR-YQTPA-VK---SDHTGREIVDLMCHATFTTRLLSS-TRVPNYNLIVMDEAHFT-DPCSVAARG  298 (618)
T ss_dssp             HHHTTT------SCEE-ECCTT-SS---CCCCSSSCEEEEEHHHHHHHHHHC-SSCCCCSEEEEESTTCC-SHHHHHHHH
T ss_pred             HHHhcC------Ccee-Eeccc-ce---eccCCCceEEEEChHHHHHHHhcc-ccccCCeEEEEECCCCC-CccHHHHHH
Confidence            988752      2222 11111 00   011223456777888777655543 34678999999999998 555666666


Q ss_pred             HHHhhCC-CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEE
Q 018574          198 DVYRYLP-PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAV  276 (354)
Q Consensus       198 ~i~~~~~-~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~l  276 (354)
                      .+...++ .+.|++++|||++.....+..   ..+..+......             +...  ...+...+.. ..+++|
T Consensus       299 ~i~~~l~~~~~q~il~SAT~~~~~~~~~~---~~~~~~~v~~~~-------------~~~~--~~~ll~~l~~-~~~~~L  359 (618)
T 2whx_A          299 YISTRVEMGEAAAIFMTATPPGSTDPFPQ---SNSPIEDIEREI-------------PERS--WNTGFDWITD-YQGKTV  359 (618)
T ss_dssp             HHHHHHHHTSCEEEEECSSCTTCCCSSCC---CSSCEEEEECCC-------------CSSC--CSSSCHHHHH-CCSCEE
T ss_pred             HHHHHhcccCccEEEEECCCchhhhhhhc---cCCceeeecccC-------------CHHH--HHHHHHHHHh-CCCCEE
Confidence            6666654 678999999999776332111   122222221110             0010  0111122222 257999


Q ss_pred             EEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          277 IFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       277 vf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      |||++++.++.+++.|++.++.+..+||+    +|.++++.|++|+.+|||||+++++|+|+| +++||+++.
T Consensus       360 VF~~s~~~a~~l~~~L~~~g~~v~~lhg~----~R~~~l~~F~~g~~~VLVaTdv~~rGiDi~-v~~VId~g~  427 (618)
T 2whx_A          360 WFVPSIKAGNDIANCLRKSGKRVIQLSRK----TFDTEYPKTKLTDWDFVVTTDISEMGANFR-AGRVIDPRR  427 (618)
T ss_dssp             EECSSHHHHHHHHHHHHHTTCCEEEECTT----THHHHTTHHHHSCCSEEEECGGGGTTCCCC-CSEEEECCE
T ss_pred             EEECChhHHHHHHHHHHHcCCcEEEEChH----HHHHHHHhhcCCCcEEEEECcHHHcCcccC-ceEEEECcc
Confidence            99999999999999999999999999985    678899999999999999999999999998 999844443

>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA compl protease/ntpase/helicase, hydrolase; 1.95A {Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4b71_A* 4b73_A* 4b74_A* 4b76_A* 4b75_A* 4a92_A* 1cu1_A 4b6e_A* 4b6f_A* 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A* 3kqh_A 3kqk_A ...

Probab=100.00  E-value=2e-32  Score=251.49  Aligned_cols=244  Identities=16%  Similarity=0.153  Sum_probs=181.8

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .++.+|..++..+..++++++.+|||+|||.++.++++..      +.+++|++|+++|+.|+++.+.+..   +..+..
T Consensus       217 P~~~~q~~i~~~L~~~~~vlv~ApTGSGKT~a~~l~ll~~------g~~vLVl~PTReLA~Qia~~l~~~~---g~~vg~  287 (666)
T 3o8b_A          217 PVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAYAAQ------GYKVLVLNPSVAATLGFGAYMSKAH---GIDPNI  287 (666)
T ss_dssp             CSCCCCCSCCCCCSSCEEEEEECCTTSCTTTHHHHHHHHT------TCCEEEEESCHHHHHHHHHHHHHHH---SCCCEE
T ss_pred             CcHHHHHHHHHHHHcCCeEEEEeCCchhHHHHHHHHHHHC------CCeEEEEcchHHHHHHHHHHHHHHh---CCCeeE
Confidence            6678888888888889999999999999999999888762      3469999999999999998876544   334445


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCc--EEEE
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ--VVLI  212 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~--~i~l  212 (354)
                      ..++..       ...+++|+|+||++|   +....+.+.++++||+||+|.+ +.++...+..+++.++...+  ++++
T Consensus       288 ~vG~~~-------~~~~~~IlV~TPGrL---l~~~~l~l~~l~~lVlDEAH~l-~~~~~~~l~~Il~~l~~~~~~llil~  356 (666)
T 3o8b_A          288 RTGVRT-------ITTGAPVTYSTYGKF---LADGGCSGGAYDIIICDECHST-DSTTILGIGTVLDQAETAGARLVVLA  356 (666)
T ss_dssp             ECSSCE-------ECCCCSEEEEEHHHH---HHTTSCCTTSCSEEEETTTTCC-SHHHHHHHHHHHHHTTTTTCSEEEEE
T ss_pred             EECcEe-------ccCCCCEEEECcHHH---HhCCCcccCcccEEEEccchhc-CccHHHHHHHHHHhhhhcCCceEEEE
Confidence            555543       345689999999997   4556677788999999999754 56677778888888877666  7888


Q ss_pred             EeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHH
Q 018574          213 SATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKM  292 (354)
Q Consensus       213 SaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l  292 (354)
                      |||++....      ...+.........   ....   ....... .       +.....+++||||++++.++++++.|
T Consensus       357 SAT~~~~i~------~~~p~i~~v~~~~---~~~i---~~~~~~~-~-------l~~~~~~~vLVFv~Tr~~ae~la~~L  416 (666)
T 3o8b_A          357 TATPPGSVT------VPHPNIEEVALSN---TGEI---PFYGKAI-P-------IEAIRGGRHLIFCHSKKKCDELAAKL  416 (666)
T ss_dssp             ESSCTTCCC------CCCTTEEEEECBS---CSSE---EETTEEE-C-------GGGSSSSEEEEECSCHHHHHHHHHHH
T ss_pred             CCCCCcccc------cCCcceEEEeecc---cchh---HHHHhhh-h-------hhhccCCcEEEEeCCHHHHHHHHHHH
Confidence            999987311      1111111111000   0000   0000000 0       22335689999999999999999999


Q ss_pred             hcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          293 RGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      ++.++.+..+||++++++       |.++..+|||||+++++|+|+| +++||+
T Consensus       417 ~~~g~~v~~lHG~l~q~e-------r~~~~~~VLVATdVaerGIDId-V~~VI~  462 (666)
T 3o8b_A          417 SGLGINAVAYYRGLDVSV-------IPTIGDVVVVATDALMTGYTGD-FDSVID  462 (666)
T ss_dssp             HTTTCCEEEECTTSCGGG-------SCSSSCEEEEECTTHHHHCCCC-BSEEEE
T ss_pred             HhCCCcEEEecCCCCHHH-------HHhCCCcEEEECChHHccCCCC-CcEEEe
Confidence            999999999999998764       4567779999999999999997 999983

>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}

Probab=100.00  E-value=4e-32  Score=264.34  Aligned_cols=291  Identities=16%  Similarity=0.127  Sum_probs=200.8

Q ss_pred             CChHHHHHhHhhhhc--CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEE
Q 018574           55 KPSAIQQRAVMPIIK--GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQA  132 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~--~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~  132 (354)
                      .|+|||.+++.+++.  +.++++.++||+|||.+++..+...+..+. ..++|||||+ +|+.||..++.+..   ++.+
T Consensus       153 ~LrpyQ~eav~~~l~~~~~~~LLad~tGlGKTi~Ai~~i~~l~~~g~-~~rvLIVvP~-sLl~Qw~~E~~~~f---~l~v  227 (968)
T 3dmq_A          153 SLIPHQLNIAHDVGRRHAPRVLLADEVGLGKTIEAGMILHQQLLSGA-AERVLIIVPE-TLQHQWLVEMLRRF---NLRF  227 (968)
T ss_dssp             CCCHHHHHHHHHHHHSSSCEEEECCCTTSCHHHHHHHHHHHHHHTSS-CCCEEEECCT-TTHHHHHHHHHHHS---CCCC
T ss_pred             CCcHHHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHHHHhCC-CCeEEEEeCH-HHHHHHHHHHHHHh---CCCE
Confidence            799999999998887  458899999999999998887776665443 3469999999 99999999996655   3555


Q ss_pred             EEEeCCcchHHhHH--hhcCCCeEEEeCcHHHHHHHhc-CCccCCCccEEEEecchhhhccCc-----HHHHHHHHhhCC
Q 018574          133 HACVGGKSVGEDIR--KLEHGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDESDEMLSRGF-----KDQIYDVYRYLP  204 (354)
Q Consensus       133 ~~~~~~~~~~~~~~--~~~~~~~iiv~T~~~l~~~~~~-~~~~~~~~~~vvvDE~h~~~~~~~-----~~~~~~i~~~~~  204 (354)
                      ..+.++........  ......+|+|+|++.+...... ..+...++++||+||||++.....     ...+..+.   .
T Consensus       228 ~v~~~~~~~~~~~~~~~~~~~~dIvI~T~~~L~~~~~~~~~l~~~~~dlVIvDEAH~~kn~~~~~s~~~~~l~~L~---~  304 (968)
T 3dmq_A          228 ALFDDERYAEAQHDAYNPFDTEQLVICSLDFARRSKQRLEHLCEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLA---E  304 (968)
T ss_dssp             EECCHHHHHHHHHTTCSSSTTCSEEEECHHHHHTSTTTTHHHHTSCCCEEEECCSSCCCCBTTBCCHHHHHHHHHH---T
T ss_pred             EEEccchhhhhhhhcccccccCCEEEEcHHHHhhCHHHHHHhhhcCCCEEEehhhHhhcCCCCcchHHHHHHHHHh---h
Confidence            44444332211111  1123478999999888542211 123445789999999999965431     22333332   2


Q ss_pred             CCCcEEEEEeeCch----hHHHHHH----------------------------hccCC-------------C--------
Q 018574          205 PDLQVVLISATLPH----EILEMTT----------------------------KFMTD-------------P--------  231 (354)
Q Consensus       205 ~~~~~i~lSaT~~~----~~~~~~~----------------------------~~~~~-------------~--------  231 (354)
                      ...+++++||||.+    +...+..                            .+...             .        
T Consensus       305 ~~~~~L~LTATPi~n~~~el~sll~~L~p~~~~~~~~f~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~L~~~l~~~~~~~  384 (968)
T 3dmq_A          305 HVPGVLLLTATPEQLGMESHFARLRLLDPNRFHDFAQFVEEQKNYCPVADAVAMLLAGNKLSNDELNMLGEMIGEQDIEP  384 (968)
T ss_dssp             TCSSEEESCSSCSSSCSSCTHHHHHHHCTTTCSSTHHHHHHHHHHHHHHHHHHTTTTSCCCCGGGTTSSTTTTCTTCSST
T ss_pred             cCCcEEEEEcCCccCCHHHHHHHHHhcCccccCCHHHHHHHHHhHHHHHHHHHHHhccCCCCHHHHHHHHHHhcchhhHH
Confidence            45579999999843    1111100                            00000             0        


Q ss_pred             -------------------------------eEEEecCCcc---cccCceeEEE--------------------------
Q 018574          232 -------------------------------VKILVKRDEL---TLEGIKQFFV--------------------------  251 (354)
Q Consensus       232 -------------------------------~~~~~~~~~~---~~~~~~~~~~--------------------------  251 (354)
                                                     ..+.......   ..........                          
T Consensus       385 l~~~~~~~~~~~~~~~~~~i~~lld~~g~~~~l~r~~r~~i~~~p~r~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  464 (968)
T 3dmq_A          385 LLQAANSDSEDAQSARQELVSMLMDRHGTSRVLFRNTRNGVKGFPKRELHTIKLPLPTQYQTAIKVSGIMGARKSAEDRA  464 (968)
T ss_dssp             TGGGTCCCSSCSTTTHHHHHHHHGGGCTTTTTEECCCTTTCCCCCCCCCCEEEECCCHHHHHHHHHHHHTTCCSSGGGGT
T ss_pred             HHhcccchhhhhHHHHHHHHHHHHHhhCcchhhhhhhhhhhcccChhheEeeecCCCHHHHHHHHHHhhhhhhhhhHHHH
Confidence                                           0000000000   0000000000                          


Q ss_pred             ------------------EeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhc-CCCeEEEeecCCCHHHHH
Q 018574          252 ------------------AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRG-YNFTVSSMHGDMPQKERD  312 (354)
Q Consensus       252 ------------------~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~-~~~~~~~~~~~~~~~~r~  312 (354)
                                        .......+...+..++....++++||||++++.++.++..|++ .|+++..+||+++..+|.
T Consensus       465 ~~~l~pe~~~~~l~~~~~~~~~~~~K~~~L~~ll~~~~~~k~iVF~~~~~~~~~l~~~L~~~~g~~~~~lhG~~~~~~R~  544 (968)
T 3dmq_A          465 RDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERD  544 (968)
T ss_dssp             HHHHCSGGGTTTTTSSSCCTTTTSHHHHHHHHHHHHTSSSCCCEECSSTHHHHHHHHHHHTTTCCCEEEECTTSCTTHHH
T ss_pred             hhhcChHHHHHHhhhhhhcccCccHHHHHHHHHHHhCCCCCEEEEeCcHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHH
Confidence                              0111223678888888887788999999999999999999994 599999999999999999


Q ss_pred             HHHHHHhCCC--CcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          313 AIMGEFRSGT--TRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       313 ~~~~~f~~g~--~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+++.|++|+  .+|||||+++++|+|+|++++||++|+|+|+
T Consensus       545 ~~l~~F~~g~~~~~vLvaT~v~~~GlDl~~~~~VI~~d~p~~~  587 (968)
T 3dmq_A          545 RAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNP  587 (968)
T ss_dssp             HHHHHHHSTTSSCEEEECSCCTTCSSCCTTCCEEECSSCCSSH
T ss_pred             HHHHHHhCCCCcccEEEecchhhcCCCcccCcEEEEecCCCCH
Confidence            9999999998  9999999999999999999999999999985

>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex, hydrolase/DNA complex complex; 3.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A

Probab=100.00  E-value=3.4e-31  Score=243.04  Aligned_cols=283  Identities=13%  Similarity=0.163  Sum_probs=193.9

Q ss_pred             CChHHHHHhHhhhh----cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPII----KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~----~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+|||.++++++.    .++++++..+||+|||.+++..+.... ......++||||| .+|+.||.++++++...  .
T Consensus        37 ~L~~~Q~~~v~~l~~~~~~~~~~ilad~~GlGKT~~ai~~i~~~~-~~~~~~~~LIv~P-~~l~~qw~~e~~~~~~~--~  112 (500)
T 1z63_A           37 NLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDAK-KENELTPSLVICP-LSVLKNWEEELSKFAPH--L  112 (500)
T ss_dssp             CCCHHHHHHHHHHHHHHHTTCCEEECCCTTSCHHHHHHHHHHHHH-HTTCCSSEEEEEC-STTHHHHHHHHHHHCTT--S
T ss_pred             cchHHHHHHHHHHHHHhhCCCCEEEEeCCCCcHHHHHHHHHHHHH-hcCCCCCEEEEcc-HHHHHHHHHHHHHHCCC--c
Confidence            79999999998773    478999999999999988766555443 3333456999999 57999999999998754  4


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEE
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVV  210 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i  210 (354)
                      .+..+.++...     .....++|+|+|++.+.+...   +....+++||+||||++.+...  .....+..+ ...+.+
T Consensus       113 ~v~~~~g~~~~-----~~~~~~~ivi~t~~~l~~~~~---l~~~~~~~vIvDEaH~~kn~~~--~~~~~l~~l-~~~~~l  181 (500)
T 1z63_A          113 RFAVFHEDRSK-----IKLEDYDIILTTYAVLLRDTR---LKEVEWKYIVIDEAQNIKNPQT--KIFKAVKEL-KSKYRI  181 (500)
T ss_dssp             CEEECSSSTTS-----CCGGGSSEEEEEHHHHTTCHH---HHTCCEEEEEEETGGGGSCTTS--HHHHHHHTS-CEEEEE
T ss_pred             eEEEEecCchh-----ccccCCcEEEeeHHHHhccch---hcCCCcCEEEEeCccccCCHhH--HHHHHHHhh-ccCcEE
Confidence            44455554421     112347999999998865433   3345789999999999976542  223334444 346789


Q ss_pred             EEEeeCchh-HHHH---HH---------------------------------hccCCCeEEEecCCc----ccccCceeE
Q 018574          211 LISATLPHE-ILEM---TT---------------------------------KFMTDPVKILVKRDE----LTLEGIKQF  249 (354)
Q Consensus       211 ~lSaT~~~~-~~~~---~~---------------------------------~~~~~~~~~~~~~~~----~~~~~~~~~  249 (354)
                      ++||||... ..++   +.                                 ..+. +..+......    ...+.....
T Consensus       182 ~LTaTP~~n~~~el~~ll~~l~p~~~~~~~~f~~~~~~~~~~~~~~~~~~l~~~l~-~~~lrr~k~~~~~~~~lp~~~~~  260 (500)
T 1z63_A          182 ALTGTPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPIKKGDNMAKEELKAIIS-PFILRRTKYDKAIINDLPDKIET  260 (500)
T ss_dssp             EECSSCSTTCHHHHHHHHHHHSTTTTCCHHHHHTTTHHHHHTTCHHHHHHHHHHHT-TTEECCCTTCHHHHTTSCSEEEE
T ss_pred             EEecCCCCCCHHHHHHHHHHhCCCcCCCHHHHHHHhccccccccHHHHHHHHHHHh-hHeeeecccccchhhcCCCCeEE
Confidence            999998432 1111   11                                 1111 1111100000    011111111


Q ss_pred             EEEecc--------------------------------------------------------ccchHHHHHHHHhhC--C
Q 018574          250 FVAVER--------------------------------------------------------EEWKFDTLCDLYDTL--T  271 (354)
Q Consensus       250 ~~~~~~--------------------------------------------------------~~~~~~~l~~~l~~~--~  271 (354)
                      ...+..                                                        ...|...+.+++...  .
T Consensus       261 ~v~~~l~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lr~~~~~p~l~~~~~~~~~~s~K~~~l~~~l~~~~~~  340 (500)
T 1z63_A          261 NVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLKQIVDHPALLKGGEQSVRRSGKMIRTMEIIEEALDE  340 (500)
T ss_dssp             EEEECCCHHHHHHHHHHHHHHTTTTTTCCTHHHHHHHHHHHHHHHHHTTCTHHHHCSCCCSTTCHHHHHHHHHHHHHHTT
T ss_pred             EEEcCCCHHHHHHHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhCCHHHhcCccchhhcchhHHHHHHHHHHHHcc
Confidence            111111                                                        112344444555433  4


Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC-CCeEEEeecCCCHHHHHHHHHHHhCC-CCc-EEEEccccccCCCcCCCcEEEecC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY-NFTVSSMHGDMPQKERDAIMGEFRSG-TTR-VLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~-~~~~~~~~~~~~~~~r~~~~~~f~~g-~~~-vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      +.++||||++.+.++.++..|+.. ++.+..+||+++..+|.++++.|++| +.+ +|++|.++++|+|+|.+++||++|
T Consensus       341 ~~k~lvF~~~~~~~~~l~~~l~~~~~~~~~~~~g~~~~~~R~~~~~~F~~~~~~~vil~st~~~~~Glnl~~~~~vi~~d  420 (500)
T 1z63_A          341 GDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFD  420 (500)
T ss_dssp             TCCEEEECSCHHHHHHHHHHHHHHHTCCCCEEETTSCHHHHHHHHHHHHHCTTCCCCEEECCCC-CCCCCTTCSEEEESS
T ss_pred             CCcEEEEEehHHHHHHHHHHHHHhhCCCeEEEECCCCHHHHHHHHHHhcCCCCCCEEEEecccccCCCchhhCCEEEEeC
Confidence            579999999999999999999875 89999999999999999999999988 455 789999999999999999999999


Q ss_pred             CCCCC
Q 018574          349 LFCNV  353 (354)
Q Consensus       349 ~p~s~  353 (354)
                      .|+|+
T Consensus       421 ~~~~~  425 (500)
T 1z63_A          421 RWWNP  425 (500)
T ss_dssp             CCSCC
T ss_pred             CCCCc
Confidence            99996

>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3 catalytic subunit; nucleotide-binding, capsid protein; 2.75A {Murray valley encephalitis virus}

Probab=99.98  E-value=1.2e-32  Score=256.79  Aligned_cols=261  Identities=17%  Similarity=0.165  Sum_probs=175.2

Q ss_pred             HHHCCCC-----CChHHHH-----HhHhhhh------cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           48 IYQYGFE-----KPSAIQQ-----RAVMPII------KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        48 l~~~~~~-----~~~~~Q~-----~~~~~~~------~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      +...||.     .|++.|.     ++++.++      +++++++.+|||+|||.+|+++++..+...  +.+++|++|++
T Consensus       203 l~~~Gf~~~~~~~pt~IQ~~~r~~~aIp~~l~~~~l~~g~dvlv~apTGSGKTl~~ll~il~~l~~~--~~~~lilaPTr  280 (673)
T 2wv9_A          203 LYGNGVILGNGAYVSAIVQGERVEEPVPEAYNPEMLKKRQLTVLDLHPGAGKTRRILPQIIKDAIQK--RLRTAVLAPTR  280 (673)
T ss_dssp             EEEEEEECSSSCEEEEEECC-------CCCCCGGGGSTTCEEEECCCTTTTTTTTHHHHHHHHHHHT--TCCEEEEESSH
T ss_pred             eeeccccccCCCccCceeeccccccchHHHhhHHHHhcCCeEEEEeCCCCCHHHHHHHHHHHHHHhC--CCcEEEEccHH
Confidence            4445555     8999999     9998888      899999999999999999999998876543  45799999999


Q ss_pred             HHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC
Q 018574          112 ELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG  191 (354)
Q Consensus       112 ~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~  191 (354)
                      +|+.|+.+.++.+.    +.  ... +. ..   ..-..+..+-+.+.+.+.+.+... ..+.++++||+||+|++ +..
T Consensus       281 ~La~Q~~~~l~~~~----i~--~~~-~~-l~---~v~tp~~ll~~l~~~~l~~~l~~~-~~l~~l~lvViDEaH~~-~~~  347 (673)
T 2wv9_A          281 VVAAEMAEALRGLP----VR--YLT-PA-VQ---REHSGNEIVDVMCHATLTHRLMSP-LRVPNYNLFVMDEAHFT-DPA  347 (673)
T ss_dssp             HHHHHHHHHTTTSC----CE--ECC-C-------CCCCSCCCEEEEEHHHHHHHHHSS-SCCCCCSEEEEESTTCC-CHH
T ss_pred             HHHHHHHHHHhcCC----ee--eec-cc-cc---ccCCHHHHHHHHHhhhhHHHHhcc-cccccceEEEEeCCccc-Ccc
Confidence            99999999886442    21  100 00 00   000111233344555554444432 45678999999999998 222


Q ss_pred             cHHHHHHHHhhC-CCCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhC
Q 018574          192 FKDQIYDVYRYL-PPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL  270 (354)
Q Consensus       192 ~~~~~~~i~~~~-~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~  270 (354)
                      +...+..+.... +.+.|+++||||+++....+...  ..+.. ...             ...+... ....+. .+.. 
T Consensus       348 ~~~~~~~l~~~~~~~~~~vl~~SAT~~~~i~~~~~~--~~~i~-~v~-------------~~~~~~~-~~~~l~-~l~~-  408 (673)
T 2wv9_A          348 SIAARGYIATRVEAGEAAAIFMTATPPGTSDPFPDT--NSPVH-DVS-------------SEIPDRA-WSSGFE-WITD-  408 (673)
T ss_dssp             HHHHHHHHHHHHHTTSCEEEEECSSCTTCCCSSCCC--SSCEE-EEE-------------CCCCSSC-CSSCCH-HHHS-
T ss_pred             HHHHHHHHHHhccccCCcEEEEcCCCChhhhhhccc--CCceE-EEe-------------eecCHHH-HHHHHH-HHHh-
Confidence            222232333332 26789999999998653221110  01111 000             0011111 111112 2222 


Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEec
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFL  347 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~  347 (354)
                      ..+++||||++++.++.+++.|++.++.+..+||+    +|.++++.|++|+.+|||||+++++|+|+| +++||++
T Consensus       409 ~~~~~lVF~~s~~~~e~la~~L~~~g~~v~~lHg~----eR~~v~~~F~~g~~~VLVaTdv~e~GIDip-v~~VI~~  480 (673)
T 2wv9_A          409 YAGKTVWFVASVKMSNEIAQCLQRAGKRVIQLNRK----SYDTEYPKCKNGDWDFVITTDISEMGANFG-ASRVIDC  480 (673)
T ss_dssp             CCSCEEEECSSHHHHHHHHHHHHTTTCCEEEECSS----SHHHHGGGGGTCCCSEEEECGGGGTTCCCC-CSEEEEC
T ss_pred             CCCCEEEEECCHHHHHHHHHHHHhCCCeEEEeChH----HHHHHHHHHHCCCceEEEECchhhcceeeC-CcEEEEC
Confidence            45799999999999999999999999999999994    788899999999999999999999999999 9999983

>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic subunit]; helicase, flavivirus, DEAD-BOX, ATPase, rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP: c.37.1.14 c.37.1.14 PDB: 1ymf_A*

Probab=99.98  E-value=9.5e-34  Score=253.99  Aligned_cols=233  Identities=13%  Similarity=0.144  Sum_probs=151.6

Q ss_pred             hhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhH
Q 018574           66 PIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDI  145 (354)
Q Consensus        66 ~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (354)
                      .+++|+++++.+|||||||.+|+++++..+...  +.+++|++|+++|+.|+++.+..+.    +.  ...+...     
T Consensus         4 ~l~~g~~vlv~a~TGSGKT~~~l~~~l~~~~~~--~~~~lil~Ptr~La~Q~~~~l~~~~----v~--~~~~~~~-----   70 (440)
T 1yks_A            4 MLKKGMTTVLDFHPGAGKTRRFLPQILAECARR--RLRTLVLAPTRVVLSEMKEAFHGLD----VK--FHTQAFS-----   70 (440)
T ss_dssp             TTSTTCEEEECCCTTSSTTTTHHHHHHHHHHHT--TCCEEEEESSHHHHHHHHHHTTTSC----EE--EESSCCC-----
T ss_pred             HhhCCCCEEEEcCCCCCHHHHHHHHHHHHHHhc--CCeEEEEcchHHHHHHHHHHHhcCC----eE--Eecccce-----
Confidence            467899999999999999999999998876543  4579999999999999999886432    22  1111100     


Q ss_pred             HhhcCCCeEEEeCcHHH---------HHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhC-CCCCcEEEEEee
Q 018574          146 RKLEHGVHVVSGTPGRV---------CDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL-PPDLQVVLISAT  215 (354)
Q Consensus       146 ~~~~~~~~iiv~T~~~l---------~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~-~~~~~~i~lSaT  215 (354)
                               .++||+.+         ...+. ....+.++++||+||+|++ +..+...+..+.... +.+.|+++||||
T Consensus        71 ---------~v~Tp~~l~~~l~~~~l~~~~~-~~~~~~~l~~vViDEah~~-~~~~~~~~~~~~~~~~~~~~~~l~~SAT  139 (440)
T 1yks_A           71 ---------AHGSGREVIDAMCHATLTYRML-EPTRVVNWEVIIMDEAHFL-DPASIAARGWAAHRARANESATILMTAT  139 (440)
T ss_dssp             ---------CCCCSSCCEEEEEHHHHHHHHT-SSSCCCCCSEEEETTTTCC-SHHHHHHHHHHHHHHHTTSCEEEEECSS
T ss_pred             ---------eccCCccceeeecccchhHhhh-CcccccCccEEEEECcccc-CcchHHHHHHHHHHhccCCceEEEEeCC
Confidence                     14444333         22222 2344678999999999998 333222222222222 367899999999


Q ss_pred             CchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC
Q 018574          216 LPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY  295 (354)
Q Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~  295 (354)
                      +++....+...  ..+....              ...++... ....+ ..+... .+++||||++++.++.+++.|++.
T Consensus       140 ~~~~~~~~~~~--~~~~~~~--------------~~~~~~~~-~~~~~-~~l~~~-~~~~lVF~~s~~~a~~l~~~L~~~  200 (440)
T 1yks_A          140 PPGTSDEFPHS--NGEIEDV--------------QTDIPSEP-WNTGH-DWILAD-KRPTAWFLPSIRAANVMAASLRKA  200 (440)
T ss_dssp             CTTCCCSSCCC--SSCEEEE--------------ECCCCSSC-CSSSC-HHHHHC-CSCEEEECSCHHHHHHHHHHHHHT
T ss_pred             CCchhhhhhhc--CCCeeEe--------------eeccChHH-HHHHH-HHHHhc-CCCEEEEeCCHHHHHHHHHHHHHc
Confidence            97763322111  0111100              00011111 11111 122222 579999999999999999999999


Q ss_pred             CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          296 NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       296 ~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      ++.+..+||+    +|.++++.|++|+.+|||||+++++|+|+| +++||+
T Consensus       201 ~~~v~~lhg~----~R~~~~~~F~~g~~~vLVaT~v~e~GiDip-v~~VI~  246 (440)
T 1yks_A          201 GKSVVVLNRK----TFEREYPTIKQKKPDFILATDIAEMGANLC-VERVLD  246 (440)
T ss_dssp             TCCEEECCSS----SCC--------CCCSEEEESSSTTCCTTCC-CSEEEE
T ss_pred             CCCEEEecch----hHHHHHhhhcCCCceEEEECChhheeeccC-ceEEEe
Confidence            9999999993    578899999999999999999999999999 999997

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=99.98  E-value=9.6e-32  Score=240.57  Aligned_cols=237  Identities=13%  Similarity=0.120  Sum_probs=160.1

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL  148 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (354)
                      +|+++++.+|||+|||.+++++++..+...  +.+++|++|+++|+.|+.+.+.      ++.+....++...     .-
T Consensus         1 kg~~~lv~a~TGsGKT~~~l~~~l~~~~~~--g~~~lvl~Pt~~La~Q~~~~~~------~~~v~~~~~~~~~-----~~   67 (431)
T 2v6i_A            1 KRELTVLDLHPGAGKTRRVLPQLVREAVKK--RLRTVILAPTRVVASEMYEALR------GEPIRYMTPAVQS-----ER   67 (431)
T ss_dssp             -CCEEEEECCTTSCTTTTHHHHHHHHHHHT--TCCEEEEESSHHHHHHHHHHTT------TSCEEEC-------------
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHhC--CCCEEEECcHHHHHHHHHHHhC------CCeEEEEecCccc-----cC
Confidence            368999999999999999988888555433  3579999999999999998775      2334333333111     11


Q ss_pred             cCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhC-CCCCcEEEEEeeCchhHHHHHHhc
Q 018574          149 EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYL-PPDLQVVLISATLPHEILEMTTKF  227 (354)
Q Consensus       149 ~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~-~~~~~~i~lSaT~~~~~~~~~~~~  227 (354)
                      ..+..+.+.|.+.+.+.+.. ...+.++++||+||+|++ +..+......+.... +.+.+++++|||+++....+... 
T Consensus        68 ~~~~~~~~~~~~~l~~~l~~-~~~~~~l~~vViDEaH~~-~~~~~~~~~~l~~~~~~~~~~~l~~SAT~~~~~~~~~~~-  144 (431)
T 2v6i_A           68 TGNEIVDFMCHSTFTMKLLQ-GVRVPNYNLYIMDEAHFL-DPASVAARGYIETRVSMGDAGAIFMTATPPGTTEAFPPS-  144 (431)
T ss_dssp             -CCCSEEEEEHHHHHHHHHH-TCCCCCCSEEEEESTTCC-SHHHHHHHHHHHHHHHTTSCEEEEEESSCTTCCCSSCCC-
T ss_pred             CCCceEEEEchHHHHHHHhc-CccccCCCEEEEeCCccC-CccHHHHHHHHHHHhhCCCCcEEEEeCCCCcchhhhcCC-
Confidence            12345666788877665554 445778999999999997 332233333333322 46899999999998742211100 


Q ss_pred             cCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCC
Q 018574          228 MTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMP  307 (354)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~  307 (354)
                       ..+.. ....             ..+..  ....+...+... .+++||||+++++++.+++.|++.+.++..+||+  
T Consensus       145 -~~~i~-~~~~-------------~~~~~--~~~~~~~~l~~~-~~~~lVF~~~~~~~~~l~~~L~~~~~~v~~lhg~--  204 (431)
T 2v6i_A          145 -NSPII-DEET-------------RIPDK--AWNSGYEWITEF-DGRTVWFVHSIKQGAEIGTCLQKAGKKVLYLNRK--  204 (431)
T ss_dssp             -SSCCE-EEEC-------------CCCSS--CCSSCCHHHHSC-SSCEEEECSSHHHHHHHHHHHHHTTCCEEEESTT--
T ss_pred             -CCcee-eccc-------------cCCHH--HHHHHHHHHHcC-CCCEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCc--
Confidence             01110 0000             01111  111122233333 5789999999999999999999999999999997  


Q ss_pred             HHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEE
Q 018574          308 QKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILF  344 (354)
Q Consensus       308 ~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~V  344 (354)
                        +|.++++.|++|+.+|||||+++++|+|+| +.+|
T Consensus       205 --~r~~~~~~f~~g~~~vLVaT~v~e~GiDip-~~~V  238 (431)
T 2v6i_A          205 --TFESEYPKCKSEKWDFVITTDISEMGANFK-ADRV  238 (431)
T ss_dssp             --THHHHTTHHHHSCCSEEEECGGGGTSCCCC-CSEE
T ss_pred             --cHHHHHHhhcCCCCeEEEECchHHcCcccC-CcEE
Confidence              577899999999999999999999999999 6553

>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane, nucleotide-binding, RNA replication, transmembrane, viral protein; 1.80A {Japanese encephalitis virus} PDB: 2v8o_A 2qeq_A

Probab=99.97  E-value=2e-31  Score=240.46  Aligned_cols=240  Identities=14%  Similarity=0.162  Sum_probs=161.5

Q ss_pred             HhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHH
Q 018574           64 VMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE  143 (354)
Q Consensus        64 ~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~  143 (354)
                      ...+.+++++++.+|||+|||.+|+++++..+...  +.++||++|+++|+.|+.+.+..      ..+....+....  
T Consensus        15 ~~~l~~~~~vlv~a~TGsGKT~~~~l~il~~~~~~--~~~~lvl~Ptr~La~Q~~~~l~g------~~v~~~~~~~~~--   84 (459)
T 2z83_A           15 PNMLRKRQMTVLDLHPGSGKTRKILPQIIKDAIQQ--RLRTAVLAPTRVVAAEMAEALRG------LPVRYQTSAVQR--   84 (459)
T ss_dssp             CGGGSTTCEEEECCCTTSCTTTTHHHHHHHHHHHT--TCCEEEEECSHHHHHHHHHHTTT------SCEEECC-------
T ss_pred             HHHHhcCCcEEEECCCCCCHHHHHHHHHHHHHHhC--CCcEEEECchHHHHHHHHHHhcC------ceEeEEeccccc--
Confidence            34456689999999999999999999999876533  45799999999999999998862      222211111100  


Q ss_pred             hHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhh-----hccCcHHHHHHHHhhCCCCCcEEEEEeeCch
Q 018574          144 DIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM-----LSRGFKDQIYDVYRYLPPDLQVVLISATLPH  218 (354)
Q Consensus       144 ~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~-----~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~  218 (354)
                         .-..+..+.+.|.+.+...+... ..+.++++||+||||++     ...++....   .  ..++.|++++|||++.
T Consensus        85 ---~~t~~~~i~~~~~~~l~~~l~~~-~~l~~~~~iViDEaH~~~~~~~~~~~~~~~~---~--~~~~~~~il~SAT~~~  155 (459)
T 2z83_A           85 ---EHQGNEIVDVMCHATLTHRLMSP-NRVPNYNLFVMDEAHFTDPASIAARGYIATK---V--ELGEAAAIFMTATPPG  155 (459)
T ss_dssp             ------CCCSEEEEEHHHHHHHHHSC-C-CCCCSEEEESSTTCCSHHHHHHHHHHHHH---H--HTTSCEEEEECSSCTT
T ss_pred             ---CCCCCcEEEEEchHHHHHHhhcc-ccccCCcEEEEECCccCCchhhHHHHHHHHH---h--ccCCccEEEEEcCCCc
Confidence               01223456677887776655543 45678999999999983     333322221   1  1367899999999986


Q ss_pred             hHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCe
Q 018574          219 EILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT  298 (354)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~  298 (354)
                      ....+...  ..+......              ..+..  ....+...+... .+++||||++++.++.+++.|++.++.
T Consensus       156 ~~~~~~~~--~~pi~~~~~--------------~~~~~--~~~~~~~~l~~~-~~~~LVF~~s~~~~~~l~~~L~~~g~~  216 (459)
T 2z83_A          156 TTDPFPDS--NAPIHDLQD--------------EIPDR--AWSSGYEWITEY-AGKTVWFVASVKMGNEIAMCLQRAGKK  216 (459)
T ss_dssp             CCCSSCCC--SSCEEEEEC--------------CCCSS--CCSSCCHHHHHC-CSCEEEECSCHHHHHHHHHHHHHTTCC
T ss_pred             chhhhccC--CCCeEEecc--------------cCCcc--hhHHHHHHHHhc-CCCEEEEeCChHHHHHHHHHHHhcCCc
Confidence            53221110  112211100              00000  000111222222 579999999999999999999999999


Q ss_pred             EEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          299 VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       299 ~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      +..+|++    +|.++++.|++|+.+|||||+++++|+|+|+ ++||+
T Consensus       217 v~~lh~~----~R~~~~~~f~~g~~~iLVaT~v~~~GiDip~-~~VI~  259 (459)
T 2z83_A          217 VIQLNRK----SYDTEYPKCKNGDWDFVITTDISEMGANFGA-SRVID  259 (459)
T ss_dssp             EEEESTT----CCCCCGGGSSSCCCSEEEESSCC---CCCSC-SEEEE
T ss_pred             EEecCHH----HHHHHHhhccCCCceEEEECChHHhCeecCC-CEEEE
Confidence            9999985    5678899999999999999999999999999 99999

>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces cerevisiae}

Probab=99.97  E-value=1.2e-29  Score=243.53  Aligned_cols=291  Identities=16%  Similarity=0.192  Sum_probs=201.8

Q ss_pred             CChHHHHHhHhhhh----cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPII----KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~----~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      +|++||.+++.++.    .++++++..+||+|||..++..+...+.......++||||| .+++.||.+++.++..  ++
T Consensus       236 ~Lr~yQ~egv~~l~~~~~~~~~~ILademGlGKT~~ai~~i~~l~~~~~~~~~~LIV~P-~sll~qW~~E~~~~~p--~~  312 (800)
T 3mwy_W          236 ELRDFQLTGINWMAFLWSKGDNGILADEMGLGKTVQTVAFISWLIFARRQNGPHIIVVP-LSTMPAWLDTFEKWAP--DL  312 (800)
T ss_dssp             CCCTHHHHHHHHHHHHHTTTCCEEECCCTTSSTTHHHHHHHHHHHHHHSCCSCEEEECC-TTTHHHHHHHHHHHST--TC
T ss_pred             CcCHHHHHHHHHHHHHhhcCCCEEEEeCCCcchHHHHHHHHHHHHHhcCCCCCEEEEEC-chHHHHHHHHHHHHCC--Cc
Confidence            68999999998776    68899999999999998887777665544334456999999 7889999999999874  35


Q ss_pred             EEEEEeCCcchHHhHHh------------hcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHH
Q 018574          131 QAHACVGGKSVGEDIRK------------LEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYD  198 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~------------~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~  198 (354)
                      ++...+|+.........            ....++|+|+|++.+.....  .+....+++||+||||++.+..  .....
T Consensus       313 ~v~~~~g~~~~r~~~~~~~~~~~~~~~~~~~~~~dvvitTy~~l~~~~~--~l~~~~w~~vIvDEaH~lkn~~--s~~~~  388 (800)
T 3mwy_W          313 NCICYMGNQKSRDTIREYEFYTNPRAKGKKTMKFNVLLTTYEYILKDRA--ELGSIKWQFMAVDEAHRLKNAE--SSLYE  388 (800)
T ss_dssp             CEEECCCSSHHHHHHHHHHSCSCC-----CCCCCSEEEECTTHHHHTHH--HHHTSEEEEEEETTGGGGCCSS--SHHHH
T ss_pred             eEEEEeCCHHHHHHHHHHHhhccccccccccccCCEEEecHHHHHhhHH--HHhcCCcceeehhhhhhhcCch--hHHHH
Confidence            66666666554433222            12347899999999976433  2233478999999999996543  23333


Q ss_pred             HHhhCCCCCcEEEEEeeCch----hHHHHHHhccCC-----------------------------CeEEEecCCcc--cc
Q 018574          199 VYRYLPPDLQVVLISATLPH----EILEMTTKFMTD-----------------------------PVKILVKRDEL--TL  243 (354)
Q Consensus       199 i~~~~~~~~~~i~lSaT~~~----~~~~~~~~~~~~-----------------------------~~~~~~~~~~~--~~  243 (354)
                      .+..+ .....+++||||.+    ++..++..+...                             +..+.......  ..
T Consensus       389 ~l~~l-~~~~rl~LTgTPiqN~l~el~~ll~fL~p~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~L  467 (800)
T 3mwy_W          389 SLNSF-KVANRMLITGTPLQNNIKELAALVNFLMPGRFTIDQEIDFENQDEEQEEYIHDLHRRIQPFILRRLKKDVEKSL  467 (800)
T ss_dssp             HHTTS-EEEEEEEECSCCCSSCSHHHHHHHHHHCSCCC---------CCTTHHHHHHHHHHHTTGGGEEECCGGGGTTTS
T ss_pred             HHHHh-hhccEEEeeCCcCCCCHHHHHHHHHHhCccccCchhhhcccccchhHHHHHHHHHHHHhHHHhhhhHHhhhhcc
Confidence            44444 34567999999832    222222211111                             00000000000  01


Q ss_pred             cCceeEEEEecc--------------------------------------------------------------------
Q 018574          244 EGIKQFFVAVER--------------------------------------------------------------------  255 (354)
Q Consensus       244 ~~~~~~~~~~~~--------------------------------------------------------------------  255 (354)
                      +........+..                                                                    
T Consensus       468 P~k~~~~v~v~ls~~q~~~Y~~i~~~~~~~l~~~~~~~~~~~l~~l~~Lrk~~~hp~l~~~~~~~~~~~~~~~~~~~~~~  547 (800)
T 3mwy_W          468 PSKTERILRVELSDVQTEYYKNILTKNYSALTAGAKGGHFSLLNIMNELKKASNHPYLFDNAEERVLQKFGDGKMTRENV  547 (800)
T ss_dssp             CCEEEEEEEECCCHHHHHHHHHHHHHCCC----------CTHHHHHHHHHHHHHCGGGSSSHHHHHCCCC----CCSHHH
T ss_pred             CCcEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHhcChhhhcchHHHHHHhcccccccHHHH
Confidence            111111111100                                                                    


Q ss_pred             ------ccchHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCC---c
Q 018574          256 ------EEWKFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTT---R  324 (354)
Q Consensus       256 ------~~~~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~---~  324 (354)
                            ...|+..+.+++...  .+.++||||+....++.+...|...|+.+..++|+++..+|.++++.|+++..   .
T Consensus       548 ~~~l~~~s~K~~~L~~lL~~~~~~g~kvLIFsq~~~~ld~L~~~L~~~g~~~~~i~G~~~~~eR~~~i~~F~~~~~~~~v  627 (800)
T 3mwy_W          548 LRGLIMSSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFV  627 (800)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHTTTTCCEEEEESCHHHHHHHHHHHHHHTCCCEEESTTSCHHHHHHHHHTTSSTTCSCCC
T ss_pred             HHHhhhcChHHHHHHHHHHHHhhCCCeEEEEechHHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHhhCCCCCceE
Confidence                  112445555666543  35699999999999999999999999999999999999999999999998654   4


Q ss_pred             EEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          325 VLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       325 vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +|++|.++++|+|++.+++||+||.|+|+
T Consensus       628 ~LlSt~agg~GlNL~~a~~VI~~D~~wnp  656 (800)
T 3mwy_W          628 FLLSTRAGGLGINLMTADTVVIFDSDWNP  656 (800)
T ss_dssp             EEEEHHHHTTTCCCTTCCEEEESSCCSCS
T ss_pred             EEEecccccCCCCccccceEEEecCCCCh
Confidence            89999999999999999999999999997

>1z3i_X Similar to RAD54-like; recombination ATPase helicase, recombination-DNA binding COM; 3.00A {Danio rerio} SCOP: c.37.1.19 c.37.1.19

Probab=99.97  E-value=7.6e-29  Score=232.36  Aligned_cols=292  Identities=16%  Similarity=0.146  Sum_probs=195.5

Q ss_pred             CChHHHHHhHhhhh---------cCCcEEEEcCCCCchhhHhHHHHhhccccCC----CceeEEEEcCCHHHHHHHHHHH
Q 018574           55 KPSAIQQRAVMPII---------KGRDVIAQAQSGTGKTSMIALTVCQTVDTSS----REVQALILSPTRELATQTEKVI  121 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~---------~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~----~~~~~lil~p~~~l~~q~~~~~  121 (354)
                      .|+|||.+++.++.         .+.++++..+||+|||..++..+...+....    ...++|||+|+ +|+.||.+++
T Consensus        55 ~LrpyQ~~gv~~l~~~~~~~~~~~~~g~ILad~mGlGKT~~~i~~i~~l~~~~~~~~p~~~~~LiV~P~-sll~qW~~E~  133 (644)
T 1z3i_X           55 VLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSPS-SLVRNWYNEV  133 (644)
T ss_dssp             TCCHHHHHHHHHHHHHHTTSSSTTCCEEEECCCTTSCHHHHHHHHHHHHHHCCTTSSCSCSCEEEEECH-HHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhhhcccccCCCCeEeeeCCCchHHHHHHHHHHHHHHhCccccCCCCcEEEEecH-HHHHHHHHHH
Confidence            68999999999874         3567899999999999988877766554332    22468999996 8999999999


Q ss_pred             HHhccCcCeEEEEEeCCcchH--HhHHhh-c-----CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcH
Q 018574          122 LAIGDFINIQAHACVGGKSVG--EDIRKL-E-----HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFK  193 (354)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~-~-----~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~  193 (354)
                      .++... .+.+..+.++....  ...... .     ...+|+|+|++.+....  ..+....+++||+||||++.+.. .
T Consensus       134 ~~~~~~-~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~vvi~ty~~l~~~~--~~l~~~~~~~vI~DEaH~ikn~~-~  209 (644)
T 1z3i_X          134 GKWLGG-RVQPVAIDGGSKDEIDSKLVNFISQQGMRIPTPILIISYETFRLHA--EVLHKGKVGLVICDEGHRLKNSD-N  209 (644)
T ss_dssp             HHHHGG-GCCEEEECSSCHHHHHHHHHHHHCCCSSCCSCCEEEEEHHHHHHHT--TTTTTSCCCEEEETTGGGCCTTC-H
T ss_pred             HHHcCC-CeeEEEEeCCCHHHHHHHHHHHHHhcCCCCCCcEEEeeHHHHHhhH--HHhhcCCccEEEEECceecCChh-h
Confidence            998644 45555555554322  111121 1     24789999999887543  24445678999999999986543 2


Q ss_pred             HHHHHHHhhCCCCCcEEEEEeeCchhH----HH---------------HHHhccC-------------------------
Q 018574          194 DQIYDVYRYLPPDLQVVLISATLPHEI----LE---------------MTTKFMT-------------------------  229 (354)
Q Consensus       194 ~~~~~i~~~~~~~~~~i~lSaT~~~~~----~~---------------~~~~~~~-------------------------  229 (354)
                      .....+ ..+ .....+++||||.+..    ..               +...+..                         
T Consensus       210 ~~~~al-~~l-~~~~rl~LTgTPiqN~l~El~sll~fl~p~~l~~~~~F~~~f~~pi~~~~~~~~~~~~~~~~~~~~~~L  287 (644)
T 1z3i_X          210 QTYLAL-NSM-NAQRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQEL  287 (644)
T ss_dssp             HHHHHH-HHH-CCSEEEEECSSCSGGGGGGCHHHHHHHHHHHHCCHHHHHHHTHHHHHHHHSTTCCSHHHHHHHHHHHHH
T ss_pred             HHHHHH-Hhc-ccCcEEEEecCcccCCHHHHHHHHHhhCCCcCCCHHHHHHhhcchhhhcCCcCCCHHHHHHHHHHHHHH
Confidence            222222 223 3557899999984321    00               0000000                         


Q ss_pred             ----CCeEEEecCCcc--cccCceeEEEEec-------------------------------------------------
Q 018574          230 ----DPVKILVKRDEL--TLEGIKQFFVAVE-------------------------------------------------  254 (354)
Q Consensus       230 ----~~~~~~~~~~~~--~~~~~~~~~~~~~-------------------------------------------------  254 (354)
                          .+..+.-.....  ..+........+.                                                 
T Consensus       288 ~~~l~~~~lRR~k~~v~~~LP~k~~~~v~~~ls~~q~~lY~~~~~~~~~~~~~~~g~~~~~~l~~l~~Lrk~c~hp~l~~  367 (644)
T 1z3i_X          288 ISIVNRCLIRRTSDILSKYLPVKIEQVVCCNLTPLQKELYKLFLKQAKPVESLQTGKISVSSLSSITSLKKLCNHPALIY  367 (644)
T ss_dssp             HHHHHHHEECCCGGGGGGTSCCEEEEEEEECCCHHHHHHHHHHHHHHCGGGSSCTTCCCHHHHHHHHHHHHHHHCTHHHH
T ss_pred             HHHHHHHHHHhhHHhHhhhCCCceEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHhCCHHHHH
Confidence                000000000000  0000000000000                                                 


Q ss_pred             ----------------------------cccchHHHHHHHHhh---CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEee
Q 018574          255 ----------------------------REEWKFDTLCDLYDT---LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMH  303 (354)
Q Consensus       255 ----------------------------~~~~~~~~l~~~l~~---~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~  303 (354)
                                                  ....|...+..++..   ..+.++||||++.+.++.+...|...++.+..+|
T Consensus       368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~l~~ll~~~~~~~~~k~lIFs~~~~~~~~l~~~l~~~g~~~~~l~  447 (644)
T 1z3i_X          368 EKCLTGEEGFDGALDLFPQNYSTKAVEPQLSGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLD  447 (644)
T ss_dssp             HHHHHTCTTCTTGGGTSCSSCCSSSCCGGGSHHHHHHHHHHHHHHHHCCCEEEEEESCHHHHHHHHHHHHHHTCCEEEEC
T ss_pred             HHHhcccchhhhHHhhccccccccccCcccChHHHHHHHHHHHHhhcCCCEEEEEEccHHHHHHHHHHHHHCCCCEEEEe
Confidence                                        011233344444433   3468999999999999999999999999999999


Q ss_pred             cCCCHHHHHHHHHHHhCCCCc---EEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          304 GDMPQKERDAIMGEFRSGTTR---VLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       304 ~~~~~~~r~~~~~~f~~g~~~---vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+++..+|.++++.|++|+..   +|++|.++++|+|++++++||+||.|+|+
T Consensus       448 G~~~~~~R~~~i~~F~~~~~~~~v~L~st~a~g~Glnl~~a~~Vi~~d~~wnp  500 (644)
T 1z3i_X          448 GTMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNP  500 (644)
T ss_dssp             SSCCHHHHHHHHHHHHSTTCCCCEEEEEGGGSCTTCCCTTEEEEEECSCCSSH
T ss_pred             CCCCHHHHHHHHHHhcCCCCCcEEEEEecccccCCcccccCCEEEEECCCCCc
Confidence            999999999999999998764   88999999999999999999999999986

>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system, helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP; 2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*

Probab=99.97  E-value=1.3e-29  Score=244.93  Aligned_cols=284  Identities=10%  Similarity=0.057  Sum_probs=185.8

Q ss_pred             CChHHHHHhHhhhhc--------------CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHH
Q 018574           55 KPSAIQQRAVMPIIK--------------GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKV  120 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~--------------~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~  120 (354)
                      .|+++|.++++.+++              +++++++++||||||.++ +++...+.......++|||+|+++|+.|+.+.
T Consensus       271 ~~R~~Q~~AI~~il~~i~~~~~~~~~~~~~~~gli~~~TGSGKT~t~-~~l~~ll~~~~~~~rvLvlvpr~eL~~Q~~~~  349 (1038)
T 2w00_A          271 VMRPYQIAATERILWKIKSSFTAKNWSKPESGGYIWHTTGSGKTLTS-FKAARLATELDFIDKVFFVVDRKDLDYQTMKE  349 (1038)
T ss_dssp             ECCHHHHHHHHHHHHHHHHHHHHTCCSSGGGSEEEEECTTSSHHHHH-HHHHHHHTTCTTCCEEEEEECGGGCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcccccccccCCCCEEEEecCCCCHHHHH-HHHHHHHHhcCCCceEEEEeCcHHHHHHHHHH
Confidence            599999999998875              368999999999999987 55555554333345899999999999999999


Q ss_pred             HHHhccCcCeEEEEEeCCcchHHhHHhh-cCCCeEEEeCcHHHHHHHhcCC--ccCCCccEEEEecchhhhccCcHHHHH
Q 018574          121 ILAIGDFINIQAHACVGGKSVGEDIRKL-EHGVHVVSGTPGRVCDMIKRKT--LRTRAIKLLVLDESDEMLSRGFKDQIY  197 (354)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~iiv~T~~~l~~~~~~~~--~~~~~~~~vvvDE~h~~~~~~~~~~~~  197 (354)
                      +..+...      .+.++.+.......+ ..+++|+|+|+++|...+....  .....+.+||+||||++..   .....
T Consensus       350 f~~f~~~------~v~~~~s~~~l~~~L~~~~~~IiVtTiqkl~~~l~~~~~~~~~~~~~lvIiDEAHrs~~---~~~~~  420 (1038)
T 2w00_A          350 YQRFSPD------SVNGSENTAGLKRNLDKDDNKIIVTTIQKLNNLMKAESDLPVYNQQVVFIFDECHRSQF---GEAQK  420 (1038)
T ss_dssp             HHTTSTT------CSSSSCCCHHHHHHHHCSSCCEEEEEHHHHHHHHHHCCCCGGGGSCEEEEEESCCTTHH---HHHHH
T ss_pred             HHHhccc------ccccccCHHHHHHHhcCCCCCEEEEEHHHHHHHHhcccchhccccccEEEEEccchhcc---hHHHH
Confidence            9887643      122333443433444 3468999999999988765432  1234678999999999753   23455


Q ss_pred             HHHhhCCCCCcEEEEEeeCchh--------HHHHH-------------HhccCCCeEEEecCCcccc------------c
Q 018574          198 DVYRYLPPDLQVVLISATLPHE--------ILEMT-------------TKFMTDPVKILVKRDELTL------------E  244 (354)
Q Consensus       198 ~i~~~~~~~~~~i~lSaT~~~~--------~~~~~-------------~~~~~~~~~~~~~~~~~~~------------~  244 (354)
                      .+...++ +.+++++||||...        .....             ......|..+.........            .
T Consensus       421 ~I~~~~p-~a~~lgfTATP~~~~~~~~~~~t~~~FG~~i~~Y~l~~AI~dg~l~p~~v~y~~v~~~~~~~~~e~d~~~~~  499 (1038)
T 2w00_A          421 NLKKKFK-RYYQFGFTGTPIFPENALGSETTASVFGRELHSYVITDAIRDEKVLKFKVDYNDVRPQFKSLETETDEKKLS  499 (1038)
T ss_dssp             HHHHHCS-SEEEEEEESSCCCSTTCTTSCCHHHHHCSEEEEECHHHHHHHTSSCCEEEEECCCCGGGHHHHTCCCHHHHH
T ss_pred             HHHHhCC-cccEEEEeCCccccccchhhhHHHHHhCCeeEeecHHHHHhCCCcCCeEEEEEeccchhhhccccccHHHHH
Confidence            6666664 57899999999643        11211             1111112222111100000            0


Q ss_pred             CceeEEEEeccccchHHHH-HHHHhhC-----------CCCcEEEEcCchhhHHHHHHHHhcCC------------CeE-
Q 018574          245 GIKQFFVAVEREEWKFDTL-CDLYDTL-----------TITQAVIFCNTKRKVDWLTEKMRGYN------------FTV-  299 (354)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~l-~~~l~~~-----------~~~~~lvf~~~~~~~~~l~~~l~~~~------------~~~-  299 (354)
                      .+... ..+..+. .+..+ ..++...           .+.++||||++++.|..+++.|.+.+            .++ 
T Consensus       500 ~i~~~-~~l~~~~-ri~~I~~~Il~~~~~~~~~~~~~~~g~kamVf~~S~~~A~~~~~~l~~~~~~~~~~~~~~~~~k~a  577 (1038)
T 2w00_A          500 AAENQ-QAFLHPM-RIQEITQYILNNFRQKTHRTFPGSKGFNAMLAVSSVDAAKAYYATFKRLQEEAANKSATYKPLRIA  577 (1038)
T ss_dssp             HTCST-TTTTCHH-HHHHHHHHHHHHHHHHTTCSSSSCCCCEEEEEESSHHHHHHHHHHHHHHHHHHTTTSSSCCCCCEE
T ss_pred             HHHHH-HHhcCHH-HHHHHHHHHHHHHHHhhhhhcccCCCCcEEEEECCHHHHHHHHHHHHhhhhhhcccccccccCcEE
Confidence            00000 0000111 12222 2232211           23589999999999999999997653            445 


Q ss_pred             EEeecC----------C----------CH-----------------------------HHHHHHHHHHhCCCCcEEEEcc
Q 018574          300 SSMHGD----------M----------PQ-----------------------------KERDAIMGEFRSGTTRVLITTD  330 (354)
Q Consensus       300 ~~~~~~----------~----------~~-----------------------------~~r~~~~~~f~~g~~~vlv~T~  330 (354)
                      .++|+.          +          ++                             ..|..+++.|++|+.+|||+|+
T Consensus       578 vv~s~~~~~~~~~~G~~~~e~~~~~~~~~~~r~~l~~~I~dyn~~f~~~~~~~~~~~~~~R~~i~~~Fk~g~i~ILIvvd  657 (1038)
T 2w00_A          578 TIFSFAANEEQNAIGEISDETFDTSAMDSSAKEFLDAAIREYNSHFKTNFSTDSNGFQNYYRDLAQRVKNQDIDLLIVVG  657 (1038)
T ss_dssp             EECCCCC------CCCCCCCCSCGGGSCHHHHHHHHHHHHHHHHHHTCCCCSSHHHHHHHHHHHHHHHHTTSSSEEEESS
T ss_pred             EEEeCCCccccccccccccccccccccchhHHHHHHHHHHHHHHHhcccccccchhhhHHHHHHHHHHHcCCCeEEEEcc
Confidence            345542          1          11                             1377889999999999999999


Q ss_pred             ccccCCCcCCCcEEEecCCCCC
Q 018574          331 VWARGLDVQQAILFFFLFLFCN  352 (354)
Q Consensus       331 ~~~~Gidi~~~~~Vi~~~~p~s  352 (354)
                      ++.+|+|+|.+ +++++|.|.+
T Consensus       658 ~lltGfDiP~l-~tlylDkpl~  678 (1038)
T 2w00_A          658 MFLTGFDAPTL-NTLFVDKNLR  678 (1038)
T ss_dssp             TTSSSCCCTTE-EEEEEESCCC
T ss_pred             hHHhCcCcccc-cEEEEccCCC
Confidence            99999999999 7889999865

>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus, hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A

Probab=99.97  E-value=3.6e-29  Score=232.64  Aligned_cols=247  Identities=15%  Similarity=0.170  Sum_probs=179.7

Q ss_pred             hhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHh
Q 018574           65 MPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED  144 (354)
Q Consensus        65 ~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (354)
                      ...++++++++.||||+|||..++..+..    ..   ..+|++|+++|+.|+++.+...    ++.+..+.|+..... 
T Consensus       150 ar~l~rk~vlv~apTGSGKT~~al~~l~~----~~---~gl~l~PtR~LA~Qi~~~l~~~----g~~v~lltG~~~~iv-  217 (677)
T 3rc3_A          150 ARAMQRKIIFHSGPTNSGKTYHAIQKYFS----AK---SGVYCGPLKLLAHEIFEKSNAA----GVPCDLVTGEERVTV-  217 (677)
T ss_dssp             HHTSCCEEEEEECCTTSSHHHHHHHHHHH----SS---SEEEEESSHHHHHHHHHHHHHT----TCCEEEECSSCEECC-
T ss_pred             HHhcCCCEEEEEcCCCCCHHHHHHHHHHh----cC---CeEEEeCHHHHHHHHHHHHHhc----CCcEEEEECCeeEEe-
Confidence            34567889999999999999844433332    22   2599999999999999999876    467777888765411 


Q ss_pred             HHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCC-CCCcEEEEEeeCchhHHHH
Q 018574          145 IRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP-PDLQVVLISATLPHEILEM  223 (354)
Q Consensus       145 ~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~-~~~~~i~lSaT~~~~~~~~  223 (354)
                       .......+++++|++.+.        ....+++||+||+|++.+.+++..+..++..++ ...+++++|||.+ ....+
T Consensus       218 -~TpGr~~~il~~T~e~~~--------l~~~v~lvVIDEaH~l~d~~~g~~~~~~l~~l~~~~i~il~~SAT~~-~i~~l  287 (677)
T 3rc3_A          218 -QPNGKQASHVSCTVEMCS--------VTTPYEVAVIDEIQMIRDPARGWAWTRALLGLCAEEVHLCGEPAAID-LVMEL  287 (677)
T ss_dssp             -STTCCCCSEEEEEGGGCC--------SSSCEEEEEECSGGGGGCTTTHHHHHHHHHHCCEEEEEEEECGGGHH-HHHHH
T ss_pred             -cCCCcccceeEecHhHhh--------hcccCCEEEEecceecCCccchHHHHHHHHccCccceEEEeccchHH-HHHHH
Confidence             000112678888876542        235679999999999988889999998888887 6788999999942 23333


Q ss_pred             HHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEee
Q 018574          224 TTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMH  303 (354)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~  303 (354)
                      ... ......+.........   .   .  ...  ..    ..+.... ...+|||++++.++.+++.|++.+..+..+|
T Consensus       288 ~~~-~~~~~~v~~~~r~~~l---~---~--~~~--~l----~~l~~~~-~g~iIf~~s~~~ie~la~~L~~~g~~v~~lH  351 (677)
T 3rc3_A          288 MYT-TGEEVEVRDYKRLTPI---S---V--LDH--AL----ESLDNLR-PGDCIVCFSKNDIYSVSRQIEIRGLESAVIY  351 (677)
T ss_dssp             HHH-HTCCEEEEECCCSSCE---E---E--CSS--CC----CSGGGCC-TTEEEECSSHHHHHHHHHHHHHTTCCCEEEC
T ss_pred             HHh-cCCceEEEEeeecchH---H---H--HHH--HH----HHHHhcC-CCCEEEEcCHHHHHHHHHHHHhcCCCeeeee
Confidence            322 2333333211110000   0   0  000  00    0112222 4568899999999999999999999999999


Q ss_pred             cCCCHHHHHHHHHHHhC--CCCcEEEEccccccCCCcCCCcEEEecCCC
Q 018574          304 GDMPQKERDAIMGEFRS--GTTRVLITTDVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       304 ~~~~~~~r~~~~~~f~~--g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      |++++++|.++++.|++  |+.+|||||+++++|+|+ ++++||++|++
T Consensus       352 G~L~~~~R~~~~~~F~~~~g~~~VLVATdi~e~GlDi-~v~~VI~~~~~  399 (677)
T 3rc3_A          352 GSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNL-SIRRIIFYSLI  399 (677)
T ss_dssp             TTSCHHHHHHHHHHHHCTTSSCCEEEECGGGGSSCCC-CBSEEEESCSB
T ss_pred             ccCCHHHHHHHHHHHHccCCCeEEEEeCcHHHCCcCc-CccEEEECCcc
Confidence            99999999999999999  889999999999999999 89999999994

>3jux_A Protein translocase subunit SECA; protein translocation, ATPase, conformational change, peptide binding, ATP-binding, cell inner membrane; HET: ADP; 3.10A {Thermotoga maritima} PDB: 3din_A*

Probab=99.96  E-value=3e-26  Score=208.12  Aligned_cols=290  Identities=12%  Similarity=0.143  Sum_probs=203.3

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+ .|++.|.-..-.+.+|+  +..+.||+|||+++.+|++-....+   ..+.|++|+..|+.|-++.+..+...+|+
T Consensus        72 lg~-r~~dvQligg~~L~~G~--iaEM~TGEGKTLva~lp~~lnAL~G---~~vhVvT~ndyLA~rdae~m~~l~~~Lgl  145 (822)
T 3jux_A           72 LGM-RPFDVQVMGGIALHEGK--VAEMKTGEGKTLAATMPIYLNALIG---KGVHLVTVNDYLARRDALWMGPVYLFLGL  145 (822)
T ss_dssp             TSC-CCCHHHHHHHHHHHTTC--EEECCTTSCHHHHTHHHHHHHHTTS---SCEEEEESSHHHHHHHHHHHHHHHHHTTC
T ss_pred             hCC-CCcHHHHHHHHHHhCCC--hhhccCCCCccHHHHHHHHHHHhcC---CceEEEeccHHHHHhHHHHHHHHHHHhCC
Confidence            566 78888887776666665  8899999999999999987555444   34999999999999999999999999999


Q ss_pred             EEEEEeCCc--------------------------------------------------chHHhHHhhcCCCeEEEeCcH
Q 018574          131 QAHACVGGK--------------------------------------------------SVGEDIRKLEHGVHVVSGTPG  160 (354)
Q Consensus       131 ~~~~~~~~~--------------------------------------------------~~~~~~~~~~~~~~iiv~T~~  160 (354)
                      ++..+....                                                  +..+....  ..++|+++|..
T Consensus       146 svg~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~err~a--Y~~DItYgTn~  223 (822)
T 3jux_A          146 RVGVINSLGKSYEVVWKNPDLARKAIEENWSVWPDGFNGEVLKEESMNKEAVEAFQVELKEITRKEA--YLCDVTYGTNN  223 (822)
T ss_dssp             CEEEEETTTEEEEEEESSHHHHHHHHHTTCCSSCTTCCSSSCCGGGSCHHHHTTTCEECCBCCHHHH--HHSSEEEEEHH
T ss_pred             EEEEEcCCCcccccccccchhhhhhhcccccccccccccccccccccccccchhccccCCHHHHHHH--hcCCCEEccCc
Confidence            998887721                                                  11111111  13899999998


Q ss_pred             HH-HHHHhcC------CccCCCccEEEEecchhhhccC----------------cHHHHHHHHhhCCCC-----------
Q 018574          161 RV-CDMIKRK------TLRTRAIKLLVLDESDEMLSRG----------------FKDQIYDVYRYLPPD-----------  206 (354)
Q Consensus       161 ~l-~~~~~~~------~~~~~~~~~vvvDE~h~~~~~~----------------~~~~~~~i~~~~~~~-----------  206 (354)
                      .| .++++..      ......+.+.||||+|.++-..                +...+..+.+.+..+           
T Consensus       224 EfgFDYLRDnm~~~~~~~vqR~~~~aIVDEvDSiLIDeArtPLiISg~~~~~~~~y~~~~~~v~~l~~~~dy~vdek~~~  303 (822)
T 3jux_A          224 EFGFDYLRDNLVLDYNDKVQRGHFYAIVDEADSVLIDEARTPLIISGPSKESPSVYRRFAQIAKKFVKDKDFTVDEKART  303 (822)
T ss_dssp             HHHHHHHHHTSCSSTTSCCCCCCCEEEEETHHHHHTTGGGSCEEEECCCCSCHHHHHHHHHHTTSSCBTTTEEECCSSSC
T ss_pred             chhhHhHHhhccCCHHHhccCCCCeEEEecccceeecCCCCCceeeCCCCCccHHHHHHHHHHHhcCcCCcEEEEcccCe
Confidence            77 3444432      2234678999999999864111                112222222222100           


Q ss_pred             --------------------------------------------------------------------------------
Q 018574          207 --------------------------------------------------------------------------------  206 (354)
Q Consensus       207 --------------------------------------------------------------------------------  206 (354)
                                                                                                      
T Consensus       304 v~lTe~G~~~~E~~l~i~nly~~~n~~l~~~i~~AL~A~~l~~~d~dYiV~dg~V~iVDe~TGR~m~grr~s~GLHQaiE  383 (822)
T 3jux_A          304 IILTEEGVAKAEKIIGVENLYDPGNVSLLYHLINALKALHLFKKDVDYVVMNGEVIIVDEFTGRLLPGRRYSGGLHQAIE  383 (822)
T ss_dssp             EEECHHHHHHHHHHHTCSCTTSGGGHHHHHHHHHHHHHHHHSTTTSSEEEETTEEEECSSSSCSCCCSCCCGGGHHHHHH
T ss_pred             EEECHHHHHHHHHHhCCccccchhhhHHHHHHHHHHHHHHHHcCCCcEEEECCEEEEEECCCCcCCCCCcCchHHHHHHH
Confidence                                                                                            


Q ss_pred             --------------------------CcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchH
Q 018574          207 --------------------------LQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKF  260 (354)
Q Consensus       207 --------------------------~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  260 (354)
                                                .++.+||+|...+..++.+.+..+  .+.+ +.........+..........+.
T Consensus       384 aKEgv~i~~e~~tla~IT~Qn~Fr~Y~kL~GMTGTa~te~~Ef~~iY~l~--vv~I-Ptnkp~~R~d~~d~vy~t~~eK~  460 (822)
T 3jux_A          384 AKEGVPIKEESITYATITFQNYFRMYEKLAGMTGTAKTEESEFVQVYGME--VVVI-PTHKPMIRKDHDDLVFRTQKEKY  460 (822)
T ss_dssp             HHHSSCCCCCCCEEEEECHHHHHTTSSEEEEEESSCGGGHHHHHHHSCCC--EEEC-CCSSCCCCEECCCEEESSHHHHH
T ss_pred             HHcCCCCCCCcchhHHHHHHHHHHHhhHHeEECCCCchHHHHHHHHhCCe--EEEE-CCCCCcceeecCcEEEecHHHHH
Confidence                                      579999999998877776666443  2222 22222222222212223344477


Q ss_pred             HHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCc
Q 018574          261 DTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV  338 (354)
Q Consensus       261 ~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi  338 (354)
                      ..+...+...  .+.++||||+|++.++.++..|++.|+++..+||+....++..+.+.++.  ..|+|||+++++|+|+
T Consensus       461 ~al~~~I~~~~~~gqpVLVFt~S~e~sE~Ls~~L~~~Gi~~~vLhgkq~~rE~~ii~~ag~~--g~VtVATdmAgRGtDI  538 (822)
T 3jux_A          461 EKIVEEIEKRYKKGQPVLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHEKEAEIVAKAGQK--GMVTIATNMAGRGTDI  538 (822)
T ss_dssp             HHHHHHHHHHHHHTCCEEEEESSHHHHHHHHHHHHTTTCCCEEECSCHHHHHHHHHHHHHST--TCEEEEETTTTTTCCC
T ss_pred             HHHHHHHHHHhhCCCCEEEEECCHHHHHHHHHHHHHCCCCEEEeeCCchHHHHHHHHhCCCC--CeEEEEcchhhCCcCc
Confidence            7777776643  45799999999999999999999999999999998544444444445544  4799999999999999


Q ss_pred             C--------CCcEEEecCCCCCC
Q 018574          339 Q--------QAILFFFLFLFCNV  353 (354)
Q Consensus       339 ~--------~~~~Vi~~~~p~s~  353 (354)
                      +        +..+||++++|.|.
T Consensus       539 ~lg~~V~~~GglhVInte~Pes~  561 (822)
T 3jux_A          539 KLGPGVAELGGLCIIGTERHESR  561 (822)
T ss_dssp             CCCTTTTTTTSCEEEESSCCSSH
T ss_pred             cCCcchhhcCCCEEEecCCCCCH
Confidence            8        56699999999874

>2ipc_A Preprotein translocase SECA subunit; nucleotide binding fold, ATPase, parallel dimer; 2.80A {Thermus thermophilus}

Probab=99.93  E-value=1.2e-23  Score=194.53  Aligned_cols=130  Identities=18%  Similarity=0.228  Sum_probs=110.6

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .|+ .|++.|..++..+++|+  +..+.||+|||.++.+|++.....+   ..++|++||+.|+.|.++.+..+...+++
T Consensus        76 lG~-~Pt~VQ~~~ip~LlqG~--IaeakTGeGKTLvf~Lp~~L~aL~G---~qv~VvTPTreLA~Qdae~m~~l~~~lGL  149 (997)
T 2ipc_A           76 LGM-RHFDVQLIGGAVLHEGK--IAEMKTGEGKTLVATLAVALNALTG---KGVHVVTVNDYLARRDAEWMGPVYRGLGL  149 (997)
T ss_dssp             TCC-CCCHHHHHHHHHHHTTS--EEECCSTHHHHHHHHHHHHHHHTTC---SCCEEEESSHHHHHHHHHHHHHHHHTTTC
T ss_pred             hCC-CCcHHHHhhcccccCCc--eeeccCCCchHHHHHHHHHHHHHhC---CCEEEEeCCHHHHHHHHHHHHHHHHhcCC
Confidence            788 99999999999999998  8999999999999999996444433   35999999999999999999999999999


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcCC------ccCC---CccEEEEecchhhh
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRKT------LRTR---AIKLLVLDESDEML  188 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~~------~~~~---~~~~vvvDE~h~~~  188 (354)
                      ++..+.|+.+......  ..+++|+|+||+.+ .++++...      +.++   .+.++|+||+|.++
T Consensus       150 sv~~i~Gg~~~~~r~~--ay~~DIvyGTpgrlgfDyLrd~m~~~~~~l~~r~d~~l~~lIIDEaDsmL  215 (997)
T 2ipc_A          150 SVGVIQHASTPAERRK--AYLADVTYVTNSELGFDYLRDNMAISPDQLVLRHDHPLHYAIIDEVDSIL  215 (997)
T ss_dssp             CEEECCTTCCHHHHHH--HHTSSEEEEEHHHHHHHHHHHTSCSSTTTCCSCSSSSSCEEEETTHHHHT
T ss_pred             eEEEEeCCCCHHHHHH--HcCCCEEEECchhhhhHHHHHhhhcchhhcccccCCCcceEEEechHHHH
Confidence            9999999887543333  34689999999999 67776542      4556   89999999999986

>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=99.92  E-value=2.5e-25  Score=181.37  Aligned_cols=164  Identities=13%  Similarity=0.154  Sum_probs=118.0

Q ss_pred             CCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC---CCceeEEEEcCCHHHHHH-HHHHHHHhcc
Q 018574           51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS---SREVQALILSPTRELATQ-TEKVILAIGD  126 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~---~~~~~~lil~p~~~l~~q-~~~~~~~~~~  126 (354)
                      .....|+++|.++++.+++++++++.+|||+|||.+++.++...+...   ..+.++||++|+++|+.| +.+.+..+..
T Consensus        29 ~~~~~l~~~Q~~~i~~~~~~~~~li~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~~lil~p~~~L~~q~~~~~~~~~~~  108 (216)
T 3b6e_A           29 EPELQLRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVEQLFRKEFQPFLK  108 (216)
T ss_dssp             SCCCCCCHHHHHHHHHHHTTCCEEEECSCHHHHHHHHHHHHHHHHHHHHHTTCCCCEEEEESSHHHHHHHHHHTHHHHHT
T ss_pred             cCCCCchHHHHHHHHHHhcCCCEEEEcCCCCCHHHHHHHHHHHHHhhcccccCCCcEEEEECHHHHHHHHHHHHHHHHhc
Confidence            344589999999999999999999999999999999999988766432   234579999999999999 8888888765


Q ss_pred             CcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCC------ccCCCccEEEEecchhhhccCcHHH-HHHH
Q 018574          127 FINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKT------LRTRAIKLLVLDESDEMLSRGFKDQ-IYDV  199 (354)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~------~~~~~~~~vvvDE~h~~~~~~~~~~-~~~i  199 (354)
                      . ++.+..+.++............+++|+|+||+.+...+....      ..+.++++||+||||++...++... +..+
T Consensus       109 ~-~~~v~~~~g~~~~~~~~~~~~~~~~i~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iIiDEah~~~~~~~~~~~~~~~  187 (216)
T 3b6e_A          109 K-WYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFSLIIIDECHHTNKEAVYNNIMRHY  187 (216)
T ss_dssp             T-TSCEEECCC---CCCCHHHHHHHCSEEEEEHHHHHHHHHC-------CCCGGGCSEEEETTC-------CHHHHHHHH
T ss_pred             c-CceEEEEeCCcccchhHHhhccCCCEEEECHHHHHHHHhccCcccccccchhcccEEEEECchhhccCCcHHHHHHHH
Confidence            4 567777777765554444444468999999999998877643      4567889999999999976644333 3333


Q ss_pred             HhhC-------------CCCCcEEEEEee
Q 018574          200 YRYL-------------PPDLQVVLISAT  215 (354)
Q Consensus       200 ~~~~-------------~~~~~~i~lSaT  215 (354)
                      +...             .+..+++++|||
T Consensus       188 ~~~~~~~~~~~~~~~~~~~~~~~l~lSAT  216 (216)
T 3b6e_A          188 LMQKLKNNRLKKENKPVIPLPQILGLTAS  216 (216)
T ss_dssp             HHHHHHHHHHHHTTCCCCCCCEEEEEECC
T ss_pred             HHHhcccccccccccCCCCcceEEEeecC
Confidence            2221             156899999998

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23

Probab=99.89  E-value=1.9e-23  Score=176.88  Aligned_cols=154  Identities=21%  Similarity=0.198  Sum_probs=123.6

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .|+++|.++++.++++++.++.+|||+|||.+++.++...+...  ..++||++|+++|+.||.+++.+++......+..
T Consensus       113 ~l~~~Q~~ai~~~l~~~~~ll~~~tGsGKT~~~~~~~~~~~~~~--~~~~lil~Pt~~L~~q~~~~l~~~~~~~~~~~~~  190 (282)
T 1rif_A          113 EPHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQALLARYYLENY--EGKILIIVPTTALTTQMADDFVDYRLFSHAMIKK  190 (282)
T ss_dssp             CCCHHHHHHHHHHHHHSEEEECCCTTSCHHHHHHHHHHHHHHHC--SSEEEEECSSHHHHHHHHHHHHHHTSCCGGGEEE
T ss_pred             CccHHHHHHHHHHHhcCCeEEEcCCCCCcHHHHHHHHHHHHHcC--CCeEEEEECCHHHHHHHHHHHHHhcccccceEEE
Confidence            89999999999999888899999999999999988877665433  2369999999999999999999988666667777


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEe
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISA  214 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSa  214 (354)
                      +.++.....   ......+|+|+|++.+.+.   ......++++||+||||++..    ..+..++..+....+++++||
T Consensus       191 ~~~~~~~~~---~~~~~~~I~v~T~~~l~~~---~~~~~~~~~~vIiDEaH~~~~----~~~~~il~~~~~~~~~l~lSA  260 (282)
T 1rif_A          191 IGGGASKDD---KYKNDAPVVVGTWQTVVKQ---PKEWFSQFGMMMNDECHLATG----KSISSIISGLNNCMFKFGLSG  260 (282)
T ss_dssp             CSTTCSSTT---CCCTTCSEEEECHHHHTTS---CGGGGGGEEEEEEETGGGCCH----HHHHHHTTTCTTCCEEEEECS
T ss_pred             EeCCCcchh---hhccCCcEEEEchHHHHhh---HHHHHhhCCEEEEECCccCCc----ccHHHHHHHhhcCCeEEEEeC
Confidence            777654432   2234589999999877443   223456789999999999853    467778888877899999999


Q ss_pred             eCchhH
Q 018574          215 TLPHEI  220 (354)
Q Consensus       215 T~~~~~  220 (354)
                      |++...
T Consensus       261 Tp~~~~  266 (282)
T 1rif_A          261 SLRDGK  266 (282)
T ss_dssp             SCCTTS
T ss_pred             CCCCcc
Confidence            997653

>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase, hypertherm protein, replication; HET: DNA BOG; 1.50A {Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1d2m_A*

Probab=99.89  E-value=2.9e-21  Score=180.94  Aligned_cols=136  Identities=21%  Similarity=0.189  Sum_probs=98.9

Q ss_pred             CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhC--CCCcEEEEcCch
Q 018574          205 PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL--TITQAVIFCNTK  282 (354)
Q Consensus       205 ~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~--~~~~~lvf~~~~  282 (354)
                      ...|++++|||++......    ................+    . ..+.....+...+...+...  .+.++||||+++
T Consensus       379 ~~~q~i~~SAT~~~~~~~~----~~~~~~~~~r~~~l~~p----~-i~v~~~~~~~~~Ll~~l~~~~~~~~~vlVf~~t~  449 (664)
T 1c4o_A          379 RVSQVVFVSATPGPFELAH----SGRVVEQIIRPTGLLDP----L-VRVKPTENQILDLMEGIRERAARGERTLVTVLTV  449 (664)
T ss_dssp             TCSEEEEEESSCCHHHHHH----CSEEEEECSCTTCCCCC----E-EEEECSTTHHHHHHHHHHHHHHTTCEEEEECSSH
T ss_pred             hcCCEEEEecCCCHHHHHh----hhCeeeeeeccCCCCCC----e-EEEecccchHHHHHHHHHHHHhcCCEEEEEECCH
Confidence            3578999999998653222    01111111111111111    1 11222222444444444322  457999999999


Q ss_pred             hhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC
Q 018574          283 RKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL  349 (354)
Q Consensus       283 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~  349 (354)
                      +.++.+++.|.+.++.+..+||+++..+|.++++.|+.|+.+|||||+++++|+|+|++++||++|.
T Consensus       450 ~~ae~L~~~L~~~gi~~~~lh~~~~~~~R~~~~~~f~~g~~~VLvaT~~l~~GlDip~v~lVI~~d~  516 (664)
T 1c4o_A          450 RMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDA  516 (664)
T ss_dssp             HHHHHHHHHHHHTTCCEEEECTTCCHHHHHHHHHHHHTTSCSEEEESCCCCTTCCCTTEEEEEETTT
T ss_pred             HHHHHHHHHHHhcCCCceeecCCCCHHHHHHHHHHhhcCCceEEEccChhhcCccCCCCCEEEEeCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999997

>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}

Probab=99.89  E-value=1.6e-22  Score=185.71  Aligned_cols=127  Identities=18%  Similarity=0.218  Sum_probs=85.1

Q ss_pred             CCCCCChHHHHHhHhh----hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhcc
Q 018574           51 YGFEKPSAIQQRAVMP----IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGD  126 (354)
Q Consensus        51 ~~~~~~~~~Q~~~~~~----~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~  126 (354)
                      .|+ .|+++|.+++..    +..++++++.+|||+|||.+|++|++..      +.+++|++||++|+.|+.+++..+. 
T Consensus         4 ~~~-~~r~~Q~~~~~~v~~~~~~~~~~~~~a~TGtGKT~~~l~~~~~~------~~~~~~~~~t~~l~~q~~~~~~~l~-   75 (540)
T 2vl7_A            4 LKL-QLRQWQAEKLGEAINALKHGKTLLLNAKPGLGKTVFVEVLGMQL------KKKVLIFTRTHSQLDSIYKNAKLLG-   75 (540)
T ss_dssp             ------CCHHHHHHHHHHHHHHTTCEEEEECCTTSCHHHHHHHHHHHH------TCEEEEEESCHHHHHHHHHHHGGGT-
T ss_pred             CCC-CCCHHHHHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHhC------CCcEEEEcCCHHHHHHHHHHHHhcC-
Confidence            466 899999998654    4568999999999999999999998753      3579999999999999998887642 


Q ss_pred             CcCeEEEEEeCCcch--------H------------------------Hh---------------HHhhcCCCeEEEeCc
Q 018574          127 FINIQAHACVGGKSV--------G------------------------ED---------------IRKLEHGVHVVSGTP  159 (354)
Q Consensus       127 ~~~~~~~~~~~~~~~--------~------------------------~~---------------~~~~~~~~~iiv~T~  159 (354)
                         +++..+.|....        .                        +.               .......++|+|+|+
T Consensus        76 ---~~~~~l~gr~~lC~~~~~~~~~~~~~c~~c~~~~~~~~~gd~~~~~~~~~~~~~~~~Cpy~~~r~~~~~adiVV~n~  152 (540)
T 2vl7_A           76 ---LKTGFLIGKSASCIYAQGDEEPDEINCSKCRLKDKIKTIEDKEPSKLIEEFKDAVDYCPYYSLRANLKDKDVIAMTY  152 (540)
T ss_dssp             ---CCEEEC---------------------------------------------------------CTTGGGCSEEEEET
T ss_pred             ---CcEEEecCCccccCCchhcccccccCCCCCCchhcccccccCCcHHHHHHHhhhcCCChHHHHHHHhhcCCEEEECh
Confidence               333333322110        0                        00               011123479999999


Q ss_pred             HHHHHHHhcCCc-------cCCCccEEEEecchhhh
Q 018574          160 GRVCDMIKRKTL-------RTRAIKLLVLDESDEML  188 (354)
Q Consensus       160 ~~l~~~~~~~~~-------~~~~~~~vvvDE~h~~~  188 (354)
                      +.+.+......+       ......++||||||++.
T Consensus       153 ~~l~~~~~~~~~~~~~~~~~~~~~~~vIiDEAHnl~  188 (540)
T 2vl7_A          153 PYLFQKPIRNSVFCNKDDCLKLEDYLIVIDEAHNLL  188 (540)
T ss_dssp             HHHHSHHHHHHHSCSSTTSCCGGGEEEEETTGGGGG
T ss_pred             HHhcCHHHHHhhCcccccccCcCCCEEEEEccccHH
Confidence            999864332221       23467899999999983

>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer aging, hydrolase; HET: FLC; 2.00A {Sulfolobus acidocaldarius} PDB: 3crw_1*

Probab=99.88  E-value=6e-21  Score=176.02  Aligned_cols=280  Identities=14%  Similarity=0.123  Sum_probs=178.5

Q ss_pred             CChHHHHHhHhhh----hcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPI----IKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~----~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      ++|++|.+.+..+    ..|+++++.+|||+|||.+|++|++.      .+.+++|++||++|+.|+.+.+..+....++
T Consensus         3 ~~r~~Q~~~~~~v~~~l~~~~~~~~~a~TGtGKT~~~l~p~l~------~~~~v~i~~pt~~l~~q~~~~~~~l~~~~~~   76 (551)
T 3crv_A            3 KLRDWQEKLKDKVIEGLRNNFLVALNAPTGSGKTLFSLLVSLE------VKPKVLFVVRTHNEFYPIYRDLTKIREKRNI   76 (551)
T ss_dssp             SCCHHHHHHHHHHHHHHHTTCEEEEECCTTSSHHHHHHHHHHH------HCSEEEEEESSGGGHHHHHHHHTTCCCSSCC
T ss_pred             CCCHHHHHHHHHHHHHHHcCCcEEEECCCCccHHHHHHHHHHh------CCCeEEEEcCCHHHHHHHHHHHHHHhhhcCc
Confidence            7899999877654    46899999999999999999999987      2457999999999999999999888776677


Q ss_pred             EEEEEeCCcch---------------------------------HHhH------------------HhhcCCCeEEEeCc
Q 018574          131 QAHACVGGKSV---------------------------------GEDI------------------RKLEHGVHVVSGTP  159 (354)
Q Consensus       131 ~~~~~~~~~~~---------------------------------~~~~------------------~~~~~~~~iiv~T~  159 (354)
                      ++..+.|..+.                                 ....                  ......++|+|+|+
T Consensus        77 ~~~~l~gr~~~c~~~~~~~~~~~~~c~~c~~~~~~~~~g~~~~~~~~~~~~~~~G~~~~~Cpy~~ar~~~~~adIVV~~~  156 (551)
T 3crv_A           77 TFSFLVGKPSSCLYAEKGAESEDIPCKYCELKGSIVEVKTDDSPLSLVKKLKKDGLQDKFCPYYSLLNSLYKADVIALTY  156 (551)
T ss_dssp             CEEECCCHHHHCTTBCTTCCGGGCCGGGCTTTTCCCCCCCCSCHHHHHHHHHHHHHHHTCCHHHHHHHHGGGCSEEEEET
T ss_pred             cEEEEccccccCcCchhcCCCcccccCCCCCccccccccccCCHHHHHHHHHHcCCcCCcCccHHHHhhhhcCCEEEeCc
Confidence            77777664321                                 0001                  12234589999999


Q ss_pred             HHHHHHHhcCCcc-CCCccEEEEecchhhhccC-----------------------------------------------
Q 018574          160 GRVCDMIKRKTLR-TRAIKLLVLDESDEMLSRG-----------------------------------------------  191 (354)
Q Consensus       160 ~~l~~~~~~~~~~-~~~~~~vvvDE~h~~~~~~-----------------------------------------------  191 (354)
                      ..|.+......+. .....++||||||++.+ .                                               
T Consensus       157 ~~l~~~~~~~~~~~~~~~~~vIiDEAHnl~d-~~~~~s~~ls~~~l~~~~~~l~~~~~~~~l~~l~~~l~~~~~~~~~~~  235 (551)
T 3crv_A          157 PYFFIDRYREFIDIDLREYMIVIDEAHNLDK-VNELEERSLSEITIQMAIKQSKSEESRRILSKLLNQLREVVLPDEKYI  235 (551)
T ss_dssp             HHHHCHHHHTTSCCCSTTEEEEETTGGGGGG-GGGGGCEEEEHHHHHHHHHHCSCHHHHHHHHHHHHHHTTSCCSCSSCE
T ss_pred             hHhcCHHHHHhcCCCcCCeEEEEecccchHH-HHHhhceecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc
Confidence            9998764433332 24668899999998765 2                                               


Q ss_pred             --------cHHHHH----------------------------HHH----------------------------hhCCCC-
Q 018574          192 --------FKDQIY----------------------------DVY----------------------------RYLPPD-  206 (354)
Q Consensus       192 --------~~~~~~----------------------------~i~----------------------------~~~~~~-  206 (354)
                              +...+.                            .++                            +.+... 
T Consensus       236 ~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~~~~~~l~~~pl~~~~~l~~~~~~~  315 (551)
T 3crv_A          236 KVENVPKLSKEELEILADDYEDIRKDSLKQGKVNKIHIGSILRFFSLLSIGSFIPFSYSKRLVIKNPEISYYLNLLNDNE  315 (551)
T ss_dssp             ECSCCCCCCHHHHHHHHHHHHHHHHHHHHTTCBCCCHHHHHHHHHHHHHHSSCEEEEETTEEEEECCCTHHHHGGGGCTT
T ss_pred             ccccChHHHHHHHHHHHHHHHHHHHhhhhcCCcccchHHHHHHHHHHHhccCCeEeccCCEEEEEECCHHHHHHHHhccC
Confidence                    000000                            000                            001122 


Q ss_pred             CcEEEEEeeCchhHHHHHHhccCCC--eEE---Eec-CCcccccCceeEEEEe--cc--c---cchHHH----HHHHHhh
Q 018574          207 LQVVLISATLPHEILEMTTKFMTDP--VKI---LVK-RDELTLEGIKQFFVAV--ER--E---EWKFDT----LCDLYDT  269 (354)
Q Consensus       207 ~~~i~lSaT~~~~~~~~~~~~~~~~--~~~---~~~-~~~~~~~~~~~~~~~~--~~--~---~~~~~~----l~~~l~~  269 (354)
                      ..+|++|||+.+ ...+.. .++-+  ...   ... ....  ..-...+...  +.  .   ......    +..++..
T Consensus       316 ~svIltSaTL~~-~~~~~~-~lGl~~~~~~~~~~~~~~spf--~~~~~l~v~~~~~~~~~~r~~~~~~~l~~~i~~l~~~  391 (551)
T 3crv_A          316 LSIILMSGTLPP-REYMEK-VWGIKRNMLYLDVEREIQKRV--SGSYECYIGVDVTSKYDMRSDNMWKRYADYLLKIYFQ  391 (551)
T ss_dssp             CEEEEEESSCCC-HHHHHH-TSCCCSCEEEEEHHHHTTSCC--SCEEEEEEECSCCCCTTTCCHHHHHHHHHHHHHHHHH
T ss_pred             ceEEEEeeCCCc-HHHHHH-HhCCCCccccccceeecCCcC--CCceEEEEeCCCCCccccCCHHHHHHHHHHHHHHHHh
Confidence            678999999976 233333 33322  210   001 1111  1112222221  11  0   001222    2333333


Q ss_pred             CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEc--cccccCCCcC-----CCc
Q 018574          270 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT--DVWARGLDVQ-----QAI  342 (354)
Q Consensus       270 ~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T--~~~~~Gidi~-----~~~  342 (354)
                       ..+.++||++|...++.+++.   .+.++..-..+++   +.+.++.|+.....||+++  ..+++|+|+|     .++
T Consensus       392 -~~g~~lvlF~Sy~~l~~v~~~---~~~~v~~q~~~~~---~~~~~~~~~~~~~~vl~~v~gg~~~EGiD~~d~~g~~l~  464 (551)
T 3crv_A          392 -AKANVLVVFPSYEIMDRVMSR---ISLPKYVESEDSS---VEDLYSAISANNKVLIGSVGKGKLAEGIELRNNDRSLIS  464 (551)
T ss_dssp             -CSSEEEEEESCHHHHHHHHTT---CCSSEEECCSSCC---HHHHHHHTTSSSSCEEEEESSCCSCCSSCCEETTEESEE
T ss_pred             -CCCCEEEEecCHHHHHHHHHh---cCCcEEEcCCCCC---HHHHHHHHHhcCCeEEEEEecceecccccccccCCccee
Confidence             347899999999999999873   3444443333333   4557778854445899998  6999999999     589


Q ss_pred             EEEecCCCCC
Q 018574          343 LFFFLFLFCN  352 (354)
Q Consensus       343 ~Vi~~~~p~s  352 (354)
                      +||..++|--
T Consensus       465 ~viI~~lPfp  474 (551)
T 3crv_A          465 DVVIVGIPYP  474 (551)
T ss_dssp             EEEEESCCCC
T ss_pred             EEEEEcCCCC
Confidence            9999999964

>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=99.88  E-value=9.2e-22  Score=161.86  Aligned_cols=172  Identities=19%  Similarity=0.223  Sum_probs=124.7

Q ss_pred             HHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCC--ceeEEEEcCCHHHHHHHHHHHHHhcc
Q 018574           49 YQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSR--EVQALILSPTRELATQTEKVILAIGD  126 (354)
Q Consensus        49 ~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~--~~~~lil~p~~~l~~q~~~~~~~~~~  126 (354)
                      .......++++|.++++.+.+|+++++.||||+|||+++..+++........  +.+++++.|+++++.|+.+.+.....
T Consensus        55 ~~~~~~p~~~~q~~~i~~i~~g~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~p~~~la~q~~~~~~~~~~  134 (235)
T 3llm_A           55 QERELLPVKKFESEILEAISQNSVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERG  134 (235)
T ss_dssp             HHHHTSGGGGGHHHHHHHHHHCSEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEESSHHHHHHHHHHHHHTTT
T ss_pred             HHHhcCChHHHHHHHHHHHhcCCEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEeccchHHHHHHHHHHHHHhc
Confidence            3333447899999999999999999999999999999888888776554332  45799999999999999888875432


Q ss_pred             -CcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhh-hccCcH-HHHHHHHhhC
Q 018574          127 -FINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM-LSRGFK-DQIYDVYRYL  203 (354)
Q Consensus       127 -~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~-~~~~~~-~~~~~i~~~~  203 (354)
                       ..+..+........     .....+++|+|+||+++.+.+..   .+.++++||+||+|.+ .+.++. ..+..+....
T Consensus       135 ~~~~~~~g~~~~~~~-----~~~~~~~~Ivv~Tpg~l~~~l~~---~l~~~~~lVlDEah~~~~~~~~~~~~l~~i~~~~  206 (235)
T 3llm_A          135 EEPGKSCGYSVRFES-----ILPRPHASIMFCTVGVLLRKLEA---GIRGISHVIVDEIHERDINTDFLLVVLRDVVQAY  206 (235)
T ss_dssp             CCTTSSEEEEETTEE-----ECCCSSSEEEEEEHHHHHHHHHH---CCTTCCEEEECCTTSCCHHHHHHHHHHHHHHHHC
T ss_pred             cccCceEEEeechhh-----ccCCCCCeEEEECHHHHHHHHHh---hhcCCcEEEEECCccCCcchHHHHHHHHHHHhhC
Confidence             22333322111111     01124588999999999988875   3678999999999985 555555 4666666665


Q ss_pred             CCCCcEEEEEeeCchhHHHHHHhccCCC
Q 018574          204 PPDLQVVLISATLPHEILEMTTKFMTDP  231 (354)
Q Consensus       204 ~~~~~~i~lSaT~~~~~~~~~~~~~~~~  231 (354)
                       ++.|++++|||++.+.  +...+...+
T Consensus       207 -~~~~~il~SAT~~~~~--~~~~~~~~p  231 (235)
T 3llm_A          207 -PEVRIVLMSATIDTSM--FCEYFFNCP  231 (235)
T ss_dssp             -TTSEEEEEECSSCCHH--HHHHTTSCC
T ss_pred             -CCCeEEEEecCCCHHH--HHHHcCCCC
Confidence             5789999999998875  444444433

>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex, hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A* 1d9x_A 2d7d_B* 2nmv_B*

Probab=99.86  E-value=9.1e-20  Score=170.74  Aligned_cols=139  Identities=21%  Similarity=0.267  Sum_probs=101.3

Q ss_pred             CCCcEEEEEeeCchhHHHHHHhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhh-C-CCCcEEEEcCch
Q 018574          205 PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT-L-TITQAVIFCNTK  282 (354)
Q Consensus       205 ~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~-~~~~~lvf~~~~  282 (354)
                      ...|++++|||++......    ................+    . ..+.....+...+...+.. . .+.++||||+++
T Consensus       385 ~~~q~i~~SAT~~~~~~~~----~~~~~~~~~r~~~l~~p----~-i~v~~~~~~~~~Ll~~l~~~~~~~~~vlVf~~t~  455 (661)
T 2d7d_A          385 HMHNIVYVSATPGPYEIEH----TDEMVEQIIRPTGLLDP----L-IDVRPIEGQIDDLIGEIQARIERNERVLVTTLTK  455 (661)
T ss_dssp             TCSEEEEECSSCCHHHHHH----CSSCEEECCCTTCCCCC----E-EEEECSTTHHHHHHHHHHHHHTTTCEEEEECSSH
T ss_pred             cCCCEEEEecCCChhHHHh----hhCeeeeeecccCCCCC----e-EEEecccchHHHHHHHHHHHHhcCCeEEEEECCH
Confidence            3678999999997654222    11111111111111111    1 1122222244444443432 2 457999999999


Q ss_pred             hhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCC-----CCC
Q 018574          283 RKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFL-----FCN  352 (354)
Q Consensus       283 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~-----p~s  352 (354)
                      +.++.+++.|++.|+++..+||+++..+|.++++.|++|+.+|||||+++++|+|+|++++||++|.     |.|
T Consensus       456 ~~ae~L~~~L~~~gi~~~~lh~~~~~~~R~~~l~~f~~g~~~VLVaT~~l~~GlDip~v~lVi~~d~d~~G~p~s  530 (661)
T 2d7d_A          456 KMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRS  530 (661)
T ss_dssp             HHHHHHHHHHHHTTCCEEEECTTCCHHHHHHHHHHHHHTSCSEEEESCCCSTTCCCTTEEEEEETTTTCCTTTTS
T ss_pred             HHHHHHHHHHHhcCCCeEEEeCCCCHHHHHHHHHHHhcCCeEEEEecchhhCCcccCCCCEEEEeCcccccCCCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999997     765

>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=99.86  E-value=4.5e-21  Score=157.44  Aligned_cols=138  Identities=16%  Similarity=0.144  Sum_probs=108.4

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeE-EE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQ-AH  133 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~-~~  133 (354)
                      .|+++|.+++..+++++++++.+|||+|||.+++.++...      +.+++|++|+++|+.||.+.+.++    ++. +.
T Consensus        93 ~l~~~Q~~ai~~~~~~~~~ll~~~tG~GKT~~a~~~~~~~------~~~~liv~P~~~L~~q~~~~~~~~----~~~~v~  162 (237)
T 2fz4_A           93 SLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAINEL------STPTLIVVPTLALAEQWKERLGIF----GEEYVG  162 (237)
T ss_dssp             CCCHHHHHHHHHHTTTSEEEEEESSSTTHHHHHHHHHHHS------CSCEEEEESSHHHHHHHHHHHGGG----CGGGEE
T ss_pred             CcCHHHHHHHHHHHhCCCEEEEeCCCCCHHHHHHHHHHHc------CCCEEEEeCCHHHHHHHHHHHHhC----CCCeEE
Confidence            6899999999999999899999999999999888777654      346999999999999999998774    456 66


Q ss_pred             EEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      .+.++...         ..+|+|+|++.+......   ...++++||+||+|++.+..+..    +...+ ...+++++|
T Consensus       163 ~~~g~~~~---------~~~i~v~T~~~l~~~~~~---~~~~~~llIiDEaH~l~~~~~~~----i~~~~-~~~~~l~LS  225 (237)
T 2fz4_A          163 EFSGRIKE---------LKPLTVSTYDSAYVNAEK---LGNRFMLLIFDEVHHLPAESYVQ----IAQMS-IAPFRLGLT  225 (237)
T ss_dssp             EESSSCBC---------CCSEEEEEHHHHHHTHHH---HTTTCSEEEEECSSCCCTTTHHH----HHHTC-CCSEEEEEE
T ss_pred             EEeCCCCC---------cCCEEEEeHHHHHhhHHH---hcccCCEEEEECCccCCChHHHH----HHHhc-cCCEEEEEe
Confidence            66665532         478999999988765542   12468999999999997765443    44444 467889999


Q ss_pred             eeCchh
Q 018574          214 ATLPHE  219 (354)
Q Consensus       214 aT~~~~  219 (354)
                      ||+...
T Consensus       226 ATp~r~  231 (237)
T 2fz4_A          226 ATFERE  231 (237)
T ss_dssp             ESCC--
T ss_pred             cCCCCC
Confidence            999754

>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase; 1.95A {Bacillus subtilis}

Probab=99.82  E-value=1.4e-19  Score=139.95  Aligned_cols=112  Identities=34%  Similarity=0.523  Sum_probs=103.8

Q ss_pred             ccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhC
Q 018574          241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRS  320 (354)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~  320 (354)
                      ...+++.+.+..++... |...+..++.....+++||||++++.++.+++.|++.++.+..+||++++.+|..+++.|++
T Consensus         5 ~~~~~i~~~~~~~~~~~-K~~~L~~ll~~~~~~~~lVF~~~~~~~~~l~~~L~~~~~~~~~~hg~~~~~~r~~~~~~f~~   83 (163)
T 2hjv_A            5 LTTRNIEHAVIQVREEN-KFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKR   83 (163)
T ss_dssp             -CCCCEEEEEEECCGGG-HHHHHHHHHHHHCCSSEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHT
T ss_pred             cCcccceEEEEECChHH-HHHHHHHHHHhcCCCcEEEEECCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHHc
Confidence            34567888888887655 99999999998888899999999999999999999999999999999999999999999999


Q ss_pred             CCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          321 GTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       321 g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+.+|||+|+++++|+|+|++++||+||+|+|+
T Consensus        84 g~~~vlv~T~~~~~Gld~~~~~~Vi~~~~p~~~  116 (163)
T 2hjv_A           84 GEYRYLVATDVAARGIDIENISLVINYDLPLEK  116 (163)
T ss_dssp             TSCSEEEECGGGTTTCCCSCCSEEEESSCCSSH
T ss_pred             CCCeEEEECChhhcCCchhcCCEEEEeCCCCCH
Confidence            999999999999999999999999999999885

>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; 1.90A {Homo sapiens} SCOP: c.37.1.19

Probab=99.82  E-value=1.4e-19  Score=141.15  Aligned_cols=110  Identities=29%  Similarity=0.501  Sum_probs=102.1

Q ss_pred             ccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCC
Q 018574          243 LEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT  322 (354)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~  322 (354)
                      ..++.+++..++... +...+..+++....+++||||++++.++.+++.|...++.+..+||++++.+|..+++.|++|+
T Consensus         3 ~~~i~q~~~~~~~~~-K~~~L~~ll~~~~~~~~lVF~~~~~~~~~l~~~L~~~~~~~~~~hg~~~~~~r~~~~~~f~~g~   81 (172)
T 1t5i_A            3 LHGLQQYYVKLKDNE-KNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQ   81 (172)
T ss_dssp             --CCEEEEEECCGGG-HHHHHHHHHHHSCCSSEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTS
T ss_pred             cCCeEEEEEECChHH-HHHHHHHHHHhCCCCcEEEEECCHHHHHHHHHHHHhcCCCEEEEECCCCHHHHHHHHHHHHCCC
Confidence            456788888877655 9999999999988899999999999999999999999999999999999999999999999999


Q ss_pred             CcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          323 TRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       323 ~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+|||||+++++|+|+|++++||+||+|+|+
T Consensus        82 ~~vLvaT~~~~~Gldi~~~~~Vi~~d~p~~~  112 (172)
T 1t5i_A           82 RRILVATNLFGRGMDIERVNIAFNYDMPEDS  112 (172)
T ss_dssp             CSEEEESSCCSTTCCGGGCSEEEESSCCSSH
T ss_pred             CcEEEECCchhcCcchhhCCEEEEECCCCCH
Confidence            9999999999999999999999999999985

>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein, translation; 1.75A {Saccharomyces cerevisiae} SCOP: c.37.1.19

Probab=99.82  E-value=3e-19  Score=138.44  Aligned_cols=110  Identities=59%  Similarity=0.921  Sum_probs=102.8

Q ss_pred             cCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCC
Q 018574          244 EGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTT  323 (354)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~  323 (354)
                      .++.+.+..++....|...+..+++....+++||||++++.++.++..|++.++.+..+||++++.+|.++++.|++|+.
T Consensus         2 ~~i~~~~~~~~~~~~K~~~l~~ll~~~~~~~~lVF~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~   81 (165)
T 1fuk_A            2 EGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSS   81 (165)
T ss_dssp             --CEEEEEEEESGGGHHHHHHHHHHHTTCSCEEEEESSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSC
T ss_pred             CCcEEEEEECCcchhHHHHHHHHHHhCCCCCEEEEECCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHHcCCC
Confidence            35778888888777799999999999888999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          324 RVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       324 ~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +|||||+++++|+|+|++++||++|+|+|+
T Consensus        82 ~vlv~T~~~~~G~d~~~~~~Vi~~~~p~~~  111 (165)
T 1fuk_A           82 RILISTDLLARGIDVQQVSLVINYDLPANK  111 (165)
T ss_dssp             SEEEEEGGGTTTCCCCSCSEEEESSCCSSG
T ss_pred             EEEEEcChhhcCCCcccCCEEEEeCCCCCH
Confidence            999999999999999999999999999985

>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; 2.60A {Homo sapiens}

Probab=99.81  E-value=1.3e-19  Score=143.48  Aligned_cols=126  Identities=21%  Similarity=0.233  Sum_probs=100.9

Q ss_pred             hccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecC
Q 018574          226 KFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD  305 (354)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~  305 (354)
                      .++.+|..+.+........++.+.+..++... +...+.+++.... +++||||++++.++.+++.|+..++.+..+||+
T Consensus        10 ~~~~~p~~i~v~~~~~~~~~i~q~~~~~~~~~-K~~~L~~~l~~~~-~~~lVF~~~~~~~~~l~~~L~~~g~~~~~lhg~   87 (191)
T 2p6n_A           10 GVDLGTENLYFQSMGAASLDVIQEVEYVKEEA-KMVYLLECLQKTP-PPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGG   87 (191)
T ss_dssp             ------------------CCSEEEEEECCGGG-HHHHHHHHHTTSC-SCEEEECSCHHHHHHHHHHHHHHTCCEEEECTT
T ss_pred             cccCCCEEEEECCCCCCCcCceEEEEEcChHH-HHHHHHHHHHhCC-CCEEEEECCHHHHHHHHHHHHHcCCcEEEEeCC
Confidence            35666777777666667788899888877665 9999999998754 689999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       306 ~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +++.+|.++++.|++|+.+|||+|+++++|+|+|++++||+||+|+|+
T Consensus        88 ~~~~~R~~~l~~F~~g~~~vLvaT~~~~~Gldi~~v~~VI~~d~p~~~  135 (191)
T 2p6n_A           88 KDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEI  135 (191)
T ss_dssp             SCHHHHHHHHHHHHHTSCSEEEECHHHHTTCCCCCCSEEEESSCCSSH
T ss_pred             CCHHHHHHHHHHHhcCCCEEEEEcCchhcCCCcccCCEEEEeCCCCCH
Confidence            999999999999999999999999999999999999999999999985

>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural genomics, structural consortium, SGC, alternative initiation, ATP-binding, devel protein; 2.80A {Homo sapiens}

Probab=99.81  E-value=3.5e-19  Score=139.47  Aligned_cols=110  Identities=40%  Similarity=0.723  Sum_probs=104.1

Q ss_pred             cccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCC
Q 018574          242 TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSG  321 (354)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g  321 (354)
                      ...++.+.+..++....+...+..+++....+++||||++++.++.++..|.+.++.+..+||++++.+|..+++.|++|
T Consensus         4 ~~~~i~q~~~~~~~~~~K~~~L~~ll~~~~~~~~lVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~f~~g   83 (175)
T 2rb4_A            4 TLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDG   83 (175)
T ss_dssp             CBCCEEEEEEECSSHHHHHHHHHHHHTTSCCSEEEEECSCHHHHHHHHHHHHTTTCCEEEECSSCCHHHHHHHHHHHHTT
T ss_pred             ccCCceEEEEEcCChHhHHHHHHHHHHhCCCCCEEEEECCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHHcC
Confidence            45678899998887777999999999988889999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEEccccccCCCcCCCcEEEecCCCC
Q 018574          322 TTRVLITTDVWARGLDVQQAILFFFLFLFC  351 (354)
Q Consensus       322 ~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~  351 (354)
                      +.+|||||+++++|+|+|++++||+||+|+
T Consensus        84 ~~~vLvaT~~~~~Gid~~~~~~Vi~~d~p~  113 (175)
T 2rb4_A           84 KEKVLITTNVCARGIDVKQVTIVVNFDLPV  113 (175)
T ss_dssp             SCSEEEECCSCCTTTCCTTEEEEEESSCCC
T ss_pred             CCeEEEEecchhcCCCcccCCEEEEeCCCC
Confidence            999999999999999999999999999994

>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase, nucleotide excision repair,; 2.20A {Thermoplasma acidophilum} PDB: 2vsf_A*

Probab=99.80  E-value=2.9e-18  Score=159.26  Aligned_cols=81  Identities=22%  Similarity=0.232  Sum_probs=65.4

Q ss_pred             CChHHHHHhHhhh----hcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPI----IKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~----~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      +|++.|.+.+..+    .+|+++++.+|||+|||.+|+.|++..+...  +.+++|++||++++.|+.+.+..+....++
T Consensus         3 ~~R~~Q~~~~~~v~~~l~~~~~~~~~apTGtGKT~a~l~p~l~~~~~~--~~kvli~t~T~~l~~Qi~~el~~l~~~~~~   80 (620)
T 4a15_A            3 ENRQYQVEAIDFLRSSLQKSYGVALESPTGSGKTIMALKSALQYSSER--KLKVLYLVRTNSQEEQVIKELRSLSSTMKI   80 (620)
T ss_dssp             --CHHHHHHHHHHHHHHHHSSEEEEECCTTSCHHHHHHHHHHHHHHHH--TCEEEEEESSHHHHHHHHHHHHHHHHHSCC
T ss_pred             CCCHHHHHHHHHHHHHHHcCCCEEEECCCCCCHHHHHHHHHHHhhhhc--CCeEEEECCCHHHHHHHHHHHHHHhhccCe
Confidence            6899999888644    4689999999999999999999999887542  357999999999999999999887755456


Q ss_pred             EEEEEeC
Q 018574          131 QAHACVG  137 (354)
Q Consensus       131 ~~~~~~~  137 (354)
                      ++..+.|
T Consensus        81 ~~~~l~g   87 (620)
T 4a15_A           81 RAIPMQG   87 (620)
T ss_dssp             CEEECCC
T ss_pred             EEEEEEC
Confidence            5555544

>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation, nucleotide-binding, hydrolase, RNA-binding, ATP-binding, DNA-binding, nuclear protein; 1.91A {Homo sapiens}

Probab=99.79  E-value=7.6e-19  Score=138.45  Aligned_cols=113  Identities=31%  Similarity=0.439  Sum_probs=89.4

Q ss_pred             cccccCceeEEEEeccccchHHHHHHHHhhC-CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHH
Q 018574          240 ELTLEGIKQFFVAVEREEWKFDTLCDLYDTL-TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEF  318 (354)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f  318 (354)
                      ....+++.+.+..++... |...+.+++... ..+++||||++++.++.++..|+..++.+..+||++++.+|..+++.|
T Consensus        14 ~~~~~~i~q~~~~v~~~~-K~~~L~~ll~~~~~~~k~lVF~~~~~~~~~l~~~L~~~g~~~~~lhg~~~~~~r~~~~~~f   92 (185)
T 2jgn_A           14 GSTSENITQKVVWVEESD-KRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQF   92 (185)
T ss_dssp             --CCTTEEEEEEECCGGG-HHHHHHHHHHHC-CCSCEEEEESCHHHHHHHHHHHHHTTCCEEEEC--------CHHHHHH
T ss_pred             CCCCCCceEEEEEeCcHH-HHHHHHHHHHhcCCCCeEEEEECCHHHHHHHHHHHHHcCCceEEEeCCCCHHHHHHHHHHH
Confidence            345678888888887665 999999999887 467999999999999999999999999999999999999999999999


Q ss_pred             hCCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          319 RSGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       319 ~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ++|+.+|||||+++++|+|+|++++||++|+|+|+
T Consensus        93 ~~g~~~vLvaT~~~~~Gldi~~~~~VI~~d~p~s~  127 (185)
T 2jgn_A           93 RSGKSPILVATAVAARGLDISNVKHVINFDLPSDI  127 (185)
T ss_dssp             HHTSSSEEEEEC------CCCSBSEEEESSCCSSH
T ss_pred             HcCCCeEEEEcChhhcCCCcccCCEEEEeCCCCCH
Confidence            99999999999999999999999999999999885

>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer, ATP-binding, helicase, hydrolase, nucleotide-binding; 2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A

Probab=99.76  E-value=5.2e-18  Score=136.77  Aligned_cols=106  Identities=30%  Similarity=0.462  Sum_probs=97.1

Q ss_pred             eeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEE
Q 018574          247 KQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVL  326 (354)
Q Consensus       247 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vl  326 (354)
                      .+.+...+.. .+...+..++.....+++||||++++.++.++..|...++.+..+||++++.+|..+++.|++|+.+||
T Consensus         7 ~~~~~~~~~~-~k~~~l~~ll~~~~~~~~lVF~~~~~~~~~l~~~L~~~~~~~~~lhg~~~~~~r~~~~~~f~~g~~~vl   85 (212)
T 3eaq_A            7 EEEAVPAPVR-GRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVL   85 (212)
T ss_dssp             CCEEEECCTT-SHHHHHHHHHHHHCCSCEEEECSSHHHHHHHHHHHHHHTCCEEEECSSSCHHHHHHHHHHHHSSSCCEE
T ss_pred             eeeEEeCCHH-HHHHHHHHHHHhCCCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHHCCCCeEE
Confidence            3444444444 499999999998888999999999999999999999999999999999999999999999999999999


Q ss_pred             EEccccccCCCcCCCcEEEecCCCCCC
Q 018574          327 ITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       327 v~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |||+++++|+|+|++++||++|+|+|+
T Consensus        86 vaT~~~~~Gidi~~v~~Vi~~~~p~~~  112 (212)
T 3eaq_A           86 VATDVAARGLDIPQVDLVVHYRLPDRA  112 (212)
T ss_dssp             EECTTTTCSSSCCCBSEEEESSCCSSH
T ss_pred             EecChhhcCCCCccCcEEEECCCCcCH
Confidence            999999999999999999999999874

>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA recognition motif, ATP-BIND helicase, nucleotide-binding; 2.80A {Thermus thermophilus}

Probab=99.75  E-value=1.3e-17  Score=140.70  Aligned_cols=107  Identities=31%  Similarity=0.471  Sum_probs=100.0

Q ss_pred             ceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcE
Q 018574          246 IKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRV  325 (354)
Q Consensus       246 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~v  325 (354)
                      +.+++..++... +...+..++.....+++||||++++.++.+++.|...++.+..+||++++.+|..+++.|++|+.+|
T Consensus         3 v~~~~i~~~~~~-K~~~L~~ll~~~~~~~~LVF~~t~~~~~~l~~~L~~~g~~~~~lhg~l~~~~r~~~~~~f~~g~~~v   81 (300)
T 3i32_A            3 YEEEAVPAPVRG-RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRV   81 (300)
T ss_dssp             SEEEEEECCSSS-HHHHHHHHHHHHCCSSEEEECSSHHHHHHHHHHHHTTTCCEEEECSCCCTHHHHHHHHHHHHTSCCE
T ss_pred             eEEEEEECCHHH-HHHHHHHHHHhcCCCCEEEEECCHHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHhhcCCceE
Confidence            456666666655 9999999999888899999999999999999999999999999999999999999999999999999


Q ss_pred             EEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          326 LITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       326 lv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ||||+++++|+|+|++++||++|+|+|+
T Consensus        82 LVaT~va~~Gidi~~v~~VI~~d~p~s~  109 (300)
T 3i32_A           82 LVATDVAARGLDIPQVDLVVHYRMPDRA  109 (300)
T ss_dssp             EEECSTTTCSTTCCCCSEEEESSCCSST
T ss_pred             EEEechhhcCccccceeEEEEcCCCCCH
Confidence            9999999999999999999999999986

>2yjt_D ATP-dependent RNA helicase SRMB, regulator of ribonuclease activity A; hydrolase inhibitor-hydrolase complex, DEAD box RNA helicase; 2.90A {Escherichia coli}

Probab=99.57  E-value=2.6e-19  Score=139.43  Aligned_cols=109  Identities=24%  Similarity=0.365  Sum_probs=100.0

Q ss_pred             CceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCc
Q 018574          245 GIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTR  324 (354)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~  324 (354)
                      ++.+.+..++....+...+..+++....+++||||++++.++.+++.|+..++.+..+||++++.+|..+++.|++|+.+
T Consensus         3 ~i~~~~~~~~~~~~k~~~l~~ll~~~~~~~~iVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~r~~~~~~f~~g~~~   82 (170)
T 2yjt_D            3 KIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVN   82 (170)
Confidence            45667777766455888999999887778999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          325 VLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       325 vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |||||+++++|+|+|++++||++|+|+|+
T Consensus        83 vLvaT~~~~~Gid~~~~~~Vi~~~~p~~~  111 (170)
T 2yjt_D           83 VLVATDVAARGIDIPDVSHVFNFDMPRSG  111 (170)
Confidence            99999999999999999999999999886

>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination, hydrolase-recombination complex; 2.00A {Sulfolobus solfataricus} SCOP: c.37.1.19

Probab=99.54  E-value=3e-14  Score=118.74  Aligned_cols=98  Identities=15%  Similarity=0.228  Sum_probs=89.2

Q ss_pred             cchHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcC-CCeEEEeecCCCHHHHHHHHHHHhCC-CCc-EEEEccc
Q 018574          257 EWKFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGY-NFTVSSMHGDMPQKERDAIMGEFRSG-TTR-VLITTDV  331 (354)
Q Consensus       257 ~~~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~-~~~~~~~~~~~~~~~r~~~~~~f~~g-~~~-vlv~T~~  331 (354)
                      ..|...+.+++...  .+.++||||++...++.+...|.+. |+.+..+||+++..+|.++++.|++| +.+ +|++|.+
T Consensus        95 s~K~~~L~~ll~~~~~~~~kvlIFs~~~~~~~~l~~~L~~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~v~L~st~~  174 (271)
T 1z5z_A           95 SGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKA  174 (271)
T ss_dssp             CHHHHHHHHHHHHHHHTTCCEEEEESCHHHHHHHHHHHHHHHCSCCCEECTTSCHHHHHHHHHHHHHCTTCCEEEEECCT
T ss_pred             CHHHHHHHHHHHHHHhCCCeEEEEeccHHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHhcCCCCCCEEEEehhh
Confidence            44888888888765  6789999999999999999999874 89999999999999999999999998 677 7889999


Q ss_pred             cccCCCcCCCcEEEecCCCCCCC
Q 018574          332 WARGLDVQQAILFFFLFLFCNVF  354 (354)
Q Consensus       332 ~~~Gidi~~~~~Vi~~~~p~s~~  354 (354)
                      +++|+|++.+++||+||+|+|+.
T Consensus       175 ~g~Glnl~~a~~VI~~d~~wnp~  197 (271)
T 1z5z_A          175 GGFGINLTSANRVIHFDRWWNPA  197 (271)
T ss_dssp             TCCCCCCTTCSEEEECSCCSCTT
T ss_pred             hcCCcCcccCCEEEEECCCCChh
Confidence            99999999999999999999973

>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=98.93  E-value=3e-09  Score=98.86  Aligned_cols=146  Identities=16%  Similarity=0.221  Sum_probs=88.1

Q ss_pred             hHHHHHhHhhhhcCCcEEEEcCCCCchhhH--hHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           57 SAIQQRAVMPIIKGRDVIAQAQSGTGKTSM--IALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        57 ~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~--~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .+.|..++..++.++.+++.|++|+|||++  ++++.+..+.. ..+.++++++||...+.++.+.+.......++....
T Consensus       151 ~~~Q~~Ai~~~l~~~~~vi~G~pGTGKTt~l~~ll~~l~~~~~-~~~~~vll~APTg~AA~~L~e~~~~~~~~l~l~~~~  229 (608)
T 1w36_D          151 INWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQMAD-GERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQ  229 (608)
T ss_dssp             CCHHHHHHHHHHTBSEEEEECCTTSTHHHHHHHHHHHHHHTCS-SCCCCEEEEBSSHHHHHHHHHHHTHHHHHSSCCSCC
T ss_pred             CHHHHHHHHHHhcCCCEEEEeCCCCCHHHHHHHHHHHHHHhhh-cCCCeEEEEeCChhHHHHHHHHHHHHHhcCCCCHHH
Confidence            688999999999999999999999999944  44444443321 234579999999999999988877654333321100


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEe
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISA  214 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSa  214 (354)
                      . .+..  .....+   ..++-.+++.. . ..........++++|+||++.+ +   ...+..++..++.+.|++++.-
T Consensus       230 ~-~~~~--~~~~Ti---h~ll~~~~~~~-~-~~~~~~~~l~~d~lIIDEAsml-~---~~~~~~Ll~~l~~~~~liLvGD  297 (608)
T 1w36_D          230 K-KRIP--EDASTL---HRLLGAQPGSQ-R-LRHHAGNPLHLDVLVVDEASMI-D---LPMMSRLIDALPDHARVIFLGD  297 (608)
T ss_dssp             C-CSCS--CCCBTT---TSCC-------------CTTSCCSCSEEEECSGGGC-B---HHHHHHHHHTCCTTCEEEEEEC
T ss_pred             H-hccc--hhhhhh---HhhhccCCCch-H-HHhccCCCCCCCEEEEechhhC-C---HHHHHHHHHhCCCCCEEEEEcc
Confidence            0 0000  000000   11111122111 1 1111122237899999999954 3   4577888888888888888765


Q ss_pred             e
Q 018574          215 T  215 (354)
Q Consensus       215 T  215 (354)
                      .
T Consensus       298 ~  298 (608)
T 1w36_D          298 R  298 (608)
T ss_dssp             T
T ss_pred             h
Confidence            5

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=98.76  E-value=1.3e-08  Score=95.68  Aligned_cols=68  Identities=19%  Similarity=0.229  Sum_probs=56.2

Q ss_pred             CChHHHHHhHhhhhcCC-cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           55 KPSAIQQRAVMPIIKGR-DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~-~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .+++.|.+|+..++..+ -.+|+||+|+|||.+.+..+.+.+..+   .++|+++||..-++++.+.+....
T Consensus       189 ~LN~~Q~~AV~~al~~~~~~lI~GPPGTGKT~ti~~~I~~l~~~~---~~ILv~a~TN~AvD~i~erL~~~~  257 (646)
T 4b3f_X          189 CLDTSQKEAVLFALSQKELAIIHGPPGTGKTTTVVEIILQAVKQG---LKVLCCAPSNIAVDNLVERLALCK  257 (646)
T ss_dssp             TCCHHHHHHHHHHHHCSSEEEEECCTTSCHHHHHHHHHHHHHHTT---CCEEEEESSHHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHhcCCCceEEECCCCCCHHHHHHHHHHHHHhCC---CeEEEEcCchHHHHHHHHHHHhcC
Confidence            57899999999988654 679999999999988777766665543   469999999999999999887654

>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=98.71  E-value=2.3e-07  Score=86.70  Aligned_cols=69  Identities=22%  Similarity=0.185  Sum_probs=55.3

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      ..+++.|.+++..++.+...+|.||+|+|||.+....+...+..  .+.++++++|+...++++.+.+...
T Consensus       179 ~~ln~~Q~~av~~~l~~~~~li~GppGTGKT~~~~~~i~~l~~~--~~~~ilv~a~tn~A~~~l~~~l~~~  247 (624)
T 2gk6_A          179 PDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQ--GNGPVLVCAPSNIAVDQLTEKIHQT  247 (624)
T ss_dssp             CCCCHHHHHHHHHHHTCSEEEEECCTTSCHHHHHHHHHHHHHTS--SSCCEEEEESSHHHHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHhcCCCeEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEEEeCcHHHHHHHHHHHHhc
Confidence            35789999999998888889999999999997765544433321  3457999999999999999888654

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=98.67  E-value=2e-07  Score=89.15  Aligned_cols=70  Identities=20%  Similarity=0.250  Sum_probs=56.0

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      ..+++.|.+++..++.+...+|.||+|+|||.+....+...+..  .+.++++++|+...++++.+.+.+.+
T Consensus       359 ~~Ln~~Q~~Av~~~l~~~~~lI~GppGTGKT~~i~~~i~~l~~~--~~~~ILv~a~tn~A~d~l~~rL~~~g  428 (802)
T 2xzl_A          359 AQLNSSQSNAVSHVLQRPLSLIQGPPGTGKTVTSATIVYHLSKI--HKDRILVCAPSNVAVDHLAAKLRDLG  428 (802)
T ss_dssp             CCCCHHHHHHHHHHTTCSEEEEECSTTSSHHHHHHHHHHHHHHH--HCCCEEEEESSHHHHHHHHHHHHHTT
T ss_pred             ccCCHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHHHhC--CCCeEEEEcCcHHHHHHHHHHHHhhC
Confidence            35789999999999888889999999999997766554433321  23469999999999999999987753

>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=98.63  E-value=3.1e-07  Score=84.56  Aligned_cols=127  Identities=19%  Similarity=0.230  Sum_probs=81.3

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .+++.|.+++..+..++.+++.|++|+|||.+....+ ..+..  .+.++++++||...+..+.+...       ....+
T Consensus       189 ~L~~~Q~~Av~~~~~~~~~~I~G~pGTGKTt~i~~l~-~~l~~--~g~~Vl~~ApT~~Aa~~L~e~~~-------~~a~T  258 (574)
T 3e1s_A          189 GLSEEQASVLDQLAGHRLVVLTGGPGTGKSTTTKAVA-DLAES--LGLEVGLCAPTGKAARRLGEVTG-------RTAST  258 (574)
T ss_dssp             TCCHHHHHHHHHHTTCSEEEEECCTTSCHHHHHHHHH-HHHHH--TTCCEEEEESSHHHHHHHHHHHT-------SCEEE
T ss_pred             CCCHHHHHHHHHHHhCCEEEEEcCCCCCHHHHHHHHH-HHHHh--cCCeEEEecCcHHHHHHhHhhhc-------ccHHH
Confidence            6899999999999999999999999999997654433 33332  23569999999988887766442       11111


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEe
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISA  214 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSa  214 (354)
                      ++      . ......       +      ...........+++||+||++.+    -...+..+++.++...+++++.-
T Consensus       259 ih------~-ll~~~~-------~------~~~~~~~~~~~~dvlIIDEasml----~~~~~~~Ll~~~~~~~~lilvGD  314 (574)
T 3e1s_A          259 VH------R-LLGYGP-------Q------GFRHNHLEPAPYDLLIVDEVSMM----GDALMLSLLAAVPPGARVLLVGD  314 (574)
T ss_dssp             HH------H-HTTEET-------T------EESCSSSSCCSCSEEEECCGGGC----CHHHHHHHHTTSCTTCEEEEEEC
T ss_pred             HH------H-HHcCCc-------c------hhhhhhcccccCCEEEEcCccCC----CHHHHHHHHHhCcCCCEEEEEec
Confidence            10      0 000000       0      00111222346799999999987    34567777888877777666544


Q ss_pred             e
Q 018574          215 T  215 (354)
Q Consensus       215 T  215 (354)
                      .
T Consensus       315 ~  315 (574)
T 3e1s_A          315 T  315 (574)
T ss_dssp             T
T ss_pred             c
Confidence            3

>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=98.61  E-value=2.9e-06  Score=80.06  Aligned_cols=70  Identities=16%  Similarity=0.208  Sum_probs=57.3

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC-CCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS-SREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~-~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      ..+++.|.+++..  ....++|.|++|||||.+.+.-+.+.+... .+..++|++++|+..+.++.+++....
T Consensus         8 ~~Ln~~Q~~av~~--~~~~~lV~a~aGsGKT~~l~~ri~~l~~~~~~~~~~iL~ltft~~aa~e~~~rl~~~~   78 (647)
T 3lfu_A            8 DSLNDKQREAVAA--PRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLM   78 (647)
T ss_dssp             TTCCHHHHHHHTC--CSSCEEEEECTTSCHHHHHHHHHHHHHHTSCCCGGGEEEEESSHHHHHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHhC--CCCCEEEEECCCCCHHHHHHHHHHHHHHhCCCChhhEEEEeccHHHHHHHHHHHHHHh
Confidence            4689999999973  367899999999999988887777666543 234579999999999999999998763

>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=98.60  E-value=5.2e-07  Score=86.16  Aligned_cols=69  Identities=23%  Similarity=0.219  Sum_probs=54.9

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .+++.|.+++..++.+...+|.||+|+|||.+....+...+..  .+.++++++||...++++.+.+...+
T Consensus       356 ~Ln~~Q~~Av~~~l~~~~~lI~GppGTGKT~ti~~~i~~l~~~--~~~~ilv~a~tn~A~~~l~~~l~~~g  424 (800)
T 2wjy_A          356 DLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQ--GNGPVLVCAPSNIAVDQLTEKIHQTG  424 (800)
T ss_dssp             CCCHHHHHHHHHHHTSSEEEEECCTTSCHHHHHHHHHHHHHTT--CSSCEEEEESSHHHHHHHHHHHHTTT
T ss_pred             CCCHHHHHHHHHhccCCeEEEEcCCCCCHHHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHHHhC
Confidence            5789999999998888889999999999997665544433321  34569999999999999998886543

>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=98.59  E-value=2.5e-07  Score=83.35  Aligned_cols=135  Identities=16%  Similarity=0.210  Sum_probs=79.6

Q ss_pred             HHCCCCCChHHHHHhHhhhhcC-----CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHH
Q 018574           49 YQYGFEKPSAIQQRAVMPIIKG-----RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        49 ~~~~~~~~~~~Q~~~~~~~~~~-----~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      .-..|..+++.|.+++..++..     ..+++.|++|+|||.+....+......+.  ..+++++||...+..+.+.+. 
T Consensus        19 ~p~~~~~Ln~~Q~~av~~~~~~i~~~~~~~li~G~aGTGKT~ll~~~~~~l~~~~~--~~il~~a~T~~Aa~~l~~~~~-   95 (459)
T 3upu_A           19 SHMTFDDLTEGQKNAFNIVMKAIKEKKHHVTINGPAGTGATTLTKFIIEALISTGE--TGIILAAPTHAAKKILSKLSG-   95 (459)
T ss_dssp             --CCSSCCCHHHHHHHHHHHHHHHSSSCEEEEECCTTSCHHHHHHHHHHHHHHTTC--CCEEEEESSHHHHHHHHHHHS-
T ss_pred             CCCccccCCHHHHHHHHHHHHHHhcCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCC--ceEEEecCcHHHHHHHHhhhc-
Confidence            3456778999999999876542     38999999999999755444433333322  358999999988877766551 


Q ss_pred             hccCcCeEEEEEeCCcchHHhHHhhc----CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHH
Q 018574          124 IGDFINIQAHACVGGKSVGEDIRKLE----HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV  199 (354)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i  199 (354)
                            ....+++.       .....    .....+..          .......++++||+||++.+.    ...+..+
T Consensus        96 ------~~~~T~h~-------~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~iiiDE~~~~~----~~~~~~l  148 (459)
T 3upu_A           96 ------KEASTIHS-------ILKINPVTYEENVLFEQ----------KEVPDLAKCRVLICDEVSMYD----RKLFKIL  148 (459)
T ss_dssp             ------SCEEEHHH-------HHTEEEEECSSCEEEEE----------CSCCCCSSCSEEEESCGGGCC----HHHHHHH
T ss_pred             ------cchhhHHH-------HhccCcccccccchhcc----------cccccccCCCEEEEECchhCC----HHHHHHH
Confidence                  22222110       00000    00111110          112234568999999999762    3455566


Q ss_pred             HhhCCCCCcEEEEE
Q 018574          200 YRYLPPDLQVVLIS  213 (354)
Q Consensus       200 ~~~~~~~~~~i~lS  213 (354)
                      ...++...+++++.
T Consensus       149 ~~~~~~~~~~~~vG  162 (459)
T 3upu_A          149 LSTIPPWCTIIGIG  162 (459)
T ss_dssp             HHHSCTTCEEEEEE
T ss_pred             HHhccCCCEEEEEC
Confidence            66666555555544

>2o0j_A Terminase, DNA packaging protein GP17; nucleotide-binding fold, hydrolase; HET: DNA ADP; 1.80A {Enterobacteria phage T4} PDB: 2o0h_A* 2o0k_A*

Probab=97.84  E-value=4.6e-05  Score=66.14  Aligned_cols=121  Identities=10%  Similarity=0.148  Sum_probs=76.7

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcC--e--
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--I--  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~--~--  130 (354)
                      .+.++|..++..+...+.+++..+-+.|||.+....++..+.. ..+..++++.|+...+..+.+.+..+....+  +  
T Consensus       163 ~L~p~Qk~il~~l~~~R~~vi~~sRq~GKT~l~a~~~l~~a~~-~~g~~v~~vA~t~~qA~~vf~~i~~mi~~~P~ll~~  241 (385)
T 2o0j_A          163 QLRDYQRDMLKIMSSKRMTVCNLSRQLGKTTVVAIFLAHFVCF-NKDKAVGILAHKGSMSAEVLDRTKQAIELLPDFLQP  241 (385)
T ss_dssp             CCCHHHHHHHHHHHHSSEEEEEECSSSCHHHHHHHHHHHHHHS-SSSCEEEEEESSHHHHHHHHHHHHHHHHHSCTTTSC
T ss_pred             CCCHHHHHHHHhhccCcEEEEEEcCcCChhHHHHHHHHHHHHh-CCCCeEEEEeCCHHHHHHHHHHHHHHHHhChHhhhh
Confidence            7899999999876556778999999999998877776664443 2456799999999988888777766543221  1  


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      ..... ...     ...+.++..+.+.+.. - ..++     ....+++|+||+|...+
T Consensus       242 ~~~~~-~~~-----~I~f~nGs~i~~lsa~-~-~slr-----G~~~~~viiDE~a~~~~  287 (385)
T 2o0j_A          242 GIVEW-NKG-----SIELDNGSSIGAYASS-P-DAVR-----GNSFAMIYIEDCAFIPN  287 (385)
T ss_dssp             CEEEE-CSS-----EEEETTSCEEEEEECS-H-HHHH-----TSCCSEEEEESGGGSTT
T ss_pred             hhccC-Ccc-----EEEeCCCCEEEEEECC-C-CCcc-----CCCCCEEEechhhhcCC
Confidence            11111 000     0112344555443321 0 1111     23468899999998753

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=97.81  E-value=8.6e-05  Score=65.26  Aligned_cols=108  Identities=19%  Similarity=0.067  Sum_probs=62.8

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      +-.++.|++|+|||..+.-.+.     .   .+.+|++|+++++..|.+.+.+.+.                      ..
T Consensus       162 ~v~~I~G~aGsGKTt~I~~~~~-----~---~~~lVlTpT~~aa~~l~~kl~~~~~----------------------~~  211 (446)
T 3vkw_A          162 KVVLVDGVPGCGKTKEILSRVN-----F---EEDLILVPGRQAAEMIRRRANASGI----------------------IV  211 (446)
T ss_dssp             EEEEEEECTTSCHHHHHHHHCC-----T---TTCEEEESCHHHHHHHHHHHTTTSC----------------------CC
T ss_pred             cEEEEEcCCCCCHHHHHHHHhc-----c---CCeEEEeCCHHHHHHHHHHhhhcCc----------------------cc
Confidence            3468999999999975543321     1   2379999999999999888743210                      00


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      ....-+.|.++++.  ..........++|||||+-.+ ..   ..+..++...+. .+++++.-+
T Consensus       212 ~~~~~V~T~dsfL~--~~~~~~~~~~d~liiDE~sm~-~~---~~l~~l~~~~~~-~~vilvGD~  269 (446)
T 3vkw_A          212 ATKDNVRTVDSFLM--NYGKGARCQFKRLFIDEGLML-HT---GCVNFLVEMSLC-DIAYVYGDT  269 (446)
T ss_dssp             CCTTTEEEHHHHHH--TTTSSCCCCCSEEEEETGGGS-CH---HHHHHHHHHTTC-SEEEEEECT
T ss_pred             cccceEEEeHHhhc--CCCCCCCCcCCEEEEeCcccC-CH---HHHHHHHHhCCC-CEEEEecCc
Confidence            11223556655432  212222234799999999855 22   334444444433 445544433

>3cpe_A Terminase, DNA packaging protein GP17; large terminase, alternative initiation, ATP-binding, DNA- binding, hydrolase, nuclease; HET: DNA; 2.80A {Bacteriophage T4} PDB: 3ezk_A*

Probab=97.74  E-value=0.00033  Score=65.00  Aligned_cols=148  Identities=12%  Similarity=0.164  Sum_probs=89.1

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcC--eEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQA  132 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~--~~~  132 (354)
                      .++++|..++..+...+..++..+-|+|||.+....++..+... ++..++++.|+...+..+.+.++.+....+  +..
T Consensus       163 ~l~p~Q~~i~~~l~~~r~~~i~~~Rq~GKS~~~a~~~l~~~~~~-~~~~i~~va~t~~qA~~~~~~i~~~i~~~p~~~~~  241 (592)
T 3cpe_A          163 QLRDYQRDMLKIMSSKRMTVCNLSRQLGKTTVVAIFLAHFVCFN-KDKAVGILAHKGSMSAEVLDRTKQAIELLPDFLQP  241 (592)
T ss_dssp             CCCHHHHHHHHHHHHCSEEEEEECSSSCHHHHHHHHHHHHHHTS-SSCEEEEEESSHHHHHHHHHHHHHHHTTSCTTTSC
T ss_pred             cCCHHHHHHHHhhccccEEEEEEcCccChHHHHHHHHHHHHHhC-CCCeEEEEECCHHHHHHHHHHHHHHHHhChHhhcc
Confidence            57999999998775567899999999999988776666555443 355799999999999988888877654432  111


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeC--cHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCC-CCcE
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGT--PGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPP-DLQV  209 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T--~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~-~~~~  209 (354)
                      .......    ....+.++..+.+.+  +..+    +     ..+.+++|+||+|.....  ...+..+...+.. ....
T Consensus       242 ~~~~~~~----~~i~~~nGs~i~~~s~~~~~l----r-----G~~~~~~iiDE~~~~~~~--~~l~~~~~~~l~~~~~~~  306 (592)
T 3cpe_A          242 GIVEWNK----GSIELDNGSSIGAYASSPDAV----R-----GNSFAMIYIEDCAFIPNF--HDSWLAIQPVISSGRRSK  306 (592)
T ss_dssp             CEEEECS----SEEEETTSCEEEEEECCHHHH----H-----HSCCSEEEEETGGGCTTH--HHHHHHHHHHHSSSSCCE
T ss_pred             ccccCCc----cEEEecCCCEEEEEeCCCCCc----c-----CCCcceEEEehhccCCch--hHHHHHHHHHhccCCCce
Confidence            0000000    001123455554443  2222    1     124678999999987442  2333333333322 1234


Q ss_pred             EEEEeeCch
Q 018574          210 VLISATLPH  218 (354)
Q Consensus       210 i~lSaT~~~  218 (354)
                      +++..|+..
T Consensus       307 ii~isTP~~  315 (592)
T 3cpe_A          307 IIITTTPNG  315 (592)
T ss_dssp             EEEEECCCT
T ss_pred             EEEEeCCCC
Confidence            555566643

>1uaa_A REP helicase, protein (ATP-dependent DNA helicase REP.); complex (helicase/DNA), DNA unwinding, hydrolase/DNA complex; HET: DNA; 3.00A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19

Probab=97.58  E-value=0.0001  Score=69.79  Aligned_cols=80  Identities=15%  Similarity=0.111  Sum_probs=61.6

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-CCCceeEEEEcCCHHHHHHHHHHHHHhccC---cCe
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQALILSPTRELATQTEKVILAIGDF---INI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~~lil~p~~~l~~q~~~~~~~~~~~---~~~  130 (354)
                      .+++-|.+++...  +.+++|.|++|||||.+.+.-+...+.. +....++|+++.|+..+.++.+++......   .++
T Consensus         2 ~L~~~Q~~av~~~--~~~~lV~AgaGSGKT~~l~~ri~~ll~~~~~~~~~IL~lTfT~~Aa~em~~Rl~~~l~~~~~~~~   79 (673)
T 1uaa_A            2 RLNPGQQQAVEFV--TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGRKEARGL   79 (673)
T ss_dssp             CCCHHHHHHHHCC--SSEEEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESSHHHHHHHHHHHHHHSCTTTTTTS
T ss_pred             CCCHHHHHHHhCC--CCCEEEEeCCCCChHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHcCcccccCC
Confidence            4789999999763  6789999999999998887777666654 334457999999999999999999876432   235


Q ss_pred             EEEEEe
Q 018574          131 QAHACV  136 (354)
Q Consensus       131 ~~~~~~  136 (354)
                      .+.+++
T Consensus        80 ~v~Tfh   85 (673)
T 1uaa_A           80 MISTFH   85 (673)
T ss_dssp             EEEEHH
T ss_pred             EEEeHH
Confidence            555544

>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=97.58  E-value=0.00022  Score=55.17  Aligned_cols=22  Identities=27%  Similarity=0.474  Sum_probs=17.7

Q ss_pred             cCCcEEEEcCCCCchhhHhHHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      .|+.+++.||+|+|||..+-..
T Consensus        37 ~g~~~~l~G~~G~GKTtL~~~i   58 (180)
T 3ec2_A           37 EGKGLTFVGSPGVGKTHLAVAT   58 (180)
T ss_dssp             GCCEEEECCSSSSSHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            3788999999999999655443

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.41  E-value=7.6e-05  Score=58.01  Aligned_cols=39  Identities=15%  Similarity=0.106  Sum_probs=27.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      |+-.++.+|+|+|||+.++..+......+   .+++++.|..
T Consensus         3 g~i~vi~G~~gsGKTT~ll~~~~~~~~~g---~~v~~~~~~~   41 (184)
T 2orw_A            3 GKLTVITGPMYSGKTTELLSFVEIYKLGK---KKVAVFKPKI   41 (184)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHTT---CEEEEEEEC-
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHHCC---CeEEEEeecc
Confidence            55678999999999987766655544333   3588888874

>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=97.38  E-value=0.0004  Score=54.12  Aligned_cols=39  Identities=10%  Similarity=0.110  Sum_probs=28.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      |+-.++.+|+|+|||+..+-.+......+   .+++++.|..
T Consensus         8 g~i~v~~G~mgsGKTT~ll~~a~r~~~~g---~kV~v~k~~~   46 (191)
T 1xx6_A            8 GWVEVIVGPMYSGKSEELIRRIRRAKIAK---QKIQVFKPEI   46 (191)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTT---CCEEEEEEC-
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHCC---CEEEEEEecc
Confidence            55678999999999987776666554433   4589998874

>1pjr_A PCRA; DNA repair, DNA replication, SOS response, helicase, ATP- binding, DNA-binding; 2.50A {Geobacillus stearothermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1qhg_A* 3pjr_A* 2pjr_A* 1qhh_B* 1qhh_D* 1qhh_A* 1qhh_C* 2pjr_B*

Probab=97.34  E-value=0.00044  Score=65.82  Aligned_cols=70  Identities=17%  Similarity=0.189  Sum_probs=57.0

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-CCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      ..+++.|.+++..  ...+++|.|+.|||||.+...-+.+.+.. +-...++|+++.|+..+.++.+++....
T Consensus        10 ~~Ln~~Q~~av~~--~~g~~lV~AgAGSGKT~vL~~ri~~ll~~~~~~p~~IL~vTFTnkAA~Em~~Rl~~~l   80 (724)
T 1pjr_A           10 AHLNKEQQEAVRT--TEGPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNKAAREMRERVQSLL   80 (724)
T ss_dssp             TTSCHHHHHHHHC--CSSCEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSHHHHHHHHHHHHHHH
T ss_pred             hhCCHHHHHHHhC--CCCCEEEEEcCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHh
Confidence            4689999999976  35689999999999998888777776654 3244579999999999999999887753

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=97.29  E-value=0.0012  Score=51.06  Aligned_cols=38  Identities=13%  Similarity=0.121  Sum_probs=29.1

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT  110 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~  110 (354)
                      ++-.++.+|+|+|||.-.+..+.....++   .+++++.|.
T Consensus        20 g~l~fiyG~MgsGKTt~Ll~~i~n~~~~~---~kvl~~kp~   57 (195)
T 1w4r_A           20 GQIQVILGPMFSGKSTELMRRVRRFQIAQ---YKCLVIKYA   57 (195)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHHHTT---CCEEEEEET
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHHcC---CeEEEEccc
Confidence            56679999999999977776666665544   458999886

>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease, double strand DNA repair, protein-DNA CO hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus subtilis} PDB: 3u44_A*

Probab=97.27  E-value=0.00048  Score=69.52  Aligned_cols=67  Identities=19%  Similarity=0.300  Sum_probs=56.8

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC---CceeEEEEcCCHHHHHHHHHHHHH
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS---REVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~---~~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      ++++-|.+++..-  +++++|.|+.|||||.+.+.-+...+..+.   ...+++++++|++.+..+.+++..
T Consensus        10 ~~t~eQ~~~i~~~--~~~~~v~a~AGSGKT~vl~~ri~~ll~~~~~~~~~~~il~~Tft~~aa~e~~~ri~~   79 (1232)
T 3u4q_A           10 TWTDDQWNAIVST--GQDILVAAAAGSGKTAVLVERMIRKITAEENPIDVDRLLVVTFTNASAAEMKHRIAE   79 (1232)
T ss_dssp             CCCHHHHHHHHCC--SSCEEEEECTTCCHHHHHHHHHHHHHSCSSSCCCGGGEEEECSSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHhCC--CCCEEEEecCCCcHHHHHHHHHHHHHhcCCCCCCccceEEEeccHHHHHHHHHHHHH
Confidence            6899999999764  789999999999999988888787776643   445799999999999999888765

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.26  E-value=0.0029  Score=53.37  Aligned_cols=40  Identities=10%  Similarity=0.258  Sum_probs=24.2

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhh---CCCCCcEEEEEeeCc
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRY---LPPDLQVVLISATLP  217 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~---~~~~~~~i~lSaT~~  217 (354)
                      ...+|++||+|.+...   +.+..+++.   -....-+++++.|+.
T Consensus       132 ~~~ii~lDE~d~l~~q---~~L~~l~~~~~~~~s~~~vI~i~n~~d  174 (318)
T 3te6_A          132 RKTLILIQNPENLLSE---KILQYFEKWISSKNSKLSIICVGGHNV  174 (318)
T ss_dssp             CEEEEEEECCSSSCCT---HHHHHHHHHHHCSSCCEEEEEECCSSC
T ss_pred             CceEEEEecHHHhhcc---hHHHHHHhcccccCCcEEEEEEecCcc
Confidence            4568999999999732   344444432   122345666777763

>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=97.25  E-value=0.0018  Score=55.21  Aligned_cols=20  Identities=25%  Similarity=0.373  Sum_probs=16.2

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      +..+++.||+|+|||..+-.
T Consensus        37 ~~~lll~G~~GtGKT~la~~   56 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQA   56 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHH
Confidence            46899999999999965443

>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=97.22  E-value=0.00052  Score=54.79  Aligned_cols=113  Identities=15%  Similarity=0.098  Sum_probs=61.2

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE  149 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (354)
                      |.-.++.|++|+|||++.+..+......+   .+++++.|...-.   .  ...+....++.                  
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~r~~~~g---~kVli~~~~~d~r---~--~~~i~srlG~~------------------   65 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLHRLEYAD---VKYLVFKPKIDTR---S--IRNIQSRTGTS------------------   65 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHTT---CCEEEEEECCCGG---G--CSSCCCCCCCS------------------
T ss_pred             cEEEEEECCCCCcHHHHHHHHHHHHHhcC---CEEEEEEeccCch---H--HHHHHHhcCCC------------------
Confidence            55678899999999987777766665444   3488887754210   0  00111111110                  


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      . ..+-+.+.+.+...+... ......++||+||++.+.. ...+.+..+.+   .+.+++ +++-
T Consensus        66 ~-~~~~~~~~~~i~~~i~~~-~~~~~~dvViIDEaQ~l~~-~~ve~l~~L~~---~gi~Vi-l~Gl  124 (223)
T 2b8t_A           66 L-PSVEVESAPEILNYIMSN-SFNDETKVIGIDEVQFFDD-RICEVANILAE---NGFVVI-ISGL  124 (223)
T ss_dssp             S-CCEEESSTHHHHHHHHST-TSCTTCCEEEECSGGGSCT-HHHHHHHHHHH---TTCEEE-EECC
T ss_pred             c-cccccCCHHHHHHHHHHH-hhCCCCCEEEEecCccCcH-HHHHHHHHHHh---CCCeEE-EEec
Confidence            0 122245555565555432 2234579999999997532 23344444443   245544 4443

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.21  E-value=0.0003  Score=52.53  Aligned_cols=22  Identities=18%  Similarity=0.386  Sum_probs=17.8

Q ss_pred             cCCcEEEEcCCCCchhhHhHHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      .++.+++.+|+|+|||..+-..
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i   56 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAW   56 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHH
Confidence            6788999999999999654443

>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=97.15  E-value=0.0012  Score=51.95  Aligned_cols=40  Identities=18%  Similarity=0.194  Sum_probs=29.4

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      |+-.++.+++|+|||+.++-.+......+.   +++++.|.+.
T Consensus        28 G~l~vitG~MgsGKTT~lL~~a~r~~~~g~---kVli~k~~~d   67 (214)
T 2j9r_A           28 GWIEVICGSMFSGKSEELIRRVRRTQFAKQ---HAIVFKPCID   67 (214)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHTTC---CEEEEECC--
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHCCC---EEEEEEeccC
Confidence            445678999999999888877776665543   5899998764

>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=97.06  E-value=0.0061  Score=48.43  Aligned_cols=39  Identities=15%  Similarity=0.302  Sum_probs=24.6

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ....+||+||+|.+... ....+..++...+....+++.|
T Consensus       101 ~~~~vliiDe~~~l~~~-~~~~l~~~l~~~~~~~~~i~~~  139 (226)
T 2chg_A          101 APFKIIFLDEADALTAD-AQAALRRTMEMYSKSCRFILSC  139 (226)
T ss_dssp             CSCEEEEEETGGGSCHH-HHHHHHHHHHHTTTTEEEEEEE
T ss_pred             cCceEEEEeChhhcCHH-HHHHHHHHHHhcCCCCeEEEEe
Confidence            45679999999997543 2445556666655555444443

>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=97.05  E-value=0.0032  Score=53.91  Aligned_cols=38  Identities=18%  Similarity=0.207  Sum_probs=26.1

Q ss_pred             ChHHHHHhHhhhh----cCC---cEEEEcCCCCchhhHhHHHHhh
Q 018574           56 PSAIQQRAVMPII----KGR---DVIAQAQSGTGKTSMIALTVCQ   93 (354)
Q Consensus        56 ~~~~Q~~~~~~~~----~~~---~~ii~~~tGsGKT~~~~~~~~~   93 (354)
                      ++|+|.+.+..+.    +++   ..++.||+|+|||..+...+-.
T Consensus         3 ~~pw~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~   47 (334)
T 1a5t_A            3 WYPWLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRY   47 (334)
T ss_dssp             CCGGGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHH
Confidence            3577777766554    333   3899999999999665544433

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.02  E-value=0.0016  Score=48.13  Aligned_cols=18  Identities=11%  Similarity=0.182  Sum_probs=15.6

Q ss_pred             hcCCcEEEEcCCCCchhh
Q 018574           68 IKGRDVIAQAQSGTGKTS   85 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~   85 (354)
                      ..+.++++.+|+|+|||.
T Consensus        25 ~~~~~vll~G~~GtGKt~   42 (143)
T 3co5_A           25 KRTSPVFLTGEAGSPFET   42 (143)
T ss_dssp             TCSSCEEEEEETTCCHHH
T ss_pred             CCCCcEEEECCCCccHHH
Confidence            346789999999999995

>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain, chromatin regulator, coiled coil, nucleus, repressor, transcription; 2.20A {Saccharomyces cerevisiae} PDB: 3hgq_A

Probab=96.97  E-value=0.0056  Score=51.34  Aligned_cols=92  Identities=17%  Similarity=0.165  Sum_probs=68.8

Q ss_pred             cchHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcccccc
Q 018574          257 EWKFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWAR  334 (354)
Q Consensus       257 ~~~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~  334 (354)
                      ..|+..+.+++...  .+.+++||++..+..+-+...+...++.+..++|.... .+.+    -.++...+.+.|...+-
T Consensus       108 SGKf~~L~~LL~~l~~~~~kVLIfsq~t~~LDilE~~l~~~~~~y~RlDG~~~~-~~~k----~~~~~~~i~Lltsag~~  182 (328)
T 3hgt_A          108 SGKFSVLRDLINLVQEYETETAIVCRPGRTMDLLEALLLGNKVHIKRYDGHSIK-SAAA----ANDFSCTVHLFSSEGIN  182 (328)
T ss_dssp             CHHHHHHHHHHHHHTTSCEEEEEEECSTHHHHHHHHHHTTSSCEEEESSSCCC------------CCSEEEEEEESSCCC
T ss_pred             CccHHHHHHHHHHHHhCCCEEEEEECChhHHHHHHHHHhcCCCceEeCCCCchh-hhhh----cccCCceEEEEECCCCC
Confidence            34888888877644  34699999999999999999999999999999998443 2221    12455666666766666


Q ss_pred             CCC-----cCCCcEEEecCCCCCC
Q 018574          335 GLD-----VQQAILFFFLFLFCNV  353 (354)
Q Consensus       335 Gid-----i~~~~~Vi~~~~p~s~  353 (354)
                      |+|     +..++.||.||--+|+
T Consensus       183 gin~~~~nl~~aD~VI~~DsdwNp  206 (328)
T 3hgt_A          183 FTKYPIKSKARFDMLICLDTTVDT  206 (328)
T ss_dssp             TTTSCCCCCSCCSEEEECSTTCCT
T ss_pred             CcCcccccCCCCCEEEEECCCCCC
Confidence            775     7899999999998886

>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=96.91  E-value=0.0035  Score=55.84  Aligned_cols=38  Identities=13%  Similarity=0.217  Sum_probs=22.5

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS  108 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~  108 (354)
                      ...+++.||+|+|||..+-.. ...+.....+..++++.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~ai-a~~l~~~~~~~~v~~v~  167 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSI-GNYVVQNEPDLRVMYIT  167 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHH-HHHHHHHCCSSCEEEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHH-HHHHHHhCCCCeEEEee
Confidence            357999999999999654433 33332222233455544

>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA helicase, acetyltransferase, GCN5 acetyltransferase; HET: ACO ADP; 2.35A {Escherichia coli K12}

Probab=96.85  E-value=0.0031  Score=58.39  Aligned_cols=112  Identities=14%  Similarity=0.208  Sum_probs=72.3

Q ss_pred             CChHHHHHhHhhhhc--CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEE
Q 018574           55 KPSAIQQRAVMPIIK--GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQA  132 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~--~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~  132 (354)
                      .++..|.+++..+..  ....++.|+-|.|||.+.-+. ++.+..     .++|..|+.+-+....+...+         
T Consensus       175 ~~T~dQ~~al~~~~~~~~~~~vlta~RGRGKSa~lG~~-~a~~~~-----~~~vtAP~~~a~~~l~~~~~~---------  239 (671)
T 2zpa_A          175 APQPEQQQLLKQLMTMPPGVAAVTAARGRGKSALAGQL-ISRIAG-----RAIVTAPAKASTDVLAQFAGE---------  239 (671)
T ss_dssp             SCCHHHHHHHHHHTTCCSEEEEEEECTTSSHHHHHHHH-HHHSSS-----CEEEECSSCCSCHHHHHHHGG---------
T ss_pred             CCCHHHHHHHHHHHHhhhCeEEEecCCCCCHHHHHHHH-HHHHHh-----CcEEECCCHHHHHHHHHHhhC---------
Confidence            578899999988876  446799999999999444433 444332     268899998766544443211         


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEE
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLI  212 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~l  212 (354)
                                          .+-+..|+.+..       .....+++|||||=.+    -...+..++..    ...++|
T Consensus       240 --------------------~i~~~~Pd~~~~-------~~~~~dlliVDEAAaI----p~pll~~ll~~----~~~v~~  284 (671)
T 2zpa_A          240 --------------------KFRFIAPDALLA-------SDEQADWLVVDEAAAI----PAPLLHQLVSR----FPRTLL  284 (671)
T ss_dssp             --------------------GCCBCCHHHHHH-------SCCCCSEEEEETGGGS----CHHHHHHHHTT----SSEEEE
T ss_pred             --------------------CeEEeCchhhhh-------CcccCCEEEEEchhcC----CHHHHHHHHhh----CCeEEE
Confidence                                022234544321       1224789999999887    45566666653    335788


Q ss_pred             EeeC
Q 018574          213 SATL  216 (354)
Q Consensus       213 SaT~  216 (354)
                      |.|.
T Consensus       285 ~tTv  288 (671)
T 2zpa_A          285 TTTV  288 (671)
T ss_dssp             EEEB
T ss_pred             EecC
Confidence            8886

>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=96.80  E-value=0.0039  Score=49.57  Aligned_cols=40  Identities=13%  Similarity=0.160  Sum_probs=30.5

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      |+-.++.|++|+|||+..+..+..+...+   .+++++-|.+.
T Consensus        19 g~l~v~~G~MgsGKTT~lL~~~~r~~~~g---~kvli~kp~~D   58 (234)
T 2orv_A           19 GQIQVILGPMFSGKSTELMRRVRRFQIAQ---YKCLVIKYAKD   58 (234)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHHTTT---CCEEEEEETTC
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHHCC---CeEEEEeecCC
Confidence            56678899999999988877777665544   45888888753

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=96.74  E-value=0.0087  Score=52.16  Aligned_cols=20  Identities=30%  Similarity=0.459  Sum_probs=16.3

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      +..+++.||+|+|||..+-.
T Consensus        44 ~~~vll~G~~G~GKT~l~~~   63 (387)
T 2v1u_A           44 PSNALLYGLTGTGKTAVARL   63 (387)
T ss_dssp             CCCEEECBCTTSSHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHH
Confidence            56899999999999965443

>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=96.72  E-value=0.0046  Score=49.92  Aligned_cols=21  Identities=14%  Similarity=0.183  Sum_probs=17.0

Q ss_pred             cCCcEEEEcCCCCchhhHhHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      .++.+++.||+|+|||..+-.
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~   71 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHA   71 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHH
Confidence            467899999999999965443

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.67  E-value=0.0046  Score=54.48  Aligned_cols=54  Identities=15%  Similarity=0.302  Sum_probs=36.0

Q ss_pred             ccccCcccCCCCHHHHHHHHHC---CCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhH
Q 018574           30 EAITSFDAMGIKDDLLRGIYQY---GFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSM   86 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~   86 (354)
                      .+..+|++.+--+..++.+.+.   .+..|..++..-   +...+.+++.||+|+|||..
T Consensus       175 ~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g---~~~prGvLLyGPPGTGKTll  231 (434)
T 4b4t_M          175 KPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMG---IRAPKGALMYGPPGTGKTLL  231 (434)
T ss_dssp             SCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHC---CCCCCEEEEESCTTSSHHHH
T ss_pred             CCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCC---CCCCCeeEEECcCCCCHHHH
Confidence            4457899998778888877653   122333333322   22357899999999999954

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.66  E-value=0.0063  Score=50.73  Aligned_cols=55  Identities=16%  Similarity=0.208  Sum_probs=32.6

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhh--hhcCCcEEEEcCCCCchhhHhH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMP--IIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~--~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+|+++.-.+...+.+...-. .+ ....+.+..  +..++.+++.||+|+|||..+-
T Consensus        13 ~~~~~~i~G~~~~~~~l~~~~~-~~-~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~   69 (285)
T 3h4m_A           13 NVRYEDIGGLEKQMQEIREVVE-LP-LKHPELFEKVGIEPPKGILLYGPPGTGKTLLAK   69 (285)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHTH-HH-HHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHH
T ss_pred             CCCHHHhcCHHHHHHHHHHHHH-HH-hhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHH
Confidence            4568888766677776665311 00 011122222  2346789999999999996443

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.61  E-value=0.0072  Score=52.50  Aligned_cols=52  Identities=23%  Similarity=0.350  Sum_probs=32.8

Q ss_pred             ccCcccCCCCHHHHHHHHHCC---CCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYG---FEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSM   86 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~---~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~   86 (354)
                      ..+|++.+=-+..++.+++.=   +..|..++..-   +...+.+++.||+|+|||..
T Consensus       144 ~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~g---i~~prGvLL~GPPGTGKTll  198 (405)
T 4b4t_J          144 DSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLG---IAQPKGVILYGPPGTGKTLL  198 (405)
T ss_dssp             SCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHT---CCCCCCEEEESCSSSSHHHH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCC---CCCCCceEEeCCCCCCHHHH
Confidence            468999876667777776531   11222222221   22357899999999999953

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.61  E-value=0.021  Score=42.11  Aligned_cols=21  Identities=19%  Similarity=0.139  Sum_probs=17.0

Q ss_pred             hcCCcEEEEcCCCCchhhHhH
Q 018574           68 IKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+.++++.||+|+|||..+-
T Consensus        22 ~~~~~vll~G~~GtGKt~lA~   42 (145)
T 3n70_A           22 ETDIAVWLYGAPGTGRMTGAR   42 (145)
T ss_dssp             TCCSCEEEESSTTSSHHHHHH
T ss_pred             CCCCCEEEECCCCCCHHHHHH
Confidence            346789999999999996443

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.58  E-value=0.014  Score=45.71  Aligned_cols=19  Identities=26%  Similarity=0.450  Sum_probs=15.9

Q ss_pred             CcEEEEcCCCCchhhHhHH
Q 018574           71 RDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~   89 (354)
                      +.+++.||+|+|||..+..
T Consensus        55 ~~~~l~G~~GtGKT~la~~   73 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAA   73 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHH
Confidence            7899999999999965443

>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=96.55  E-value=0.019  Score=47.40  Aligned_cols=19  Identities=26%  Similarity=0.382  Sum_probs=15.5

Q ss_pred             CcEEEEcCCCCchhhHhHH
Q 018574           71 RDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~   89 (354)
                      ..+++.||+|+|||..+-.
T Consensus        65 ~~vLl~G~~GtGKT~la~~   83 (272)
T 1d2n_A           65 VSVLLEGPPHSGKTALAAK   83 (272)
T ss_dssp             EEEEEECSTTSSHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHH
Confidence            5799999999999965443

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=96.52  E-value=0.0053  Score=48.22  Aligned_cols=40  Identities=10%  Similarity=0.158  Sum_probs=28.1

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      |.-.++.+|+|+|||+..+..+......+   .+++++.|...
T Consensus        28 G~I~vitG~M~sGKTT~Llr~~~r~~~~g---~kvli~kp~~D   67 (219)
T 3e2i_A           28 GWIECITGSMFSGKSEELIRRLRRGIYAK---QKVVVFKPAID   67 (219)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHHHTT---CCEEEEEEC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHcC---CceEEEEeccC
Confidence            55568999999999977766665544433   45899988754

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.50  E-value=0.0024  Score=53.96  Aligned_cols=19  Identities=26%  Similarity=0.330  Sum_probs=15.6

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      +.++++.||+|+|||..+-
T Consensus        67 ~~~vll~G~~GtGKT~la~   85 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVAL   85 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHH
Confidence            3479999999999996554

>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=96.44  E-value=0.0046  Score=53.96  Aligned_cols=20  Identities=25%  Similarity=0.190  Sum_probs=15.9

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      .+.+++.||+|+|||..+-.
T Consensus        45 ~~~vll~G~~G~GKT~la~~   64 (384)
T 2qby_B           45 KFSNLFLGLTGTGKTFVSKY   64 (384)
T ss_dssp             CCEEEEEECTTSSHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHH
Confidence            45699999999999965443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.41  E-value=0.058  Score=41.40  Aligned_cols=19  Identities=21%  Similarity=0.489  Sum_probs=15.7

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..+++.||+|+|||..+-
T Consensus        43 ~~~~ll~G~~G~GKT~l~~   61 (195)
T 1jbk_A           43 KNNPVLIGEPGVGKTAIVE   61 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHH
Confidence            4679999999999996544

>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=96.39  E-value=0.0091  Score=50.78  Aligned_cols=40  Identities=15%  Similarity=0.228  Sum_probs=25.2

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEee
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      ..+++++||+|.+........+..++...+.+.++++ +++
T Consensus       105 ~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~-~~n  144 (324)
T 3u61_B          105 RQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIII-TAN  144 (324)
T ss_dssp             CEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEE-EES
T ss_pred             CCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEE-EeC
Confidence            5689999999998623334555555555444555554 444

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.35  E-value=0.01  Score=45.63  Aligned_cols=21  Identities=24%  Similarity=0.359  Sum_probs=16.6

Q ss_pred             CCcEEEEcCCCCchhhHhHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      ..++++.||+|+|||..+...
T Consensus        43 ~~~vll~G~~G~GKT~la~~~   63 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGL   63 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHH
Confidence            467999999999999655433

>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=96.33  E-value=0.016  Score=49.17  Aligned_cols=38  Identities=16%  Similarity=0.389  Sum_probs=24.0

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLI  212 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~l  212 (354)
                      ....++|+||+|.+... ....+..++...+....+++.
T Consensus       109 ~~~~vliiDe~~~l~~~-~~~~L~~~le~~~~~~~~i~~  146 (327)
T 1iqp_A          109 ASFKIIFLDEADALTQD-AQQALRRTMEMFSSNVRFILS  146 (327)
T ss_dssp             CSCEEEEEETGGGSCHH-HHHHHHHHHHHTTTTEEEEEE
T ss_pred             CCCeEEEEeCCCcCCHH-HHHHHHHHHHhcCCCCeEEEE
Confidence            45689999999998433 234555556655555554443

>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=96.31  E-value=0.015  Score=51.20  Aligned_cols=131  Identities=15%  Similarity=0.276  Sum_probs=69.7

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc-C-CHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS-P-TRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL  148 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~-p-~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (354)
                      .-+++.+++|+|||+.....+......   +.+++++. + .+.-+   .+++..+....++.+.....+.         
T Consensus        98 ~vI~lvG~~GsGKTTt~~kLA~~l~~~---G~kVllv~~D~~r~~a---~eqL~~~~~~~gv~~~~~~~~~---------  162 (433)
T 3kl4_A           98 FIIMLVGVQGSGKTTTAGKLAYFYKKR---GYKVGLVAADVYRPAA---YDQLLQLGNQIGVQVYGEPNNQ---------  162 (433)
T ss_dssp             EEEEECCCTTSCHHHHHHHHHHHHHHT---TCCEEEEEECCSCHHH---HHHHHHHHHTTTCCEECCTTCS---------
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc---CCeEEEEecCccchhH---HHHHHHHHHhcCCceeeccccC---------
Confidence            357889999999998766555444332   23455544 3 22222   2333333333344332211111         


Q ss_pred             cCCCeEEEeCcHHHH-HHHhcCCccCCCccEEEEecchhhh---ccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHH
Q 018574          149 EHGVHVVSGTPGRVC-DMIKRKTLRTRAIKLLVLDESDEML---SRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMT  224 (354)
Q Consensus       149 ~~~~~iiv~T~~~l~-~~~~~~~~~~~~~~~vvvDE~h~~~---~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~  224 (354)
                               .|..+. ..+..  .....+++||+|++-+..   +..+...+..+.....++.-++.++|+...+.....
T Consensus       163 ---------dp~~i~~~al~~--a~~~~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~~a  231 (433)
T 3kl4_A          163 ---------NPIEIAKKGVDI--FVKNKMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDLA  231 (433)
T ss_dssp             ---------CHHHHHHHHHHH--TTTTTCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHHHH
T ss_pred             ---------CHHHHHHHHHHH--HHhcCCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHHHH
Confidence                     111111 11221  112467899999997643   333556666666666667777888888766555554


Q ss_pred             Hhc
Q 018574          225 TKF  227 (354)
Q Consensus       225 ~~~  227 (354)
                      ..+
T Consensus       232 ~~f  234 (433)
T 3kl4_A          232 SRF  234 (433)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>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=96.31  E-value=0.0096  Score=50.63  Aligned_cols=54  Identities=7%  Similarity=0.063  Sum_probs=32.5

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHH-hHhh-hhcCCcEEEEcCCCCchhhHhH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQR-AVMP-IIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~-~~~~-~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+|+++.-.+...+.+...-.   ++.... .+.. ....+++++.||+|+|||..+-
T Consensus        14 ~~~~~di~G~~~~~~~l~~~i~---~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~   69 (322)
T 3eie_A           14 NVKWEDVAGLEGAKEALKEAVI---LPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAK   69 (322)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHTH---HHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHH
T ss_pred             CCCHHHhcChHHHHHHHHHHHH---HHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHH
Confidence            3568888777777777766321   111111 1111 1124679999999999996443

>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=96.30  E-value=0.0066  Score=53.02  Aligned_cols=18  Identities=28%  Similarity=0.348  Sum_probs=15.0

Q ss_pred             cEEEEcCCCCchhhHhHH
Q 018574           72 DVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~   89 (354)
                      .+++.||+|+|||..+-.
T Consensus        46 ~~li~G~~G~GKTtl~~~   63 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRK   63 (389)
T ss_dssp             EEEEECCTTSSHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHH
Confidence            799999999999965543

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19

Probab=96.25  E-value=0.012  Score=56.12  Aligned_cols=75  Identities=17%  Similarity=0.200  Sum_probs=64.6

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhc----CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccCCCcCCCcEEEe
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRG----YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWARGLDVQQAILFFF  346 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~----~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~~Gidi~~~~~Vi~  346 (354)
                      +.+++|.++++.-+.+.++.+++    .++++..++|+++..++...++.+.+|+.+|+|+|. .+...+++.++.+||.
T Consensus       417 g~qvlvlaPtr~La~Q~~~~l~~~~~~~gi~v~~l~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~~~~~~l~lVVI  496 (780)
T 1gm5_A          417 GFQTAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALIQEDVHFKNLGLVII  496 (780)
T ss_dssp             TSCEEEECSCHHHHHHHHHHHHHHHTCSSCCEEECCSSSCHHHHHHHHHHHHSSCCCEEEECTTHHHHCCCCSCCCEEEE
T ss_pred             CCeEEEEeCcHHHHHHHHHHHHHHhhhcCceEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHhhhhhccCCceEEe
Confidence            46899999999998888877764    378999999999999999999999999999999995 5556778888888875

>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=96.24  E-value=0.016  Score=50.39  Aligned_cols=20  Identities=25%  Similarity=0.529  Sum_probs=16.3

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      ++.+++.||+|+|||..+-.
T Consensus        45 ~~~vli~G~~G~GKTtl~~~   64 (386)
T 2qby_A           45 PNNIFIYGLTGTGKTAVVKF   64 (386)
T ss_dssp             CCCEEEEECTTSSHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHH
Confidence            56899999999999965443

>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=96.22  E-value=0.019  Score=48.25  Aligned_cols=39  Identities=13%  Similarity=0.234  Sum_probs=23.4

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ....++|+||+|.+.... .+.+.+.+..-++...+++.+
T Consensus        81 ~~~kvviIdead~lt~~a-~naLLk~LEep~~~t~fIl~t  119 (305)
T 2gno_A           81 YTRKYVIVHDCERMTQQA-ANAFLKALEEPPEYAVIVLNT  119 (305)
T ss_dssp             SSSEEEEETTGGGBCHHH-HHHTHHHHHSCCTTEEEEEEE
T ss_pred             CCceEEEeccHHHhCHHH-HHHHHHHHhCCCCCeEEEEEE
Confidence            357899999999985443 344555555444444444433

>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=96.15  E-value=0.011  Score=50.98  Aligned_cols=38  Identities=21%  Similarity=0.321  Sum_probs=24.4

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ...+|++||+|.+... ....+..++...+....+++.+
T Consensus       133 ~~~vliiDE~~~l~~~-~~~~Ll~~le~~~~~~~~il~~  170 (353)
T 1sxj_D          133 PYKIIILDEADSMTAD-AQSALRRTMETYSGVTRFCLIC  170 (353)
T ss_dssp             SCEEEEETTGGGSCHH-HHHHHHHHHHHTTTTEEEEEEE
T ss_pred             CceEEEEECCCccCHH-HHHHHHHHHHhcCCCceEEEEe
Confidence            5589999999998543 2345556666655555555544

>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=96.11  E-value=0.024  Score=48.81  Aligned_cols=42  Identities=5%  Similarity=0.349  Sum_probs=28.0

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeC
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATL  216 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~  216 (354)
                      .+..++|+||+|.+ +......+...+...+.+..+++.|-.+
T Consensus       133 ~~~~vlilDE~~~L-~~~~~~~L~~~le~~~~~~~~Il~t~~~  174 (354)
T 1sxj_E          133 HRYKCVIINEANSL-TKDAQAALRRTMEKYSKNIRLIMVCDSM  174 (354)
T ss_dssp             -CCEEEEEECTTSS-CHHHHHHHHHHHHHSTTTEEEEEEESCS
T ss_pred             CCCeEEEEeCcccc-CHHHHHHHHHHHHhhcCCCEEEEEeCCH
Confidence            35689999999994 4445566777777766665555555443

>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=96.07  E-value=0.037  Score=42.85  Aligned_cols=141  Identities=13%  Similarity=0.155  Sum_probs=71.6

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH-HHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE-LATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL  148 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~-l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (354)
                      ...+++..++|.|||.+++..++..+..+.   +++++--.+. ....=...+..+    ++.......+-........ 
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G~---rV~~vQF~Kg~~~~gE~~~l~~L----~v~~~~~g~gf~~~~~~~~-   99 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHGK---NVGVVQFIKGTWPNGERNLLEPH----GVEFQVMATGFTWETQNRE-   99 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTTC---CEEEEESSCCSSCCHHHHHHGGG----TCEEEECCTTCCCCGGGHH-
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCCC---eEEEEEeeCCCCCccHHHHHHhC----CcEEEEcccccccCCCCcH-
Confidence            458999999999999999988888887654   4777743221 000001112122    2333222211110000000 


Q ss_pred             cCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC--cHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHH
Q 018574          149 EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG--FKDQIYDVYRYLPPDLQVVLISATLPHEILEMT  224 (354)
Q Consensus       149 ~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~--~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~  224 (354)
                       .  +.. ..-..+....+  .+....+++||+||.-.....+  -.+.+..++...+....+|+.+--+++++.+..
T Consensus       100 -~--~~~-~a~~~l~~a~~--~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~ap~~l~e~A  171 (196)
T 1g5t_A          100 -A--DTA-ACMAVWQHGKR--MLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCHRDILDLA  171 (196)
T ss_dssp             -H--HHH-HHHHHHHHHHH--HTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCCHHHHHHC
T ss_pred             -H--HHH-HHHHHHHHHHH--HHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCCcHHHHHhC
Confidence             0  000 00111211111  2334578999999997654333  345666777776666655554445566555544

>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=96.06  E-value=0.017  Score=48.51  Aligned_cols=56  Identities=16%  Similarity=0.261  Sum_probs=32.1

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHh-hhhcCCcEEEEcCCCCchhhHhH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVM-PIIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~-~~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+|++++-.+...+.+.+.-. .+..+...... .+..++.+++.||+|+|||..+-
T Consensus        11 ~~~~~di~G~~~~~~~l~~~v~-~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~   67 (301)
T 3cf0_A           11 QVTWEDIGGLEDVKRELQELVQ-YPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAK   67 (301)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHH-HHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHH-HHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHH
Confidence            3578888666666666655311 11111111111 12346789999999999996443

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.04  E-value=0.022  Score=50.16  Aligned_cols=53  Identities=23%  Similarity=0.243  Sum_probs=32.3

Q ss_pred             ccCcccCCCCHHHHHHHHHC---CCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHh
Q 018574           32 ITSFDAMGIKDDLLRGIYQY---GFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~---~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~   87 (354)
                      ..+|++.+=-+.+++.+.+.   .+..|..++..-   +...+.+++.||+|+|||..+
T Consensus       168 ~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g---~~~prGiLL~GPPGtGKT~la  223 (428)
T 4b4t_K          168 DVTYADVGGLDMQKQEIREAVELPLVQADLYEQIG---IDPPRGVLLYGPPGTGKTMLV  223 (428)
T ss_dssp             SCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHC---CCCCCEEEEESCTTTTHHHHH
T ss_pred             CCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCC---CCCCceEEEECCCCCCHHHHH
Confidence            46888887556666666552   111222222221   233578999999999999543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.95  E-value=0.022  Score=48.44  Aligned_cols=54  Identities=11%  Similarity=0.076  Sum_probs=32.1

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHH-hHhh-hhcCCcEEEEcCCCCchhhHhH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQR-AVMP-IIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~-~~~~-~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+|++.+=.+.+.+.+.+.-.   +|.+.. .+.. ....+.+++.||+|+|||..+-
T Consensus         8 ~~~~~di~G~~~~k~~l~~~v~---~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~   63 (322)
T 1xwi_A            8 NVKWSDVAGLEGAKEALKEAVI---LPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAK   63 (322)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHH---HHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHH
T ss_pred             CCCHHHhcCHHHHHHHHHHHHH---HHHhCHHHHhCCCCCCceEEEECCCCccHHHHHH
Confidence            4678888767777777765311   111111 1111 1224689999999999996443

>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=95.88  E-value=0.035  Score=47.54  Aligned_cols=38  Identities=21%  Similarity=0.412  Sum_probs=25.2

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ...++|+||+|.+... ....+..++...+....+++.+
T Consensus       110 ~~~viiiDe~~~l~~~-~~~~L~~~le~~~~~~~~il~~  147 (340)
T 1sxj_C          110 GFKLIILDEADAMTNA-AQNALRRVIERYTKNTRFCVLA  147 (340)
T ss_dssp             SCEEEEETTGGGSCHH-HHHHHHHHHHHTTTTEEEEEEE
T ss_pred             CceEEEEeCCCCCCHH-HHHHHHHHHhcCCCCeEEEEEe
Confidence            4789999999988543 3455666666665555555443

>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=95.87  E-value=0.083  Score=42.30  Aligned_cols=18  Identities=33%  Similarity=0.479  Sum_probs=14.8

Q ss_pred             cEEEEcCCCCchhhHhHH
Q 018574           72 DVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~   89 (354)
                      .+++.||+|+|||..+-.
T Consensus        47 ~~ll~G~~G~GKT~l~~~   64 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARL   64 (250)
T ss_dssp             EEEEECSTTSCHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            689999999999965443

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.79  E-value=0.032  Score=49.33  Aligned_cols=53  Identities=15%  Similarity=0.157  Sum_probs=33.5

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHH-HHhHhh--hhcCCcEEEEcCCCCchhhHh
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQ-QRAVMP--IIKGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q-~~~~~~--~~~~~~~ii~~~tGsGKT~~~   87 (354)
                      ..+|++.+=-+.+++.+++.=.   +|.. .+.+..  +...+.+++.||+|+|||+.+
T Consensus       205 ~vt~~DIgGl~~~k~~L~e~V~---~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLA  260 (467)
T 4b4t_H          205 DVTYSDVGGCKDQIEKLREVVE---LPLLSPERFATLGIDPPKGILLYGPPGTGKTLCA  260 (467)
T ss_dssp             SCCCSSCTTCHHHHHHHHHHTH---HHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHH
T ss_pred             CCCHHHhccHHHHHHHHHHHHH---HHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHH
Confidence            4678888777777777776311   1111 122222  233678999999999999533

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=95.78  E-value=0.065  Score=46.30  Aligned_cols=20  Identities=45%  Similarity=0.649  Sum_probs=16.1

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      ++.+++.||+|+|||..+-.
T Consensus        70 ~~~vLl~GppGtGKT~la~~   89 (368)
T 3uk6_A           70 GRAVLIAGQPGTGKTAIAMG   89 (368)
T ss_dssp             TCEEEEEESTTSSHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHH
Confidence            45799999999999964443

>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=95.75  E-value=0.12  Score=45.71  Aligned_cols=57  Identities=16%  Similarity=0.092  Sum_probs=32.3

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc--CCHHHHHHHHHHHHHhccCcCeEEE
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS--PTRELATQTEKVILAIGDFINIQAH  133 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~--p~~~l~~q~~~~~~~~~~~~~~~~~  133 (354)
                      .-+++.+++|+|||+...-.+......   +.+++++.  |.+.-+   .+++..+....++.+.
T Consensus       101 ~vIlivG~~G~GKTTt~~kLA~~l~~~---G~kVllv~~D~~R~aa---~eqL~~~~~~~gvpv~  159 (443)
T 3dm5_A          101 TILLMVGIQGSGKTTTVAKLARYFQKR---GYKVGVVCSDTWRPGA---YHQLRQLLDRYHIEVF  159 (443)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHTT---TCCEEEEECCCSSTHH---HHHHHHHHGGGTCEEE
T ss_pred             eEEEEECcCCCCHHHHHHHHHHHHHHC---CCeEEEEeCCCcchhH---HHHHHHHHHhcCCcEE
Confidence            357899999999998776655444332   33455554  333322   3444455544455443

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.71  E-value=0.028  Score=49.16  Aligned_cols=55  Identities=20%  Similarity=0.327  Sum_probs=33.9

Q ss_pred             ccccCcccCCCCHHHHHHHHHC---CCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHh
Q 018574           30 EAITSFDAMGIKDDLLRGIYQY---GFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~   87 (354)
                      .+..+|++.+=-+..++.+.+.   .+..|..++..-+   ...+.+++.||+|+|||..+
T Consensus       176 ~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi---~~prGvLLyGPPGTGKTlLA  233 (437)
T 4b4t_I          176 SPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGI---KPPKGVILYGAPGTGKTLLA  233 (437)
T ss_dssp             SCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTC---CCCSEEEEESSTTTTHHHHH
T ss_pred             CCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCC---CCCCCCceECCCCchHHHHH
Confidence            3457899987555666666552   1223333333222   23578999999999999533

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.67  E-value=0.039  Score=44.59  Aligned_cols=53  Identities=13%  Similarity=0.142  Sum_probs=33.4

Q ss_pred             hcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           68 IKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      ..|.-+++.+|+|+|||..++..+...+..+   .+++++.-.. ...++.+.+..+
T Consensus        21 ~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~---~~v~~~~~e~-~~~~~~~~~~~~   73 (247)
T 2dr3_A           21 PERNVVLLSGGPGTGKTIFSQQFLWNGLKMG---EPGIYVALEE-HPVQVRQNMAQF   73 (247)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHHHHTT---CCEEEEESSS-CHHHHHHHHHTT
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHhcC---CeEEEEEccC-CHHHHHHHHHHc
Confidence            4577889999999999977665555444332   3477766432 345555555433

>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=95.64  E-value=0.023  Score=48.11  Aligned_cols=38  Identities=16%  Similarity=0.308  Sum_probs=23.2

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      +..+||+||+|.+.... ...+..++...+....+++.|
T Consensus       107 ~~~viiiDe~~~l~~~~-~~~L~~~le~~~~~~~~il~~  144 (323)
T 1sxj_B          107 KHKIVILDEADSMTAGA-QQALRRTMELYSNSTRFAFAC  144 (323)
T ss_dssp             CCEEEEEESGGGSCHHH-HHTTHHHHHHTTTTEEEEEEE
T ss_pred             CceEEEEECcccCCHHH-HHHHHHHHhccCCCceEEEEe
Confidence            46899999999985432 334445555544555555444

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=95.63  E-value=0.059  Score=47.46  Aligned_cols=76  Identities=12%  Similarity=0.184  Sum_probs=62.2

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhc---CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccc---cCCCcCCCcE
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRG---YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWA---RGLDVQQAIL  343 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~---~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~---~Gidi~~~~~  343 (354)
                      .+.+++|.++++..+.++++.+++   .++.+..++|+.+..++....+.+..|+.+|+|+|+ .+.   .-++..++++
T Consensus        63 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~~~~l~~~~~~Iiv~Tp~~l~~~l~~~~~~~~~~  142 (414)
T 3oiy_A           63 KGKKSALVFPTVTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSKNREKLSQKRFDF  142 (414)
T ss_dssp             TTCCEEEEESSHHHHHHHHHHHHHHCCSSCCEEECCTTSCHHHHHHHHHHHHHTCCSEEEEEHHHHHHCHHHHTTCCCSE
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHHccCCceEEEEECCCChhhHHHHHHHhhcCCCCEEEECHHHHHHHHHHhccccccE
Confidence            457899999999999999999988   578999999999998888888888889999999995 221   1245567777


Q ss_pred             EEe
Q 018574          344 FFF  346 (354)
Q Consensus       344 Vi~  346 (354)
                      ||.
T Consensus       143 iVi  145 (414)
T 3oiy_A          143 VFV  145 (414)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            664

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.59  E-value=0.026  Score=48.29  Aligned_cols=18  Identities=22%  Similarity=0.484  Sum_probs=15.2

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      .++++.||+|+|||..+-
T Consensus        56 ~~vll~G~~GtGKT~la~   73 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLAN   73 (338)
T ss_dssp             CCEEEECSTTSSHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHH
Confidence            589999999999996443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=95.52  E-value=0.014  Score=51.94  Aligned_cols=18  Identities=33%  Similarity=0.527  Sum_probs=14.8

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+++.||+|+|||..+-
T Consensus        51 ~~vLL~GppGtGKTtlAr   68 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAE   68 (447)
T ss_dssp             CEEEEECSTTSSHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHH
Confidence            368999999999996443

>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=95.48  E-value=0.09  Score=43.08  Aligned_cols=19  Identities=26%  Similarity=0.420  Sum_probs=16.0

Q ss_pred             cCCcEEEEcCCCCchhhHh
Q 018574           69 KGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~   87 (354)
                      .+.++++.||+|+|||..+
T Consensus        28 ~~~~vll~G~~GtGKt~la   46 (265)
T 2bjv_A           28 LDKPVLIIGERGTGKELIA   46 (265)
T ss_dssp             SCSCEEEECCTTSCHHHHH
T ss_pred             CCCCEEEECCCCCcHHHHH
Confidence            4678999999999999543

>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=95.42  E-value=0.061  Score=48.43  Aligned_cols=43  Identities=19%  Similarity=0.289  Sum_probs=28.0

Q ss_pred             ccEEEEecchhhhccC----------cHHHHHHHHhhCCCCCcEEEEEeeCch
Q 018574          176 IKLLVLDESDEMLSRG----------FKDQIYDVYRYLPPDLQVVLISATLPH  218 (354)
Q Consensus       176 ~~~vvvDE~h~~~~~~----------~~~~~~~i~~~~~~~~~~i~lSaT~~~  218 (354)
                      .++|++||+|.+....          ....+...+........++++.||-.+
T Consensus       298 p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~  350 (489)
T 3hu3_A          298 PAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRP  350 (489)
T ss_dssp             SEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCG
T ss_pred             CcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEEEEecCCc
Confidence            3689999999886421          223444555555556667888888544

>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=95.40  E-value=0.037  Score=49.29  Aligned_cols=55  Identities=11%  Similarity=0.085  Sum_probs=31.1

Q ss_pred             cccCcccCCCCHHHHHHHHHCCCCCChHHHH-HhHhh-hhcCCcEEEEcCCCCchhhHhH
Q 018574           31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQ-RAVMP-IIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        31 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~-~~~~~-~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..+|++++=.+...+.+...-.   +|.+. +.+.. ....+.+++.||+|+|||..+-
T Consensus       129 ~~~~~~di~G~~~~k~~l~~~v~---~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~  185 (444)
T 2zan_A          129 PNVKWSDVAGLEGAKEALKEAVI---LPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAK  185 (444)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHT---HHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHH
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHH---HHhhCHHHhhccCCCCceEEEECCCCCCHHHHHH
Confidence            34567777656666666654311   11111 01111 1234789999999999996444

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.28  E-value=0.056  Score=43.19  Aligned_cols=40  Identities=18%  Similarity=0.238  Sum_probs=25.7

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      +..|.-+++.+|+|+|||..+...+......+   .+++++..
T Consensus        20 i~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~---~~v~~~~~   59 (235)
T 2w0m_A           20 IPQGFFIALTGEPGTGKTIFSLHFIAKGLRDG---DPCIYVTT   59 (235)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHHHHHHHT---CCEEEEES
T ss_pred             CcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCC---CeEEEEEc
Confidence            34577889999999999976555443333222   23666553

>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=95.17  E-value=0.066  Score=46.10  Aligned_cols=19  Identities=21%  Similarity=0.398  Sum_probs=15.7

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+.+++.||+|+|||..+-
T Consensus        84 ~~~iLL~GppGtGKT~la~  102 (355)
T 2qp9_X           84 TSGILLYGPPGTGKSYLAK  102 (355)
T ss_dssp             CCCEEEECSTTSCHHHHHH
T ss_pred             CceEEEECCCCCcHHHHHH
Confidence            4679999999999996544

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=95.15  E-value=0.086  Score=46.02  Aligned_cols=19  Identities=26%  Similarity=0.464  Sum_probs=15.9

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+++++.||+|+|||..+-
T Consensus       148 ~~~vLL~GppGtGKT~la~  166 (389)
T 3vfd_A          148 ARGLLLFGPPGNGKTMLAK  166 (389)
T ss_dssp             CSEEEEESSTTSCHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHH
Confidence            4789999999999996443

>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=95.03  E-value=0.052  Score=47.68  Aligned_cols=20  Identities=25%  Similarity=0.438  Sum_probs=15.1

Q ss_pred             CCcEEE--EcCCCCchhhHhHH
Q 018574           70 GRDVIA--QAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii--~~~tGsGKT~~~~~   89 (354)
                      +..+++  .||+|+|||...-.
T Consensus        50 ~~~~li~i~G~~G~GKT~L~~~   71 (412)
T 1w5s_A           50 DVNMIYGSIGRVGIGKTTLAKF   71 (412)
T ss_dssp             CEEEEEECTTCCSSSHHHHHHH
T ss_pred             CCEEEEeCcCcCCCCHHHHHHH
Confidence            346788  89999999965443

>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=94.83  E-value=0.032  Score=53.16  Aligned_cols=52  Identities=15%  Similarity=0.252  Sum_probs=33.5

Q ss_pred             cccCcccCCCCHHHHHHHHHCCC-CCChHHHHHhHhh--hhcCCcEEEEcCCCCchhh
Q 018574           31 AITSFDAMGIKDDLLRGIYQYGF-EKPSAIQQRAVMP--IIKGRDVIAQAQSGTGKTS   85 (354)
Q Consensus        31 ~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~Q~~~~~~--~~~~~~~ii~~~tGsGKT~   85 (354)
                      +..+|++.+--++..+.+++.-. ...++   +.+..  +...+.+++.+|+|+|||.
T Consensus       472 p~v~w~diggl~~~k~~l~e~v~~p~~~p---~~f~~~g~~~~~gvLl~GPPGtGKT~  526 (806)
T 3cf2_A          472 PQVTWEDIGGLEDVKRELQELVQYPVEHP---DKFLKFGMTPSKGVLFYGPPGCGKTL  526 (806)
T ss_dssp             CCCCSTTCCSCHHHHHHHTTTTTTTTTCS---GGGSSSCCCCCSCCEEESSTTSSHHH
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHhhhhCH---HHHHhcCCCCCceEEEecCCCCCchH
Confidence            34678998888888888877422 11111   11111  1235689999999999994

>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=94.79  E-value=0.021  Score=48.25  Aligned_cols=17  Identities=29%  Similarity=0.470  Sum_probs=14.4

Q ss_pred             cEEEEcCCCCchhhHhH
Q 018574           72 DVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~   88 (354)
                      ++++.||+|+|||..+-
T Consensus        40 ~~ll~G~~G~GKt~la~   56 (319)
T 2chq_A           40 HLLFSGPPGTGKTATAI   56 (319)
T ss_dssp             CEEEESSSSSSHHHHHH
T ss_pred             eEEEECcCCcCHHHHHH
Confidence            59999999999996444

>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=94.77  E-value=0.086  Score=47.97  Aligned_cols=41  Identities=20%  Similarity=0.210  Sum_probs=26.6

Q ss_pred             CCccEEEEecchhhhccC--cHHHHHHHHhhCCCCCcEEEEEeeC
Q 018574          174 RAIKLLVLDESDEMLSRG--FKDQIYDVYRYLPPDLQVVLISATL  216 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~--~~~~~~~i~~~~~~~~~~i~lSaT~  216 (354)
                      ....+|++||+|.+....  ....+..++..  ...++++++++.
T Consensus       147 ~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iIli~~~~  189 (516)
T 1sxj_A          147 GKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLILICNER  189 (516)
T ss_dssp             TTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEEEESCT
T ss_pred             CCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEEEEEcCC
Confidence            345789999999986532  23455555554  345577777764

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=94.75  E-value=0.055  Score=46.02  Aligned_cols=52  Identities=25%  Similarity=0.207  Sum_probs=32.7

Q ss_pred             hhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHH
Q 018574           66 PIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVI  121 (354)
Q Consensus        66 ~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~  121 (354)
                      -+..|.-+++.|++|+|||..++-.+.....   .+.+++|+..- .-..|+..++
T Consensus        42 Gl~~G~LiiIaG~pG~GKTt~al~ia~~~a~---~g~~Vl~fSlE-ms~~ql~~Rl   93 (338)
T 4a1f_A           42 GFNKGSLVIIGARPSMGKTSLMMNMVLSALN---DDRGVAVFSLE-MSAEQLALRA   93 (338)
T ss_dssp             SBCTTCEEEEEECTTSCHHHHHHHHHHHHHH---TTCEEEEEESS-SCHHHHHHHH
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHH---cCCeEEEEeCC-CCHHHHHHHH
Confidence            3455778999999999999766655555444   23457777642 2234444443

>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP: b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19 d.315.1.1

Probab=94.75  E-value=0.12  Score=51.75  Aligned_cols=76  Identities=16%  Similarity=0.234  Sum_probs=64.2

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhc----CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEc-cccccCCCcCCCcEEE
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRG----YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT-DVWARGLDVQQAILFF  345 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~----~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T-~~~~~Gidi~~~~~Vi  345 (354)
                      .+.+++|.+++...+.+.++.+++    .++.+..+++..+..++...++.+..|+.+|+|+| ..+...+.+.++++||
T Consensus       651 ~g~~vlvlvPt~~La~Q~~~~~~~~~~~~~i~v~~l~~~~~~~~~~~~~~~l~~g~~dIvV~T~~ll~~~~~~~~l~lvI  730 (1151)
T 2eyq_A          651 NHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLI  730 (1151)
T ss_dssp             TTCEEEEECSSHHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHHHHHHHHHHTTCCSEEEECTHHHHSCCCCSSEEEEE
T ss_pred             hCCeEEEEechHHHHHHHHHHHHHHhhcCCCeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHhCCccccccceEE
Confidence            456899999999999988888764    36788999999999999999999999999999999 4666678888888776


Q ss_pred             e
Q 018574          346 F  346 (354)
Q Consensus       346 ~  346 (354)
                      .
T Consensus       731 i  731 (1151)
T 2eyq_A          731 V  731 (1151)
T ss_dssp             E
T ss_pred             E
Confidence            4

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=94.43  E-value=0.29  Score=39.59  Aligned_cols=72  Identities=10%  Similarity=0.225  Sum_probs=53.2

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc------ccCCCcC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW------ARGLDVQ  339 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~------~~Gidi~  339 (354)
                      ...+++|.+++++.+.++++.+++.    ++.+..++|+.+.......+    .+..+|+|+|. .+      ..++++.
T Consensus       110 ~~~~~lil~Ptr~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~----~~~~~I~v~Tp~~l~~~l~~~~~~~l~  185 (249)
T 3ber_A          110 QRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLAL----AKKPHIIIATPGRLIDHLENTKGFNLR  185 (249)
T ss_dssp             CSSCEEEECSSHHHHHHHHHHHHHHHGGGTCCEEEECTTSCHHHHHHHH----HTCCSEEEECHHHHHHHHHHSTTCCCT
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHHHhccCCeeEEEEECCCChHHHHHHh----cCCCCEEEECHHHHHHHHHcCCCcCcc
Confidence            3457999999999999998887654    78888999988765544333    25789999995 21      2457788


Q ss_pred             CCcEEEe
Q 018574          340 QAILFFF  346 (354)
Q Consensus       340 ~~~~Vi~  346 (354)
                      ++++||.
T Consensus       186 ~~~~lVi  192 (249)
T 3ber_A          186 ALKYLVM  192 (249)
T ss_dssp             TCCEEEE
T ss_pred             ccCEEEE
Confidence            8887764

>4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A

Probab=94.38  E-value=0.087  Score=52.48  Aligned_cols=76  Identities=12%  Similarity=0.194  Sum_probs=62.6

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhc---CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cccc---CCCcCCCcE
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRG---YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWAR---GLDVQQAIL  343 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~---~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~~---Gidi~~~~~  343 (354)
                      .+.++||.+++++.+.++++.+++   .++.+..++|+.+..++....+.+..|+.+|+|+|+ .+..   -++..++++
T Consensus       120 ~~~~~Lil~PtreLa~Q~~~~l~~l~~~~i~v~~l~Gg~~~~er~~~~~~l~~g~~~IlV~Tp~rL~~~l~~l~~~~l~~  199 (1104)
T 4ddu_A          120 KGKKSALVFPTVTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSKNREKLSQKRFDF  199 (1104)
T ss_dssp             TTCCEEEEESSHHHHHHHHHHHHTTSCTTSCEEEECTTCCTTHHHHHHHHHHTSCCSEEEEEHHHHHHSHHHHHTSCCSE
T ss_pred             cCCeEEEEechHHHHHHHHHHHHHhhCCCCeEEEEeCCCCHHHHHHHHHHHhCCCCCEEEECHHHHHHHHHhhcccCcCE
Confidence            456899999999999999999998   467899999999988888888999999999999995 2211   145567777


Q ss_pred             EEe
Q 018574          344 FFF  346 (354)
Q Consensus       344 Vi~  346 (354)
                      ||.
T Consensus       200 lVi  202 (1104)
T 4ddu_A          200 VFV  202 (1104)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            765

>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=94.23  E-value=0.22  Score=42.89  Aligned_cols=37  Identities=14%  Similarity=0.275  Sum_probs=21.5

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL  211 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~  211 (354)
                      ....+||+||+|.+.... ...+...+...+.+..+++
T Consensus       118 ~~~~vliiDe~~~l~~~~-~~~Ll~~le~~~~~~~~Il  154 (373)
T 1jr3_A          118 GRFKVYLIDEVHMLSRHS-FNALLKTLEEPPEHVKFLL  154 (373)
T ss_dssp             SSSEEEEEECGGGSCHHH-HHHHHHHHHSCCSSEEEEE
T ss_pred             CCeEEEEEECcchhcHHH-HHHHHHHHhcCCCceEEEE
Confidence            346799999999984332 3444455554433433333

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=94.20  E-value=0.2  Score=44.61  Aligned_cols=41  Identities=22%  Similarity=0.106  Sum_probs=27.7

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      +..|.-+++.|++|+|||..++..+.......  +.+++|+..
T Consensus       197 l~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~--g~~vl~~sl  237 (444)
T 2q6t_A          197 LGPGSLNIIAARPAMGKTAFALTIAQNAALKE--GVGVGIYSL  237 (444)
T ss_dssp             CCTTCEEEEEECTTSCHHHHHHHHHHHHHHTT--CCCEEEEES
T ss_pred             cCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhC--CCeEEEEEC
Confidence            34467789999999999976666555544322  234777664

>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=94.20  E-value=0.27  Score=39.42  Aligned_cols=27  Identities=22%  Similarity=0.120  Sum_probs=20.8

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhh
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQ   93 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~   93 (354)
                      +..|.-+.+.+|+|+|||..+...+..
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            334678899999999999776665554

>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=94.02  E-value=0.049  Score=46.69  Aligned_cols=41  Identities=22%  Similarity=0.275  Sum_probs=27.5

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTREL  113 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l  113 (354)
                      |.-+.|.+|+|+|||...+..+......+   .+++|+.....+
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~~~g---g~VlyId~E~s~  101 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQKMG---GVAAFIDAEHAL  101 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHHHTT---CCEEEEESSCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhcC---CeEEEEeccccc
Confidence            56789999999999976665554443322   347787765443

>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=94.00  E-value=0.072  Score=45.93  Aligned_cols=40  Identities=18%  Similarity=0.218  Sum_probs=27.5

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      .|+-++|.+++|+|||..++..+......+   .+++|+..-.
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~~~g---~~vlyi~~E~  112 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQKAG---GTCAFIDAEH  112 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTT---CCEEEEESSC
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHHHCC---CeEEEEECCC
Confidence            356789999999999977666655544332   3477776543

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=93.98  E-value=0.34  Score=38.22  Aligned_cols=71  Identities=13%  Similarity=0.367  Sum_probs=53.0

Q ss_pred             CcEEEEcCchhhHHHHHHHHhcC-----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc-----ccCCCcCCC
Q 018574          273 TQAVIFCNTKRKVDWLTEKMRGY-----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW-----ARGLDVQQA  341 (354)
Q Consensus       273 ~~~lvf~~~~~~~~~l~~~l~~~-----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~-----~~Gidi~~~  341 (354)
                      .+++|.+++++.+.++++.+++.     +..+..++|+.+......   .+.++..+|+|+|. .+     ...+++.++
T Consensus        83 ~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~---~~~~~~~~i~v~T~~~l~~~~~~~~~~~~~~  159 (220)
T 1t6n_A           83 VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEE---VLKKNCPHIVVGTPGRILALARNKSLNLKHI  159 (220)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHHTTTSTTCCEEEESCCSCHHHHHH---HHHHSCCSEEEECHHHHHHHHHTTSSCCTTC
T ss_pred             EEEEEEeCCHHHHHHHHHHHHHHHhhCCCceEEEEeCCCChHHHHH---HHhcCCCCEEEeCHHHHHHHHHhCCCCcccC
Confidence            48999999999999998887654     678889999887655443   34457789999995 22     234667788


Q ss_pred             cEEEe
Q 018574          342 ILFFF  346 (354)
Q Consensus       342 ~~Vi~  346 (354)
                      ++||.
T Consensus       160 ~~lVi  164 (220)
T 1t6n_A          160 KHFIL  164 (220)
T ss_dssp             CEEEE
T ss_pred             CEEEE
Confidence            87764

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=93.94  E-value=0.24  Score=44.17  Aligned_cols=41  Identities=17%  Similarity=0.194  Sum_probs=27.9

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      +..|.-+++.|++|+|||..++..+.......  +.+++|+..
T Consensus       200 l~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~--g~~Vl~~s~  240 (454)
T 2r6a_A          200 FQRSDLIIVAARPSVGKTAFALNIAQNVATKT--NENVAIFSL  240 (454)
T ss_dssp             BCTTCEEEEECCTTSCHHHHHHHHHHHHHHHS--SCCEEEEES
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHHHHhC--CCcEEEEEC
Confidence            44567899999999999976666555544322  234777764

>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=93.69  E-value=0.031  Score=47.99  Aligned_cols=40  Identities=18%  Similarity=0.243  Sum_probs=27.9

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      .|+-+++.+|+|+|||..++..+......+   .+++|+.-..
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~~g---~~vlyi~~E~   99 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQAAG---GIAAFIDAEH   99 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTT---CCEEEEESSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCC---CeEEEEECCC
Confidence            467789999999999987666665544332   3477776543

>2l8b_A Protein TRAI, DNA helicase I; RECD, hydrolase; NMR {Escherichia coli}

Probab=93.45  E-value=0.089  Score=39.92  Aligned_cols=122  Identities=11%  Similarity=0.085  Sum_probs=72.1

Q ss_pred             ChHHHHHhHhhhhc--CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEE
Q 018574           56 PSAIQQRAVMPIIK--GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAH  133 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~--~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~  133 (354)
                      ..+-|..++..++.  .+-.++.++-|++|+...+.-++.....  .|.++.+++|+..-.....+...       ..  
T Consensus        35 ~~~~~~~a~~~l~~s~~~~~iv~g~ggs~~~~~~~a~L~~~a~~--~Gr~V~vLAp~~~s~~~l~~~~~-------l~--  103 (189)
T 2l8b_A           35 RTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMARE--QGREVQIIAADRRSQMNMKQDER-------LS--  103 (189)
T ss_dssp             CHHHHHHHHHHHHHHSCCEECCBCSSCSHHHHHHHHHHHHHHHH--TTCCEEEECSTTHHHHHHSCTTT-------CS--
T ss_pred             cCccchhHHHHHhccCCceEEEecccchHHHHHHHHHHHHHHHh--cCeEEEEEcCchHHHHHHHhhcC-------cC--
Confidence            34668888888765  3467889999999998755544443332  35579999999776654433221       10  


Q ss_pred             EEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                                        ..++  |-    ..+......+..-+.+||||+..+........+..-..   .+.|++++-
T Consensus       104 ------------------~~t~--t~----~~ll~~~~~~tp~s~lIVD~AekLS~kE~~~Lld~A~~---~naqvvll~  156 (189)
T 2l8b_A          104 ------------------GELI--TG----RRQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAAR---HNVQVLITD  156 (189)
T ss_dssp             ------------------SCSS--ST----TTTTTTSCCCCCCCEEEEEESSSHHHHHHHHHHHHHHH---TTCCEEEEE
T ss_pred             ------------------ccee--eh----hhhhcCCCCCCCCCEEEEechhhcCHHHHHHHHHHHHh---cCCEEEEeC
Confidence                              0110  11    11222333334556999999999854443333333322   567888876


Q ss_pred             ee
Q 018574          214 AT  215 (354)
Q Consensus       214 aT  215 (354)
                      -+
T Consensus       157 ~~  158 (189)
T 2l8b_A          157 SG  158 (189)
T ss_dssp             SS
T ss_pred             Cc
Confidence            66

>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=93.38  E-value=0.11  Score=49.46  Aligned_cols=41  Identities=22%  Similarity=0.365  Sum_probs=25.0

Q ss_pred             CccEEEEecchhhhcc------C----cHHHHHHHHhhCCCCCcEEEEEee
Q 018574          175 AIKLLVLDESDEMLSR------G----FKDQIYDVYRYLPPDLQVVLISAT  215 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~------~----~~~~~~~i~~~~~~~~~~i~lSaT  215 (354)
                      ...+|++||+|.+...      .    ....+...+..+....+++++.||
T Consensus       297 ~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaT  347 (806)
T 3cf2_A          297 APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAAT  347 (806)
T ss_dssp             CSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEEC
T ss_pred             CCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEec
Confidence            3578999999998532      1    112233334444455667888887

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*

Probab=93.37  E-value=0.29  Score=38.97  Aligned_cols=71  Identities=13%  Similarity=0.163  Sum_probs=51.8

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC-----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc-----ccCCCcC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY-----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW-----ARGLDVQ  339 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~-----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~-----~~Gidi~  339 (354)
                      ...+++|.+++++.+.++++.+++.     ++++..++|+.+..++...+     .+.+|+|+|. .+     ...+++.
T Consensus        91 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-----~~~~Iiv~Tp~~l~~~~~~~~~~~~  165 (230)
T 2oxc_A           91 LSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRL-----KKCHIAVGSPGRIKQLIELDYLNPG  165 (230)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTSTTCCEEEECTTSCHHHHHHHT-----TSCSEEEECHHHHHHHHHTTSSCGG
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHHHhcccCCceEEEEeCCCCHHHHHHhc-----cCCCEEEECHHHHHHHHhcCCcccc
Confidence            3468999999999999999988764     67788899988765544332     3689999995 22     2345667


Q ss_pred             CCcEEEe
Q 018574          340 QAILFFF  346 (354)
Q Consensus       340 ~~~~Vi~  346 (354)
                      ++++||.
T Consensus       166 ~~~~lVi  172 (230)
T 2oxc_A          166 SIRLFIL  172 (230)
T ss_dssp             GCCEEEE
T ss_pred             cCCEEEe
Confidence            7777664

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=93.28  E-value=0.1  Score=54.56  Aligned_cols=42  Identities=17%  Similarity=0.223  Sum_probs=30.8

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTREL  113 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l  113 (354)
                      .++.+++.+|+|+|||..+...+.+....   +.+++++.....+
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~~~---G~~v~Fi~~e~~~ 1467 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQRE---GKTCAFIDAEHAL 1467 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTT---TCCEEEECTTSCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc---CCcEEEEEccccc
Confidence            36789999999999998877776665543   3457887765443

>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=93.16  E-value=0.046  Score=47.00  Aligned_cols=40  Identities=15%  Similarity=0.211  Sum_probs=28.3

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      .|+-+++.+++|+|||..++..+......+   .+++|+....
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~~g---~~vlyid~E~  101 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQREG---KTCAFIDAEH  101 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTT---CCEEEEESSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCC---CeEEEEeCCC
Confidence            456789999999999987776665554333   3477777643

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=92.61  E-value=0.57  Score=37.59  Aligned_cols=71  Identities=8%  Similarity=0.171  Sum_probs=52.5

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-----cc-ccCCCcCCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-----VW-ARGLDVQQA  341 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----~~-~~Gidi~~~  341 (354)
                      +.+++|.+++++.+.++++.+++.    ++.+..++|+.+.......++    ...+|+|+|+     .+ ...+++.++
T Consensus       102 ~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~I~v~Tp~~l~~~l~~~~~~~~~~  177 (242)
T 3fe2_A          102 GPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLE----RGVEICIATPGRLIDFLECGKTNLRRT  177 (242)
T ss_dssp             CCSEEEECSSHHHHHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHH----HCCSEEEECHHHHHHHHHHTSCCCTTC
T ss_pred             CCEEEEEeCcHHHHHHHHHHHHHHHhhcCceEEEEECCCChHHHHHHhc----CCCCEEEECHHHHHHHHHcCCCCcccc
Confidence            457999999999999988877653    788999999988666554443    2588999995     11 124577788


Q ss_pred             cEEEe
Q 018574          342 ILFFF  346 (354)
Q Consensus       342 ~~Vi~  346 (354)
                      ++||.
T Consensus       178 ~~lVi  182 (242)
T 3fe2_A          178 TYLVL  182 (242)
T ss_dssp             CEEEE
T ss_pred             cEEEE
Confidence            87764

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=92.53  E-value=0.57  Score=39.02  Aligned_cols=24  Identities=21%  Similarity=0.093  Sum_probs=17.3

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhh
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQ   93 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~   93 (354)
                      ++.+.+.+++|+|||+.....+..
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~  121 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALY  121 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            455778899999999766554443

>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=92.36  E-value=0.095  Score=43.89  Aligned_cols=43  Identities=12%  Similarity=0.042  Sum_probs=30.3

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHH
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT  115 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~  115 (354)
                      .+.+.+|+|+|||...+..+....... .+.+++|+..-.++..
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g-~g~~vlyId~E~s~~~   72 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQY-PDAVCLFYDSEFGITP   72 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHC-TTCEEEEEESSCCCCH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcC-CCceEEEEeccchhhH
Confidence            579999999999987777766555331 2346888887655543

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=92.20  E-value=0.16  Score=39.97  Aligned_cols=37  Identities=22%  Similarity=0.176  Sum_probs=29.0

Q ss_pred             CCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHH
Q 018574           53 FEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        53 ~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      +..-+..|..++..+..|..+.+.+|.|+|||+.+-.
T Consensus         5 i~pk~~g~~~~l~~i~~Ge~~~liG~nGsGKSTLl~~   41 (208)
T 3b85_A            5 IRPKTLGQKHYVDAIDTNTIVFGLGPAGSGKTYLAMA   41 (208)
T ss_dssp             CCCCSHHHHHHHHHHHHCSEEEEECCTTSSTTHHHHH
T ss_pred             cccCCHhHHHHHHhccCCCEEEEECCCCCCHHHHHHH
Confidence            3344556778888888899999999999999975443

>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix, helix-turn-helix, ATP binding, Zn(2+) binding, hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43 c.37.1.19 c.37.1.19 PDB: 1oyy_A*

Probab=92.04  E-value=0.37  Score=43.82  Aligned_cols=59  Identities=10%  Similarity=0.182  Sum_probs=54.7

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD  330 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~  330 (354)
                      .+++||.++++..+.+....|++.++.+..++++.+..++....+.+..|..+|+++|+
T Consensus        65 ~g~~lvi~P~~aL~~q~~~~l~~~gi~~~~l~~~~~~~~~~~~~~~~~~~~~~ilv~Tp  123 (523)
T 1oyw_A           65 NGLTVVVSPLISLMKDQVDQLQANGVAAACLNSTQTREQQLEVMTGCRTGQIRLLYIAP  123 (523)
T ss_dssp             SSEEEEECSCHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHHTCCSEEEECH
T ss_pred             CCCEEEECChHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECH
Confidence            37899999999999999999999999999999999988888888889999999999995

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=91.94  E-value=0.45  Score=37.76  Aligned_cols=72  Identities=7%  Similarity=0.113  Sum_probs=48.2

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC---CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-c-----cccCCCcCCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY---NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-V-----WARGLDVQQA  341 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~---~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~-----~~~Gidi~~~  341 (354)
                      .+.+++|.+++++.+.++++.+++.   +..+..++|+.+...+...   +. ...+|+|+|. .     ....+++.++
T Consensus        93 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~iiv~Tp~~l~~~~~~~~~~~~~~  168 (228)
T 3iuy_A           93 NGPGMLVLTPTRELALHVEAECSKYSYKGLKSICIYGGRNRNGQIED---IS-KGVDIIIATPGRLNDLQMNNSVNLRSI  168 (228)
T ss_dssp             CCCSEEEECSSHHHHHHHHHHHHHHCCTTCCEEEECC------CHHH---HH-SCCSEEEECHHHHHHHHHTTCCCCTTC
T ss_pred             CCCcEEEEeCCHHHHHHHHHHHHHhcccCceEEEEECCCChHHHHHH---hc-CCCCEEEECHHHHHHHHHcCCcCcccc
Confidence            3467999999999999999988764   6778888887664443332   22 4589999995 1     2235677888


Q ss_pred             cEEEe
Q 018574          342 ILFFF  346 (354)
Q Consensus       342 ~~Vi~  346 (354)
                      ++||.
T Consensus       169 ~~lVi  173 (228)
T 3iuy_A          169 TYLVI  173 (228)
T ss_dssp             CEEEE
T ss_pred             eEEEE
Confidence            87764

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.90  E-value=0.039  Score=48.69  Aligned_cols=54  Identities=24%  Similarity=0.377  Sum_probs=32.7

Q ss_pred             cccCcccCCCCHHHHHHHHHCC---CCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHh
Q 018574           31 AITSFDAMGIKDDLLRGIYQYG---FEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        31 ~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~   87 (354)
                      +..+|++.+=-+..++.+.+.=   +..|..++..-   +...+.+++.||+|+|||..+
T Consensus       176 p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g---~~~prGvLL~GPPGtGKTllA  232 (437)
T 4b4t_L          176 GEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVG---IKPPKGVLLYGPPGTGKTLLA  232 (437)
T ss_dssp             CSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHC---CCCCCEEEEESCTTSSHHHHH
T ss_pred             CCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCC---CCCCCeEEEECCCCCcHHHHH
Confidence            3467888875666666665531   11222222221   223578999999999999543

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*

Probab=91.71  E-value=0.49  Score=37.89  Aligned_cols=73  Identities=15%  Similarity=0.222  Sum_probs=45.2

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-----ccc-cCCCcCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-----VWA-RGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----~~~-~Gidi~~  340 (354)
                      ...+++|.+++++.+.++++.+++.    +..+..++|+.+..   ...+.+..+..+|+|+|.     .+. ..+++.+
T Consensus        97 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~---~~~~~l~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~  173 (237)
T 3bor_A           97 KETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVR---NEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKW  173 (237)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECC----------------CCCSEEEECHHHHHHHHHTTSSCSTT
T ss_pred             CCceEEEEECcHHHHHHHHHHHHHHhhhcCceEEEEECCCchH---HHHHHHhcCCCCEEEECHHHHHHHHHhCCcCccc
Confidence            3468999999999999999988754    56677777765432   223445567789999994     222 3466777


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       174 ~~~lVi  179 (237)
T 3bor_A          174 IKMFVL  179 (237)
T ss_dssp             CCEEEE
T ss_pred             CcEEEE
Confidence            877764

>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch repair, nucleotide-binding, DNA-binding, polymorphism, nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens} PDB: 2wwy_A*

Probab=91.43  E-value=0.65  Score=42.95  Aligned_cols=59  Identities=5%  Similarity=0.141  Sum_probs=53.8

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHH--hCCCCcEEEEcc
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEF--RSGTTRVLITTD  330 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f--~~g~~~vlv~T~  330 (354)
                      .+.+||.++++..+.+....|++.++.+..++|+.+..++..+.+.+  ..+..+|+++|+
T Consensus        84 ~g~~lVisP~~~L~~q~~~~l~~~gi~~~~l~~~~~~~~~~~~~~~l~~~~~~~~Ilv~Tp  144 (591)
T 2v1x_A           84 DGFTLVICPLISLMEDQLMVLKQLGISATMLNASSSKEHVKWVHAEMVNKNSELKLIYVTP  144 (591)
T ss_dssp             SSEEEEECSCHHHHHHHHHHHHHHTCCEEECCSSCCHHHHHHHHHHHHCTTCCCCEEEECH
T ss_pred             CCcEEEEeCHHHHHHHHHHHHHhcCCcEEEEeCCCCHHHHHHHHHHhhcccCCCCEEEECh
Confidence            47899999999999999999999999999999999999888888887  568899999996

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A

Probab=91.42  E-value=0.95  Score=39.10  Aligned_cols=72  Identities=13%  Similarity=0.376  Sum_probs=53.9

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC-----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc-----ccCCCcCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY-----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW-----ARGLDVQQ  340 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~-----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~-----~~Gidi~~  340 (354)
                      ..++||.|+++..+.++++.+++.     +..+..++|+.+.......   +..+..+|+|+|. .+     ...+++.+
T Consensus        76 ~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~~~~iiv~T~~~l~~~~~~~~~~~~~  152 (391)
T 1xti_A           76 QVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEV---LKKNCPHIVVGTPGRILALARNKSLNLKH  152 (391)
T ss_dssp             CCCEEEECSCHHHHHHHHHHHHHHTTTCTTCCEEEECTTSCHHHHHHH---HHHSCCSEEEECHHHHHHHHHTTSSCCTT
T ss_pred             CeeEEEECCCHHHHHHHHHHHHHHHhhCCCeEEEEEeCCCCHHHHHHH---HhcCCCCEEEECHHHHHHHHHcCCccccc
Confidence            358999999999999988888764     6889999999876554443   4457789999995 22     23456777


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       153 ~~~vVi  158 (391)
T 1xti_A          153 IKHFIL  158 (391)
T ss_dssp             CSEEEE
T ss_pred             cCEEEE
Confidence            877764

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=91.36  E-value=0.58  Score=42.31  Aligned_cols=48  Identities=13%  Similarity=0.119  Sum_probs=28.8

Q ss_pred             HHHHHHCCCCCChHHHHHhHh-hhhcCCcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           45 LRGIYQYGFEKPSAIQQRAVM-PIIKGRDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        45 ~~~l~~~~~~~~~~~Q~~~~~-~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      ...+.+.|.  +.+.+...+. .+..|..+++.||||||||+..- .++..+
T Consensus       236 ~~~l~~~G~--~~~~~l~~l~~~v~~g~~i~I~GptGSGKTTlL~-aL~~~i  284 (511)
T 2oap_1          236 PIDLIEKGT--VPSGVLAYLWLAIEHKFSAIVVGETASGKTTTLN-AIMMFI  284 (511)
T ss_dssp             HHHHHHTTS--SCHHHHHHHHHHHHTTCCEEEEESTTSSHHHHHH-HHGGGS
T ss_pred             hhhHHhcCC--CCHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHH-HHHhhC
Confidence            344555553  2333333333 34568889999999999996443 334443

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=91.32  E-value=1.1  Score=34.77  Aligned_cols=71  Identities=14%  Similarity=0.130  Sum_probs=49.7

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC-----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-c----ccc-CCCcCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY-----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-V----WAR-GLDVQQ  340 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~-----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~----~~~-Gidi~~  340 (354)
                      ..+++|.++++..+.++++.+++.     +..+..++|+.+..+...   .+ .+..+|+|+|. .    +.. .+++.+
T Consensus        71 ~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~-~~~~~i~v~T~~~l~~~~~~~~~~~~~  146 (206)
T 1vec_A           71 NIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIM---RL-DDTVHVVIATPGRILDLIKKGVAKVDH  146 (206)
T ss_dssp             SCCEEEECSCHHHHHHHHHHHHHHTTTSSSCCEEEECSSSCHHHHHH---HT-TSCCSEEEECHHHHHHHHHTTCSCCTT
T ss_pred             CeeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEeCCccHHHHHH---hc-CCCCCEEEeCHHHHHHHHHcCCcCccc
Confidence            357999999999999988887653     567888888876544332   22 35789999995 2    222 346677


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       147 ~~~lVi  152 (206)
T 1vec_A          147 VQMIVL  152 (206)
T ss_dssp             CCEEEE
T ss_pred             CCEEEE
Confidence            777664

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=91.24  E-value=0.2  Score=42.16  Aligned_cols=25  Identities=16%  Similarity=0.279  Sum_probs=19.1

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      ++++++.||+|+|||..+...+...
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999997655444433

>1w36_B RECB, exodeoxyribonuclease V beta chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.24 PDB: 3k70_B*

Probab=91.23  E-value=0.34  Score=48.86  Aligned_cols=54  Identities=20%  Similarity=0.143  Sum_probs=42.8

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccC---------CCceeEEEEcCCHHHHHHHHHHHHHh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTS---------SREVQALILSPTRELATQTEKVILAI  124 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~---------~~~~~~lil~p~~~l~~q~~~~~~~~  124 (354)
                      ...+|.|+.|||||.+....++..+...         -.-.++|+|+=|++-+.++.+++...
T Consensus        17 g~~lV~AsAGSGKT~~L~~r~lrLll~~g~~~~~~~~~~~~~ILvvTFT~aAA~EMr~RI~~~   79 (1180)
T 1w36_B           17 GERLIEASAGTGKTFTIAALYLRLLLGLGGSAAFPRPLTVEELLVVTFTEAATAELRGRIRSN   79 (1180)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHHHHTTCSSSSSCSSCCCGGGEEEEESCHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCHHHHHHHHHHHHHhcCCcccccCCCCCHHHEEEEeccHHHHHHHHHHHHHH
Confidence            3459999999999998888888877532         12347999999999998888887653

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=90.99  E-value=0.19  Score=48.14  Aligned_cols=17  Identities=29%  Similarity=0.452  Sum_probs=14.4

Q ss_pred             cEEEEcCCCCchhhHhH
Q 018574           72 DVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~   88 (354)
                      ++++.||||+|||..+-
T Consensus       523 ~~Ll~Gp~GtGKT~lA~  539 (758)
T 3pxi_A          523 SFIFLGPTGVGKTELAR  539 (758)
T ss_dssp             EEEEESCTTSSHHHHHH
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            49999999999996544

>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=90.54  E-value=0.55  Score=45.62  Aligned_cols=20  Identities=20%  Similarity=0.391  Sum_probs=15.8

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      .+++++.||+|+|||..+-.
T Consensus       191 ~~~vlL~G~pG~GKT~la~~  210 (854)
T 1qvr_A          191 KNNPVLIGEPGVGKTAIVEG  210 (854)
T ss_dssp             CCCCEEEECTTSCHHHHHHH
T ss_pred             CCceEEEcCCCCCHHHHHHH
Confidence            35799999999999964443

>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase; 1.95A {Bacillus subtilis}

Probab=90.30  E-value=1.3  Score=32.97  Aligned_cols=72  Identities=13%  Similarity=0.187  Sum_probs=50.5

Q ss_pred             eeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHHhcCCccCCCcc
Q 018574          102 VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIK  177 (354)
Q Consensus       102 ~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~  177 (354)
                      .++||.++++..+..+++.+...    ++.+..++++.+..+...   .+. ....|+|+|.     . -...++....+
T Consensus        36 ~~~lVF~~~~~~~~~l~~~L~~~----~~~~~~~hg~~~~~~r~~~~~~f~~g~~~vlv~T~-----~-~~~Gld~~~~~  105 (163)
T 2hjv_A           36 DSCIIFCRTKEHVNQLTDELDDL----GYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATD-----V-AARGIDIENIS  105 (163)
T ss_dssp             SSEEEECSSHHHHHHHHHHHHHT----TCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEECG-----G-GTTTCCCSCCS
T ss_pred             CcEEEEECCHHHHHHHHHHHHHc----CCcEEEEeCCCCHHHHHHHHHHHHcCCCeEEEECC-----h-hhcCCchhcCC
Confidence            46999999999999999988775    477888888866544332   233 3478999993     1 22455666777


Q ss_pred             EEEEec
Q 018574          178 LLVLDE  183 (354)
Q Consensus       178 ~vvvDE  183 (354)
                      +||.-+
T Consensus       106 ~Vi~~~  111 (163)
T 2hjv_A          106 LVINYD  111 (163)
T ss_dssp             EEEESS
T ss_pred             EEEEeC
Confidence            777644

>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=90.26  E-value=0.37  Score=36.71  Aligned_cols=46  Identities=13%  Similarity=0.182  Sum_probs=25.5

Q ss_pred             EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      ++|.+++|||||..+...+..       +.+++|+......-..+.+++....
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-------~~~~~yiaT~~~~d~e~~~rI~~h~   47 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-------APQVLYIATSQILDDEMAARIQHHK   47 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-------CSSEEEEECCCC------CHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHhc-------CCCeEEEecCCCCCHHHHHHHHHHH
Confidence            689999999999644433221       2347888876554455555554443

>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural genomics, structural consortium, SGC, alternative initiation, ATP-binding, devel protein; 2.80A {Homo sapiens}

Probab=90.25  E-value=1.7  Score=32.66  Aligned_cols=73  Identities=16%  Similarity=0.134  Sum_probs=51.0

Q ss_pred             CceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHHhcCCccCCC
Q 018574          100 REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMIKRKTLRTRA  175 (354)
Q Consensus       100 ~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~  175 (354)
                      .+.++||.|+++..+..+++.+...    ++.+..++++.+..+...   .+. ....|+|+|.      .-...++...
T Consensus        33 ~~~~~lVF~~~~~~~~~l~~~L~~~----~~~~~~~~g~~~~~~R~~~~~~f~~g~~~vLvaT~------~~~~Gid~~~  102 (175)
T 2rb4_A           33 TIGQAIIFCQTRRNAKWLTVEMIQD----GHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTN------VCARGIDVKQ  102 (175)
T ss_dssp             CCSEEEEECSCHHHHHHHHHHHHTT----TCCEEEECSSCCHHHHHHHHHHHHTTSCSEEEECC------SCCTTTCCTT
T ss_pred             CCCCEEEEECCHHHHHHHHHHHHHc----CCcEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEec------chhcCCCccc
Confidence            3457999999999999998888764    477888888876554432   233 3478999994      1234566667


Q ss_pred             ccEEEEe
Q 018574          176 IKLLVLD  182 (354)
Q Consensus       176 ~~~vvvD  182 (354)
                      .++||.-
T Consensus       103 ~~~Vi~~  109 (175)
T 2rb4_A          103 VTIVVNF  109 (175)
T ss_dssp             EEEEEES
T ss_pred             CCEEEEe
Confidence            7887743

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=90.17  E-value=1.7  Score=35.38  Aligned_cols=71  Identities=10%  Similarity=0.082  Sum_probs=51.0

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-----cc--ccCCCcCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-----VW--ARGLDVQQ  340 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----~~--~~Gidi~~  340 (354)
                      +.+++|.+++++.+.++++.+++.    +..+..+.|+.+.......   +.. ..+|+|+|+     .+  ..++++.+
T Consensus       126 ~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~-~~~Iiv~Tp~~l~~~~~~~~~~~~~~  201 (262)
T 3ly5_A          126 GTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQK---LGN-GINIIVATPGRLLDHMQNTPGFMYKN  201 (262)
T ss_dssp             CCCEEEECSSHHHHHHHHHHHHHHTTTCCSCEEEECSSSCHHHHHHH---HHH-CCSEEEECHHHHHHHHHHCTTCCCTT
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHHHhhcCceEEEEECCCCHHHHHHH---hcC-CCCEEEEcHHHHHHHHHccCCccccc
Confidence            467999999999999998888763    5677888888765544333   233 389999994     11  22577888


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       202 l~~lVi  207 (262)
T 3ly5_A          202 LQCLVI  207 (262)
T ss_dssp             CCEEEE
T ss_pred             CCEEEE
Confidence            888764

>3u4q_B ATP-dependent helicase/deoxyribonuclease subunit; helicase, nuclease, double strand DNA repair, protein-DNA CO hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus subtilis} PDB: 3u44_B*

Probab=89.80  E-value=0.19  Score=50.60  Aligned_cols=49  Identities=18%  Similarity=0.236  Sum_probs=35.6

Q ss_pred             EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHH
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVIL  122 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~  122 (354)
                      -+|.|+.|||||.+.+.-+.+.+..+..+.++|++||... .-++.+++.
T Consensus         4 ~lV~agAGSGKT~~l~~ri~~ll~~~~~~~~il~lVP~q~-TFt~~~rl~   52 (1166)
T 3u4q_B            4 EFLVGRSGSGKTKLIINSIQDELRRAPFGKPIIFLVPDQM-TFLMEYELA   52 (1166)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHHCTTSSCEEEECCGGG-HHHHHHHHT
T ss_pred             EEEEeCCCCChHHHHHHHHHHHHHhCCCCCcEEEEecCcc-cHHHHHHHH
Confidence            3789999999999888888777766555567999999653 333444443

>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=89.74  E-value=0.63  Score=36.71  Aligned_cols=71  Identities=13%  Similarity=0.205  Sum_probs=45.0

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc-----ccCCCcCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW-----ARGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~-----~~Gidi~~  340 (354)
                      ...+++|.++++..+.++++.+++.    +..+..++|+.+..+...   .+  .+.+|+|+|. .+     ...+++.+
T Consensus        81 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~--~~~~iiv~Tp~~l~~~~~~~~~~~~~  155 (224)
T 1qde_A           81 KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE---GL--RDAQIVVGTPGRVFDNIQRRRFRTDK  155 (224)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECC-------------C--TTCSEEEECHHHHHHHHHTTSSCCTT
T ss_pred             CCceEEEEECCHHHHHHHHHHHHHHhcccCceEEEEeCCcchHHHHh---cC--CCCCEEEECHHHHHHHHHhCCcchhh
Confidence            3458999999999999988887653    677888888765443332   22  2388999995 21     33566777


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       156 ~~~iVi  161 (224)
T 1qde_A          156 IKMFIL  161 (224)
T ss_dssp             CCEEEE
T ss_pred             CcEEEE
Confidence            777764

>2l82_A Designed protein OR32; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, de novo protein; NMR {Artificial gene}

Probab=89.72  E-value=2  Score=28.86  Aligned_cols=48  Identities=17%  Similarity=0.263  Sum_probs=38.2

Q ss_pred             EEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCC
Q 018574          275 AVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGT  322 (354)
Q Consensus       275 ~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~  322 (354)
                      .+||....+...++...+++.|.++..++++...+.|.+-++.|....
T Consensus         5 fvvfssdpeilkeivreikrqgvrvvllysdqdekrrrerleefekqg   52 (162)
T 2l82_A            5 FVVFSSDPEILKEIVREIKRQGVRVVLLYSDQDEKRRRERLEEFEKQG   52 (162)
T ss_dssp             EEEEESCHHHHHHHHHHHHHTTCEEEEEECCSCHHHHHHHHHHHHTTT
T ss_pred             EEEecCCHHHHHHHHHHHHhCCeEEEEEecCchHHHHHHHHHHHHHcC
Confidence            467777778888888888888889888888888888888888886533

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=89.71  E-value=0.91  Score=36.15  Aligned_cols=70  Identities=13%  Similarity=0.166  Sum_probs=48.9

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc----cc--CCCcCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW----AR--GLDVQQ  340 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~----~~--Gidi~~  340 (354)
                      +.+++|.+++++.+.++++.+++.    +..+..++|+.+.......+     +..+|+|+|. .+    ..  .+++.+
T Consensus        97 ~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-----~~~~iiv~Tp~~l~~~l~~~~~~~~~~  171 (236)
T 2pl3_A           97 GLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI-----NNINILVCTPGRLLQHMDETVSFHATD  171 (236)
T ss_dssp             CCCEEEECSSHHHHHHHHHHHHHHTTTSSCCEEEECCC--CHHHHHHH-----TTCSEEEECHHHHHHHHHHCSSCCCTT
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHHhCCCCeeEEEEECCCCHHHHHHhC-----CCCCEEEECHHHHHHHHHhcCCccccc
Confidence            467999999999999999888764    47788888886644433322     4689999995 22    12  366777


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       172 ~~~lVi  177 (236)
T 2pl3_A          172 LQMLVL  177 (236)
T ss_dssp             CCEEEE
T ss_pred             ccEEEE
Confidence            777764

>3hjh_A Transcription-repair-coupling factor; MFD, mutation frequency decline, ATP-binding, DNA DAMA repair, DNA-binding, helicase, hydrolase; 1.95A {Escherichia coli} PDB: 2b2n_A* 4dfc_A

Probab=89.70  E-value=0.57  Score=41.97  Aligned_cols=74  Identities=12%  Similarity=0.086  Sum_probs=54.1

Q ss_pred             HHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcC
Q 018574          260 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQ  339 (354)
Q Consensus       260 ~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~  339 (354)
                      ...+...++.. +.++++.|.+...++.+.+.|++.++........ .         .+  ....|.++...+..|+.+|
T Consensus       371 ~~~L~~~~~~~-~~rVvi~a~s~~r~erL~~~L~~~~i~~~~~~~~-~---------~~--~~g~v~i~~g~L~~GF~~p  437 (483)
T 3hjh_A          371 LDALRKFLETF-DGPVVFSVESEGRREALGELLARIKIAPQRIMRL-D---------EA--SDRGRYLMIGAAEHGFVDT  437 (483)
T ss_dssp             THHHHHHHHHC-CSCEEEEESCSSTTTTTHHHHGGGTCCCEECSCG-G---------GC--CTTCEEEEESCCCSCEEET
T ss_pred             HHHHHHHHHhC-CCeEEEEeCChHHHHHHHHHHHHcCCCceecCch-h---------hc--CCCcEEEEEcccccCcccC
Confidence            45666666432 4689999999999999999999988875544321 1         12  2346777778899999999


Q ss_pred             CCcEEEe
Q 018574          340 QAILFFF  346 (354)
Q Consensus       340 ~~~~Vi~  346 (354)
                      ..+.+|.
T Consensus       438 ~~klaVI  444 (483)
T 3hjh_A          438 VRNLALI  444 (483)
T ss_dssp             TTTEEEE
T ss_pred             CCCEEEE
Confidence            9888775

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=89.66  E-value=0.17  Score=40.76  Aligned_cols=52  Identities=19%  Similarity=0.308  Sum_probs=31.6

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      .|.-+++.|++|+|||..++..+...+...  +..++|+.-. .-..++.+.+..
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~--~~~v~~~s~E-~~~~~~~~~~~~   80 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKGAEEY--GEPGVFVTLE-ERARDLRREMAS   80 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHHHH--CCCEEEEESS-SCHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHhc--CCCceeeccc-CCHHHHHHHHHH
Confidence            356789999999999976666555443322  1236676543 234445555543

>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=89.61  E-value=0.41  Score=40.41  Aligned_cols=55  Identities=11%  Similarity=0.126  Sum_probs=33.2

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccC---------CCc----eeEEEEcCCHHH-HHHHHHHHHHh
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTS---------SRE----VQALILSPTREL-ATQTEKVILAI  124 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~---------~~~----~~~lil~p~~~l-~~q~~~~~~~~  124 (354)
                      |.-+++.+++|+|||..++..+.......         ..+    .+++|+.-...+ ..++.+.+..+
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~~~~~  166 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHA  166 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHHHHHHc
Confidence            45689999999999977766665432211         112    568887754432 44455445444

>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=89.52  E-value=1.3  Score=37.42  Aligned_cols=54  Identities=20%  Similarity=0.369  Sum_probs=35.0

Q ss_pred             CccEEEEecchhhh-ccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhcc
Q 018574          175 AIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFM  228 (354)
Q Consensus       175 ~~~~vvvDE~h~~~-~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~  228 (354)
                      ..+++++|.+-... .......+..+.+.+.++..++.+.++...+.......+.
T Consensus       211 ~~d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~~~~~~~~~~~  265 (328)
T 3e70_C          211 GIDVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGNAIVEQARQFN  265 (328)
T ss_dssp             TCSEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTTHHHHHHHHHH
T ss_pred             cchhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHHHHHHHHHHHH
Confidence            34678888876542 2335566666666666777788888887776666555543

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19

Probab=89.45  E-value=1.4  Score=35.48  Aligned_cols=70  Identities=7%  Similarity=0.111  Sum_probs=49.8

Q ss_pred             CcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc-----ccCCCcCCCc
Q 018574          273 TQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW-----ARGLDVQQAI  342 (354)
Q Consensus       273 ~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~-----~~Gidi~~~~  342 (354)
                      .++||.+++++.+.++++.+++.    +..+..++|+.+.......+    ....+|+|+|. .+     ...+++.+++
T Consensus       101 ~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~----~~~~~Ivv~Tp~~l~~~l~~~~~~~~~~~  176 (253)
T 1wrb_A          101 PKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREV----QMGCHLLVATPGRLVDFIEKNKISLEFCK  176 (253)
T ss_dssp             CSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCSHHHHHHH----SSCCSEEEECHHHHHHHHHTTSBCCTTCC
T ss_pred             ceEEEEECCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHh----CCCCCEEEECHHHHHHHHHcCCCChhhCC
Confidence            58999999999999988887653    56778888887654433322    35689999995 22     2245677777


Q ss_pred             EEEe
Q 018574          343 LFFF  346 (354)
Q Consensus       343 ~Vi~  346 (354)
                      +||.
T Consensus       177 ~lVi  180 (253)
T 1wrb_A          177 YIVL  180 (253)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            7764

>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=89.38  E-value=1.7  Score=33.60  Aligned_cols=71  Identities=10%  Similarity=0.135  Sum_probs=50.8

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-c----c-ccCCCcCCCcE
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-V----W-ARGLDVQQAIL  343 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~----~-~~Gidi~~~~~  343 (354)
                      ..+++|.++++..+.++++.+++.  +..+..++|+.+.......+.    ...+|+|+|. .    + ...+++.++++
T Consensus        72 ~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~i~v~T~~~l~~~~~~~~~~~~~~~~  147 (207)
T 2gxq_A           72 KPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEALL----RGADAVVATPGRALDYLRQGVLDLSRVEV  147 (207)
T ss_dssp             CCSEEEECSSHHHHHHHHHHHHHHCTTSCEEEECSSSCSHHHHHHHH----HCCSEEEECHHHHHHHHHHTSSCCTTCSE
T ss_pred             CCcEEEEECCHHHHHHHHHHHHHHhhcceEEEEECCCChHHHHHHhh----CCCCEEEECHHHHHHHHHcCCcchhhceE
Confidence            457999999999999999999865  467788888876554443332    3678999995 1    1 22456777777


Q ss_pred             EEe
Q 018574          344 FFF  346 (354)
Q Consensus       344 Vi~  346 (354)
                      ||.
T Consensus       148 iVi  150 (207)
T 2gxq_A          148 AVL  150 (207)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            764

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=89.33  E-value=0.12  Score=42.65  Aligned_cols=53  Identities=13%  Similarity=0.223  Sum_probs=28.6

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHH-HHhHhhhh--cCCcEEEEcCCCCchhhHh
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQ-QRAVMPII--KGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q-~~~~~~~~--~~~~~ii~~~tGsGKT~~~   87 (354)
                      ..+|++.+-.+++.+.+.+.=.   +++. .+++..+.  -.+.+++.||+|+|||+.+
T Consensus         6 ~~~~~di~g~~~~~~~l~~~i~---~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLa   61 (274)
T 2x8a_A            6 NVTWADIGALEDIREELTMAIL---APVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLA   61 (274)
T ss_dssp             ------CCHHHHHHHHHHHHHT---HHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHH---HHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHH
Confidence            4678888877777777765311   2222 22333221  2345999999999999543

>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=89.12  E-value=0.2  Score=38.85  Aligned_cols=21  Identities=29%  Similarity=0.397  Sum_probs=16.7

Q ss_pred             CCcEEEEcCCCCchhhHhHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      ++.+++.+|||+|||..++..
T Consensus        34 g~~ilI~GpsGsGKStLA~~L   54 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALEL   54 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            567899999999999655443

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=89.04  E-value=0.25  Score=37.71  Aligned_cols=21  Identities=10%  Similarity=0.268  Sum_probs=16.8

Q ss_pred             cCCcEEEEcCCCCchhhHhHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      .|+-+++.||+|+|||+..-.
T Consensus         4 ~g~~i~i~GpsGsGKSTL~~~   24 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIKNT   24 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHH
Confidence            467789999999999964443

>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=88.88  E-value=0.52  Score=41.39  Aligned_cols=30  Identities=13%  Similarity=0.283  Sum_probs=20.1

Q ss_pred             HHHHhHhhhh--cCCcEEEEcCCCCchhhHhH
Q 018574           59 IQQRAVMPII--KGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        59 ~Q~~~~~~~~--~~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+..++..++  .+..+++.+|||||||+...
T Consensus       154 ~~~~~L~~l~~~~ggii~I~GpnGSGKTTlL~  185 (418)
T 1p9r_A          154 HNHDNFRRLIKRPHGIILVTGPTGSGKSTTLY  185 (418)
T ss_dssp             HHHHHHHHHHTSSSEEEEEECSTTSCHHHHHH
T ss_pred             HHHHHHHHHHHhcCCeEEEECCCCCCHHHHHH
Confidence            3444454443  34568999999999996444

>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein, translation; 1.75A {Saccharomyces cerevisiae} SCOP: c.37.1.19

Probab=88.85  E-value=2.3  Score=31.60  Aligned_cols=73  Identities=12%  Similarity=0.141  Sum_probs=50.3

Q ss_pred             ceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHHhcCCccCCCc
Q 018574          101 EVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMIKRKTLRTRAI  176 (354)
Q Consensus       101 ~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~  176 (354)
                      +.++||.++++.-+..+++.+...    ++.+..++++.+..+...   .+. ....|+|+|.     . -...++....
T Consensus        30 ~~~~lVF~~~~~~~~~l~~~L~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----~-~~~G~d~~~~   99 (165)
T 1fuk_A           30 VTQAVIFCNTRRKVEELTTKLRND----KFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTD-----L-LARGIDVQQV   99 (165)
T ss_dssp             CSCEEEEESSHHHHHHHHHHHHHT----TCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEEEG-----G-GTTTCCCCSC
T ss_pred             CCCEEEEECCHHHHHHHHHHHHHc----CCCEEEEECCCCHHHHHHHHHHHHcCCCEEEEEcC-----h-hhcCCCcccC
Confidence            346999999999999999988765    367888888866544332   232 3478999993     1 2235566677


Q ss_pred             cEEEEec
Q 018574          177 KLLVLDE  183 (354)
Q Consensus       177 ~~vvvDE  183 (354)
                      ++||.-+
T Consensus       100 ~~Vi~~~  106 (165)
T 1fuk_A          100 SLVINYD  106 (165)
T ss_dssp             SEEEESS
T ss_pred             CEEEEeC
Confidence            7776644

>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=88.80  E-value=0.63  Score=39.33  Aligned_cols=55  Identities=13%  Similarity=0.067  Sum_probs=32.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhcccc---CCCceeEEEEcCCHHH-HHHHHHHHHHh
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDT---SSREVQALILSPTREL-ATQTEKVILAI  124 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~---~~~~~~~lil~p~~~l-~~q~~~~~~~~  124 (354)
                      |.-+++.+++|+|||..++..+......   +..+.+++|+.-...+ ..++.+.+..+
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~~~~  165 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKAL  165 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            4678999999999997766665543322   1113457777654332 34444444443

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=88.68  E-value=0.23  Score=40.62  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=18.3

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      +..|+.+.+.+|+|+|||+..-.
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~   44 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIAS   44 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHH
T ss_pred             hCCCCEEEEECCCCccHHHHHHH
Confidence            45677899999999999965443

>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; 1.90A {Homo sapiens} SCOP: c.37.1.19

Probab=88.65  E-value=3.5  Score=30.87  Aligned_cols=74  Identities=11%  Similarity=0.104  Sum_probs=50.9

Q ss_pred             ceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHHhcCCccCCCc
Q 018574          101 EVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMIKRKTLRTRAI  176 (354)
Q Consensus       101 ~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~  176 (354)
                      +.++||.|+++.-+..+++.+...    ++.+..++++.+..+...   .+. ....|+|+|.-      -...++....
T Consensus        31 ~~~~lVF~~~~~~~~~l~~~L~~~----~~~~~~~hg~~~~~~r~~~~~~f~~g~~~vLvaT~~------~~~Gldi~~~  100 (172)
T 1t5i_A           31 FNQVVIFVKSVQRCIALAQLLVEQ----NFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL------FGRGMDIERV  100 (172)
T ss_dssp             CSSEEEECSSHHHHHHHHHHHHHT----TCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEESSC------CSTTCCGGGC
T ss_pred             CCcEEEEECCHHHHHHHHHHHHhc----CCCEEEEECCCCHHHHHHHHHHHHCCCCcEEEECCc------hhcCcchhhC
Confidence            346999999999999999988775    477888888876554332   233 34789999941      2235555667


Q ss_pred             cEEEEecc
Q 018574          177 KLLVLDES  184 (354)
Q Consensus       177 ~~vvvDE~  184 (354)
                      ++||.-+.
T Consensus       101 ~~Vi~~d~  108 (172)
T 1t5i_A          101 NIAFNYDM  108 (172)
T ss_dssp             SEEEESSC
T ss_pred             CEEEEECC
Confidence            77776443

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=88.54  E-value=1.3  Score=48.80  Aligned_cols=69  Identities=13%  Similarity=0.090  Sum_probs=41.7

Q ss_pred             CHHHHHHHHHCCCCCChHHHHH----hHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC
Q 018574           41 KDDLLRGIYQYGFEKPSAIQQR----AVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT  110 (354)
Q Consensus        41 ~~~~~~~l~~~~~~~~~~~Q~~----~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~  110 (354)
                      .+.+.+.+.+.|+ ++.+.|..    ..+.+..+..+++.||||+|||.++-..+.+.-.-.+......++-|.
T Consensus       874 ~~ai~~~~~~~~L-~~~~~~v~KviQLye~~~vRhGvmlVGp~gsGKTt~~~~L~~al~~l~~~~~~~~~iNPK  946 (3245)
T 3vkg_A          874 RKKIQEIAKQRHL-VTKQEWVEKILQLHQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEAHVMDPK  946 (3245)
T ss_dssp             HHHHHHHHHHTTC-CCCHHHHHHHHHHHHHHTTCSEEEEECSSSSSHHHHHHHHHHHHTTTTTCEEEEEEECTT
T ss_pred             HHHHHHHHHHcCC-ccCHHHHHHHHHHHHHHHheeeEEEECCCCCCHHHHHHHHHHHHHHhhCCCceEEEECCC
Confidence            4566677778888 66666643    223344477899999999999987654433221111222344556664

>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=88.50  E-value=0.93  Score=36.92  Aligned_cols=46  Identities=13%  Similarity=0.223  Sum_probs=29.3

Q ss_pred             HHHHHHHHCCCCCChHHHHHhHhhhhcCC-----cEEEEcCCCCchhhHhHHH
Q 018574           43 DLLRGIYQYGFEKPSAIQQRAVMPIIKGR-----DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        43 ~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~-----~~ii~~~tGsGKT~~~~~~   90 (354)
                      .+.+.|+-.|+. |... ..++..+++++     .+++.||+|+|||..+...
T Consensus        74 ~i~~~l~~qg~~-~~~~-~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~al  124 (267)
T 1u0j_A           74 RIYKILELNGYD-PQYA-ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAI  124 (267)
T ss_dssp             HHHHHHHHTTCC-HHHH-HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHH
T ss_pred             HHHHHHHHcCCC-HHHH-HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHH
Confidence            667777777773 3222 23344445443     5899999999999765533

>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=88.47  E-value=0.27  Score=38.69  Aligned_cols=37  Identities=14%  Similarity=0.031  Sum_probs=25.1

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      +..|.-+++.+|+|+|||..+...+.   .   .+..++++.-
T Consensus        17 i~~G~~~~i~G~~GsGKTtl~~~l~~---~---~~~~v~~i~~   53 (220)
T 2cvh_A           17 FAPGVLTQVYGPYASGKTTLALQTGL---L---SGKKVAYVDT   53 (220)
T ss_dssp             BCTTSEEEEECSTTSSHHHHHHHHHH---H---HCSEEEEEES
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHH---H---cCCcEEEEEC
Confidence            34467889999999999976665544   1   2234666653

>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=88.43  E-value=0.51  Score=42.51  Aligned_cols=30  Identities=10%  Similarity=0.196  Sum_probs=21.3

Q ss_pred             hcCCcEEEEcCCCCchhhHhHHHHhhcccc
Q 018574           68 IKGRDVIAQAQSGTGKTSMIALTVCQTVDT   97 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~   97 (354)
                      ..+.+++|.++||||||.+.-..+...+..
T Consensus       165 ~~~pHlLIaG~TGSGKSt~L~~li~sLl~~  194 (512)
T 2ius_A          165 AKMPHLLVAGTTGSGASVGVNAMILSMLYK  194 (512)
T ss_dssp             GGSCSEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             ccCceEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            346789999999999997655444444433

>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=88.39  E-value=1.2  Score=37.13  Aligned_cols=19  Identities=21%  Similarity=0.503  Sum_probs=15.9

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..++++.||+|+|||..+-
T Consensus        50 ~~~vll~G~~GtGKT~la~   68 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIAR   68 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHH
Confidence            5689999999999996443

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=88.39  E-value=0.49  Score=48.22  Aligned_cols=39  Identities=21%  Similarity=0.290  Sum_probs=26.9

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLI  212 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~l  212 (354)
                      ++-+++|+||+=..++......+...++...+++-++.+
T Consensus      1234 r~~~ILiLDEaTSaLD~~tE~~Iq~~l~~~~~~~TvI~I 1272 (1321)
T 4f4c_A         1234 RNPKILLLDEATSALDTESEKVVQEALDRAREGRTCIVI 1272 (1321)
T ss_dssp             SCCSEEEEESCCCSTTSHHHHHHHHHHTTTSSSSEEEEE
T ss_pred             hCCCEEEEeCccccCCHHHHHHHHHHHHHHcCCCEEEEe
Confidence            355789999998877776677777777766555544443

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=88.27  E-value=0.21  Score=38.87  Aligned_cols=18  Identities=17%  Similarity=0.139  Sum_probs=14.8

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      +.+++.+|+|+|||..+.
T Consensus        59 n~ili~GPPGtGKTt~a~   76 (212)
T 1tue_A           59 NCLVFCGPANTGKSYFGM   76 (212)
T ss_dssp             SEEEEESCGGGCHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHH
Confidence            358999999999996553

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=88.26  E-value=0.3  Score=37.90  Aligned_cols=21  Identities=19%  Similarity=0.189  Sum_probs=17.2

Q ss_pred             cCCcEEEEcCCCCchhhHhHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      .++.+++.|++|+|||+..-.
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~   44 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKA   44 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHH
Confidence            467899999999999975543

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=88.11  E-value=0.48  Score=37.55  Aligned_cols=27  Identities=22%  Similarity=0.278  Sum_probs=21.0

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccC
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTS   98 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~   98 (354)
                      ++++.+++|+|||+.++-.+......+
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~G   34 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQG   34 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCC
Confidence            589999999999988776666655443

>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster}

Probab=88.09  E-value=2.1  Score=37.73  Aligned_cols=71  Identities=14%  Similarity=0.211  Sum_probs=51.4

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-----cccc-CCCcCCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-----VWAR-GLDVQQA  341 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----~~~~-Gidi~~~  341 (354)
                      ..++||.+++++.+.++++.+++.    ++++..++|+.+.......+    ....+|+|+|.     .+.. .+++.++
T Consensus       129 ~~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~l----~~~~~Ivv~Tp~~l~~~l~~~~~~l~~~  204 (434)
T 2db3_A          129 RPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECI----TRGCHVVIATPGRLLDFVDRTFITFEDT  204 (434)
T ss_dssp             CCSEEEECSSHHHHHHHHHHHHHHTTTSSCCCCEECTTSCHHHHHHHH----TTCCSEEEECHHHHHHHHHTTSCCCTTC
T ss_pred             CccEEEEecCHHHHHHHHHHHHHHhccCCcEEEEEECCCCHHHHHHHh----hcCCCEEEEChHHHHHHHHhCCcccccC
Confidence            357999999999999999888753    56788889988765544332    24689999995     1222 3567778


Q ss_pred             cEEEe
Q 018574          342 ILFFF  346 (354)
Q Consensus       342 ~~Vi~  346 (354)
                      ++||.
T Consensus       205 ~~lVl  209 (434)
T 2db3_A          205 RFVVL  209 (434)
T ss_dssp             CEEEE
T ss_pred             CeEEE
Confidence            87764

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=88.06  E-value=0.68  Score=41.69  Aligned_cols=27  Identities=15%  Similarity=0.340  Sum_probs=20.6

Q ss_pred             HHhHhhhhcCCcEEEEcCCCCchhhHh
Q 018574           61 QRAVMPIIKGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        61 ~~~~~~~~~~~~~ii~~~tGsGKT~~~   87 (354)
                      ..+...+..+.++++.||+|+|||..+
T Consensus        32 ~~l~~al~~~~~VLL~GpPGtGKT~LA   58 (500)
T 3nbx_X           32 RLCLLAALSGESVFLLGPPGIAKSLIA   58 (500)
T ss_dssp             HHHHHHHHHTCEEEEECCSSSSHHHHH
T ss_pred             HHHHHHHhcCCeeEeecCchHHHHHHH
Confidence            344445566899999999999999533

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=87.94  E-value=0.47  Score=39.97  Aligned_cols=54  Identities=15%  Similarity=0.053  Sum_probs=33.9

Q ss_pred             hhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHH
Q 018574           65 MPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVIL  122 (354)
Q Consensus        65 ~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~  122 (354)
                      .-+..|.-+++.|++|+|||..++..+...+..+   .+++++.-- .-..|+..++.
T Consensus        63 gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g---~~vl~~slE-~s~~~l~~R~~  116 (315)
T 3bh0_A           63 YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDND---DVVNLHSLE-MGKKENIKRLI  116 (315)
T ss_dssp             SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTT---CEEEEEESS-SCHHHHHHHHH
T ss_pred             CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcC---CeEEEEECC-CCHHHHHHHHH
Confidence            3344577899999999999976666555544333   357777643 33344444443

>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=87.87  E-value=0.33  Score=38.03  Aligned_cols=20  Identities=25%  Similarity=0.448  Sum_probs=16.4

Q ss_pred             cCCcEEEEcCCCCchhhHhH
Q 018574           69 KGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~   88 (354)
                      .|+-+++.||+|+|||+..-
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~   26 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVRE   26 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHH
T ss_pred             CCcEEEEECcCCCCHHHHHH
Confidence            46778999999999997444

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=87.75  E-value=0.24  Score=38.10  Aligned_cols=22  Identities=18%  Similarity=0.445  Sum_probs=17.4

Q ss_pred             hhcCCcEEEEcCCCCchhhHhH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..|+.+++.||+|+|||+..-
T Consensus         6 i~~g~~i~l~G~~GsGKSTl~~   27 (191)
T 1zp6_A            6 DLGGNILLLSGHPGSGKSTIAE   27 (191)
T ss_dssp             CCTTEEEEEEECTTSCHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHH
Confidence            4457789999999999996443

>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=87.68  E-value=0.92  Score=38.99  Aligned_cols=20  Identities=20%  Similarity=0.413  Sum_probs=16.3

Q ss_pred             cCCcEEEEcCCCCchhhHhH
Q 018574           69 KGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ...++++.||+|+|||.++-
T Consensus        50 ~~~~vll~GppGtGKT~la~   69 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAE   69 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHH
Confidence            35689999999999996443

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=87.67  E-value=0.34  Score=37.76  Aligned_cols=23  Identities=22%  Similarity=0.356  Sum_probs=18.4

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      ...++-+++.||+|+|||+..-.
T Consensus         9 ~~~~~~i~l~G~sGsGKsTl~~~   31 (204)
T 2qor_A            9 MARIPPLVVCGPSGVGKGTLIKK   31 (204)
T ss_dssp             CCCCCCEEEECCTTSCHHHHHHH
T ss_pred             cccCCEEEEECCCCCCHHHHHHH
Confidence            45678899999999999974443

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=87.63  E-value=0.59  Score=36.80  Aligned_cols=71  Identities=17%  Similarity=0.216  Sum_probs=47.2

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC--------CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-----ccc-cCCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY--------NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-----VWA-RGLD  337 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~--------~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----~~~-~Gid  337 (354)
                      ..+++|.+++++.+.++++.+++.        +..+..++|+.+..+.   .+.+ ....+|+|+|.     .+. ..++
T Consensus        72 ~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~---~~~~-~~~~~Iiv~Tp~~l~~~l~~~~~~  147 (219)
T 1q0u_A           72 EVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKA---LEKL-NVQPHIVIGTPGRINDFIREQALD  147 (219)
T ss_dssp             SCCEEEECSSHHHHHHHHHHHHHHHTTSCGGGCCCEEEECCCSHHHHT---TCCC-SSCCSEEEECHHHHHHHHHTTCCC
T ss_pred             CceEEEEcCcHHHHHHHHHHHHHHhhhcccccceEEEEEeCCCCHHHH---HHHc-CCCCCEEEeCHHHHHHHHHcCCCC
Confidence            458999999999999988877653        5677788887643221   1111 24678999995     122 2456


Q ss_pred             cCCCcEEEe
Q 018574          338 VQQAILFFF  346 (354)
Q Consensus       338 i~~~~~Vi~  346 (354)
                      +.++++||.
T Consensus       148 ~~~~~~lVi  156 (219)
T 1q0u_A          148 VHTAHILVV  156 (219)
T ss_dssp             GGGCCEEEE
T ss_pred             cCcceEEEE
Confidence            667777664

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=87.62  E-value=0.28  Score=41.52  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=16.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTV   91 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~   91 (354)
                      ++.++|.||||+|||......+
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA   61 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLA   61 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHH
Confidence            3468999999999997555443

>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=87.58  E-value=0.46  Score=49.18  Aligned_cols=91  Identities=14%  Similarity=0.211  Sum_probs=56.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE  149 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (354)
                      |+-+.+.+|.|+|||+.++..+.+....+   ..++++.+-.+|....   +++++-.             .        
T Consensus      1431 g~~iei~g~~~sGkttl~~~~~a~~~~~g---~~~~~i~~e~~~~~~~---~~~~Gv~-------------~-------- 1483 (1706)
T 3cmw_A         1431 GRIVEIYGPESSGKTTLTLQVIAAAQREG---KTCAFIDAEHALDPIY---ARKLGVD-------------I-------- 1483 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTT---CCEEEECTTSCCCHHH---HHHTTCC-------------G--------
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhcC---CeEEEEecCCCCCHHH---HHHcCCC-------------H--------
Confidence            45689999999999988887776655544   3488888877776665   3343311             1        


Q ss_pred             CCCeEEEeCcHHHHHHHhc--CCccCCCccEEEEecchhhhc
Q 018574          150 HGVHVVSGTPGRVCDMIKR--KTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~--~~~~~~~~~~vvvDE~h~~~~  189 (354)
                        .++++.-|+.-...+.-  ..+....+++||||.+-.+..
T Consensus      1484 --~~l~~~~p~~~e~~l~~~~~~~~s~~~~~vvvDsv~al~~ 1523 (1706)
T 3cmw_A         1484 --DNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTP 1523 (1706)
T ss_dssp             --GGCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCSTTCCC
T ss_pred             --HHeEEeCCCcHHHHHHHHHHHHHcCCCCEEEEccHHhCCc
Confidence              12555555433222211  122234678999999987753

>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=87.55  E-value=0.9  Score=49.38  Aligned_cols=51  Identities=20%  Similarity=0.124  Sum_probs=34.6

Q ss_pred             CCHHHHHHHHHCCCCCChHHHH----HhHhhhhcCCcEEEEcCCCCchhhHhHHHH
Q 018574           40 IKDDLLRGIYQYGFEKPSAIQQ----RAVMPIIKGRDVIAQAQSGTGKTSMIALTV   91 (354)
Q Consensus        40 ~~~~~~~~l~~~~~~~~~~~Q~----~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~   91 (354)
                      +.+.+.+.+.+.++ ++.+.+.    +..+.+..+..+++.||||+|||.++-..+
T Consensus       890 l~~~i~~~~~~~~l-~~~~~~~~K~~ql~e~~~~r~gvmlvGptgsGKTt~~~~La  944 (2695)
T 4akg_A          890 IVQCLKDAGQRSGF-SMSEEFLKKCMQFYYMQKTQQALILVGKAGCGKTATWKTVI  944 (2695)
T ss_dssp             HHHHHHHHHHHHTC-CCCHHHHHHHHHHHHHHHHCSEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCC-cccHHHHHHHHHHHHHHHhcceEEEECCCCCCHHHHHHHHH
Confidence            34556677777787 5666653    223334457889999999999997665443

>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=87.52  E-value=0.28  Score=37.17  Aligned_cols=19  Identities=26%  Similarity=0.468  Sum_probs=15.2

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..+++.|++|+|||++.-
T Consensus         3 ~~~i~l~G~~GsGKST~a~   21 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVR   21 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHH
Confidence            4568999999999996443

>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=87.52  E-value=0.16  Score=39.04  Aligned_cols=16  Identities=38%  Similarity=0.767  Sum_probs=14.0

Q ss_pred             CcEEEEcCCCCchhhH
Q 018574           71 RDVIAQAQSGTGKTSM   86 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~   86 (354)
                      +.+++.||.|+|||..
T Consensus         2 RpIVi~GPSG~GK~Tl   17 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTL   17 (186)
T ss_dssp             CCEEEECCTTSSHHHH
T ss_pred             CEEEEECCCCCCHHHH
Confidence            5689999999999963

>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer, ATP-binding, helicase, hydrolase, nucleotide-binding; 2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A

Probab=87.50  E-value=2.3  Score=33.27  Aligned_cols=70  Identities=24%  Similarity=0.335  Sum_probs=50.1

Q ss_pred             eeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHHhcCCccCCCcc
Q 018574          102 VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIK  177 (354)
Q Consensus       102 ~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~  177 (354)
                      .++||.|+++.-+..+++.+...+    +.+..++|+.+..+...   .+. ....|+|+|.     . -...++...++
T Consensus        32 ~~~lVF~~~~~~~~~l~~~L~~~~----~~~~~lhg~~~~~~r~~~~~~f~~g~~~vlvaT~-----~-~~~Gidi~~v~  101 (212)
T 3eaq_A           32 DRAMVFTRTKAETEEIAQGLLRLG----HPAQALHGDLSQGERERVLGAFRQGEVRVLVATD-----V-AARGLDIPQVD  101 (212)
T ss_dssp             SCEEEECSSHHHHHHHHHHHHHHT----CCEEEECSSSCHHHHHHHHHHHHSSSCCEEEECT-----T-TTCSSSCCCBS
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHcC----CCEEEEECCCCHHHHHHHHHHHHCCCCeEEEecC-----h-hhcCCCCccCc
Confidence            469999999999999999887764    77888898876554433   233 3478999994     2 22456666777


Q ss_pred             EEEE
Q 018574          178 LLVL  181 (354)
Q Consensus       178 ~vvv  181 (354)
                      +||.
T Consensus       102 ~Vi~  105 (212)
T 3eaq_A          102 LVVH  105 (212)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            7774

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=87.47  E-value=0.36  Score=36.87  Aligned_cols=21  Identities=24%  Similarity=0.183  Sum_probs=16.7

Q ss_pred             CCcEEEEcCCCCchhhHhHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      ++.+++.|++|+|||+..-..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~L   25 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQL   25 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            467899999999999755443

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=87.39  E-value=0.36  Score=41.57  Aligned_cols=23  Identities=22%  Similarity=0.537  Sum_probs=18.5

Q ss_pred             hhhcCCcEEEEcCCCCchhhHhH
Q 018574           66 PIIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        66 ~~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+..|+.+++.||||+|||+..-
T Consensus       171 ~i~~G~~i~ivG~sGsGKSTll~  193 (361)
T 2gza_A          171 AVQLERVIVVAGETGSGKTTLMK  193 (361)
T ss_dssp             HHHTTCCEEEEESSSSCHHHHHH
T ss_pred             HHhcCCEEEEECCCCCCHHHHHH
Confidence            34568999999999999996433

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=87.26  E-value=3.1  Score=36.81  Aligned_cols=71  Identities=18%  Similarity=0.303  Sum_probs=52.5

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC-CC---eEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccc-----cCCCcCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY-NF---TVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWA-----RGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~-~~---~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~-----~Gidi~~  340 (354)
                      ...++||.|+++..+.+.++.+++. +.   .+..++|+....++.....     +.+|+|+|. .+.     ..+...+
T Consensus        51 ~~~~~liv~P~~~L~~q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~~~-----~~~ivv~T~~~l~~~~~~~~~~~~~  125 (494)
T 1wp9_A           51 YGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWA-----RAKVIVATPQTIENDLLAGRISLED  125 (494)
T ss_dssp             SCSCEEEECSSHHHHHHHHHHHHHHBCSCGGGEEEECSCSCHHHHHHHHH-----HCSEEEECHHHHHHHHHTTSCCTTS
T ss_pred             CCCeEEEEECCHHHHHHHHHHHHHHhCcchhheEEeeCCcchhhhhhhcc-----CCCEEEecHHHHHHHHhcCCcchhh
Confidence            4679999999999999999988765 54   8899999988776554432     578999994 222     1455667


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      .++||.
T Consensus       126 ~~~vIi  131 (494)
T 1wp9_A          126 VSLIVF  131 (494)
T ss_dssp             CSEEEE
T ss_pred             ceEEEE
Confidence            777664

>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=87.25  E-value=0.47  Score=42.01  Aligned_cols=44  Identities=16%  Similarity=0.353  Sum_probs=28.9

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT  115 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~  115 (354)
                      ...++++.|+||+|||..+...+.+.+..   +..++|+=|.-+...
T Consensus        52 ~~~h~~i~G~tGsGKs~~~~~li~~~~~~---g~~viv~Dpkge~~~   95 (437)
T 1e9r_A           52 EPRHLLVNGATGTGKSVLLRELAYTGLLR---GDRMVIVDPNGDMLS   95 (437)
T ss_dssp             GGGCEEEEECTTSSHHHHHHHHHHHHHHT---TCEEEEEEETTHHHH
T ss_pred             CcceEEEECCCCCCHHHHHHHHHHHHHHC---CCcEEEEeCCCchhH
Confidence            35789999999999998653333333322   335777777766654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=87.09  E-value=0.39  Score=37.33  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=15.8

Q ss_pred             cCCcEEEEcCCCCchhhHhHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      .|+.+.+.||+|+|||+..-.
T Consensus         3 ~g~~i~lvGpsGaGKSTLl~~   23 (198)
T 1lvg_A            3 GPRPVVLSGPSGAGKSTLLKK   23 (198)
T ss_dssp             --CCEEEECCTTSSHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHH
Confidence            467899999999999965443

>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=86.97  E-value=0.65  Score=40.43  Aligned_cols=41  Identities=20%  Similarity=0.338  Sum_probs=28.3

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      .+.++++.++||+|||...-..+.....   .+.+++++=|..+
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~~~~~---~~~~~~~~D~~~~   74 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLLREYM---QGSRVIIIDPERE   74 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHHT---TTCCEEEEESSCC
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHHHHHH---CCCEEEEEeCCcC
Confidence            5678999999999999765554444432   2345777767654

>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=86.90  E-value=0.42  Score=36.32  Aligned_cols=22  Identities=18%  Similarity=0.280  Sum_probs=17.5

Q ss_pred             hcCCcEEEEcCCCCchhhHhHH
Q 018574           68 IKGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      ..++.+++.|++|+|||+..-.
T Consensus         9 ~~~~~i~i~G~~GsGKst~~~~   30 (180)
T 3iij_A            9 MLLPNILLTGTPGVGKTTLGKE   30 (180)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHH
T ss_pred             ccCCeEEEEeCCCCCHHHHHHH
Confidence            3467899999999999975443

>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=86.90  E-value=0.29  Score=36.81  Aligned_cols=17  Identities=18%  Similarity=0.434  Sum_probs=14.0

Q ss_pred             cEEEEcCCCCchhhHhH
Q 018574           72 DVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~   88 (354)
                      .+++.|++|||||+..-
T Consensus         3 ~I~l~G~~GsGKsT~a~   19 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAK   19 (179)
T ss_dssp             EEEEECCTTSCHHHHHH
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            47899999999997444

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=86.82  E-value=0.4  Score=37.27  Aligned_cols=22  Identities=27%  Similarity=0.335  Sum_probs=17.5

Q ss_pred             hcCCcEEEEcCCCCchhhHhHH
Q 018574           68 IKGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      ..|.-+++.||+|+|||+..-.
T Consensus         4 ~~g~~i~l~G~~GsGKSTl~~~   25 (207)
T 2j41_A            4 EKGLLIVLSGPSGVGKGTVRKR   25 (207)
T ss_dssp             CCCCEEEEECSTTSCHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHH
Confidence            4577889999999999965443

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}

Probab=86.80  E-value=0.76  Score=38.35  Aligned_cols=68  Identities=9%  Similarity=0.049  Sum_probs=47.3

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC-----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccc-c-----c-cCCCcC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY-----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDV-W-----A-RGLDVQ  339 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~-----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~-~-----~-~Gidi~  339 (354)
                      ..++||.+++++.+.+++..++..     +..+..+.++......       .....+|+|+|+- +     . ..+++.
T Consensus       162 ~~~~lil~PtreLa~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-------~~~~~~IlV~TP~~l~~~l~~~~~~~l~  234 (300)
T 3fmo_B          162 YPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG-------QKISEQIVIGTPGTVLDWCSKLKFIDPK  234 (300)
T ss_dssp             SCCEEEECSSHHHHHHHHHHHHHHTTTSTTCCEEEESTTCCCCTT-------CCCCCSEEEECHHHHHHHHTTTCCCCGG
T ss_pred             CceEEEEcCcHHHHHHHHHHHHHHHhhCCCcEEEEEeCCccHhhh-------hcCCCCEEEECHHHHHHHHHhcCCCChh
Confidence            347999999999999988887653     4566677766542211       1356789999962 1     1 357788


Q ss_pred             CCcEEEe
Q 018574          340 QAILFFF  346 (354)
Q Consensus       340 ~~~~Vi~  346 (354)
                      +++++|.
T Consensus       235 ~l~~lVl  241 (300)
T 3fmo_B          235 KIKVFVL  241 (300)
T ss_dssp             GCSEEEE
T ss_pred             hceEEEE
Confidence            8888775

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=86.75  E-value=0.34  Score=41.07  Aligned_cols=24  Identities=21%  Similarity=0.369  Sum_probs=18.9

Q ss_pred             hhhhcCCcEEEEcCCCCchhhHhH
Q 018574           65 MPIIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        65 ~~~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+..++++++.||+|+|||..+-
T Consensus        41 ~~l~~~~~vll~G~pGtGKT~la~   64 (331)
T 2r44_A           41 IGICTGGHILLEGVPGLAKTLSVN   64 (331)
T ss_dssp             HHHHHTCCEEEESCCCHHHHHHHH
T ss_pred             HHHHcCCeEEEECCCCCcHHHHHH
Confidence            344558899999999999996443

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=86.67  E-value=0.25  Score=37.40  Aligned_cols=21  Identities=24%  Similarity=0.281  Sum_probs=16.9

Q ss_pred             hcCCcEEEEcCCCCchhhHhH
Q 018574           68 IKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..|.-+.+.||+|+|||+.+-
T Consensus         7 ~~gei~~l~G~nGsGKSTl~~   27 (171)
T 4gp7_A            7 PELSLVVLIGSSGSGKSTFAK   27 (171)
T ss_dssp             ESSEEEEEECCTTSCHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHH
Confidence            356778999999999997544

>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; 2.60A {Homo sapiens}

Probab=86.62  E-value=4  Score=31.26  Aligned_cols=72  Identities=22%  Similarity=0.270  Sum_probs=50.4

Q ss_pred             eeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHHhcCCccCCCcc
Q 018574          102 VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIK  177 (354)
Q Consensus       102 ~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~  177 (354)
                      .++||.|+++.-+..+++.+...+    +.+..++++.+..+...   .+. ....|+|+|.     ... ..++....+
T Consensus        55 ~~~lVF~~~~~~~~~l~~~L~~~g----~~~~~lhg~~~~~~R~~~l~~F~~g~~~vLvaT~-----~~~-~Gldi~~v~  124 (191)
T 2p6n_A           55 PPVLIFAEKKADVDAIHEYLLLKG----VEAVAIHGGKDQEERTKAIEAFREGKKDVLVATD-----VAS-KGLDFPAIQ  124 (191)
T ss_dssp             SCEEEECSCHHHHHHHHHHHHHHT----CCEEEECTTSCHHHHHHHHHHHHHTSCSEEEECH-----HHH-TTCCCCCCS
T ss_pred             CCEEEEECCHHHHHHHHHHHHHcC----CcEEEEeCCCCHHHHHHHHHHHhcCCCEEEEEcC-----chh-cCCCcccCC
Confidence            369999999999999999887764    77888888876544332   222 3478999992     222 355666777


Q ss_pred             EEEEec
Q 018574          178 LLVLDE  183 (354)
Q Consensus       178 ~vvvDE  183 (354)
                      +||.-+
T Consensus       125 ~VI~~d  130 (191)
T 2p6n_A          125 HVINYD  130 (191)
T ss_dssp             EEEESS
T ss_pred             EEEEeC
Confidence            777633

>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16 c.37.1.16 e.10.1.1 PDB: 1gl9_B*

Probab=86.55  E-value=1.3  Score=44.13  Aligned_cols=73  Identities=21%  Similarity=0.374  Sum_probs=55.7

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC----CC----eEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccCCC-cCCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY----NF----TVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWARGLD-VQQA  341 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~----~~----~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~~Gid-i~~~  341 (354)
                      +.+++|.+++++.+.++++.+++.    ++    .+..++|+.+...+.+..+.+.+  .+|+|+|+ .+..-+. +.++
T Consensus        99 ~~~~lil~PtreLa~Q~~~~l~~l~~~~~i~~~~~v~~~~Gg~~~~~~~~~~~~l~~--~~IlV~TP~~L~~~l~~L~~l  176 (1054)
T 1gku_B           99 GKRCYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRN--FKIVITTTQFLSKHYRELGHF  176 (1054)
T ss_dssp             SCCEEEEESCHHHHHHHHHHHHHHHTTTCCSGGGSEEECCSSCCSHHHHHHHHSGGG--CSEEEEEHHHHHHCSTTSCCC
T ss_pred             CCeEEEEeccHHHHHHHHHHHHHHHhhcCCCccceEEEEeCCCChhhHHHHHhhccC--CCEEEEcHHHHHHHHHHhccC
Confidence            468999999999999999888643    55    78999999998888777777776  99999995 2222222 5577


Q ss_pred             cEEEe
Q 018574          342 ILFFF  346 (354)
Q Consensus       342 ~~Vi~  346 (354)
                      ++||.
T Consensus       177 ~~lVi  181 (1054)
T 1gku_B          177 DFIFV  181 (1054)
T ss_dssp             SEEEE
T ss_pred             CEEEE
Confidence            77664

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=86.52  E-value=0.46  Score=36.85  Aligned_cols=22  Identities=14%  Similarity=0.291  Sum_probs=17.5

Q ss_pred             hcCCcEEEEcCCCCchhhHhHH
Q 018574           68 IKGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      ..|+-+++.||+|+|||...-.
T Consensus        17 ~~g~~ivl~GPSGaGKsTL~~~   38 (197)
T 3ney_A           17 QGRKTLVLIGASGVGRSHIKNA   38 (197)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHH
T ss_pred             CCCCEEEEECcCCCCHHHHHHH
Confidence            3577899999999999974443

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=86.48  E-value=1.4  Score=39.10  Aligned_cols=41  Identities=17%  Similarity=0.092  Sum_probs=29.4

Q ss_pred             hhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           66 PIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        66 ~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      -+..|.-+++.|+||+|||..++..+...+..   +.+++|++-
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~---g~~vl~fSl  233 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDN---DDVVNLHSL  233 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHT---TCEEEEECS
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHc---CCEEEEEEC
Confidence            34456789999999999997766666655544   345787764

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}

Probab=86.41  E-value=4.2  Score=35.34  Aligned_cols=70  Identities=9%  Similarity=0.081  Sum_probs=50.2

Q ss_pred             CcEEEEcCchhhHHHHHHHHhc----CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc-----ccCCCcCCCc
Q 018574          273 TQAVIFCNTKRKVDWLTEKMRG----YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW-----ARGLDVQQAI  342 (354)
Q Consensus       273 ~~~lvf~~~~~~~~~l~~~l~~----~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~-----~~Gidi~~~~  342 (354)
                      .+++|.+++++.+.++++.+++    .++.+..++|+.+..+....   +. ...+|+|+|. .+     ...+++.+++
T Consensus       102 ~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~-~~~~I~v~Tp~~l~~~l~~~~~~~~~~~  177 (417)
T 2i4i_A          102 PISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRD---LE-RGCHLLVATPGRLVDMMERGKIGLDFCK  177 (417)
T ss_dssp             CSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCHHHHHHH---HT-TCCSEEEECHHHHHHHHHTTSBCCTTCC
T ss_pred             ccEEEECCcHHHHHHHHHHHHHHhCcCCceEEEEECCCCHHHHHHH---hh-CCCCEEEEChHHHHHHHHcCCcChhhCc
Confidence            4699999999999999988865    36788889998775544332   22 4679999995 22     2235677777


Q ss_pred             EEEe
Q 018574          343 LFFF  346 (354)
Q Consensus       343 ~Vi~  346 (354)
                      +||.
T Consensus       178 ~iVi  181 (417)
T 2i4i_A          178 YLVL  181 (417)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            7764

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A*

Probab=86.41  E-value=2.7  Score=36.14  Aligned_cols=71  Identities=13%  Similarity=0.190  Sum_probs=50.6

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhc----CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc-----ccCCCcCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRG----YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW-----ARGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~----~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~-----~~Gidi~~  340 (354)
                      ...+++|.++++..+.++++.+++    .+..+..++|+.+..+....+.     ..+|+|+|. .+     ...++..+
T Consensus        88 ~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~-----~~~i~v~T~~~l~~~~~~~~~~~~~  162 (394)
T 1fuu_A           88 KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR-----DAQIVVGTPGRVFDNIQRRRFRTDK  162 (394)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECSSCCHHHHHHHHH-----HCSEEEECHHHHHHHHHTTSSCCTT
T ss_pred             CCCCEEEEcCCHHHHHHHHHHHHHHhccCCeeEEEEeCCCchHHHHhhcC-----CCCEEEECHHHHHHHHHhCCcchhh
Confidence            346899999999999988887764    3678889999887665544433     578999994 21     22455666


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       163 ~~~vIi  168 (394)
T 1fuu_A          163 IKMFIL  168 (394)
T ss_dssp             CCEEEE
T ss_pred             CcEEEE
Confidence            777664

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=86.40  E-value=7.6  Score=34.07  Aligned_cols=24  Identities=21%  Similarity=0.080  Sum_probs=17.3

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      +.+.+.++.|+|||+.....+...
T Consensus        99 ~vi~i~G~~GsGKTT~~~~LA~~l  122 (425)
T 2ffh_A           99 NLWFLVGLQGSGKTTTAAKLALYY  122 (425)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            346778999999997666554443

>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=86.39  E-value=0.36  Score=40.38  Aligned_cols=21  Identities=19%  Similarity=0.208  Sum_probs=16.0

Q ss_pred             CcEEEEcCCCCchhhHhHHHH
Q 018574           71 RDVIAQAQSGTGKTSMIALTV   91 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~   91 (354)
                      +-++|.||||+|||..+...+
T Consensus         4 ~~i~i~GptgsGKt~la~~La   24 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLA   24 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             cEEEEECCCcCCHHHHHHHHH
Confidence            357899999999996555443

>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=86.35  E-value=0.83  Score=36.91  Aligned_cols=55  Identities=11%  Similarity=0.073  Sum_probs=31.7

Q ss_pred             cccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhh--cCCcEEEEcCCCCchhhHhH
Q 018574           31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII--KGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        31 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~--~~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..+|+++.-.+.....++..-.  .. .....+..+.  -.+.+++.+|+|+|||..+-
T Consensus        11 ~~~~~~~i~g~~~~~~~l~~l~~--~~-~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~   67 (254)
T 1ixz_A           11 PKVTFKDVAGAEEAKEELKEIVE--FL-KNPSRFHEMGARIPKGVLLVGPPGVGKTHLAR   67 (254)
T ss_dssp             CSCCGGGCCSCHHHHHHHHHHHH--HH-HCHHHHHHTTCCCCSEEEEECCTTSSHHHHHH
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHH--HH-HCHHHHHHcCCCCCCeEEEECCCCCCHHHHHH
Confidence            34678887666677666655311  01 1112232221  13459999999999996443

>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=86.29  E-value=0.94  Score=38.62  Aligned_cols=55  Identities=9%  Similarity=-0.003  Sum_probs=31.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccC---CCceeEEEEcCCHHH-HHHHHHHHHHh
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTS---SREVQALILSPTREL-ATQTEKVILAI  124 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~---~~~~~~lil~p~~~l-~~q~~~~~~~~  124 (354)
                      |.-+++.+|+|+|||..++..+.......   ..+.+++|+.-...+ ..++.+.+..+
T Consensus       122 G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~~~~~  180 (343)
T 1v5w_A          122 MAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRF  180 (343)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHc
Confidence            34579999999999977666555433211   123457777654431 33444444443

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=86.26  E-value=0.46  Score=36.90  Aligned_cols=20  Identities=45%  Similarity=0.582  Sum_probs=16.6

Q ss_pred             cCCcEEEEcCCCCchhhHhH
Q 018574           69 KGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~   88 (354)
                      .|.-+.+.||+|+|||+..-
T Consensus         6 ~g~ii~l~Gp~GsGKSTl~~   25 (205)
T 3tr0_A            6 KANLFIISAPSGAGKTSLVR   25 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHH
T ss_pred             CCcEEEEECcCCCCHHHHHH
Confidence            57778999999999997544

>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation, nucleotide-binding, hydrolase, RNA-binding, ATP-binding, DNA-binding, nuclear protein; 1.91A {Homo sapiens}

Probab=86.07  E-value=2.3  Score=32.48  Aligned_cols=88  Identities=14%  Similarity=0.213  Sum_probs=48.5

Q ss_pred             CCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHh---HHhhc-CCCeEE
Q 018574           80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED---IRKLE-HGVHVV  155 (354)
Q Consensus        80 GsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~-~~~~ii  155 (354)
                      ...|.. .+.-++...   ..+.++||.|+++.-+..+++.+...    ++.+..++|+.+..+.   ...+. ....|+
T Consensus        29 ~~~K~~-~L~~ll~~~---~~~~k~lVF~~~~~~~~~l~~~L~~~----g~~~~~lhg~~~~~~r~~~~~~f~~g~~~vL  100 (185)
T 2jgn_A           29 ESDKRS-FLLDLLNAT---GKDSLTLVFVETKKGADSLEDFLYHE----GYACTSIHGDRSQRDREEALHQFRSGKSPIL  100 (185)
T ss_dssp             GGGHHH-HHHHHHHHC----CCSCEEEEESCHHHHHHHHHHHHHT----TCCEEEEC--------CHHHHHHHHTSSSEE
T ss_pred             cHHHHH-HHHHHHHhc---CCCCeEEEEECCHHHHHHHHHHHHHc----CCceEEEeCCCCHHHHHHHHHHHHcCCCeEE
Confidence            456764 333333332   23456999999999999999988775    4677788876543322   22222 347899


Q ss_pred             EeCcHHHHHHHhcCCccCCCccEEEE
Q 018574          156 SGTPGRVCDMIKRKTLRTRAIKLLVL  181 (354)
Q Consensus       156 v~T~~~l~~~~~~~~~~~~~~~~vvv  181 (354)
                      |+|. .    . ...++....++||.
T Consensus       101 vaT~-~----~-~~Gldi~~~~~VI~  120 (185)
T 2jgn_A          101 VATA-V----A-ARGLDISNVKHVIN  120 (185)
T ss_dssp             EEEC------------CCCSBSEEEE
T ss_pred             EEcC-h----h-hcCCCcccCCEEEE
Confidence            9993 1    1 13445556777765

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=86.06  E-value=0.51  Score=35.48  Aligned_cols=19  Identities=21%  Similarity=0.414  Sum_probs=15.5

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..+++.|++|+|||+..-
T Consensus         4 ~~~i~l~G~~GsGKSTl~~   22 (173)
T 1kag_A            4 KRNIFLVGPMGAGKSTIGR   22 (173)
T ss_dssp             CCCEEEECCTTSCHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHH
Confidence            4678999999999996443

>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=86.05  E-value=2.3  Score=36.99  Aligned_cols=25  Identities=16%  Similarity=0.266  Sum_probs=19.9

Q ss_pred             ccccCcccCCCCHHHHHHHHHCCCC
Q 018574           30 EAITSFDAMGIKDDLLRGIYQYGFE   54 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~~~~   54 (354)
                      ..+..+...|+++..++.|++.||.
T Consensus        81 ~~~~~l~~~gi~~~~~~~L~~ag~~  105 (400)
T 3lda_A           81 VPIEKLQVNGITMADVKKLRESGLH  105 (400)
T ss_dssp             CBGGGGCCTTCCHHHHHHHHHTTCC
T ss_pred             cCHHHHHhCCCCHHHHHHHHHcCCC
Confidence            3455666778999999999999985

>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=86.04  E-value=0.49  Score=36.17  Aligned_cols=20  Identities=45%  Similarity=0.712  Sum_probs=16.5

Q ss_pred             cCCcEEEEcCCCCchhhHhH
Q 018574           69 KGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+..+++.|++|+|||++.-
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~   28 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAE   28 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            45679999999999997544

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=85.96  E-value=3.6  Score=37.03  Aligned_cols=35  Identities=11%  Similarity=0.130  Sum_probs=22.9

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      .+++.+++|+|||+.+...+......   +.+++++..
T Consensus       103 vI~ivG~~GvGKTTl~~kLA~~l~~~---G~kVllVd~  137 (504)
T 2j37_W          103 VIMFVGLQGSGKTTTCSKLAYYYQRK---GWKTCLICA  137 (504)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT---TCCEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhC---CCeEEEEec
Confidence            57888999999997766655443322   234566554

>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=85.89  E-value=0.45  Score=38.59  Aligned_cols=19  Identities=21%  Similarity=0.351  Sum_probs=15.8

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+.+++.||+|+|||..+-
T Consensus        39 ~~~vll~G~~GtGKT~la~   57 (262)
T 2qz4_A           39 PKGALLLGPPGCGKTLLAK   57 (262)
T ss_dssp             CCEEEEESCTTSSHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHH
Confidence            5679999999999996443

>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=85.72  E-value=0.39  Score=36.76  Aligned_cols=19  Identities=21%  Similarity=0.354  Sum_probs=15.6

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..+++.|++|+|||+..-
T Consensus         3 ~~~I~i~G~~GsGKsT~~~   21 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQ   21 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHH
Confidence            4578999999999997544

>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=85.71  E-value=0.44  Score=39.76  Aligned_cols=20  Identities=15%  Similarity=0.233  Sum_probs=15.6

Q ss_pred             cEEEEcCCCCchhhHhHHHH
Q 018574           72 DVIAQAQSGTGKTSMIALTV   91 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~   91 (354)
                      -++|.||||+|||..+...+
T Consensus        12 ~i~i~GptgsGKt~la~~La   31 (316)
T 3foz_A           12 AIFLMGPTASGKTALAIELR   31 (316)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHH
Confidence            47899999999997555443

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=85.55  E-value=0.45  Score=38.61  Aligned_cols=19  Identities=21%  Similarity=0.158  Sum_probs=14.7

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      -+++.||+|||||+.+...
T Consensus         3 li~I~G~~GSGKSTla~~L   21 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQI   21 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            3689999999999755433

>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=85.53  E-value=0.43  Score=40.48  Aligned_cols=20  Identities=40%  Similarity=0.674  Sum_probs=17.1

Q ss_pred             hhcCCcEEEEcCCCCchhhH
Q 018574           67 IIKGRDVIAQAQSGTGKTSM   86 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~   86 (354)
                      +..|+.+.+.+|+|+|||+.
T Consensus       168 i~~g~~v~i~G~~GsGKTTl  187 (330)
T 2pt7_A          168 IAIGKNVIVCGGTGSGKTTY  187 (330)
T ss_dssp             HHHTCCEEEEESTTSCHHHH
T ss_pred             ccCCCEEEEECCCCCCHHHH
Confidence            34589999999999999963

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=85.48  E-value=0.38  Score=36.41  Aligned_cols=17  Identities=18%  Similarity=0.351  Sum_probs=14.0

Q ss_pred             cEEEEcCCCCchhhHhH
Q 018574           72 DVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~   88 (354)
                      -+++.|++|||||+.+-
T Consensus         4 ~I~i~G~~GsGKST~a~   20 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAR   20 (181)
T ss_dssp             EEEEECCTTSSHHHHHH
T ss_pred             EEEEecCCCCCHHHHHH
Confidence            47899999999997544

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=85.42  E-value=0.17  Score=51.56  Aligned_cols=34  Identities=21%  Similarity=0.223  Sum_probs=24.2

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCC
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDL  207 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~  207 (354)
                      ++-+++++||+=..++......+...+..+.+++
T Consensus       571 ~~~~IliLDE~tSaLD~~te~~i~~~l~~~~~~~  604 (1321)
T 4f4c_A          571 RNPKILLLDEATSALDAESEGIVQQALDKAAKGR  604 (1321)
T ss_dssp             TCCSEEEEESTTTTSCTTTHHHHHHHHHHHHTTS
T ss_pred             cCCCEEEEecccccCCHHHHHHHHHHHHHHhCCC
Confidence            4678999999998888766666666665544443

>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=85.39  E-value=1.2  Score=36.60  Aligned_cols=28  Identities=14%  Similarity=0.186  Sum_probs=21.8

Q ss_pred             hhhhcCCcEEEEcCCCCchhhHhHHHHh
Q 018574           65 MPIIKGRDVIAQAQSGTGKTSMIALTVC   92 (354)
Q Consensus        65 ~~~~~~~~~ii~~~tGsGKT~~~~~~~~   92 (354)
                      ..+..|.-+++.+|+|+|||+.+...+.
T Consensus        25 ggl~~G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           25 PNMVAGTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TTEETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCccCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            3456688899999999999976665554

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=85.14  E-value=0.49  Score=39.30  Aligned_cols=54  Identities=9%  Similarity=0.109  Sum_probs=30.9

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHH-HHhHhhhh-cCCcEEEEcCCCCchhhHhH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQ-QRAVMPII-KGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q-~~~~~~~~-~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+|+++.=.+...+.+.+.-.   .+.. .+.+..+. .++.+++.||+|+|||..+-
T Consensus        17 ~~~~~~i~G~~~~~~~l~~~i~---~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~   72 (297)
T 3b9p_A           17 KVEWTDIAGQDVAKQALQEMVI---LPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLAR   72 (297)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHTH---HHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHH
T ss_pred             CCCHHHhCChHHHHHHHHHHHH---hhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHH
Confidence            3567777656666666655311   1111 11111122 35789999999999996443

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=85.06  E-value=1  Score=41.10  Aligned_cols=41  Identities=15%  Similarity=0.317  Sum_probs=26.3

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCC-ceeEEEEcCC
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSR-EVQALILSPT  110 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~-~~~~lil~p~  110 (354)
                      ..+++|.+.||||||.+.-..+...+....+ ..+++++=|.
T Consensus       214 ~pHlLIaG~TGSGKS~~L~tlI~sLl~~~sP~ev~lilIDpK  255 (574)
T 2iut_A          214 MPHLLVAGTTGSGKSVGVNAMLLSILFKSTPSEARLIMIDPK  255 (574)
T ss_dssp             SCCEEEECCTTSSHHHHHHHHHHHHHTTCCTTTEEEEEECSS
T ss_pred             CCeeEEECCCCCCHHHHHHHHHHHHHHhCCCcceEEEEeCCC
Confidence            4689999999999997666555555544333 3344444343

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=85.05  E-value=0.62  Score=36.79  Aligned_cols=22  Identities=23%  Similarity=0.318  Sum_probs=16.9

Q ss_pred             hhcCCcEEEEcCCCCchhhHhH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..|+-+.+.||+|+|||+..-
T Consensus        20 i~~G~~~~lvGpsGsGKSTLl~   41 (218)
T 1z6g_A           20 MNNIYPLVICGPSGVGKGTLIK   41 (218)
T ss_dssp             --CCCCEEEECSTTSSHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHH
Confidence            3458889999999999996443

>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=84.81  E-value=0.46  Score=40.76  Aligned_cols=20  Identities=25%  Similarity=0.451  Sum_probs=16.0

Q ss_pred             cCCcEEEEcCCCCchhhHhH
Q 018574           69 KGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+..+++.||||||||+..-
T Consensus       122 ~~g~i~I~GptGSGKTTlL~  141 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLA  141 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHH
Confidence            45578999999999996443

>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=84.74  E-value=0.44  Score=41.17  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=17.9

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      +..|..+++.||||+|||+..-.
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~  155 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIAS  155 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHH
T ss_pred             hcCCCEEEEECCCCCCHHHHHHH
Confidence            34577899999999999965443

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=84.69  E-value=0.58  Score=36.36  Aligned_cols=23  Identities=17%  Similarity=0.273  Sum_probs=17.4

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      -.++.|++|+|||..+...+...
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~~   29 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMAND   29 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            46899999999998766554443

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=84.67  E-value=0.48  Score=39.42  Aligned_cols=18  Identities=17%  Similarity=0.010  Sum_probs=14.5

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      +.+++.||+|+|||..+-
T Consensus        37 ~~lLl~GppGtGKT~la~   54 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCE   54 (293)
T ss_dssp             SEEEEEECTTSCHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHH
Confidence            568899999999996443

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=84.57  E-value=0.62  Score=36.12  Aligned_cols=20  Identities=35%  Similarity=0.551  Sum_probs=16.5

Q ss_pred             cCCcEEEEcCCCCchhhHhH
Q 018574           69 KGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+..+++.||+|+|||+.+-
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~   47 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAH   47 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHH
Confidence            46789999999999996544

>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=84.43  E-value=0.41  Score=36.12  Aligned_cols=19  Identities=21%  Similarity=0.331  Sum_probs=15.6

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..+++.|++|+|||+..-
T Consensus         8 g~~i~l~G~~GsGKSTl~~   26 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVAS   26 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHH
Confidence            5578999999999996544

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*

Probab=84.38  E-value=2.3  Score=38.72  Aligned_cols=71  Identities=11%  Similarity=0.206  Sum_probs=47.6

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc----ccC-C-CcCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW----ARG-L-DVQQ  340 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~----~~G-i-di~~  340 (354)
                      ..++||.++++..+.++++.+++.    ++.+..++|+.+...+...+.    ...+|+|+|. .+    ..+ + ++.+
T Consensus        55 ~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~i~v~T~~~l~~~~~~~~~~~~~~  130 (556)
T 4a2p_A           55 KAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVI----EDSDIIVVTPQILVNSFEDGTLTSLSI  130 (556)
T ss_dssp             CCCEEEECSSHHHHHHHHHHHHHHHGGGTCCEEECCCC-----CHHHHH----HHCSEEEECHHHHHHHHHSSSCCCSTT
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHHhcccCceEEEEeCCCCcchhHHHhh----CCCCEEEECHHHHHHHHHhCccccccc
Confidence            578999999999998888888764    889999999976554332221    2478999995 22    222 3 5667


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       131 ~~~vVi  136 (556)
T 4a2p_A          131 FTLMIF  136 (556)
T ss_dssp             CSEEEE
T ss_pred             CCEEEE
Confidence            777765

>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=84.35  E-value=0.58  Score=35.06  Aligned_cols=17  Identities=18%  Similarity=0.122  Sum_probs=14.1

Q ss_pred             cEEEEcCCCCchhhHhH
Q 018574           72 DVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~   88 (354)
                      .+++.|++|+|||+..-
T Consensus         3 ~i~l~G~~GsGKsT~~~   19 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAA   19 (173)
T ss_dssp             EEEEECSSSSSHHHHHH
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            47899999999997544

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=84.27  E-value=0.39  Score=38.29  Aligned_cols=22  Identities=27%  Similarity=0.344  Sum_probs=13.8

Q ss_pred             hhcCCcEEEEcCCCCchhhHhH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..|+-+.+.||+|+|||+..-
T Consensus        24 v~~G~ii~l~Gp~GsGKSTl~~   45 (231)
T 3lnc_A           24 KSVGVILVLSSPSGCGKTTVAN   45 (231)
T ss_dssp             EECCCEEEEECSCC----CHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHH
Confidence            4457788999999999997544

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=84.04  E-value=0.62  Score=37.75  Aligned_cols=54  Identities=22%  Similarity=0.252  Sum_probs=29.1

Q ss_pred             ccCcccCCCCHHHHHHHHHCC--CCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYG--FEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~--~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+|+++.-.+...+.+.+.-  +..+..++...   ....+.+++.||+|+|||..+-
T Consensus         8 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~---~~~~~~vll~G~~GtGKT~la~   63 (257)
T 1lv7_A            8 KTTFADVAGCDEAKEEVAELVEYLREPSRFQKLG---GKIPKGVLMVGPPGTGKTLLAK   63 (257)
T ss_dssp             CCCGGGSCSCHHHHHHTHHHHHHHHCGGGC--------CCCCEEEEECCTTSCHHHHHH
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcC---CCCCCeEEEECcCCCCHHHHHH
Confidence            457787766666666554420  10111111100   1124579999999999996443

>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=84.03  E-value=0.68  Score=36.13  Aligned_cols=23  Identities=30%  Similarity=0.553  Sum_probs=17.1

Q ss_pred             hhhcCCcEEEEcCCCCchhhHhH
Q 018574           66 PIIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        66 ~~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+..|+-+.+.+|+|+|||+..-
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~   38 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVR   38 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHH
Confidence            46678889999999999996443

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=83.84  E-value=1  Score=37.51  Aligned_cols=25  Identities=20%  Similarity=0.365  Sum_probs=18.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      ++.+.+.+++|+|||+.....+...
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            5578899999999997666554443

>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=83.76  E-value=0.95  Score=37.58  Aligned_cols=42  Identities=14%  Similarity=0.112  Sum_probs=26.8

Q ss_pred             hhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           66 PIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        66 ~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      .+..|.-+++.||+|+|||......+.......  +.+++++..
T Consensus        31 ~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~--G~~v~~~~~   72 (296)
T 1cr0_A           31 GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAM--GKKVGLAML   72 (296)
T ss_dssp             SBCTTCEEEEEESTTSSHHHHHHHHHHHHHHTS--CCCEEEEES
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHHc--CCeEEEEeC
Confidence            344578899999999999976655444333321  224666653

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=83.63  E-value=0.56  Score=37.04  Aligned_cols=22  Identities=18%  Similarity=0.286  Sum_probs=16.5

Q ss_pred             cCCcEEEEcCCCCchhhHhHHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      +.+-+++.||+||||++.+-..
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L   49 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKL   49 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3456788999999999755443

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=83.50  E-value=1.6  Score=39.64  Aligned_cols=71  Identities=15%  Similarity=0.280  Sum_probs=49.6

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc----ccC-C-CcCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW----ARG-L-DVQQ  340 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~----~~G-i-di~~  340 (354)
                      ..++||+++++..+.+.+..+++.    ++.+..++|+.+...+...+.    +..+|+|+|. .+    ..+ + ++.+
T Consensus        52 ~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~i~v~T~~~l~~~~~~~~~~~~~~  127 (555)
T 3tbk_A           52 KGKVVFFANQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHII----EDNDIIILTPQILVNNLNNGAIPSLSV  127 (555)
T ss_dssp             CCCEEEECSSHHHHHHHHHHHHHHHHTTTCCEEEECTTTGGGSCHHHHH----HHCSEEEECHHHHHHHHHTSSSCCGGG
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHHhccCCcEEEEEcCCCcchhhHHHHh----cCCCEEEECHHHHHHHHhcCccccccc
Confidence            578999999999888888877664    889999999986554432221    2578999995 22    222 2 5566


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       128 ~~~vVi  133 (555)
T 3tbk_A          128 FTLMIF  133 (555)
T ss_dssp             CSEEEE
T ss_pred             CCEEEE
Confidence            676664

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=83.39  E-value=0.5  Score=36.02  Aligned_cols=20  Identities=30%  Similarity=0.443  Sum_probs=15.9

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      |..+++.|++|||||+..-.
T Consensus         4 g~~I~l~G~~GsGKST~~~~   23 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASR   23 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHH
Confidence            45689999999999975443

>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=83.27  E-value=2.5  Score=38.99  Aligned_cols=38  Identities=24%  Similarity=0.314  Sum_probs=27.0

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL  211 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~  211 (354)
                      .+.+++++||.-.-++......+...+..+..+.-++.
T Consensus       497 ~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~  534 (582)
T 3b5x_A          497 RDAPVLILDEATSALDTESERAIQAALDELQKNKTVLV  534 (582)
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHcCCCEEEE
Confidence            45689999999988887777777777766654433333

>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=82.95  E-value=7  Score=33.03  Aligned_cols=71  Identities=11%  Similarity=0.233  Sum_probs=49.6

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc-----ccCCCcCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW-----ARGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~-----~~Gidi~~  340 (354)
                      ...+++|.++++..+.++++.+++.    +..+..++|+.........+   .  ..+|+|+|. .+     ...+++.+
T Consensus        73 ~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~---~--~~~iiv~T~~~l~~~~~~~~~~~~~  147 (367)
T 1hv8_A           73 NGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKAL---K--NANIVVGTPGRILDHINRGTLNLKN  147 (367)
T ss_dssp             SSCCEEEECSCHHHHHHHHHHHHHHHCSSCCCEEEECTTSCHHHHHHHH---H--TCSEEEECHHHHHHHHHTTCSCTTS
T ss_pred             CCCcEEEEcCCHHHHHHHHHHHHHHhCCCCceEEEEECCcchHHHHhhc---C--CCCEEEecHHHHHHHHHcCCccccc
Confidence            4568999999999999988888753    66788888887655443333   2  578999995 22     12355667


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       148 ~~~iIi  153 (367)
T 1hv8_A          148 VKYFIL  153 (367)
T ss_dssp             CCEEEE
T ss_pred             CCEEEE
Confidence            777664

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=82.93  E-value=0.68  Score=38.97  Aligned_cols=19  Identities=16%  Similarity=0.284  Sum_probs=15.4

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      .+++.||||+|||......
T Consensus         7 ~i~i~GptGsGKTtla~~L   25 (323)
T 3crm_A            7 AIFLMGPTAAGKTDLAMAL   25 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999755543

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=82.82  E-value=4.5  Score=34.94  Aligned_cols=72  Identities=17%  Similarity=0.188  Sum_probs=50.4

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-----cc-ccCCCcCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-----VW-ARGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----~~-~~Gidi~~  340 (354)
                      ...+++|.++++..+.++++.+++.    ++.+..++|+.........    ..+..+|+|+|.     .+ ....++.+
T Consensus        88 ~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~----~~~~~~Ivv~T~~~l~~~~~~~~~~~~~  163 (400)
T 1s2m_A           88 NKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILR----LNETVHILVGTPGRVLDLASRKVADLSD  163 (400)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECSSSCHHHHHHH----TTSCCSEEEECHHHHHHHHHTTCSCCTT
T ss_pred             CCccEEEEcCCHHHHHHHHHHHHHHhcccCceEEEEeCCcchHHHHHH----hcCCCCEEEEchHHHHHHHHhCCccccc
Confidence            3458999999999998888888653    6778888888764433221    236789999994     12 23456777


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       164 ~~~vIi  169 (400)
T 1s2m_A          164 CSLFIM  169 (400)
T ss_dssp             CCEEEE
T ss_pred             CCEEEE
Confidence            777764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=82.77  E-value=0.77  Score=34.33  Aligned_cols=19  Identities=21%  Similarity=0.366  Sum_probs=15.7

Q ss_pred             CcEEEEcCCCCchhhHhHH
Q 018574           71 RDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~   89 (354)
                      +++++.+++|||||++.-.
T Consensus         8 ~~i~l~G~~GsGKSTva~~   26 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQE   26 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHH
Confidence            5789999999999975543

>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=82.63  E-value=0.51  Score=36.16  Aligned_cols=20  Identities=25%  Similarity=0.326  Sum_probs=15.8

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      +..+++.|++|+|||+..-.
T Consensus         5 ~~~I~l~G~~GsGKST~~~~   24 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQA   24 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHH
Confidence            45689999999999975443

>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=82.63  E-value=0.77  Score=38.69  Aligned_cols=17  Identities=24%  Similarity=0.403  Sum_probs=13.8

Q ss_pred             cEEEEcCCCCchhhHhH
Q 018574           72 DVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~   88 (354)
                      -+++.|+.|+|||+..-
T Consensus         6 v~~i~G~~GaGKTTll~   22 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLR   22 (318)
T ss_dssp             EEEEEESSSSSCHHHHH
T ss_pred             EEEEEecCCCCHHHHHH
Confidence            36899999999997543

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=82.56  E-value=0.84  Score=36.07  Aligned_cols=22  Identities=41%  Similarity=0.614  Sum_probs=16.8

Q ss_pred             hhcCCcEEEEcCCCCchhhHhH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      .-.|+-+++.||.|+|||+..-
T Consensus        13 ~~~G~ii~l~GpsGsGKSTLlk   34 (219)
T 1s96_A           13 MAQGTLYIVSAPSGAGKSSLIQ   34 (219)
T ss_dssp             --CCCEEEEECCTTSCHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHH
Confidence            3457889999999999996443

>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA helicase, DEAD-BOX, ATP-binding, HE hydrolase, mitochondrion; HET: ANP; 1.90A {Saccharomyces cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A* 4db2_A 4db4_A

Probab=82.52  E-value=12  Score=34.14  Aligned_cols=91  Identities=7%  Similarity=0.095  Sum_probs=60.0

Q ss_pred             hHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHH
Q 018574           87 IALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRV  162 (354)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l  162 (354)
                      .+..+...+.....+.++||.|+++.-+..+++.+..... .++.+..++++....+...   .+. ...+|+|+|.   
T Consensus       325 ~~~~l~~~~~~~~~~~~~iVF~~s~~~~~~l~~~L~~~~~-~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vLvaT~---  400 (563)
T 3i5x_A          325 AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFK-KDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD---  400 (563)
T ss_dssp             HHHHHHHHHHHTTTCCEEEEECSCHHHHHHHHHHHHHHHT-TTSCEEEESTTSCHHHHHHHHHHHHHCSSEEEEECG---
T ss_pred             HHHHHHHHHhhcCCCCcEEEEcCcHHHHHHHHHHHHHhcc-CCceEEEecCCCCHHHHHHHHHHHhcCCCCEEEEcc---
Confidence            3333444444434556799999999999999999887632 2467778888866544332   222 4588999994   


Q ss_pred             HHHHhcCCccCCCccEEEEecc
Q 018574          163 CDMIKRKTLRTRAIKLLVLDES  184 (354)
Q Consensus       163 ~~~~~~~~~~~~~~~~vvvDE~  184 (354)
                         .-...++..++++||.-..
T Consensus       401 ---~~~~GiDip~v~~VI~~~~  419 (563)
T 3i5x_A          401 ---VGARGMDFPNVHEVLQIGV  419 (563)
T ss_dssp             ---GGTSSCCCTTCCEEEEESC
T ss_pred             ---hhhcCCCcccCCEEEEECC
Confidence               2234667777888876553

>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=82.49  E-value=0.77  Score=35.90  Aligned_cols=19  Identities=16%  Similarity=0.170  Sum_probs=14.9

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      .+++.||+||||++.+-..
T Consensus         2 ~Iil~GpPGsGKgTqa~~L   20 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRL   20 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3688999999999755543

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}

Probab=82.46  E-value=5.6  Score=34.43  Aligned_cols=73  Identities=12%  Similarity=0.210  Sum_probs=50.8

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-----cc-ccCCCcCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-----VW-ARGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----~~-~~Gidi~~  340 (354)
                      ...+++|.++++..+.++++.+++.    +..+..+.|+.+...   ..+.+..+..+|+|+|.     .+ ...++...
T Consensus       107 ~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~  183 (414)
T 3eiq_A          107 KATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRA---EVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKY  183 (414)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHGGGSCCCEEECCCCTTHHH---HHHHHTTTCCSEEEECHHHHHHHHHHTSSCSTT
T ss_pred             CceeEEEEeChHHHHHHHHHHHHHHhcccCceEEEEECCcchHH---HHHHHhcCCCCEEEECHHHHHHHHHcCCccccc
Confidence            4568999999999999998888754    566777777755333   34455668899999994     22 22355666


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       184 ~~~vVi  189 (414)
T 3eiq_A          184 IKMFVL  189 (414)
T ss_dssp             CCEEEE
T ss_pred             CcEEEE
Confidence            776654

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=82.35  E-value=0.33  Score=44.85  Aligned_cols=38  Identities=16%  Similarity=0.241  Sum_probs=26.2

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL  211 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~  211 (354)
                      .+.+++++||.-.-++......+...+..+..+.-++.
T Consensus       496 ~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~  533 (587)
T 3qf4_A          496 KKPKVLILDDCTSSVDPITEKRILDGLKRYTKGCTTFI  533 (587)
T ss_dssp             TCCSEEEEESCCTTSCHHHHHHHHHHHHHHSTTCEEEE
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHhCCCCEEEE
Confidence            45689999999988887766667666666544443333

>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=82.33  E-value=0.74  Score=41.05  Aligned_cols=20  Identities=40%  Similarity=0.644  Sum_probs=16.4

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      ++++++.||+|+|||..+-.
T Consensus        63 ~~~iLl~GppGtGKT~la~a   82 (456)
T 2c9o_A           63 GRAVLLAGPPGTGKTALALA   82 (456)
T ss_dssp             TCEEEEECCTTSSHHHHHHH
T ss_pred             CCeEEEECCCcCCHHHHHHH
Confidence            46899999999999965543

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=82.08  E-value=0.77  Score=38.93  Aligned_cols=19  Identities=16%  Similarity=0.240  Sum_probs=15.3

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      -++|.||||||||..+...
T Consensus         9 lI~I~GptgSGKTtla~~L   27 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEV   27 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             eEEEECCCcCcHHHHHHHH
Confidence            5789999999999765443

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=81.93  E-value=0.58  Score=35.90  Aligned_cols=19  Identities=26%  Similarity=0.244  Sum_probs=15.2

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..+++.|++|||||+.+-
T Consensus         3 ~~~I~l~G~~GsGKsT~a~   21 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCA   21 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHH
Confidence            3458999999999997554

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=81.91  E-value=1  Score=36.40  Aligned_cols=21  Identities=29%  Similarity=0.482  Sum_probs=17.5

Q ss_pred             cCCcEEEEcCCCCchhhHhHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      .++.+++.|++|+|||+..-.
T Consensus        47 ~g~~i~l~G~~GsGKSTl~~~   67 (250)
T 3nwj_A           47 NGRSMYLVGMMGSGKTTVGKI   67 (250)
T ss_dssp             TTCCEEEECSTTSCHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHH
Confidence            389999999999999975443

>3nwn_A Kinesin-like protein KIF9; motor domain, ADP, structural genomics, structural consortium, SGC, contractIle protein; HET: ADP; 2.00A {Homo sapiens}

Probab=81.87  E-value=0.95  Score=38.74  Aligned_cols=27  Identities=26%  Similarity=0.432  Sum_probs=19.2

Q ss_pred             hHhhhhcCCc--EEEEcCCCCchhhHhHH
Q 018574           63 AVMPIIKGRD--VIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        63 ~~~~~~~~~~--~ii~~~tGsGKT~~~~~   89 (354)
                      +++.+++|.+  ++.-|.||||||....-
T Consensus        96 lv~~~l~G~N~tifAYGQTGSGKTyTM~G  124 (359)
T 3nwn_A           96 VVSQALDGYNGTIMCYGQTGAGKTYTMMG  124 (359)
T ss_dssp             HHHHHHTTCCEEEEEEESTTSSHHHHHTB
T ss_pred             HHHHHhCCCCEEEEEeCCCCCCccEEeCC
Confidence            3444556765  58889999999976643

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=81.57  E-value=0.96  Score=37.81  Aligned_cols=19  Identities=32%  Similarity=0.480  Sum_probs=15.9

Q ss_pred             cCCcEEEEcCCCCchhhHh
Q 018574           69 KGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~   87 (354)
                      ...++++.|++|+|||..+
T Consensus        24 ~~~~vLi~Ge~GtGKt~lA   42 (304)
T 1ojl_A           24 SDATVLIHGDSGTGKELVA   42 (304)
T ss_dssp             TTSCEEEESCTTSCHHHHH
T ss_pred             CCCcEEEECCCCchHHHHH
Confidence            3578999999999999543

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=81.57  E-value=0.64  Score=38.54  Aligned_cols=18  Identities=33%  Similarity=0.518  Sum_probs=14.8

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      .-+++.||+|+|||+.+-
T Consensus        34 ~livl~G~sGsGKSTla~   51 (287)
T 1gvn_B           34 TAFLLGGQPGSGKTSLRS   51 (287)
T ss_dssp             EEEEEECCTTSCTHHHHH
T ss_pred             eEEEEECCCCCCHHHHHH
Confidence            458999999999997544

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=81.51  E-value=0.93  Score=34.76  Aligned_cols=21  Identities=19%  Similarity=0.245  Sum_probs=16.9

Q ss_pred             cCCcEEEEcCCCCchhhHhHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      .+..+++.|++|||||+..-.
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~   28 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEK   28 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHH
Confidence            456799999999999975443

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=81.48  E-value=0.75  Score=37.81  Aligned_cols=55  Identities=11%  Similarity=0.083  Sum_probs=32.4

Q ss_pred             cccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhh--cCCcEEEEcCCCCchhhHhH
Q 018574           31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII--KGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        31 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~--~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ...+|+++.-.+...+.++..-.  ... ....+..+.  -.+.+++.+|+|+|||..+-
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~--~~~-~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~   91 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVE--FLK-NPSRFHEMGARIPKGVLLVGPPGVGKTHLAR   91 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHH--HHH-CHHHHHHTTCCCCCEEEEECCTTSSHHHHHH
T ss_pred             CCCCHHHhCChHHHHHHHHHHHH--HHH-CHHHHHHcCCCCCCeEEEECCCcChHHHHHH
Confidence            45678888777777776665311  000 112222221  13459999999999996443

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=81.34  E-value=0.99  Score=34.00  Aligned_cols=18  Identities=17%  Similarity=0.405  Sum_probs=14.7

Q ss_pred             cEEEEcCCCCchhhHhHH
Q 018574           72 DVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~   89 (354)
                      .+++.+++|+|||+..-.
T Consensus         6 ~i~i~G~~GsGKsTla~~   23 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARA   23 (175)
T ss_dssp             CEEEECCTTSCHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHH
Confidence            689999999999975443

>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=81.25  E-value=0.54  Score=36.68  Aligned_cols=26  Identities=19%  Similarity=0.047  Sum_probs=18.8

Q ss_pred             hHhhhhcCCcEEEEcCCCCchhhHhH
Q 018574           63 AVMPIIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        63 ~~~~~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      .++.+..+.-+.+.|++|+|||+.+-
T Consensus        14 ~~~~~~~~~~i~i~G~~GsGKSTl~~   39 (207)
T 2qt1_A           14 LVPRGSKTFIIGISGVTNSGKTTLAK   39 (207)
T ss_dssp             CCCCSCCCEEEEEEESTTSSHHHHHH
T ss_pred             ccccCCCCeEEEEECCCCCCHHHHHH
Confidence            34444556678899999999996443

>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=81.23  E-value=1  Score=34.87  Aligned_cols=21  Identities=19%  Similarity=0.289  Sum_probs=16.7

Q ss_pred             cCCcEEEEcCCCCchhhHhHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      .+..+++.|++|+|||+..-.
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~   23 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMN   23 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHH
Confidence            356789999999999975543

>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=81.22  E-value=0.66  Score=35.52  Aligned_cols=19  Identities=21%  Similarity=0.305  Sum_probs=14.7

Q ss_pred             CcEEEEcCCCCchhhHhHH
Q 018574           71 RDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~   89 (354)
                      .-+++.+|+|+|||+..-.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~   21 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKR   21 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHH
Confidence            3468899999999974443

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=81.16  E-value=1.3  Score=35.38  Aligned_cols=72  Identities=17%  Similarity=0.223  Sum_probs=47.7

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-cc----cc---CCCcC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VW----AR---GLDVQ  339 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~----~~---Gidi~  339 (354)
                      +.+++|.+++++.+.++++.+++.    +..+..++++..   ..........+..+|+|+|. .+    ..   ++++.
T Consensus        98 ~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~I~v~Tp~~l~~~l~~~~~~~~~~  174 (245)
T 3dkp_A           98 GFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAV---AAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLA  174 (245)
T ss_dssp             SCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEECCCHHHH---HHTTTSTTSCCCCCEEEECHHHHHHHHHSSSCSCCCT
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHHhcccCceEEEEecCcc---HHHHhhhhhcCCCCEEEECHHHHHHHHHhCCCCcccc
Confidence            347999999999999999988764    566666665421   11111222346789999994 11    12   57888


Q ss_pred             CCcEEEe
Q 018574          340 QAILFFF  346 (354)
Q Consensus       340 ~~~~Vi~  346 (354)
                      ++++||.
T Consensus       175 ~~~~lVi  181 (245)
T 3dkp_A          175 SVEWLVV  181 (245)
T ss_dssp             TCCEEEE
T ss_pred             cCcEEEE
Confidence            8888775

>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=81.15  E-value=1.1  Score=34.07  Aligned_cols=18  Identities=17%  Similarity=0.329  Sum_probs=14.8

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+++.+++|||||+..-
T Consensus         3 ~~I~l~G~~GsGKsT~a~   20 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGR   20 (184)
T ss_dssp             CSEEEECSTTSSHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHH
Confidence            458999999999997544

>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=81.13  E-value=0.84  Score=35.34  Aligned_cols=21  Identities=29%  Similarity=0.457  Sum_probs=16.8

Q ss_pred             hcCCcEEEEcCCCCchhhHhH
Q 018574           68 IKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..|.-+.+.||+|+|||+..-
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~   43 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLAC   43 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHH
Confidence            346778999999999996544

>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=81.12  E-value=0.96  Score=34.39  Aligned_cols=16  Identities=31%  Similarity=0.744  Sum_probs=13.4

Q ss_pred             cEEEEcCCCCchhhHh
Q 018574           72 DVIAQAQSGTGKTSMI   87 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~   87 (354)
                      .+.+.+|+|+|||+..
T Consensus         2 ~i~l~G~nGsGKTTLl   17 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLV   17 (178)
T ss_dssp             EEEEECCTTSSHHHHH
T ss_pred             EEEEECCCCCCHHHHH
Confidence            4688999999999644

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=81.12  E-value=0.9  Score=36.01  Aligned_cols=19  Identities=16%  Similarity=0.254  Sum_probs=15.7

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      +..+++.|++|||||+..-
T Consensus         7 ~~~I~l~G~~GsGKsT~a~   25 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSS   25 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHH
Confidence            4678999999999997543

>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=81.10  E-value=1  Score=35.48  Aligned_cols=20  Identities=15%  Similarity=0.217  Sum_probs=16.0

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      +..+++.|++|||||+..-.
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~   23 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPN   23 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHH
Confidence            45789999999999975543

>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=80.95  E-value=0.95  Score=38.41  Aligned_cols=18  Identities=28%  Similarity=0.481  Sum_probs=15.2

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+++.||+|+|||..+-
T Consensus        52 ~~~ll~Gp~G~GKTTLa~   69 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAH   69 (334)
T ss_dssp             CCEEEESSTTSSHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHH
Confidence            679999999999996444

>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=80.93  E-value=0.97  Score=39.03  Aligned_cols=19  Identities=26%  Similarity=0.476  Sum_probs=15.8

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..++++.||+|+|||..+-
T Consensus        72 ~~~ill~Gp~GtGKT~la~   90 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQ   90 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHH
Confidence            4689999999999996444

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=80.89  E-value=0.83  Score=35.65  Aligned_cols=19  Identities=21%  Similarity=0.345  Sum_probs=15.4

Q ss_pred             cCCcEEEEcCCCCchhhHh
Q 018574           69 KGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~   87 (354)
                      .|.-+.|.||+|+|||+.+
T Consensus        21 ~g~~v~I~G~sGsGKSTl~   39 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLS   39 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHH
T ss_pred             CCeEEEEECCCCCCHHHHH
Confidence            3567889999999999644

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=80.86  E-value=0.94  Score=35.09  Aligned_cols=18  Identities=28%  Similarity=0.458  Sum_probs=15.1

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+++.|++|+|||+.+-
T Consensus        19 ~~I~l~G~~GsGKSTla~   36 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGE   36 (202)
T ss_dssp             SCEEEECSTTSCHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHH
Confidence            479999999999997544

>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=80.86  E-value=0.75  Score=36.82  Aligned_cols=18  Identities=33%  Similarity=0.460  Sum_probs=15.7

Q ss_pred             hcCCcEEEEcCCCCchhh
Q 018574           68 IKGRDVIAQAQSGTGKTS   85 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~   85 (354)
                      ..|+-+.+.+|.|+|||+
T Consensus        29 ~~Ge~~~iiG~nGsGKST   46 (235)
T 3tif_A           29 KEGEFVSIMGPSGSGKST   46 (235)
T ss_dssp             CTTCEEEEECSTTSSHHH
T ss_pred             cCCCEEEEECCCCCcHHH
Confidence            357889999999999996

>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=80.85  E-value=0.69  Score=36.58  Aligned_cols=25  Identities=20%  Similarity=0.129  Sum_probs=19.2

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTV   91 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~   91 (354)
                      +..|+-+.+.+|+|+|||+.+...+
T Consensus        22 i~~G~~~~l~G~nGsGKSTll~~l~   46 (231)
T 4a74_A           22 IETQAITEVFGEFGSGKTQLAHTLA   46 (231)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHH
Confidence            3456788999999999997655443

>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=80.84  E-value=1.4  Score=36.87  Aligned_cols=23  Identities=22%  Similarity=0.173  Sum_probs=17.2

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhh
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQ   93 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~   93 (354)
                      +-+.+.+++|+|||+.....+..
T Consensus       105 ~vi~ivG~~GsGKTTl~~~LA~~  127 (306)
T 1vma_A          105 FVIMVVGVNGTGKTTSCGKLAKM  127 (306)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHHH
Confidence            35789999999999766654443

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=80.80  E-value=0.28  Score=45.22  Aligned_cols=34  Identities=24%  Similarity=0.277  Sum_probs=23.9

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCC
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDL  207 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~  207 (354)
                      .+.+++++||.-.-++......+...+..+.++.
T Consensus       494 ~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~  527 (578)
T 4a82_A          494 NNPPILILDEATSALDLESESIIQEALDVLSKDR  527 (578)
T ss_dssp             HCCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTS
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHcCCC
Confidence            3467899999988877766666666666554444

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=80.77  E-value=0.7  Score=35.32  Aligned_cols=18  Identities=28%  Similarity=0.374  Sum_probs=14.3

Q ss_pred             cEEEEcCCCCchhhHhHH
Q 018574           72 DVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~   89 (354)
                      .+++.|++|+|||+..-.
T Consensus         3 ~I~i~G~~GsGKsT~~~~   20 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAK   20 (194)
T ss_dssp             EEEEEECTTSCHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            478999999999965443

>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=80.72  E-value=0.92  Score=35.57  Aligned_cols=18  Identities=17%  Similarity=0.259  Sum_probs=14.5

Q ss_pred             cEEEEcCCCCchhhHhHH
Q 018574           72 DVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~   89 (354)
                      .+++.|++|||||+.+-.
T Consensus         2 ~I~l~G~~GsGKsT~a~~   19 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGER   19 (216)
T ss_dssp             EEEEECSTTSSHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            478999999999975543

>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=80.65  E-value=1.2  Score=35.86  Aligned_cols=21  Identities=19%  Similarity=0.137  Sum_probs=16.4

Q ss_pred             CCcEEEEcCCCCchhhHhHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      +..+++.||+|||||+..-..
T Consensus        29 ~~~I~l~G~~GsGKsT~a~~L   49 (243)
T 3tlx_A           29 DGRYIFLGAPGSGKGTQSLNL   49 (243)
T ss_dssp             CEEEEEECCTTSSHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHH
Confidence            456899999999999755433

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=80.63  E-value=0.96  Score=35.44  Aligned_cols=18  Identities=17%  Similarity=0.362  Sum_probs=14.5

Q ss_pred             cEEEEcCCCCchhhHhHH
Q 018574           72 DVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~   89 (354)
                      .+++.|++|||||+.+-.
T Consensus         2 ~I~l~G~~GsGKsT~a~~   19 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQ   19 (216)
T ss_dssp             EEEEECSTTSSHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            478999999999975543

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}

Probab=80.61  E-value=17  Score=33.36  Aligned_cols=87  Identities=7%  Similarity=0.113  Sum_probs=58.4

Q ss_pred             HhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHH
Q 018574           91 VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMI  166 (354)
Q Consensus        91 ~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~  166 (354)
                      +...+.....+.++||.|+++.-+..+++.+..... .++.+..++++....+...   .+. ....|+|+|.      .
T Consensus       278 l~~~~~~~~~~~~~iVF~~t~~~~~~l~~~L~~~~~-~~~~v~~~hg~~~~~~R~~~~~~F~~g~~~vLVaT~------~  350 (579)
T 3sqw_A          278 IKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFK-KDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD------V  350 (579)
T ss_dssp             HHHHHHHTTTCCEEEEECSSHHHHHHHHHHHHHHHT-TTSCEEEESTTSCHHHHHHHHHHHHHCSSEEEEECG------G
T ss_pred             HHHHHhhcCCCCcEEEECCcHHHHHHHHHHHHHhhc-CCCcEEEecCCCCHHHHHHHHHHhhcCCCeEEEEcc------h
Confidence            333333334456799999999999999999987632 2467778888866544332   222 4588999994      2


Q ss_pred             hcCCccCCCccEEEEecc
Q 018574          167 KRKTLRTRAIKLLVLDES  184 (354)
Q Consensus       167 ~~~~~~~~~~~~vvvDE~  184 (354)
                      -...++...+++||.-..
T Consensus       351 ~~~GiDip~v~~VI~~~~  368 (579)
T 3sqw_A          351 GARGMDFPNVHEVLQIGV  368 (579)
T ss_dssp             GTSSCCCTTCCEEEEESC
T ss_pred             hhcCCCcccCCEEEEcCC
Confidence            234667777888886654

>1bg2_A Kinesin; motor protein, ATPase, microtubule associated; HET: ADP; 1.80A {Homo sapiens} SCOP: c.37.1.9 PDB: 2p4n_K* 1mkj_A* 2kin_A* 3kin_A*

Probab=80.56  E-value=1.2  Score=37.51  Aligned_cols=27  Identities=26%  Similarity=0.441  Sum_probs=19.4

Q ss_pred             hHhhhhcCCc--EEEEcCCCCchhhHhHH
Q 018574           63 AVMPIIKGRD--VIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        63 ~~~~~~~~~~--~ii~~~tGsGKT~~~~~   89 (354)
                      +++.+++|.+  ++..|.||||||....-
T Consensus        69 lv~~~l~G~n~tifAYGqTGSGKTyTm~G   97 (325)
T 1bg2_A           69 IVKDVLEGYNGTIFAYGQTSSGKTHTMEG   97 (325)
T ss_dssp             HHHHHHTTCCEEEEEECSTTSSHHHHHTB
T ss_pred             hHHHHhCCCeEEEEEECCCCCCCceEecc
Confidence            3444556765  58889999999976643

>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=80.48  E-value=0.51  Score=38.52  Aligned_cols=19  Identities=32%  Similarity=0.462  Sum_probs=15.5

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+.+++.||+|+|||..+-
T Consensus        44 ~~~vll~G~~GtGKT~la~   62 (268)
T 2r62_A           44 PKGVLLVGPPGTGKTLLAK   62 (268)
T ss_dssp             CSCCCCBCSSCSSHHHHHH
T ss_pred             CceEEEECCCCCcHHHHHH
Confidence            4578999999999996544

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A

Probab=80.41  E-value=5.8  Score=34.36  Aligned_cols=72  Identities=17%  Similarity=0.150  Sum_probs=50.8

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-----ccc-cCCCcCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-----VWA-RGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----~~~-~Gidi~~  340 (354)
                      ...++||.++++..+.++++.+++.    ++.+..++|+.+..+....+.    ...+|+|+|.     .+. ..++..+
T Consensus       104 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~ivv~Tp~~l~~~l~~~~~~~~~  179 (410)
T 2j0s_A          104 RETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD----YGQHVVAGTPGRVFDMIRRRSLRTRA  179 (410)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECTTSCHHHHHHHHH----HCCSEEEECHHHHHHHHHTTSSCCTT
T ss_pred             CCceEEEEcCcHHHHHHHHHHHHHHhccCCeEEEEEECCCCHHHHHHHhh----cCCCEEEcCHHHHHHHHHhCCccHhh
Confidence            3468999999999999999888653    567888888877655443332    3568999994     222 2456667


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      +++||.
T Consensus       180 ~~~vVi  185 (410)
T 2j0s_A          180 IKMLVL  185 (410)
T ss_dssp             CCEEEE
T ss_pred             eeEEEE
Confidence            777664

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=80.31  E-value=1.1  Score=35.39  Aligned_cols=20  Identities=20%  Similarity=0.282  Sum_probs=16.0

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      ...+++.|++|+|||+..-.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~   24 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCEL   24 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHH
Confidence            45789999999999975543

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=80.22  E-value=1.2  Score=34.21  Aligned_cols=41  Identities=17%  Similarity=0.230  Sum_probs=25.6

Q ss_pred             CCCccEEEEecchhh--hccCcHHHHHHHHhhCCCCCcEEEEEeeC
Q 018574          173 TRAIKLLVLDESDEM--LSRGFKDQIYDVYRYLPPDLQVVLISATL  216 (354)
Q Consensus       173 ~~~~~~vvvDE~h~~--~~~~~~~~~~~i~~~~~~~~~~i~lSaT~  216 (354)
                      ....+++|+||+..+  .+..+.+.+..+++.   ...+++-|.|.
T Consensus       103 ~~~~dvlilDE~g~~~~~~~~~~~~l~~~l~~---~~~~ilgti~v  145 (189)
T 2i3b_A          103 GPGQRVCVIDEIGKMELFSQLFIQAVRQTLST---PGTIILGTIPV  145 (189)
T ss_dssp             SSCCCCEEECCCSTTTTTCSHHHHHHHHHHHC---SSCCEEEECCC
T ss_pred             ccCCCEEEEeCCCccccccHHHHHHHHHHHhC---CCcEEEEEeec
Confidence            456789999997655  344566677776663   23345445564

>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=80.21  E-value=1  Score=38.69  Aligned_cols=20  Identities=25%  Similarity=0.325  Sum_probs=16.2

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      .+.+++.||+|+|||..+-.
T Consensus       117 ~~~vLl~GppGtGKT~la~a  136 (357)
T 3d8b_A          117 PKGILLFGPPGTGKTLIGKC  136 (357)
T ss_dssp             CSEEEEESSTTSSHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHH
Confidence            46899999999999965443

>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=80.19  E-value=0.88  Score=39.53  Aligned_cols=20  Identities=15%  Similarity=0.331  Sum_probs=15.4

Q ss_pred             cEEEEcCCCCchhhHhHHHH
Q 018574           72 DVIAQAQSGTGKTSMIALTV   91 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~   91 (354)
                      -++|.||||+|||..+...+
T Consensus         4 ~i~i~GptgsGKttla~~La   23 (409)
T 3eph_A            4 VIVIAGTTGVGKSQLSIQLA   23 (409)
T ss_dssp             EEEEEECSSSSHHHHHHHHH
T ss_pred             EEEEECcchhhHHHHHHHHH
Confidence            46899999999997655443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	354
d2j0sa1	222	c.37.1.19 (A:22-243) Probable ATP-dependent RNA he	6e-58
d2g9na1	218	c.37.1.19 (A:21-238) Initiation factor 4a {Human (	3e-51
d1qdea_	212	c.37.1.19 (A:) Initiation factor 4a {Baker's yeast	6e-51
d1hv8a1	208	c.37.1.19 (A:3-210) Putative DEAD box RNA helicase	8e-49
d1t6na_	207	c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP5	4e-42
d1veca_	206	c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Huma	1e-41
d1wrba1	238	c.37.1.19 (A:164-401) putative ATP-dependent RNA h	3e-41
d1s2ma1	206	c.37.1.19 (A:46-251) Putative ATP-dependent RNA he	6e-38
d1q0ua_	209	c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR	5e-33
d2bmfa2	305	c.37.1.14 (A:178-482) Dengue virus helicase {Dengu	9e-26
d2j0sa2	168	c.37.1.19 (A:244-411) Probable ATP-dependent RNA h	2e-23
d1fuka_	162	c.37.1.19 (A:) Initiation factor 4a {Baker's yeast	6e-22
d1oywa2	206	c.37.1.19 (A:1-206) RecQ helicase domain {Escheric	3e-21
d1gkub1	237	c.37.1.16 (B:1-250) Helicase-like "domain" of reve	2e-20
d2p6ra3	202	c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus	2e-20
d2rb4a1	168	c.37.1.19 (A:307-474) ATP-dependent RNA helicase D	4e-17
d1a1va2	299	c.37.1.14 (A:326-624) HCV helicase domain {Human h	8e-15
d1gkub2	248	c.37.1.16 (B:251-498) Helicase-like "domain" of re	2e-13
d1wp9a1	200	c.37.1.19 (A:1-200) putative ATP-dependent RNA hel	2e-13
d1wp9a2	286	c.37.1.19 (A:201-486) putative ATP-dependent RNA h	6e-12
d1s2ma2	171	c.37.1.19 (A:252-422) Putative ATP-dependent RNA h	1e-11
d1t5ia_	168	c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP5	4e-10
d1hv8a2	155	c.37.1.19 (A:211-365) Putative DEAD box RNA helica	4e-10
d1oywa3	200	c.37.1.19 (A:207-406) RecQ helicase domain {Escher	9e-10
d1jr6a_	138	c.37.1.14 (A:) HCV helicase domain {Human hepatiti	2e-06
d1t5la2	181	c.37.1.19 (A:415-595) Nucleotide excision repair e	6e-06
d2fwra1	200	c.37.1.19 (A:257-456) DNA repair protein RAD25 {Ar	8e-06
d1yksa2	299	c.37.1.14 (A:325-623) YFV helicase domain {Yellow	0.003
d1yksa1	140	c.37.1.14 (A:185-324) YFV helicase domain {Yellow	0.004

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {Human (Homo sapiens) [TaxId: 9606]} Length = 222

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 ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  185 bits (470), Expect = 6e-58
 Identities = 157/222 (70%), Positives = 193/222 (86%)

Query: 17  DDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQ 76
           D  K+ FET+E V+   +FD MG+++DLLRGIY YGFEKPSAIQQRA+  IIKGRDVIAQ
Sbjct: 1   DMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQ 60

Query: 77  AQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACV 136
           +QSGTGKT+  +++V Q +D   RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+
Sbjct: 61  SQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACI 120

Query: 137 GGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQI 196
           GG +VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QI
Sbjct: 121 GGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQI 180

Query: 197 YDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKR 238
           YDVYRYLPP  QVVLISATLPHEILEMT KFMTDP++ILVKR
Sbjct: 181 YDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKR 222

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {Human (Homo sapiens) [TaxId: 9606]} Length = 218

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: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  167 bits (424), Expect = 3e-51
 Identities = 119/210 (56%), Positives = 164/210 (78%), Gaps = 1/210 (0%)

Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           E + SFD M + + LLRGIY YGFEKPSAIQQRA++P IKG DVIAQAQSGTGKT+  A+
Sbjct: 9   EIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAI 68

Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
           ++ Q ++   +  QAL+L+PTRELA Q +KV++A+GD++    HAC+GG +V  +++KL+
Sbjct: 69  SILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQ 128

Query: 150 HGV-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
               H++ GTPGRV DM+ R+ L  + IK+ VLDE+DEMLSRGFKDQIYD+++ L  + Q
Sbjct: 129 MEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 188

Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKR 238
           VVL+SAT+P ++LE+T KFM DP++ILVK+
Sbjct: 189 VVLLSATMPSDVLEVTKKFMRDPIRILVKK 218

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 212

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: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  166 bits (422), Expect = 6e-51
 Identities = 115/207 (55%), Positives = 157/207 (75%), Gaps = 1/207 (0%)

Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
           + +  FD M + ++LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT   ++
Sbjct: 7   KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 66

Query: 90  TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
              Q +DTS +  QAL+L+PTRELA Q +KV++A+   ++I+ HAC+GG S  ED   L 
Sbjct: 67  AALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL- 125

Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
               +V GTPGRV D I+R+  RT  IK+ +LDE+DEMLS GFK+QIY ++  LPP  QV
Sbjct: 126 RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 185

Query: 210 VLISATLPHEILEMTTKFMTDPVKILV 236
           VL+SAT+P+++LE+TTKFM +PV+ILV
Sbjct: 186 VLLSATMPNDVLEVTTKFMRNPVRILV 212

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 208

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]

 Score =  161 bits (408), Expect = 8e-49
 Identities = 64/204 (31%), Positives = 105/204 (51%), Gaps = 1/204 (0%)

Query: 34  SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
           +F+ + + D++L  I   GFEKP+ IQ + +   +     I          +        
Sbjct: 5   NFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 64

Query: 94  TVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVH 153
            +   +  ++A+IL+PTRELA Q    I ++    N++     GGK++   I+ L+   +
Sbjct: 65  ELVNENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALK-NAN 123

Query: 154 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS 213
           +V GTPGR+ D I R TL  + +K  +LDE+DEML+ GF   +  +      D +++L S
Sbjct: 124 IVVGTPGRILDHINRGTLNLKNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFS 183

Query: 214 ATLPHEILEMTTKFMTDPVKILVK 237
           AT+P EIL +  K+M D   I  K
Sbjct: 184 ATMPREILNLAKKYMGDYSFIKAK 207

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]} Length = 207

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]

 Score =  143 bits (362), Expect = 4e-42
 Identities = 73/207 (35%), Positives = 114/207 (55%), Gaps = 3/207 (1%)

Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
           + F    +K +LLR I   GFE PS +Q   +   I G DV+ QA+SG GKT++  L   
Sbjct: 1   SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 60

Query: 93  QTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK-SVGEDIRKL-EH 150
           Q ++  + +V  L++  TRELA Q  K       ++     A   G  S+ +D   L ++
Sbjct: 61  QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKN 120

Query: 151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQV 209
             H+V GTPGR+  + + K+L  + IK  +LDE D+ML +   +  + +++R  P + QV
Sbjct: 121 CPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQV 180

Query: 210 VLISATLPHEILEMTTKFMTDPVKILV 236
           ++ SATL  EI  +  KFM DP++I V
Sbjct: 181 MMFSATLSKEIRPVCRKFMQDPMEIFV 207

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo sapiens) [TaxId: 9606]} Length = 206

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: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  142 bits (359), Expect = 1e-41
 Identities = 67/203 (33%), Positives = 120/203 (59%), Gaps = 1/203 (0%)

Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
             F+   +K +LL GI++ G+EKPS IQ+ ++   + GRD++A+A++GTGK+    + + 
Sbjct: 3   NEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL 62

Query: 93  QTVDTSSREVQALILSPTREL-ATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
           + +D     +QA+++ PTREL    ++  I         +  A  GG ++ +DI +L+  
Sbjct: 63  ERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDT 122

Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
           VHVV  TPGR+ D+IK+   +   ++++VLDE+D++LS+ F   + D+   LP + Q++L
Sbjct: 123 VHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILL 182

Query: 212 ISATLPHEILEMTTKFMTDPVKI 234
            SAT P  + +     +  P +I
Sbjct: 183 YSATFPLSVQKFMNSHLEKPYEI 205

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]} Length = 238

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 VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

 Score =  142 bits (359), Expect = 3e-41
 Identities = 61/220 (27%), Positives = 110/220 (50%), Gaps = 13/220 (5%)

Query: 30  EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
             I +FD + +   +   I    +++P+ IQ+ A+  I++ RD++A AQ+G+GKT+   +
Sbjct: 18  NVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLI 77

Query: 90  TVCQTV---------DTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKS 140
            +   +          + +   + LIL+PTRELA Q             +++    GG  
Sbjct: 78  PIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGAD 137

Query: 141 VGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVY 200
               IR+++ G H++  TPGR+ D I++  +     K +VLDE+D ML  GF+ QI  + 
Sbjct: 138 THSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKII 197

Query: 201 RYL----PPDLQVVLISATLPHEILEMTTKFMTDPVKILV 236
                    + Q ++ SAT P EI ++   F+ + + + V
Sbjct: 198 EESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTV 237

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 206

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 DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  132 bits (333), Expect = 6e-38
 Identities = 82/201 (40%), Positives = 121/201 (60%)

Query: 34  SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
           +F+   +K +LL GI++ GFEKPS IQ+ A+   I GRD++A+A++GTGKT+   +   +
Sbjct: 2   TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLE 61

Query: 94  TVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVH 153
            V     ++QALI+ PTRELA QT +V+  +G    I      GG ++ +DI +L   VH
Sbjct: 62  KVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVH 121

Query: 154 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS 213
           ++ GTPGRV D+  RK        L ++DE+D+MLSR FK  I  +  +LPP  Q +L S
Sbjct: 122 ILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFS 181

Query: 214 ATLPHEILEMTTKFMTDPVKI 234
           AT P  + E   K +  P +I
Sbjct: 182 ATFPLTVKEFMVKHLHKPYEI 202

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {Bacillus stearothermophilus [TaxId: 1422]} Length = 209

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]

 Score =  120 bits (300), Expect = 5e-33
 Identities = 59/208 (28%), Positives = 101/208 (48%), Gaps = 4/208 (1%)

Query: 33  TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
           T F     +  ++  I    F KP+ IQ+R +   ++G  ++ Q+Q+GTGKT    L + 
Sbjct: 1   TQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPIM 60

Query: 93  QTVDTSSRE----VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL 148
           + +     E    + A       ++  +T K+         I A   +GG    + + KL
Sbjct: 61  EKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKALEKL 120

Query: 149 EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
               H+V GTPGR+ D I+ + L      +LV+DE+D ML  GF   +  +   +P DLQ
Sbjct: 121 NVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLMLDMGFITDVDQIAARMPKDLQ 180

Query: 209 VVLISATLPHEILEMTTKFMTDPVKILV 236
           +++ SAT+P ++     K+M +P  + V
Sbjct: 181 MLVFSATIPEKLKPFLKKYMENPTFVHV 208

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]} Length = 305

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]

 Score =  103 bits (256), Expect = 9e-26
 Identities = 43/270 (15%), Positives = 81/270 (30%), Gaps = 37/270 (13%)

Query: 69  KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI 128
           K R  I     G GKT      + +  +   R ++ LIL+PTR +A + E+ +       
Sbjct: 8   KKRLTIMDLHPGAGKTKRYLPAIVR--EAIKRGLRTLILAPTRVVAAEMEEAL------- 58

Query: 129 NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML 188
                  +  +     IR    G  +V         M     +R     L+++DE+    
Sbjct: 59  -----RGLPIRYQTPAIRAEHTGREIVDLMCHATFTMRLLSPIRVPNYNLIIMDEAHFTD 113

Query: 189 SRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ 248
                 + Y   R    +   + ++AT P         F      I+ +  E+       
Sbjct: 114 PASIAARGYISTRVEMGEAAGIFMTATPPGSRDP----FPQSNAPIMDEEREIPERSWNS 169

Query: 249 FFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQ 308
               V   +                + V F  + +  + +   +R     V  +      
Sbjct: 170 GHEWVTDFKG---------------KTVWFVPSIKAGNDIAACLRKNGKKVIQLSRKTFD 214

Query: 309 KERDAIMGEFRSGTTRVLITTDVWARGLDV 338
            E               ++TTD+   G + 
Sbjct: 215 SEYIKTRTNDW----DFVVTTDISEMGANF 240

>d2j0sa2 c.37.1.19 (A:244-411) Probable ATP-dependent RNA helicase DDX48 {Human (Homo sapiens) [TaxId: 9606]} Length = 168

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 ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 93.1 bits (230), Expect = 2e-23
 Identities = 93/102 (91%), Positives = 97/102 (95%)

Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFT 298
           DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  NFT
Sbjct: 1   DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFT 60

Query: 299 VSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           VSSMHGDMPQKER++IM EFRSG +RVLI+TDVWARGLDV Q
Sbjct: 61  VSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQ 102

>d1fuka_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 162

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: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 88.8 bits (219), Expect = 6e-22
 Identities = 63/107 (58%), Positives = 85/107 (79%)

Query: 246 IKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD 305
           IKQF+V VE EE+K++ L DLYD++++TQAVIFCNT+RKV+ LT K+R   FTVS+++ D
Sbjct: 1   IKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSD 60

Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN 352
           +PQ+ERD IM EFRSG++R+LI+TD+ ARG+DVQQ  L     L  N
Sbjct: 61  LPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPAN 107

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]} Length = 206

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]

 Score = 88.5 bits (218), Expect = 3e-21
 Identities = 28/208 (13%), Positives = 69/208 (33%), Gaps = 13/208 (6%)

Query: 32  ITSFDAMGIKDDLLRGIYQY-GFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALT 90
           +   + + ++    + + +  G+++    Q+  +  ++ GRD +    +G GK+    + 
Sbjct: 1   MAQAEVLNLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIP 60

Query: 91  VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH 150
                         +++SP   L       + A G             + +         
Sbjct: 61  ALL------LNGLTVVVSPLISLMKDQVDQLQANGVAAACLNSTQTREQQLEVMTGCRTG 114

Query: 151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQ----IYDVYRYLPPD 206
            + ++   P R+      + L      LL +DE+  +   G   +         R   P 
Sbjct: 115 QIRLLYIAPERLMLDNFLEHLAHWNPVLLAVDEAHCISQWGHDFRPEYAALGQLRQRFPT 174

Query: 207 LQVVLISATLPHEILEMTTKF--MTDPV 232
           L  + ++AT      +   +   + DP+
Sbjct: 175 LPFMALTATADDTTRQDIVRLLGLNDPL 202

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 237

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]

 Score = 86.9 bits (214), Expect = 2e-20
 Identities = 27/193 (13%), Positives = 55/193 (28%), Gaps = 24/193 (12%)

Query: 45  LRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQA 104
               ++    +P AIQ+     I++     A A +G GKTS                 + 
Sbjct: 33  FVEFFRKCVGEPRAIQKMWAKRILRKESFAATAPTGVGKTSFGLAMSLFLALKGK---RC 89

Query: 105 LILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE------DIRKLEHGVHVVSGT 158
            ++ PT  L  Q  + I    +   +     +G            +  +      +V  T
Sbjct: 90  YVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITT 149

Query: 159 PGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-----------GFKDQIYDVYRYLPPDL 207
              +    +           + +D+ D +L             GF   +           
Sbjct: 150 TQFLSKHYR----ELGHFDFIFVDDVDAILKASKNVDKLLHLLGFHYDLKTKSWVGEARG 205

Query: 208 QVVLISATLPHEI 220
            +++ +AT     
Sbjct: 206 CLMVSTATAKKGK 218

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]} Length = 202

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]

 Score = 85.8 bits (211), Expect = 2e-20
 Identities = 32/183 (17%), Positives = 69/183 (37%), Gaps = 10/183 (5%)

Query: 39  GIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS 98
            I    +  + + G E+    Q  AV  +  G++++    +  GKT +  + + +     
Sbjct: 9   SISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKG 68

Query: 99  SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGT 158
            + +    + P R LA +  +              +    +S  E +   +  V     T
Sbjct: 69  GKSLY---VVPLRALAGEKYESFKKWEKIGLRIGISTGDYESRDEHLGDCDIIVT----T 121

Query: 159 PGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQ---IYDVYRYLPPDLQVVLISAT 215
             +   +I+ +    +A+  LV+DE   + S         +    R +   L+V+ +SAT
Sbjct: 122 SEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSAT 181

Query: 216 LPH 218
            P+
Sbjct: 182 APN 184

>d1a1va2 c.37.1.14 (A:326-624) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]} Length = 299

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]

 Score = 71.9 bits (176), Expect = 8e-15
 Identities = 13/103 (12%), Positives = 33/103 (32%), Gaps = 11/103 (10%)

Query: 246 IKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD 305
           I++  ++   E   +     L + +   + +IFC++K+K D L  K+        + +  
Sbjct: 11  IEEVALSTTGEIPFYGKAIPL-EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYYRG 69

Query: 306 MPQKER----------DAIMGEFRSGTTRVLITTDVWARGLDV 338
           +                  +    +G    +I  +        
Sbjct: 70  LDVSVIPTSGDVVVVATDALMTGFTGDFDSVIDCNTCVTQTVD 112

>d1gkub2 c.37.1.16 (B:251-498) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 248

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]

 Score = 67.1 bits (163), Expect = 2e-13
 Identities = 19/96 (19%), Positives = 35/96 (36%), Gaps = 11/96 (11%)

Query: 253 VEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERD 312
           V   +    TL  + + L  T  +I+  T  + + + E ++      +     +    + 
Sbjct: 7   VAVNDESISTLSSILEKLG-TGGIIYARTGEEAEEIYESLK------NKFRIGIVTATKK 59

Query: 313 AIMGEFRSGTTRVLITT----DVWARGLDVQQAILF 344
               +F  G    LI T        RGLD+ + I F
Sbjct: 60  GDYEKFVEGEIDHLIGTAHYYGTLVRGLDLPERIRF 95

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Length = 200

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]

 Score = 66.0 bits (159), Expect = 2e-13
 Identities = 31/203 (15%), Positives = 76/203 (37%), Gaps = 5/203 (2%)

Query: 48  IYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALIL 107
           + +    +P   Q+       K  + +    +G GKT +  +     +     +V   +L
Sbjct: 2   VLRRDLIQPRIYQEVIY-AKCKETNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVL--ML 58

Query: 108 SPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIK 167
           +PT+ L  Q  +    + +    +  A  G KS  E  +       +V+ TP  + + + 
Sbjct: 59  APTKPLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWARAKVIVA-TPQTIENDLL 117

Query: 168 RKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKF 227
              +    + L+V DE+   +       I   Y+    +  V+ ++A+      ++    
Sbjct: 118 AGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEVI 177

Query: 228 MTDPVKILVKRDELTLEGIKQFF 250
               ++ +  R E + + ++ + 
Sbjct: 178 NNLGIEHIEYRSENSPD-VRPYV 199

>d1wp9a2 c.37.1.19 (A:201-486) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Length = 286

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]

 Score = 63.0 bits (152), Expect = 6e-12
 Identities = 30/183 (16%), Positives = 63/183 (34%), Gaps = 21/183 (11%)

Query: 167 KRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTK 226
            R  L   A+  L L  + E+L       +    + L  + +     A+          +
Sbjct: 69  LRGLLLYHAM-ALKLHHAIELLETQGLSALRAYIKKLYEEAKAGSTKAS---------KE 118

Query: 227 FMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVD 286
             +D     +K+    L   K+  +   + +   + + +       ++ ++F N +    
Sbjct: 119 IFSDKR---MKKAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAK 175

Query: 287 WLTEKMRGYNFTVSSMHGD--------MPQKERDAIMGEFRSGTTRVLITTDVWARGLDV 338
            +  ++           G         + Q+E+  I+ EF  G   VL+ T V   GLDV
Sbjct: 176 KIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDV 235

Query: 339 QQA 341
            + 
Sbjct: 236 PEV 238

>d1s2ma2 c.37.1.19 (A:252-422) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 171

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 DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 60.1 bits (144), Expect = 1e-11
 Identities = 40/113 (35%), Positives = 61/113 (53%), Gaps = 1/113 (0%)

Query: 240 ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTV 299
           ELTL+GI Q++  VE E  K   L  L+  L I QA+IFCN+  +V+ L +K+    ++ 
Sbjct: 1   ELTLKGITQYYAFVE-ERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSC 59

Query: 300 SSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLFCN 352
              H  M Q+ER+ +  EFR G  R L+ +D+  RG+D+Q   +         
Sbjct: 60  YYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKT 112

>d1t5ia_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]} Length = 168

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]

 Score = 55.8 bits (133), Expect = 4e-10
 Identities = 26/88 (29%), Positives = 49/88 (55%), Gaps = 1/88 (1%)

Query: 245 GIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHG 304
           G++Q++V ++ +  K   L DL D L   Q VIF  + ++   L + +   NF   ++H 
Sbjct: 1   GLQQYYVKLK-DNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHR 59

Query: 305 DMPQKERDAIMGEFRSGTTRVLITTDVW 332
            MPQ+ER +   +F+    R+L+ T+++
Sbjct: 60  GMPQEERLSRYQQFKDFQRRILVATNLF 87

>d1hv8a2 c.37.1.19 (A:211-365) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 155

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]

 Score = 55.3 bits (132), Expect = 4e-10
 Identities = 33/95 (34%), Positives = 51/95 (53%), Gaps = 2/95 (2%)

Query: 246 IKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD 305
           I+Q +V V  E  +F+ LC L         ++FC TKR    L   +R   F   ++HGD
Sbjct: 4   IEQSYVEVN-ENERFEALCRLLKNKEF-YGLVFCKTKRDTKELASMLRDIGFKAGAIHGD 61

Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
           + Q +R+ ++  F+    R+LI TDV +RG+DV  
Sbjct: 62  LSQSQREKVIRLFKQKKIRILIATDVMSRGIDVND 96

>d1oywa3 c.37.1.19 (A:207-406) RecQ helicase domain {Escherichia coli [TaxId: 562]} Length = 200

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]

 Score = 55.4 bits (132), Expect = 9e-10
 Identities = 13/92 (14%), Positives = 40/92 (43%), Gaps = 1/92 (1%)

Query: 249 FFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQ 308
            ++ +E+ +   D L            +I+CN++ KV+    +++    + ++ H  +  
Sbjct: 8   RYMLMEKFK-PLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLEN 66

Query: 309 KERDAIMGEFRSGTTRVLITTDVWARGLDVQQ 340
             R  +  +F+    ++++ T  +  G++   
Sbjct: 67  NVRADVQEKFQRDDLQIVVATVAFGMGINKPN 98

>d1jr6a_ c.37.1.14 (A:) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]} Length = 138

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]

 Score = 44.7 bits (105), Expect = 2e-06
 Identities = 15/105 (14%), Positives = 36/105 (34%), Gaps = 8/105 (7%)

Query: 246 IKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD 305
           I++  ++   E   +     L + +   + +IFC++K+K D L  K+        + +  
Sbjct: 10  IEEVALSTTGEIPFYGKAIPL-EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYYRG 68

Query: 306 MPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLF 350
           +        +    +    V++ TD    G       +       
Sbjct: 69  LD-------VSVIPTNGDVVVVATDALMTGFTGDFDSVIDCNTSD 106

>d1t5la2 c.37.1.19 (A:415-595) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]} Length = 181

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

 Score = 44.0 bits (103), Expect = 6e-06
 Identities = 16/68 (23%), Positives = 35/68 (51%)

Query: 274 QAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWA 333
           + ++   TK+  + LT+ ++     V+ +H ++   ER  I+ + R G   VL+  ++  
Sbjct: 33  RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 92

Query: 334 RGLDVQQA 341
            GLD+ + 
Sbjct: 93  EGLDIPEV 100

>d2fwra1 c.37.1.19 (A:257-456) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]} Length = 200

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]

 Score = 43.7 bits (102), Expect = 8e-06
 Identities = 19/105 (18%), Positives = 44/105 (41%), Gaps = 6/105 (5%)

Query: 237 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYN 296
           +  E      +   +A   +  K   L ++ +     + +IF      V  +++      
Sbjct: 59  RAYEALRAWEEARRIAFNSKN-KIRKLREILERHRKDKIIIFTRHNELVYRISKVFL--- 114

Query: 297 FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQA 341
             + ++     ++ER+ I+  FR+G  R ++++ V   G+DV  A
Sbjct: 115 --IPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDA 157

>d1yksa2 c.37.1.14 (A:325-623) YFV helicase domain {Yellow fever virus [TaxId: 11089]} Length = 299

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]

 Score = 36.9 bits (85), Expect = 0.003
 Identities = 8/65 (12%), Positives = 23/65 (35%), Gaps = 4/65 (6%)

Query: 274 QAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWA 333
               F  + R  + +   +R    +V  ++    ++E        +      ++ TD+  
Sbjct: 38  PTAWFLPSIRAANVMAASLRKAGKSVVVLNRKTFEREYPT----IKQKKPDFILATDIAE 93

Query: 334 RGLDV 338
            G ++
Sbjct: 94  MGANL 98

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]} Length = 140

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]

 Score = 35.0 bits (79), Expect = 0.004
 Identities = 21/149 (14%), Positives = 51/149 (34%), Gaps = 14/149 (9%)

Query: 69  KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI 128
           KG   +     G GKT      +              +L+PTR + ++ ++    +    
Sbjct: 6   KGMTTVLDFHPGAGKTRRFLPQILAECARRRLRTL--VLAPTRVVLSEMKEAFHGLDVKF 63

Query: 129 NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML 188
           + QA +  G                + +     +   +   T      +++++DE+  + 
Sbjct: 64  HTQAFSAHGSGRE-----------VIDAMCHATLTYRMLEPTRVVN-WEVIIMDEAHFLD 111

Query: 189 SRGFKDQIYDVYRYLPPDLQVVLISATLP 217
                 + +  +R    +   +L++AT P
Sbjct: 112 PASIAARGWAAHRARANESATILMTATPP 140

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	354
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	100.0
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	100.0
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	100.0
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	100.0
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	100.0
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	100.0
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	100.0
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	100.0
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	100.0
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	99.96
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	99.95
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	99.94
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	99.93
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	99.93
d1fuka_	162	Initiation factor 4a {Baker's yeast (Saccharomyces	99.88
d2j0sa2	168	Probable ATP-dependent RNA helicase DDX48 {Human (	99.88
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	99.87
d1s2ma2	171	Putative ATP-dependent RNA helicase DHH1 {Baker's	99.87
d2rb4a1	168	ATP-dependent RNA helicase DDX25 {Human (Homo sapi	99.86
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	99.86
d1t5ia_	168	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	99.85
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	99.85
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	99.85
d1hv8a2	155	Putative DEAD box RNA helicase {Archaeon Methanoco	99.84
d1oywa3	200	RecQ helicase domain {Escherichia coli [TaxId: 562	99.83
d1c4oa2	174	Nucleotide excision repair enzyme UvrB {Thermus th	99.83
d1t5la2	181	Nucleotide excision repair enzyme UvrB {Bacillus c	99.82
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	99.78
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	99.74
d1gkub2	248	Helicase-like "domain" of reverse gyrase {Archaeon	99.59
d1wp9a2	286	putative ATP-dependent RNA helicase PF2015 {Pyroco	99.58
d1jr6a_	138	HCV helicase domain {Human hepatitis C virus (HCV)	99.54
d1z3ix2	298	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	99.54
d2fwra1	200	DNA repair protein RAD25 {Archaeoglobus fulgidus [	99.52
d1z63a1	230	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	99.48
d2eyqa5	211	Transcription-repair coupling factor, TRCF {Escher	99.43
d2p6ra4	201	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	99.29
d1gm5a4	206	RecG helicase domain {Thermotoga maritima [TaxId:	99.28
d1a1va2	299	HCV helicase domain {Human hepatitis C virus (HCV)	99.24
d1z3ix1	346	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	99.19
d1z5za1	244	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	99.19
d1tf5a3	273	Translocation ATPase SecA, nucleotide-binding doma	99.15
d1nkta3	288	Translocation ATPase SecA, nucleotide-binding doma	99.11
d1yksa2	299	YFV helicase domain {Yellow fever virus [TaxId: 11	98.93
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	98.68
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	98.23
d1tf5a4	175	Translocation ATPase SecA, nucleotide-binding doma	98.22
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	98.01
d1nkta4	219	Translocation ATPase SecA, nucleotide-binding doma	97.66
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	97.64
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	97.61
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	97.54
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.44
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.43
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	97.35
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.27
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.26
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.13
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	97.06
d1okkd2	207	GTPase domain of the signal recognition particle r	97.04
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.94
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.88
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.87
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.85
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.73
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.69
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.63
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.18
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.15
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	96.06
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.04
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	95.93
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	95.88
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.87
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.84
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	95.59
d1c4oa1	408	Nucleotide excision repair enzyme UvrB {Thermus th	95.49
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.15
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	94.82
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	94.79
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	94.63
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.6
d1c4oa2	174	Nucleotide excision repair enzyme UvrB {Thermus th	94.52
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	94.44
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.42
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	94.32
d2eyqa5	211	Transcription-repair coupling factor, TRCF {Escher	94.15
d2eyqa2	117	Transcription-repair coupling factor, TRCF {Escher	94.08
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	93.92
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	93.82
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.47
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	93.42
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	92.93
d1t5la2	181	Nucleotide excision repair enzyme UvrB {Bacillus c	92.79
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	92.41
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	92.28
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	92.24
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	92.2
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	92.16
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	92.12
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	92.09
d1fuka_	162	Initiation factor 4a {Baker's yeast (Saccharomyces	92.08
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	92.06
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	91.73
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	91.63
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	91.62
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	91.57
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	91.48
d1s2ma2	171	Putative ATP-dependent RNA helicase DHH1 {Baker's	91.32
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	91.27
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	91.03
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	90.82
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	90.64
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	90.53
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	90.37
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	90.27
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	90.09
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	90.04
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	89.94
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	89.75
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	89.6
d1t5ia_	168	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	89.5
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	89.48
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	89.46
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	89.43
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	89.27
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	89.14
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	89.14
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	89.13
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	89.0
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	88.95
d1oywa3	200	RecQ helicase domain {Escherichia coli [TaxId: 562	88.83
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	88.82
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	88.54
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	88.19
d2rb4a1	168	ATP-dependent RNA helicase DDX25 {Human (Homo sapi	88.15
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	88.07
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	88.0
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	87.93
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	87.92
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	87.82
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	87.74
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	87.63
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	87.6
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	87.54
d2j0sa2	168	Probable ATP-dependent RNA helicase DDX48 {Human (	87.1
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	86.92
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	86.76
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	86.71
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	86.56
d1hv8a2	155	Putative DEAD box RNA helicase {Archaeon Methanoco	86.46
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	86.38
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	86.36
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	86.2
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	86.19
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	86.16
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	86.14
d1jr6a_	138	HCV helicase domain {Human hepatitis C virus (HCV)	86.03
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	85.51
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	84.97
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	84.78
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	84.53
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	84.46
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	84.46
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	84.05
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	83.84
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	83.79
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	83.59
d1yt8a4	130	Thiosulfate sulfurtransferase PA2603 {Pseudomonas	83.29
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	83.27
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	83.26
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	82.89
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	82.66
d1yksa2	299	YFV helicase domain {Yellow fever virus [TaxId: 11	82.64
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	82.23
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	82.16
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	81.59
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	81.48
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	81.13
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	80.27

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {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: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.4e-42  Score=278.56  Aligned_cols=218  Identities=71%  Similarity=1.128  Sum_probs=204.3

Q ss_pred             CcceeecccCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC
Q 018574           19 DKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS   98 (354)
Q Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~   98 (354)
                      ...+.+.++..+...+|+++++++.+.+++++.||..|++.|.++++.+++|+++++.+|||||||.+|++|+++.+...
T Consensus         3 ~~~~~~~~~~~~~~~sF~~l~L~~~l~~~L~~~g~~~pt~IQ~~aIp~il~g~dvi~~a~TGSGKTlayllPil~~l~~~   82 (222)
T d2j0sa1           3 TKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQ   82 (222)
T ss_dssp             SSCCCCCCTTCCCCCSGGGGCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHTCCTT
T ss_pred             cccccccCCCCCCCCCHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCeEEEcCcchhhhhhhccccccccccc
Confidence            33445666777888999999999999999999999999999999999999999999999999999999999999999888


Q ss_pred             CCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccE
Q 018574           99 SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKL  178 (354)
Q Consensus        99 ~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~  178 (354)
                      ..+++++|++|+++|+.|.++.+++++...++++..+.|+.....+...+..+++|+|+||+++.+++....+.++++.+
T Consensus        83 ~~~~~~lil~PtreLa~Qi~~~~~~l~~~~~i~~~~~~g~~~~~~~~~~l~~~~~Ilv~TPgrl~~~~~~~~~~~~~l~~  162 (222)
T d2j0sa1          83 VRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKM  162 (222)
T ss_dssp             SCSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECTTSCHHHHHHHHHHCCSEEEECHHHHHHHHHTTSSCCTTCCE
T ss_pred             ccCceeEEecchHHHHHHHHHHHHHHhCccceeEEEEeecccchhhHHHhccCCeEEeCCCCcHHhccccccccccccee
Confidence            88889999999999999999999999999999999999999988888888888999999999999999998999999999


Q ss_pred             EEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEe
Q 018574          179 LVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILV  236 (354)
Q Consensus       179 vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~  236 (354)
                      +|+||||.+++.+|...+..+++.+++..|.+++|||++.++..+...++.+|..+.+
T Consensus       163 lVlDEaD~ll~~~f~~~i~~I~~~l~~~~Q~ilfSAT~~~~v~~l~~~~l~~Pv~I~V  220 (222)
T d2j0sa1         163 LVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILV  220 (222)
T ss_dssp             EEEETHHHHTSTTTHHHHHHHHTTSCTTCEEEEEESCCCHHHHTTGGGTCSSCEEECC
T ss_pred             eeecchhHhhhcCcHHHHHHHHHhCCCCCEEEEEEEeCCHHHHHHHHHHCCCCEEEEE
Confidence            9999999999999999999999999999999999999999999999999999876654

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {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: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.2e-39  Score=259.73  Aligned_cols=203  Identities=33%  Similarity=0.630  Sum_probs=189.8

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTR  111 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~  111 (354)
                      ..+|+++++++++++++.+.||..|++.|.++++.+++|+++++.+|||+|||.+|++|+++.+.....+++++|++|++
T Consensus         2 ~~~F~~l~L~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlayllP~l~~~~~~~~~~~~lil~pt~   81 (206)
T d1veca_           2 GNEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIVPTR   81 (206)
T ss_dssp             CSSGGGSCCCHHHHHHHHTTTCCSCCHHHHHHHHHHHTTCCEEEECCSSSTTHHHHHHHHHHHCCTTSCSCCEEEECSCH
T ss_pred             CCChhccCcCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEeeccCccccccccccchhhcccccccCcceEEEeecc
Confidence            47899999999999999999999999999999999999999999999999999999999999998888889999999999


Q ss_pred             HHHHHHHHHHHHhccCc-CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc
Q 018574          112 ELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       112 ~l~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      +|+.|..+.+..+.... +.......|+.........+..+++|+|+||+++.+++......++++.++|+||||.+++.
T Consensus        82 el~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~ivv~TPgrl~~~~~~~~~~~~~l~~lVlDEaD~ll~~  161 (206)
T d1veca_          82 ELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQ  161 (206)
T ss_dssp             HHHHHHHHHHHHHTTTSSSCCEEEECSSSCHHHHHHHTTSCCSEEEECHHHHHHHHHTTCSCCTTCCEEEEETHHHHTST
T ss_pred             hhhHHHHHHHHHHhhcccCcccccccCCccHHHHHHHHHhccCeEEeCCccccccccchhccccccceEEEecccccccc
Confidence            99999999998877544 46777778888888888888889999999999999999998888999999999999999999


Q ss_pred             CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEE
Q 018574          191 GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKI  234 (354)
Q Consensus       191 ~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~  234 (354)
                      +|...+..+++.++++.|.+++|||+++++..+.+.++.+|..+
T Consensus       162 ~f~~~i~~I~~~~~~~~Q~~l~SAT~~~~v~~l~~~~l~~P~~I  205 (206)
T d1veca_         162 DFVQIMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEI  205 (206)
T ss_dssp             TTHHHHHHHHHHSCTTCEEEEEESCCCHHHHHHHHHHCSSCEEE
T ss_pred             chHHHHHHHHHhCCCCCEEEEEEecCCHHHHHHHHHHCCCCEEE
Confidence            99999999999999999999999999999999999999998754

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {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: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.2e-39  Score=259.93  Aligned_cols=209  Identities=57%  Similarity=0.965  Sum_probs=190.9

Q ss_pred             cccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc
Q 018574           29 VEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS  108 (354)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~  108 (354)
                      ++.+.+|+++++++.+.+++.+.||..|++.|.++++.++.|+++++.||||+|||.+|++|+++.+.....++++||++
T Consensus         8 ~e~i~sF~~l~L~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlayllp~l~~i~~~~~~~~alil~   87 (218)
T d2g9na1           8 NEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLA   87 (218)
T ss_dssp             CCCCCCGGGSCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHHHHHHHHHHCCTTCCSCCEEEEC
T ss_pred             CCccCCHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcccchhhhhhhhhhhhheecccccCccEEEEc
Confidence            46778999999999999999999999999999999999999999999999999999999999999998888888999999


Q ss_pred             CCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh-cCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhh
Q 018574          109 PTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL-EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM  187 (354)
Q Consensus       109 p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~  187 (354)
                      |+++|+.|.++.+..+....+.....+.++.......... ..+++|+|+||+++.+++.......+++.++|+||||.+
T Consensus        88 Pt~eL~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IvV~TP~rl~~~l~~~~~~~~~l~~lVlDEaD~l  167 (218)
T d2g9na1          88 PTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEM  167 (218)
T ss_dssp             SSHHHHHHHHHHHHHHHTTTTCCEEEECC--CCCSTTTSSSSCCCSEEEECHHHHHHHHHTTSSCSTTCCEEEEESHHHH
T ss_pred             ccchhhhhHHHHHhhhccccceeEEeeecccchhHHHHHHhcCCCEEEEeCChhHHHHHhcCCcccccceEEEeeecchh
Confidence            9999999999999999999888888887776555444333 356899999999999999988888999999999999999


Q ss_pred             hccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEec
Q 018574          188 LSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVK  237 (354)
Q Consensus       188 ~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~~  237 (354)
                      .+.+|...+..+++.++++.|.+++|||+++++..+.+.++.+|..+.+.
T Consensus       168 l~~~f~~~~~~Il~~~~~~~Q~il~SAT~~~~v~~~~~~~l~~pv~i~v~  217 (218)
T d2g9na1         168 LSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVK  217 (218)
T ss_dssp             HHTTCHHHHHHHHHHSCTTCEEEEEESCCCHHHHHHHHHHCSSCEEEECC
T ss_pred             hcCchHHHHHHHHHhCCCCCeEEEEEecCCHHHHHHHHHHCCCCEEEEEe
Confidence            99999999999999999999999999999999999999999999877653

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=4.9e-39  Score=257.03  Aligned_cols=208  Identities=55%  Similarity=0.918  Sum_probs=186.4

Q ss_pred             cCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEE
Q 018574           27 EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALI  106 (354)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~li  106 (354)
                      .-++...+|+++++++++.++++++||..|++.|.++++.+++|+++++++|||+|||.+|++|+++.+....+++.++|
T Consensus         4 ~~~~~~~sF~~l~l~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKT~a~~lp~i~~l~~~~~~~~~li   83 (212)
T d1qdea_           4 NYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALM   83 (212)
T ss_dssp             SCCCCCCCGGGGTCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHHCCTTCCSCCEEE
T ss_pred             CCcccccChhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEeecccccchhhhhHhhhHhhhhccCCCcceEE
Confidence            34567899999999999999999999999999999999999999999999999999999999999999998888899999


Q ss_pred             EcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          107 LSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       107 l~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      ++|+++++.|....+..+..........+.++....++.... ++++|+|+||+++..+.....+.+.+++++|+||||.
T Consensus        84 l~pt~el~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~IvI~TP~~l~~~~~~~~~~l~~l~~lVlDEad~  162 (212)
T d1qdea_          84 LAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADE  162 (212)
T ss_dssp             ECSSHHHHHHHHHHHHHHTTTSCCCEEEECC----------C-TTCSEEEECHHHHHHHHHTTSSCCTTCCEEEEETHHH
T ss_pred             EcccHHHhhhhhhhhcccccccccceeeEeeccchhHHHHHh-cCCcEEEECCCccccccccCceecCcceEEeehhhhh
Confidence            999999999999999999988888888888877766665544 4689999999999999999999999999999999999


Q ss_pred             hhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEE
Q 018574          187 MLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKIL  235 (354)
Q Consensus       187 ~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~  235 (354)
                      +.+.+|...+..+++.+++..|.+++|||+++.+..+.+.++.+|..+.
T Consensus       163 lld~~f~~~v~~I~~~~~~~~Q~vl~SAT~~~~v~~l~~~~l~~Pv~i~  211 (212)
T d1qdea_         163 MLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRIL  211 (212)
T ss_dssp             HHHTTCHHHHHHHHHHSCTTCEEEEEESSCCHHHHHHHHHHCSSCEEEC
T ss_pred             hcccchHHHHHHHHHhCCCCCeEEEEEeeCCHHHHHHHHHHCCCCEEEe
Confidence            9999999999999999999999999999999999999999999987653

>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=100.00  E-value=8.4e-39  Score=255.09  Aligned_cols=203  Identities=35%  Similarity=0.610  Sum_probs=185.9

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      ..|+++++++++.+++++.||..|++.|.++++.+++|+++++.||||||||.+|++|+++.+.....++++++++|+++
T Consensus         1 s~F~dl~L~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvl~~A~TGsGKTla~~lp~l~~~~~~~~~~~~lil~Ptre   80 (207)
T d1t6na_           1 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRE   80 (207)
T ss_dssp             CCSTTSCCCHHHHHHHHHTTCCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHHCCCCTTCCCEEEECSCHH
T ss_pred             CCccccCcCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCeEEEeccccccccccccceeeeecccCCCceEEEEeccch
Confidence            36999999999999999999999999999999999999999999999999999999999999988888889999999999


Q ss_pred             HHHHHHHHHHHhccCcC-eEEEEEeCCcchHHhHHhh-cCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc
Q 018574          113 LATQTEKVILAIGDFIN-IQAHACVGGKSVGEDIRKL-EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR  190 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~-~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~  190 (354)
                      |+.|+.+.++.+....+ +....+.|+.....+...+ ..+++|+|+||+++.++++...+.++++.++|+||||.+++.
T Consensus        81 L~~qi~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~ilI~TP~rl~~~~~~~~~~l~~l~~lVlDEaD~ll~~  160 (207)
T d1t6na_          81 LAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQ  160 (207)
T ss_dssp             HHHHHHHHHHHHTTTSTTCCEEEESCCSCHHHHHHHHHHSCCSEEEECHHHHHHHHHTTSSCCTTCCEEEEESHHHHHSS
T ss_pred             hhHHHHHHHHHHHhhCCCceeEEEeccccHHHHHHHHHhcCCCEEEeCcchhhhhccCCceeccccceeehhhhhhhhhc
Confidence            99999999999887654 5677778888777666655 457899999999999999988888999999999999999975


Q ss_pred             -CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEE
Q 018574          191 -GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKIL  235 (354)
Q Consensus       191 -~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~  235 (354)
                       ++...+..+.+.++++.|++++|||+++++..+.+.++.+|..+.
T Consensus       161 ~~~~~~i~~I~~~~~~~~Q~il~SAT~~~~v~~l~~~~l~~P~~I~  206 (207)
T d1t6na_         161 LDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIF  206 (207)
T ss_dssp             HHHHHHHHHHHHTSCSSSEEEEEESCCCTTTHHHHHTTCSSCEEEE
T ss_pred             CCcHHHHHHHHHhCCCCCEEEEEeeeCCHHHHHHHHHHCCCCEEEe
Confidence             789999999999999999999999999999999999999987664

>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=100.00  E-value=8.7e-38  Score=249.77  Aligned_cols=204  Identities=35%  Similarity=0.601  Sum_probs=186.1

Q ss_pred             cccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCC-cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGR-DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        31 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~-~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      +..+|++++++++++++++++||..|++.|.++++.+++|+ ++++++|||+|||++|+++++...... .+++++|++|
T Consensus         2 ~~msf~~l~l~~~l~~~l~~~g~~~pt~iQ~~~ip~~l~g~~d~iv~a~TGsGKT~~~~l~~~~~~~~~-~~~~~lil~p   80 (208)
T d1hv8a1           2 EYMNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIELVNEN-NGIEAIILTP   80 (208)
T ss_dssp             CCCCGGGSSCCHHHHHHHHHHTCCSCCHHHHHHHHHHHHTCSEEEEECCSSSSHHHHHHHHHHHHSCSS-SSCCEEEECS
T ss_pred             CccCHHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCCeeeechhcccccceeecccccccccc-cCcceEEEee
Confidence            45799999999999999999999999999999999999875 999999999999999999998876543 5678999999


Q ss_pred             CHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc
Q 018574          110 TRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS  189 (354)
Q Consensus       110 ~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~  189 (354)
                      +++|+.|+.+.++.+....+..+..+.|+.....+...+ ++++|+|+||+++.+++....+.+++++++|+||+|.+.+
T Consensus        81 t~~l~~q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~l-~~~~IlV~TP~~l~~~l~~~~~~~~~l~~lViDEad~l~~  159 (208)
T d1hv8a1          81 TRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKAL-KNANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEMLN  159 (208)
T ss_dssp             CHHHHHHHHHHHHHHHCSSCCCEEEECTTSCHHHHHHHH-HTCSEEEECHHHHHHHHHTTCSCTTSCCEEEEETHHHHHT
T ss_pred             ccccchhhhhhhhhhcccCCeEEEEeeCCCChHHHHHhc-CCCCEEEEChHHHHHHHHcCCCCcccCcEEEEEChHHhhc
Confidence            999999999999999999899999999988877766655 4689999999999999998888899999999999999999


Q ss_pred             cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEe
Q 018574          190 RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILV  236 (354)
Q Consensus       190 ~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~  236 (354)
                      .++...+..+++.++++.|++++|||+++++..+.+.++.++..+..
T Consensus       160 ~~~~~~i~~I~~~~~~~~Q~i~~SAT~~~~v~~~~~~~l~~~~~I~~  206 (208)
T d1hv8a1         160 MGFIKDVEKILNACNKDKRILLFSATMPREILNLAKKYMGDYSFIKA  206 (208)
T ss_dssp             TTTHHHHHHHHHTSCSSCEEEEECSSCCHHHHHHHHHHCCSEEEEEC
T ss_pred             CCChHHHHHHHHhCCCCCeEEEEEccCCHHHHHHHHHHCCCCeEEEE
Confidence            99999999999999999999999999999999999999998876653

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {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: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.2e-37  Score=248.91  Aligned_cols=204  Identities=40%  Similarity=0.681  Sum_probs=194.4

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      ++|+++++++.+.+++++.||..|++.|.++++.+++|+++++.+|||+|||.+|++|++..+.....+..+++++|+.+
T Consensus         1 ~sF~~l~L~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~dvi~~a~tGsGKTlay~lp~i~~~~~~~~~~~~~~~~~~~~   80 (206)
T d1s2ma1           1 NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQALIMVPTRE   80 (206)
T ss_dssp             CCGGGGCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHHTCCEEEECCTTSCHHHHHHHHHHHHCCTTSCSCCEEEECSSHH
T ss_pred             CChHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEecCCcchhhhhhccccccccccccccccceeeccchh
Confidence            48999999999999999999999999999999999999999999999999999999999999988888889999999999


Q ss_pred             HHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc
Q 018574          113 LATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF  192 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~  192 (354)
                      ++.|....+..+....++++....|+.........+..+++|+|+||+++.++++...+.+.++.++|+||||.+.+.+|
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~Ili~TP~~l~~~l~~~~~~l~~l~~lV~DEaD~l~~~~f  160 (206)
T d1s2ma1          81 LALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDF  160 (206)
T ss_dssp             HHHHHHHHHHHHTTTTTCCEEEECSSSCHHHHHHHTTSCCSEEEECHHHHHHHHHTTCSCCTTCCEEEEESHHHHSSHHH
T ss_pred             hhhhhhhhhhhcccccCeeEEeecCccchhhHHHHhcccceEEEECCcccccccccceeecccceEEEeechhhhhhhhh
Confidence            99999999999999999999999999999888888889999999999999999999889999999999999999999999


Q ss_pred             HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEe
Q 018574          193 KDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILV  236 (354)
Q Consensus       193 ~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~  236 (354)
                      ...+..+++.+++..|++++|||+++++..+...++.+|..+..
T Consensus       161 ~~~v~~I~~~l~~~~Q~il~SATl~~~v~~~~~~~l~~P~~I~~  204 (206)
T d1s2ma1         161 KTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINL  204 (206)
T ss_dssp             HHHHHHHHTTSCSSCEEEEEESCCCHHHHHHHHHHCSSCEEESC
T ss_pred             HHHHHHHHHhCCCCCEEEEEEEeCCHHHHHHHHHHCCCCEEEEe
Confidence            99999999999999999999999999999999999999876643

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

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 VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=100.00  E-value=1.5e-37  Score=252.93  Aligned_cols=210  Identities=29%  Similarity=0.491  Sum_probs=191.9

Q ss_pred             cCcccccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccC--------
Q 018574           27 EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTS--------   98 (354)
Q Consensus        27 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~--------   98 (354)
                      ..++...+|+++++++++.+++.+.||..|++.|.++++.+++|+++++++|||+|||++|++|+++.+...        
T Consensus        15 ~~~~~~~~F~~l~l~~~l~~~L~~~g~~~pt~iQ~~~ip~il~g~dvvi~a~TGsGKTlayllp~l~~l~~~~~~~~~~~   94 (238)
T d1wrba1          15 SATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYS   94 (238)
T ss_dssp             SCCSCCCSSGGGSCCCSTTTTTTTTTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHHHHTTCC------
T ss_pred             CCCCccCCHHHCCCCHHHHHHHHHCCCCCCCHHHHHHhhhhhCCCCEEEECCCCCCcceeeHHHHHHHHHhccccccccc
Confidence            445678999999999999999999999999999999999999999999999999999999999999987432        


Q ss_pred             -CCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCcc
Q 018574           99 -SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIK  177 (354)
Q Consensus        99 -~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~  177 (354)
                       ..+++++|++|+++|+.|+.+.+..++...++++..+.|+.....+......+++|+|+||+++..++....+.+.++.
T Consensus        95 ~~~~~~alil~pt~el~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ivV~TP~~l~~~~~~~~~~l~~v~  174 (238)
T d1wrba1          95 KTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCK  174 (238)
T ss_dssp             CCBCCSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCSHHHHHHHSSCCSEEEECHHHHHHHHHTTSBCCTTCC
T ss_pred             CCCCceEEEeccchhhhcchheeeeecccCCCcEEEEEeccchhhHHHhhcccCCceeecCHHHHHhHHccCceeccccc
Confidence             2356799999999999999999999999999999999999888888888888999999999999999998888899999


Q ss_pred             EEEEecchhhhccCcHHHHHHHHhhCCC----CCcEEEEEeeCchhHHHHHHhccCCCeEEEe
Q 018574          178 LLVLDESDEMLSRGFKDQIYDVYRYLPP----DLQVVLISATLPHEILEMTTKFMTDPVKILV  236 (354)
Q Consensus       178 ~vvvDE~h~~~~~~~~~~~~~i~~~~~~----~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~  236 (354)
                      ++|+||+|.+++.+|...+..+++.+..    ++|.+++|||++.++..+.+.++.+|..+.+
T Consensus       175 ~lViDEaD~ll~~~f~~~i~~Il~~~~~~~~~~~Q~il~SAT~~~~v~~l~~~~~~~p~~i~v  237 (238)
T d1wrba1         175 YIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTV  237 (238)
T ss_dssp             EEEEETHHHHHHTTCHHHHHHHHHSSCCCCGGGCEEEEEESSCCHHHHHHHHHHCSSCEEEEE
T ss_pred             eeeeehhhhhhhhccHHHHHHHHHHhcCCCCCCCEEEEEeeeCCHHHHHHHHHHCCCCEEEEe
Confidence            9999999999999999999999987642    5699999999999999999999999877654

>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=100.00  E-value=2.1e-35  Score=237.23  Aligned_cols=204  Identities=35%  Similarity=0.572  Sum_probs=182.8

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      .+|+++|+++++.+++++.||..|++.|.++++.+++|+++++++|||||||++|++|+++.+.........++++|...
T Consensus         1 t~F~~l~L~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~dvii~a~TGSGKTlayllp~l~~~~~~~~~~~~~~~~~~~~   80 (209)
T d1q0ua_           1 TQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPIMEKIKPERAEVQAVITAPTRE   80 (209)
T ss_dssp             CCGGGSCCCHHHHHHHHHTTCCSCCHHHHHHHHHHHHTCCEEEECCSSHHHHHHHHHHHHHHCCTTSCSCCEEEECSSHH
T ss_pred             CccccCCcCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCeEeecccccccceeeeeeeccccccccccccccccccccc
Confidence            47999999999999999999999999999999999999999999999999999999999999988877888999999999


Q ss_pred             HHHHHHHHHHHhccCc----CeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhh
Q 018574          113 LATQTEKVILAIGDFI----NIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML  188 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~  188 (354)
                      +..+..+.+.......    ......+.++.+...+......+++|+|+||+++..+..+......++.++|+||||.+.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ilv~TP~~l~~~~~~~~~~~~~l~~lViDEad~ll  160 (209)
T d1q0ua_          81 LATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLML  160 (209)
T ss_dssp             HHHHHHHHHHHHHTTSCGGGCCCEEEECCCSHHHHTTCCCSSCCSEEEECHHHHHHHHHTTCCCGGGCCEEEECSHHHHH
T ss_pred             hhHHHHHHHHhhhccccccccccccccccchhhHHHHHHhccCceEEEecCchhhhhhhhhccccccceEEEEeeccccc
Confidence            9999988887655433    345556666666666666667789999999999999998888888999999999999999


Q ss_pred             ccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCCCeEEEe
Q 018574          189 SRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILV  236 (354)
Q Consensus       189 ~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~~~~~~~  236 (354)
                      +.+|...+..+++.++++.|++++|||+++++..+.+.++.+|..+.+
T Consensus       161 ~~~f~~~v~~I~~~~~~~~Q~il~SATl~~~v~~l~~~~l~~p~~i~V  208 (209)
T d1q0ua_         161 DMGFITDVDQIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHV  208 (209)
T ss_dssp             HTTCHHHHHHHHHTSCTTCEEEEEESCCCGGGHHHHHHHCSSCEEEEC
T ss_pred             ccccHHHHHHHHHHCCCCCEEEEEEccCCHHHHHHHHHHCCCCEEEEe
Confidence            999999999999999999999999999999999999999998877653

>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=99.96  E-value=3.1e-29  Score=213.48  Aligned_cols=242  Identities=15%  Similarity=0.091  Sum_probs=160.0

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR  146 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (354)
                      +.+++++++.+|||+|||++++.+++......  +.++||++|+++|+.|+++.+..++.....    ..       ...
T Consensus         6 ~~~~~~~lv~~~TGsGKT~~~l~~~~~~~~~~--~~~~lvi~Ptr~La~q~~~~l~~~~~~~~~----~~-------~~~   72 (305)
T d2bmfa2           6 FRKKRLTIMDLHPGAGKTKRYLPAIVREAIKR--GLRTLILAPTRVVAAEMEEALRGLPIRYQT----PA-------IRA   72 (305)
T ss_dssp             SSTTCEEEECCCTTSSTTTTHHHHHHHHHHHH--TCCEEEEESSHHHHHHHHHHTTTSCCBCCC----------------
T ss_pred             hhcCCcEEEEECCCCCHHHHHHHHHHHHHHhc--CCEEEEEccHHHHHHHHHHHHhcCCcceee----eE-------Eee
Confidence            56789999999999999998887777655432  346999999999999999988655422111    00       011


Q ss_pred             hhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc--HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHH
Q 018574          147 KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF--KDQIYDVYRYLPPDLQVVLISATLPHEILEMT  224 (354)
Q Consensus       147 ~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~--~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~  224 (354)
                      .......++++|++.+...... .....+++++|+||+|++..+++  ...+.....  ....+++++|||++.....  
T Consensus        73 ~~~~~~~i~~~t~~~l~~~~~~-~~~~~~~~~vViDE~H~~~~~~~~~~~~l~~~~~--~~~~~~v~~SAT~~~~~~~--  147 (305)
T d2bmfa2          73 EHTGREIVDLMCHATFTMRLLS-PIRVPNYNLIIMDEAHFTDPASIAARGYISTRVE--MGEAAGIFMTATPPGSRDP--  147 (305)
T ss_dssp             ---CCCSEEEEEHHHHHHHHTS-SSCCCCCSEEEEESTTCCSHHHHHHHHHHHHHHH--HTSCEEEEECSSCTTCCCS--
T ss_pred             cccCccccccCCcHHHHHHHhc-CccccceeEEEeeeeeecchhhHHHHHHHHHhhc--cccceEEEeecCCCcceee--
Confidence            1223468999999988766553 44567899999999999865432  122222222  3567899999998653211  


Q ss_pred             HhccCCCeEEEecCCcccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeec
Q 018574          225 TKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHG  304 (354)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~  304 (354)
                        +......+....            ....... +...+ ..+ ....++++|||+++++++++++.|++.++.+..+||
T Consensus       148 --~~~~~~~~~~~~------------~~~~~~~-~~~~~-~~~-~~~~~~~lvf~~~~~~~~~l~~~L~~~~~~~~~l~~  210 (305)
T d2bmfa2         148 --FPQSNAPIMDEE------------REIPERS-WNSGH-EWV-TDFKGKTVWFVPSIKAGNDIAACLRKNGKKVIQLSR  210 (305)
T ss_dssp             --SCCCSSCEEEEE------------CCCCCSC-CSSCC-HHH-HSSCSCEEEECSCHHHHHHHHHHHHHHTCCCEECCT
T ss_pred             --ecccCCcceEEE------------EeccHHH-HHHHH-HHH-HhhCCCEEEEeccHHHHHHHHHHHHhCCCCEEEeCC
Confidence              000000000000            0000000 00011 111 223478999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          305 DMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       305 ~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      ++...    ....|++|..+++++|+++++|+|+ ++++||.++
T Consensus       211 ~~~~~----~~~~~~~~~~~~lvaT~~~~~G~~~-~~~~Vi~~~  249 (305)
T d2bmfa2         211 KTFDS----EYIKTRTNDWDFVVTTDISEMGANF-KAERVIDPR  249 (305)
T ss_dssp             TCHHH----HGGGGGTSCCSEEEECGGGGTTCCC-CCSEEEECC
T ss_pred             cChHH----HHhhhhccchhhhhhhHHHHhcCCC-CccEEEEcC
Confidence            97543    3457889999999999999999999 466766443

>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=99.95  E-value=1.5e-27  Score=189.91  Aligned_cols=182  Identities=18%  Similarity=0.234  Sum_probs=138.6

Q ss_pred             CCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHH
Q 018574           40 IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEK  119 (354)
Q Consensus        40 ~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~  119 (354)
                      +++.+...+++.|+.+|+|+|.++++.+.+|+++++.+|||+|||+++.++++..+...   .++++++|+++|+.|+.+
T Consensus        10 ~~~~~~~~l~~~g~~~l~~~Q~~ai~~l~~~~~~il~apTGsGKT~~a~l~i~~~~~~~---~~vl~l~P~~~L~~q~~~   86 (202)
T d2p6ra3          10 ISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKG---GKSLYVVPLRALAGEKYE   86 (202)
T ss_dssp             HHHHHHHHHHCC---CCCCCCHHHHHHHTTCSCEEEECSSHHHHHHHHHHHHHHHHHTT---CCEEEEESSHHHHHHHHH
T ss_pred             hhHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCchhHHHHHHHHHHhhcc---CcceeecccHHHHHHHHH
Confidence            57788999999999999999999999999999999999999999999988888776544   359999999999999999


Q ss_pred             HHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHH
Q 018574          120 VILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV  199 (354)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i  199 (354)
                      .++++.... ..+....++.....   .....+.++++|+..+...+.+....+.++++||+||+|.+.+......+..+
T Consensus        87 ~~~~~~~~~-~~v~~~~~~~~~~~---~~~~~~~ii~~~~~~~~~~~~~~~~~~~~~~~ii~DE~h~~~~~~r~~~~~~~  162 (202)
T d2p6ra3          87 SFKKWEKIG-LRIGISTGDYESRD---EHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEIL  162 (202)
T ss_dssp             HHTTTTTTT-CCEEEECSSCBCCS---SCSTTCSEEEEEHHHHHHHHHTTCSGGGGCCEEEETTGGGGGCTTTHHHHHHH
T ss_pred             HHHHHhhcc-ccceeeccCccccc---ccccccceeeeccHHHHHHHhccchhhhhhhhccccHHHHhcccccchHHHHH
Confidence            998776433 34444444433322   12345789999999999888887777788999999999998776544333333


Q ss_pred             ---HhhCCCCCcEEEEEeeCchhHHHHHHhccCC
Q 018574          200 ---YRYLPPDLQVVLISATLPHEILEMTTKFMTD  230 (354)
Q Consensus       200 ---~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~  230 (354)
                         ++..+++.|+++||||+++. .++. .++..
T Consensus       163 l~~i~~~~~~~~~l~lSATl~n~-~~~~-~~l~~  194 (202)
T d2p6ra3         163 VTKMRRMNKALRVIGLSATAPNV-TEIA-EWLDA  194 (202)
T ss_dssp             HHHHHHHCTTCEEEEEECCCTTH-HHHH-HHTTC
T ss_pred             HHHHHhcCCCCcEEEEcCCCCcH-HHHH-HHcCC
Confidence               34446788999999998653 4444 44443

>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=99.94  E-value=8.4e-28  Score=192.14  Aligned_cols=188  Identities=15%  Similarity=0.200  Sum_probs=139.3

Q ss_pred             CcccCCCCHHHHHHHHHC-CCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           34 SFDAMGIKDDLLRGIYQY-GFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        34 ~~~~~~~~~~~~~~l~~~-~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      ..+.+++++...+.+++. |+.+++|+|.++++.+++|+++++.+|||+|||.+|.++++..      ..++++++|+++
T Consensus         3 ~~e~~~l~~~~~~~l~~~fg~~~~rp~Q~~ai~~~l~g~~vlv~apTGsGKT~~~~~~~~~~------~~~~~~v~P~~~   76 (206)
T d1oywa2           3 QAEVLNLESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLL------NGLTVVVSPLIS   76 (206)
T ss_dssp             CCCCSSHHHHHHHHHHHTTCCSSCCTTHHHHHHHHHTTCCEEEECSCHHHHHHHHHHHHHHS------SSEEEEECSCHH
T ss_pred             chhhCCCCHHHHHHHHHhcCCCCCCHHHHHHHHHHHcCCCEEEEcCCCCCCcchhhhhhhhc------cCceEEeccchh
Confidence            456788999999999985 9999999999999999999999999999999999999888754      346999999999


Q ss_pred             HHHHHHHHHHHhccCcCeEEEEEeCCcc----hHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhh
Q 018574          113 LATQTEKVILAIGDFINIQAHACVGGKS----VGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML  188 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~  188 (354)
                      |+.|+.+.++..+..    .........    .............++++|+..+.............++++|+||+|.+.
T Consensus        77 L~~q~~~~l~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~t~~~~~~~~~~~~~~~~~v~~lviDEaH~~~  152 (206)
T d1oywa2          77 LMKDQVDQLQANGVA----AACLNSTQTREQQLEVMTGCRTGQIRLLYIAPERLMLDNFLEHLAHWNPVLLAVDEAHCIS  152 (206)
T ss_dssp             HHHHHHHHHHHTTCC----EEEECTTSCHHHHHHHHHHHHHTCCSEEEECHHHHTSTTHHHHHTTSCEEEEEESSGGGGC
T ss_pred             hhhhHHHHHHhhccc----ccccccccccccchhHHHHHhcCCceEEEEechhhhchhhcccchhheeeeeeeeeeeeee
Confidence            999999999887633    222222211    111122233458899999988765444444556689999999999987


Q ss_pred             ccCc--H---HHHHHHHhhCCCCCcEEEEEeeCchhHHH-HHHhc-cCCCe
Q 018574          189 SRGF--K---DQIYDVYRYLPPDLQVVLISATLPHEILE-MTTKF-MTDPV  232 (354)
Q Consensus       189 ~~~~--~---~~~~~i~~~~~~~~~~i~lSaT~~~~~~~-~~~~~-~~~~~  232 (354)
                      +++.  .   ..+..+...+ ++.|++++|||+++...+ +.+.+ +.+|.
T Consensus       153 ~~~~~~~~~~~~~~~l~~~~-~~~~ii~lSATl~~~v~~di~~~L~l~~p~  202 (206)
T d1oywa2         153 QWGHDFRPEYAALGQLRQRF-PTLPFMALTATADDTTRQDIVRLLGLNDPL  202 (206)
T ss_dssp             TTSSCCCHHHHGGGGHHHHC-TTSCEEEEESCCCHHHHHHHHHHHTCCSCE
T ss_pred             ccccchHHHHHHHHHHHHhC-CCCceEEEEeCCCHHHHHHHHHHcCCCCCc
Confidence            6642  1   1223344444 478999999999988765 44443 56663

>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=99.93  E-value=2.2e-25  Score=177.29  Aligned_cols=165  Identities=17%  Similarity=0.167  Sum_probs=129.9

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEE
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAH  133 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~  133 (354)
                      .+|++||.++++.+. ++++++++|||+|||++++.++...+...  +.+++|++|+++|+.|+.+.+.++....+..+.
T Consensus         8 ~~pr~~Q~~~~~~~~-~~n~lv~~pTGsGKT~i~~~~~~~~~~~~--~~~il~i~P~~~L~~q~~~~~~~~~~~~~~~v~   84 (200)
T d1wp9a1           8 IQPRIYQEVIYAKCK-ETNCLIVLPTGLGKTLIAMMIAEYRLTKY--GGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIV   84 (200)
T ss_dssp             HCCCHHHHHHHHHGG-GSCEEEECCTTSCHHHHHHHHHHHHHHHS--CSCEEEECSSHHHHHHHHHHHHHHBCSCGGGEE
T ss_pred             CCCCHHHHHHHHHHh-cCCeEEEeCCCCcHHHHHHHHHHHHHHhc--CCcEEEEcCchHHHHHHHHHHHHhhccccccee
Confidence            389999999998876 55799999999999998888776665433  346999999999999999999999887778887


Q ss_pred             EEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          134 ACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ...++.......... ..+.++++|++.+...+....+...++++||+||||++........+...+.....+.+++++|
T Consensus        85 ~~~~~~~~~~~~~~~-~~~~i~i~t~~~~~~~~~~~~~~~~~~~~vIiDE~H~~~~~~~~~~~~~~~~~~~~~~~~l~~S  163 (200)
T d1wp9a1          85 ALTGEKSPEERSKAW-ARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLT  163 (200)
T ss_dssp             EECSCSCHHHHHHHH-HHCSEEEECHHHHHHHHHTTSCCTTSCSEEEEETGGGCSTTCHHHHHHHHHHHHCSSCCEEEEE
T ss_pred             eeecccchhHHHHhh-hcccccccccchhHHHHhhhhhhccccceEEEEehhhhhcchhHHHHHHHHHhcCCCCcEEEEE
Confidence            777776655443332 3368999999999998888888888999999999999876554444444444445678899999


Q ss_pred             eeCchhHHH
Q 018574          214 ATLPHEILE  222 (354)
Q Consensus       214 aT~~~~~~~  222 (354)
                      ||++.....
T Consensus       164 ATp~~~~~~  172 (200)
T d1wp9a1         164 ASPGSTPEK  172 (200)
T ss_dssp             SCSCSSHHH
T ss_pred             ecCCCcHHH
Confidence            998654443

>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=99.93  E-value=1.9e-27  Score=194.23  Aligned_cols=179  Identities=15%  Similarity=0.130  Sum_probs=127.2

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      ..|.+..+.+.+.+ +.+.++.+||++|.++++.+++|+++++.+|||+|||.+++++++.....   +.+++|++|+++
T Consensus        22 ~~~~~~~~~~~~~~-~~~~~~~~p~~~Q~~~i~~~l~g~~~~i~apTGsGKT~~~~~~~~~~~~~---~~rvliv~Pt~~   97 (237)
T d1gkub1          22 CLFPEDFLLKEFVE-FFRKCVGEPRAIQKMWAKRILRKESFAATAPTGVGKTSFGLAMSLFLALK---GKRCYVIFPTSL   97 (237)
T ss_dssp             SCCTTHHHHHHHHH-HHHTTTCSCCHHHHHHHHHHHTTCCEECCCCBTSCSHHHHHHHHHHHHTT---SCCEEEEESCHH
T ss_pred             ccCccchhHHHHHH-HHHhccCCCCHHHHHHHHHHHCCCCEEEEecCCChHHHHHHHHHHHHHHh---cCeEEEEeccHH
Confidence            34444334444444 44557779999999999999999999999999999999999888776654   346999999999


Q ss_pred             HHHHHHHHHHHhccCcCeEE----EEEeCCcchHHhH--HhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          113 LATQTEKVILAIGDFINIQA----HACVGGKSVGEDI--RKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       113 l~~q~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~--~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      |+.|+.++++++....++.+    ....++.......  ......++|+|+||+.+.+.    .....++++||+||+|.
T Consensus        98 La~Q~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~Ilv~Tp~~l~~~----~~~~~~~~~vVvDE~d~  173 (237)
T d1gkub1          98 LVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQFLSKH----YRELGHFDFIFVDDVDA  173 (237)
T ss_dssp             HHHHHHHHHHHHHTTTCCSGGGSEEECCSSCCSHHHHHHHHSGGGCSEEEEEHHHHHHC----STTSCCCSEEEESCHHH
T ss_pred             HHHHHHHHHHHHHHHcCCceEEEEeeeecccchhhhhhhhccccccceeccChHHHHHh----hhhcCCCCEEEEEChhh
Confidence            99999999999877665432    3333333332222  22334579999999887553    23456889999999999


Q ss_pred             hhccCcHHHHHHHHhh-------------CCCCCcEEEEEeeCchhHH
Q 018574          187 MLSRGFKDQIYDVYRY-------------LPPDLQVVLISATLPHEIL  221 (354)
Q Consensus       187 ~~~~~~~~~~~~i~~~-------------~~~~~~~i~lSaT~~~~~~  221 (354)
                      +++.+  ..+......             .+...|++++|||+++...
T Consensus       174 ~l~~~--~~~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~  219 (237)
T d1gkub1         174 ILKAS--KNVDKLLHLLGFHYDLKTKSWVGEARGCLMVSTATAKKGKK  219 (237)
T ss_dssp             HHTST--HHHHHHHHHTTEEEETTTTEEEECCSSEEEECCCCSCCCTT
T ss_pred             hhhcc--cchhHHHHhcCChHHHHHHHhhCCCCCeEEEEeCCCCcccH
Confidence            87654  222222222             2356789999999976543

>d1fuka_ c.37.1.19 (A:) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.88  E-value=3.3e-22  Score=151.58  Aligned_cols=108  Identities=58%  Similarity=0.907  Sum_probs=103.7

Q ss_pred             ceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcE
Q 018574          246 IKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRV  325 (354)
Q Consensus       246 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~v  325 (354)
                      +.|+|..+...+.|.+.|.++++.....++||||++++.++++++.|...++.+..+||+++..+|..+++.|+.|+.+|
T Consensus         1 I~q~~~~v~~~e~K~~~L~~ll~~~~~~k~iIF~~s~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~l~~f~~~~~~i   80 (162)
T d1fuka_           1 IKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRI   80 (162)
T ss_dssp             CEEEEEEEESGGGHHHHHHHHHHHTTCSCEEEEESSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCSE
T ss_pred             CEEEEEEeCCcHHHHHHHHHHHHhCCCCcEEEEEEEEchHHHHHHHHhhcCceEEEeccCCchhhHHHHHHHHhhcccce
Confidence            46788888888889999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          326 LITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       326 lv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      ||||+++++|+|+|++++||+||+|+|+
T Consensus        81 Lv~Tdv~~rGiDi~~v~~VI~~d~P~~~  108 (162)
T d1fuka_          81 LISTDLLARGIDVQQVSLVINYDLPANK  108 (162)
T ss_dssp             EEEEGGGTTTCCCCSCSEEEESSCCSSG
T ss_pred             eeccccccccccCCCceEEEEeccchhH
Confidence            9999999999999999999999999986

>d2j0sa2 c.37.1.19 (A:244-411) Probable ATP-dependent RNA helicase DDX48 {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: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.88  E-value=1.3e-22  Score=154.60  Aligned_cols=114  Identities=83%  Similarity=1.227  Sum_probs=109.1

Q ss_pred             cccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHh
Q 018574          240 ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR  319 (354)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~  319 (354)
                      +.+..++.|+|..++....+.+.|..+++.....++||||++++.++.++..|+..++.+..+||+++..+|..+++.|+
T Consensus         2 ~~tl~~i~q~~v~v~~~~~K~~~L~~ll~~~~~~k~iiF~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~r~~~~~~fk   81 (168)
T d2j0sa2           2 ELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFR   81 (168)
T ss_dssp             GCSCTTEEEEEEEESSTTHHHHHHHHHHHHHTSSEEEEECSSHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCCCCcEEEEEEecChHHHHHHHHHHHHhCCCCceEEEeeeHHHHHHHHHHhhhcccchhhhhhhhhHHHHHHHHHHHh
Confidence            45678999999999988889999999999988899999999999999999999999999999999999999999999999


Q ss_pred             CCCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          320 SGTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       320 ~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +|+.++||||+++++|+|+|++++|||||+|+|+
T Consensus        82 ~g~~~iLv~Td~~~rGiDi~~v~~VIn~d~P~~~  115 (168)
T d2j0sa2          82 SGASRVLISTDVWARGLDVPQVSLIINYDLPNNR  115 (168)
T ss_dssp             HTSSCEEEECGGGSSSCCCTTEEEEEESSCCSSH
T ss_pred             cCCccEEeccchhcccccccCcceEEEecCCcCH
Confidence            9999999999999999999999999999999985

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {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: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=99.87  E-value=3e-22  Score=165.94  Aligned_cols=153  Identities=22%  Similarity=0.200  Sum_probs=115.4

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      +|++||.+++..++++++.++.+|||+|||.+++..+.......  +.++||+||+++|+.||++.+.+++......+..
T Consensus       113 ~~rdyQ~~av~~~l~~~~~il~~pTGsGKT~i~~~i~~~~~~~~--~~k~Liivp~~~Lv~Q~~~~f~~~~~~~~~~~~~  190 (282)
T d1rifa_         113 EPHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQALLARYYLENY--EGKILIIVPTTALTTQMADDFVDYRLFSHAMIKK  190 (282)
T ss_dssp             CCCHHHHHHHHHHHHHSEEEECCCTTSCHHHHHHHHHHHHHHHC--SSEEEEECSSHHHHHHHHHHHHHHTSCCGGGEEE
T ss_pred             ccchHHHHHHHHHHhcCCceeEEEcccCccHHHHHHHHHhhhcc--cceEEEEEcCchhHHHHHHHHHHhhcccccccee
Confidence            79999999999999999999999999999987766554433332  3469999999999999999999987655555555


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEe
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISA  214 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSa  214 (354)
                      ..++.....   ......+++++|.+.+...   ....++.+++||+||||++.    ...+..++..+.+....++|||
T Consensus       191 ~~~g~~~~~---~~~~~~~i~i~t~qs~~~~---~~~~~~~f~~VIvDEaH~~~----a~~~~~il~~~~~~~~rlGlTa  260 (282)
T d1rifa_         191 IGGGASKDD---KYKNDAPVVVGTWQTVVKQ---PKEWFSQFGMMMNDECHLAT----GKSISSIISGLNNCMFKFGLSG  260 (282)
T ss_dssp             CSTTCSSTT---CCCTTCSEEEECHHHHTTS---CGGGGGGEEEEEEETGGGCC----HHHHHHHTTTCTTCCEEEEECS
T ss_pred             ecceecccc---cccccceEEEEeeehhhhh---cccccCCCCEEEEECCCCCC----chhHHHHHHhccCCCeEEEEEe
Confidence            555544322   1233578999999876443   22334679999999999974    4556677777766666799999


Q ss_pred             eCchh
Q 018574          215 TLPHE  219 (354)
Q Consensus       215 T~~~~  219 (354)
                      |++..
T Consensus       261 T~~~~  265 (282)
T d1rifa_         261 SLRDG  265 (282)
T ss_dssp             SCCTT
T ss_pred             ecCCC
Confidence            98543

>d1s2ma2 c.37.1.19 (A:252-422) Putative ATP-dependent RNA helicase DHH1 {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: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.87  E-value=7.5e-22  Score=151.45  Aligned_cols=112  Identities=34%  Similarity=0.624  Sum_probs=106.4

Q ss_pred             ccccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhC
Q 018574          241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRS  320 (354)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~  320 (354)
                      .++.++.|+|..++... |...|.++++..+.+++||||++++.++.++..|...|+.+..+||+++..+|..+++.|++
T Consensus         2 ~tl~~i~q~yi~v~~~~-K~~~L~~ll~~~~~~k~iVF~~~~~~~~~l~~~L~~~g~~~~~~h~~~~~~~r~~~~~~f~~   80 (171)
T d1s2ma2           2 LTLKGITQYYAFVEERQ-KLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQ   80 (171)
T ss_dssp             CBCTTEEEEEEECCGGG-HHHHHHHHHHHSCCSEEEEECSSHHHHHHHHHHHHHHTCCEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CCccceEEEEEEcCHHH-HHHHHHHHHHhCCCCceEEEEeeeehhhHhHHhhhcccccccccccccchhhhhhhhhhccc
Confidence            45778999999887654 99999999999998999999999999999999999999999999999999999999999999


Q ss_pred             CCCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          321 GTTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       321 g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+.++||||+++++|+|+|++++||+||+|+|+
T Consensus        81 ~~~~ilv~Td~~~~Gid~~~v~~VI~~d~p~~~  113 (171)
T d1s2ma2          81 GKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTA  113 (171)
T ss_dssp             TSSSEEEESSCSSSSCCCTTEEEEEESSCCSSH
T ss_pred             CccccccchhHhhhccccceeEEEEecCCcchH
Confidence            999999999999999999999999999999986

>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=99.86  E-value=7e-21  Score=153.76  Aligned_cols=175  Identities=20%  Similarity=0.196  Sum_probs=132.3

Q ss_pred             HHHHHHHHHCCCCCChHHHHHhHhhhhc------CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHH
Q 018574           42 DDLLRGIYQYGFEKPSAIQQRAVMPIIK------GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT  115 (354)
Q Consensus        42 ~~~~~~l~~~~~~~~~~~Q~~~~~~~~~------~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~  115 (354)
                      +...+..+.+.| ++|+.|.+++..+..      ..+.+++|.+|||||.+|+..+...+..+.   ++++++|+..|+.
T Consensus        71 ~l~~~f~~~LPF-eLT~~Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~---q~~~m~Pt~~La~  146 (264)
T d1gm5a3          71 KLAEEFIKSLPF-KLTNAQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNYEAGF---QTAFMVPTSILAI  146 (264)
T ss_dssp             HHHHHHHHHSSS-CCCHHHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHHHHHTS---CEEEECSCHHHHH
T ss_pred             HHHHHHHhhccc-cCCchHHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHHHhccc---ceeEEeehHhhhH
Confidence            334444556777 899999999998864      246799999999999999999988887664   4999999999999


Q ss_pred             HHHHHHHHhccCcCeEEEEEeCCcchHHhH---Hhhc-CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccC
Q 018574          116 QTEKVILAIGDFINIQAHACVGGKSVGEDI---RKLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG  191 (354)
Q Consensus       116 q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~  191 (354)
                      |+++.++++....++.+..++++....+..   ..+. ..++|+|||...+..     .+.+.++++||+||-|...-.+
T Consensus       147 Qh~~~~~~~f~~~~~~v~~l~~~~~~~~r~~~~~~~~~g~~~iiIGThsl~~~-----~~~f~~LglviiDEqH~fgv~Q  221 (264)
T d1gm5a3         147 QHYRRTVESFSKFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALIQE-----DVHFKNLGLVIIDEQHRFGVKQ  221 (264)
T ss_dssp             HHHHHHHHHHTCSSCCEEECCSSSCHHHHHHHHHHHHSSCCCEEEECTTHHHH-----CCCCSCCCEEEEESCCCC----
T ss_pred             HHHHHHHHhhhhccccceeeccccchHHHHHHHHHHHCCCCCEEEeehHHhcC-----CCCccccceeeeccccccchhh
Confidence            999999999999899999999887655433   2333 358999999866543     4556789999999999863222


Q ss_pred             cHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCC
Q 018574          192 FKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTD  230 (354)
Q Consensus       192 ~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~  230 (354)
                           +..+.....+..++.+||||.++...+......+
T Consensus       222 -----r~~l~~~~~~~~~l~~SATPiprtl~~~~~g~~~  255 (264)
T d1gm5a3         222 -----REALMNKGKMVDTLVMSATPIPRSMALAFYGDLD  255 (264)
T ss_dssp             ------CCCCSSSSCCCEEEEESSCCCHHHHHHHTCCSS
T ss_pred             -----HHHHHHhCcCCCEEEEECCCCHHHHHHHHcCCCC
Confidence                 1122223346789999999999877666544333

>d1t5ia_ 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=99.85  E-value=3.6e-21  Score=146.81  Aligned_cols=108  Identities=29%  Similarity=0.497  Sum_probs=102.2

Q ss_pred             CceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCc
Q 018574          245 GIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTR  324 (354)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~  324 (354)
                      ++.++|..+.... |.+.|.+++.....+++||||++++.++.+++.|.+.++.+..+||+++.++|..+++.|++|+.+
T Consensus         1 ~l~q~~v~~~~~~-K~~~L~~ll~~~~~~k~iIF~~~~~~~~~l~~~L~~~~~~~~~ihg~~~~~~r~~~l~~F~~g~~~   79 (168)
T d1t5ia_           1 GLQQYYVKLKDNE-KNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRR   79 (168)
T ss_dssp             CCEEEEEECCGGG-HHHHHHHHHHHSCCSSEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCS
T ss_pred             CcEEEEEEeChHH-HHHHHHHHHHhCCCCeEEEEEeeeecchhhhhhhccccccccccccccchhhhhhhhhhhccccce
Confidence            4678888887654 999999999999889999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          325 VLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       325 vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |||||+++++|+|+|++++||+||+|+|+
T Consensus        80 iLv~T~~~~~Gid~~~~~~vi~~~~p~~~  108 (168)
T d1t5ia_          80 ILVATNLFGRGMDIERVNIAFNYDMPEDS  108 (168)
T ss_dssp             EEEESSCCSTTCCGGGCSEEEESSCCSSH
T ss_pred             eeeccccccchhhcccchhhhhhhcccch
Confidence            99999999999999999999999999985

>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=99.85  E-value=2.7e-20  Score=147.47  Aligned_cols=175  Identities=18%  Similarity=0.230  Sum_probs=133.9

Q ss_pred             CCCCHHHHHHHHH-CCCCCChHHHHHhHhhhhc----C--CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC
Q 018574           38 MGIKDDLLRGIYQ-YGFEKPSAIQQRAVMPIIK----G--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT  110 (354)
Q Consensus        38 ~~~~~~~~~~l~~-~~~~~~~~~Q~~~~~~~~~----~--~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~  110 (354)
                      +..+....+.+.+ +.| .+++-|..++..+.+    +  .+.+++|.||||||.+|+..+...+..+   .++++++|+
T Consensus        38 ~~~~~~~~~~~~~~lP~-~lt~~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g---~qv~~l~Pt  113 (233)
T d2eyqa3          38 FKHDREQYQLFCDSFPF-ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNH---KQVAVLVPT  113 (233)
T ss_dssp             CCCCHHHHHHHHHTCCS-CCCHHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHTTT---CEEEEECSS
T ss_pred             CCCCHHHHHhhhhcccc-ccchhHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHHcC---CceEEEccH
Confidence            3455666666655 555 999999999988754    2  3689999999999999999998888544   469999999


Q ss_pred             HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHh---HHhhcC-CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchh
Q 018574          111 RELATQTEKVILAIGDFINIQAHACVGGKSVGED---IRKLEH-GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDE  186 (354)
Q Consensus       111 ~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~-~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~  186 (354)
                      ..|+.|+++.+++....++.++..+++.....+.   +..+.. ..+|+|+|...+.     ..+.+.++++||+||-|.
T Consensus       114 ~~La~Q~~~~~~~~~~~~~~~v~~l~~~~~~~~~~~~~~~~~~g~~~iviGths~l~-----~~~~f~~LgLiIiDEeH~  188 (233)
T d2eyqa3         114 TLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQ-----SDVKFKDLGLLIVDEEHR  188 (233)
T ss_dssp             HHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHHHHHHHHHHTTCCSEEEECTHHHH-----SCCCCSSEEEEEEESGGG
T ss_pred             HHhHHHHHHHHHHHHhhCCCEEEeccCcccchhHHHHHHHHhCCCCCEEEeehhhhc-----cCCccccccceeeechhh
Confidence            9999999999999988899999999988765543   333443 4799999976553     356678999999999998


Q ss_pred             hhccCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHh
Q 018574          187 MLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTK  226 (354)
Q Consensus       187 ~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~  226 (354)
                      ..-.+ ..    .+.....+..++.+||||.++...+...
T Consensus       189 fg~kQ-~~----~l~~~~~~~~~l~~SATPiprtl~~~~~  223 (233)
T d2eyqa3         189 FGVRH-KE----RIKAMRANVDILTLTATPIPRTLNMAMS  223 (233)
T ss_dssp             SCHHH-HH----HHHHHHTTSEEEEEESSCCCHHHHHHHT
T ss_pred             hhhHH-HH----HHHhhCCCCCEEEEecchhHHHHHHHHH
Confidence            63221 11    2222235678999999999987766654

>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=99.85  E-value=2.5e-21  Score=153.55  Aligned_cols=136  Identities=16%  Similarity=0.157  Sum_probs=100.9

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      +|++||.++++.+.++++.++.+|||+|||.+++..+...      +.++||+||+++|+.||.+.++.++..   .+..
T Consensus        70 ~Lr~yQ~eav~~~~~~~~~ll~~~tG~GKT~~a~~~~~~~------~~~~Liv~p~~~L~~q~~~~~~~~~~~---~~~~  140 (206)
T d2fz4a1          70 SLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAINEL------STPTLIVVPTLALAEQWKERLGIFGEE---YVGE  140 (206)
T ss_dssp             CCCHHHHHHHHHHTTTSEEEEEESSSTTHHHHHHHHHHHS------CSCEEEEESSHHHHHHHHHHHGGGCGG---GEEE
T ss_pred             CcCHHHHHHHHHHHhCCCcEEEeCCCCCceehHHhHHHHh------cCceeEEEcccchHHHHHHHHHhhccc---chhh
Confidence            6999999999999999999999999999998776554332      235899999999999999999887633   2333


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEe
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISA  214 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSa  214 (354)
                      ..++.         .....++++|.+.+......   ...++++||+||||++.+..+    ..++..+ .....++|||
T Consensus       141 ~~~~~---------~~~~~i~i~t~~~~~~~~~~---~~~~~~lvIiDEaH~~~a~~~----~~i~~~~-~~~~~lgLTA  203 (206)
T d2fz4a1         141 FSGRI---------KELKPLTVSTYDSAYVNAEK---LGNRFMLLIFDEVHHLPAESY----VQIAQMS-IAPFRLGLTA  203 (206)
T ss_dssp             ESSSC---------BCCCSEEEEEHHHHHHTHHH---HTTTCSEEEEECSSCCCTTTH----HHHHHTC-CCSEEEEEEE
T ss_pred             ccccc---------ccccccccceehhhhhhhHh---hCCcCCEEEEECCeeCCcHHH----HHHHhcc-CCCcEEEEec
Confidence            33322         23467999999887654432   234789999999999865543    3444444 3456799999


Q ss_pred             eC
Q 018574          215 TL  216 (354)
Q Consensus       215 T~  216 (354)
                      |+
T Consensus       204 Tl  205 (206)
T d2fz4a1         204 TF  205 (206)
T ss_dssp             SC
T ss_pred             CC
Confidence            97

>d1hv8a2 c.37.1.19 (A:211-365) 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=99.84  E-value=6.5e-21  Score=143.79  Aligned_cols=108  Identities=31%  Similarity=0.552  Sum_probs=100.9

Q ss_pred             cCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCC
Q 018574          244 EGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTT  323 (354)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~  323 (354)
                      .++.+.|..+... .+.+.|..+++.. +.++||||++++.++.++..|++.++.+..+|++++..+|..++++|++|+.
T Consensus         2 ~nI~~~~i~v~~~-~K~~~L~~ll~~~-~~k~IIF~~s~~~~~~l~~~L~~~g~~~~~~~~~~~~~~r~~~~~~f~~~~~   79 (155)
T d1hv8a2           2 ANIEQSYVEVNEN-ERFEALCRLLKNK-EFYGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKI   79 (155)
T ss_dssp             SSSEEEEEECCGG-GHHHHHHHHHCST-TCCEEEECSSHHHHHHHHHHHHHTTCCEEEECSSSCHHHHHHHHHHHHTTSS
T ss_pred             CCeEEEEEEeChH-HHHHHHHHHHccC-CCCEEEEECchHHHHHHHhhhcccccccccccccchhhhhhhhhhhhhcccc
Confidence            4678888888765 4999999999865 4689999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          324 RVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       324 ~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +|||||+++++|+|+|++++||+||+|+|+
T Consensus        80 ~ilv~T~~~~~Gid~~~v~~Vi~~d~p~~~  109 (155)
T d1hv8a2          80 RILIATDVMSRGIDVNDLNCVINYHLPQNP  109 (155)
T ss_dssp             SEEEECTTHHHHCCCSCCSEEEESSCCSCH
T ss_pred             eeeeehhHHhhhhhhccCcEEEEecCCCCH
Confidence            999999999999999999999999999985

>d1oywa3 c.37.1.19 (A:207-406) 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=99.83  E-value=3.2e-20  Score=145.12  Aligned_cols=109  Identities=14%  Similarity=0.320  Sum_probs=98.3

Q ss_pred             cccCceeEEEEeccccchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCC
Q 018574          242 TLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSG  321 (354)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g  321 (354)
                      +++++.  |...... .+.+.|..+++.....++||||++++.++.++..|+..++.+..+||+++.++|.++++.|++|
T Consensus         3 ~RpNi~--y~v~~~~-~k~~~L~~~l~~~~~~~~IIF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~r~~~~~~f~~g   79 (200)
T d1oywa3           3 DRPNIR--YMLMEKF-KPLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRD   79 (200)
T ss_dssp             CCTTEE--EEEEECS-SHHHHHHHHHHHTTTCCEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTT
T ss_pred             CCCCcE--EEEEcCC-cHHHHHHHHHHhcCCCCEEEEEeeehhhHHhhhhhccCCceeEEecCCCcHHHHHHHHHHHhcc
Confidence            345554  3333333 3889999999998888999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEEccccccCCCcCCCcEEEecCCCCCC
Q 018574          322 TTRVLITTDVWARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       322 ~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +.+|||||+++++|+|+|++++|||||+|+|+
T Consensus        80 ~~~ilvaTd~~~~GiD~p~v~~VI~~~~P~~~  111 (200)
T d1oywa3          80 DLQIVVATVAFGMGINKPNVRFVVHFDIPRNI  111 (200)
T ss_dssp             SCSEEEECTTSCTTTCCTTCCEEEESSCCSSH
T ss_pred             cceEEEecchhhhccCCCCCCEEEECCCccch
Confidence            99999999999999999999999999999985

>d1c4oa2 c.37.1.19 (A:410-583) Nucleotide excision repair enzyme UvrB {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: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Thermus thermophilus [TaxId: 274]

Probab=99.83  E-value=4.5e-20  Score=138.78  Aligned_cols=95  Identities=17%  Similarity=0.175  Sum_probs=85.1

Q ss_pred             hHHHHHHHHh-h-CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCC
Q 018574          259 KFDTLCDLYD-T-LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGL  336 (354)
Q Consensus       259 ~~~~l~~~l~-~-~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  336 (354)
                      ..+.+...+. . ..++++||||+++++++.++..|.+.|+++..+||+++..+|.+++++|++|+.+|||+|+++++|+
T Consensus        16 qv~dll~~i~~~~~~g~r~lvfc~t~~~~~~l~~~L~~~Gi~a~~~Hg~~~~~eR~~~l~~F~~G~~~vLVaT~v~~~Gi   95 (174)
T d1c4oa2          16 QILDLMEGIRERAARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGL   95 (174)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEECSSHHHHHHHHHHHHHTTCCEEEECTTCCHHHHHHHHHHHHTTSCSEEEESCCCCTTC
T ss_pred             CHHHHHHHHHHHHhcCCcEEEEEcchhHHHHHHHHHHhcCCceEEEecccchHHHHHHHHHHHCCCeEEEEeeeeeeeec
Confidence            4444444333 3 3467999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcCCCcEEEecCCCCCC
Q 018574          337 DVQQAILFFFLFLFCNV  353 (354)
Q Consensus       337 di~~~~~Vi~~~~p~s~  353 (354)
                      |+|++++||+||.|.+.
T Consensus        96 Dip~V~~Vi~~~~~~~~  112 (174)
T d1c4oa2          96 DIPEVSLVAILDADKEG  112 (174)
T ss_dssp             CCTTEEEEEETTTTSCS
T ss_pred             cCCCCcEEEEecccccc
Confidence            99999999999999875

>d1t5la2 c.37.1.19 (A:415-595) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=99.82  E-value=8.4e-20  Score=139.75  Aligned_cols=94  Identities=21%  Similarity=0.279  Sum_probs=84.3

Q ss_pred             hHHHHHHHHhh--CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCC
Q 018574          259 KFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGL  336 (354)
Q Consensus       259 ~~~~l~~~l~~--~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  336 (354)
                      +++.+...+..  ..+.++||||+++++++.++..|++.|+.+..+||++++.+|.+++++|++|+.+|||||+++++|+
T Consensus        16 qvd~ll~~i~~~~~~~~~~iif~~~~~~~~~~~~~l~~~g~~~~~~hg~~~~~eR~~~l~~Fr~g~~~vLVaTdv~~rGi   95 (181)
T d1t5la2          16 QIDDLIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGL   95 (181)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEECSSHHHHHHHHHHHHTTTCCEEEECSSCCHHHHHHHHHHHHHTSCSEEEESCCCSSSC
T ss_pred             cHHHHHHHHHHHHhcCCeEEEEeehhhhhHHHHHHHHhCCcceeEecCCccHHHHHHHHHHHHCCCCCEEEehhHHHccC
Confidence            44444444433  2457899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcCCCcEEEecCCCCC
Q 018574          337 DVQQAILFFFLFLFCN  352 (354)
Q Consensus       337 di~~~~~Vi~~~~p~s  352 (354)
                      |+|++++|||||+|.+
T Consensus        96 Dip~v~~VI~~d~p~~  111 (181)
T d1t5la2          96 DIPEVSLVAILDADKE  111 (181)
T ss_dssp             CCTTEEEEEETTTTSC
T ss_pred             CCCCCCEEEEecCCcc
Confidence            9999999999999974

>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=99.78  E-value=1.6e-19  Score=134.39  Aligned_cols=136  Identities=14%  Similarity=0.187  Sum_probs=89.8

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR  146 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (354)
                      +.+|+++++.+|||+|||.+++..++......  +.++++++|++.+++|+.+.+....    ..+........      
T Consensus         4 l~~~~~~il~~~tGsGKT~~~~~~~~~~~~~~--~~~vli~~p~~~l~~q~~~~~~~~~----~~~~~~~~~~~------   71 (140)
T d1yksa1           4 LKKGMTTVLDFHPGAGKTRRFLPQILAECARR--RLRTLVLAPTRVVLSEMKEAFHGLD----VKFHTQAFSAH------   71 (140)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHHHHHHHHHHT--TCCEEEEESSHHHHHHHHHHTTTSC----EEEESSCCCCC------
T ss_pred             HHcCCcEEEEcCCCCChhHHHHHHHHHHhhhc--CceeeeeecchhHHHHHHHHhhhhh----hhhcccccccc------
Confidence            44689999999999999988877766655443  4579999999999999988764322    33222211111      


Q ss_pred             hhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcH-HHHHHHHhhCCCCCcEEEEEeeCc
Q 018574          147 KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFK-DQIYDVYRYLPPDLQVVLISATLP  217 (354)
Q Consensus       147 ~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~-~~~~~i~~~~~~~~~~i~lSaT~~  217 (354)
                       ......+.+.+...+.... .......++++||+||||++....+. +.+...+.. .++.++++||||||
T Consensus        72 -~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~lvIiDEaH~~~~~~~~~~~~~~~~~~-~~~~~~l~lTATPp  140 (140)
T d1yksa1          72 -GSGREVIDAMCHATLTYRM-LEPTRVVNWEVIIMDEAHFLDPASIAARGWAAHRAR-ANESATILMTATPP  140 (140)
T ss_dssp             -CCSSCCEEEEEHHHHHHHH-TSSSCCCCCSEEEETTTTCCSHHHHHHHHHHHHHHH-TTSCEEEEECSSCT
T ss_pred             -cccccchhhhhHHHHHHHH-hccccccceeEEEEccccccChhhHHHHHHHHHHhh-CCCCCEEEEEcCCC
Confidence             1122456667776665543 34556778999999999987433221 222222333 35789999999986

>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=99.74  E-value=5.8e-18  Score=124.95  Aligned_cols=127  Identities=17%  Similarity=0.147  Sum_probs=84.9

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE  149 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (354)
                      .+..++.+|||+|||.++...+.      ..+.+++|++|++.|++|+.+.+.+....   ......++...       .
T Consensus         8 ~~~~ll~apTGsGKT~~~~~~~~------~~~~~vli~~P~~~l~~q~~~~~~~~~~~---~~~~~~~~~~~-------~   71 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVPAAYA------AQGYKVLVLNPSVAATLGFGAYMSKAHGV---DPNIRTGVRTI-------T   71 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHHHHHH------TTTCCEEEEESCHHHHHHHHHHHHHHHSC---CCEEECSSCEE-------C
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHH------HcCCcEEEEcChHHHHHHHHHHHHHHhhc---ccccccccccc-------c
Confidence            56789999999999976544332      22456999999999999999999876532   22222233221       1


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCC--CCCcEEEEEeeC
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP--PDLQVVLISATL  216 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~--~~~~~i~lSaT~  216 (354)
                      ....+.++|.+.....   ....+.++++||+||+|++... ....+..+++.+.  ++.+++++||||
T Consensus        72 ~~~~~~~~~~~~~~~~---~~~~~~~~~~vIiDE~H~~~~~-~~~~~~~~l~~~~~~~~~~~l~~TATP  136 (136)
T d1a1va1          72 TGSPITYSTYGKFLAD---GGCSGGAYDIIICDECHSTDAT-SILGIGTVLDQAETAGARLVVLATATP  136 (136)
T ss_dssp             CCCSEEEEEHHHHHHT---TGGGGCCCSEEEEETTTCCSHH-HHHHHHHHHHHTTTTTCSEEEEEESSC
T ss_pred             cccceEEEeeeeeccc---cchhhhcCCEEEEecccccCHH-HHHHHHHHHHHHHHCCCCcEEEEeCCC
Confidence            2356778887766443   2334568999999999987433 2233445555443  466799999996

>d1gkub2 c.37.1.16 (B:251-498) 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=99.59  E-value=1.7e-16  Score=129.13  Aligned_cols=89  Identities=19%  Similarity=0.269  Sum_probs=77.0

Q ss_pred             cchHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEc----ccc
Q 018574          257 EWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT----DVW  332 (354)
Q Consensus       257 ~~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T----~~~  332 (354)
                      +.++..+..+++... +++||||++++.++.+++.|++.      +||+++..+|.+++++|++|+.+|||||    +.+
T Consensus        11 ~~~~~~l~~~l~~~~-~~~iif~~~~~~~~~l~~~l~~~------~hg~~~~~~R~~~~~~f~~g~~~vLVaT~a~~~v~   83 (248)
T d1gkub2          11 DESISTLSSILEKLG-TGGIIYARTGEEAEEIYESLKNK------FRIGIVTATKKGDYEKFVEGEIDHLIGTAHYYGTL   83 (248)
T ss_dssp             CCCTTTTHHHHTTSC-SCEEEEESSHHHHHHHHHTTTTS------SCEEECTTSSSHHHHHHHHTSCSEEEEECC-----
T ss_pred             chHHHHHHHHHHHhC-CCEEEEECCHHHHHHHHHHHHHh------ccCCCCHHHHHHHHHHHHhCCCeEEEEeccccchh
Confidence            337788888888654 67999999999999999999863      7999999999999999999999999999    678


Q ss_pred             ccCCCcCC-CcEEEecCCCCC
Q 018574          333 ARGLDVQQ-AILFFFLFLFCN  352 (354)
Q Consensus       333 ~~Gidi~~-~~~Vi~~~~p~s  352 (354)
                      ++|+|+|+ +++|||||+|+.
T Consensus        84 ~rGlDip~~v~~VI~~d~P~~  104 (248)
T d1gkub2          84 VRGLDLPERIRFAVFVGCPSF  104 (248)
T ss_dssp             -CCSCCTTTCCEEEEESCCEE
T ss_pred             hhccCccccccEEEEeCCCcc
Confidence            99999996 999999999974

>d1wp9a2 c.37.1.19 (A:201-486) 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=99.58  E-value=1.3e-15  Score=126.76  Aligned_cols=91  Identities=21%  Similarity=0.341  Sum_probs=79.6

Q ss_pred             HHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecC--------CCHHHHHHHHHHHhCCCCcEEEEcccccc
Q 018574          263 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGD--------MPQKERDAIMGEFRSGTTRVLITTDVWAR  334 (354)
Q Consensus       263 l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~--------~~~~~r~~~~~~f~~g~~~vlv~T~~~~~  334 (354)
                      +.+++....+.++||||++++.++.+++.|.+.++++..++|.        ++..+|..+++.|++|+.+|||||+++++
T Consensus       152 l~~~~~~~~~~k~iiF~~~~~~~~~~~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~F~~g~~~vLv~T~~~~~  231 (286)
T d1wp9a2         152 IREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEE  231 (286)
T ss_dssp             HHHHHHHCTTCCEEEECSCHHHHHHHHHHHHHTTCCEEEECCSSCC-------CCHHHHHHHHHHHTSCSEEEECGGGGG
T ss_pred             HHHHHHhCCCCcEEEEeCcHHhHHHHHHHHHHcCCceEEeeccccccccchhchHHHHHHHHHHHcCCCcEEEEccceec
Confidence            3344455677899999999999999999999999999888764        55567899999999999999999999999


Q ss_pred             CCCcCCCcEEEecCCCCCC
Q 018574          335 GLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       335 Gidi~~~~~Vi~~~~p~s~  353 (354)
                      |+|+|++++||+||+|+|+
T Consensus       232 Gld~~~~~~Vi~~d~~~~~  250 (286)
T d1wp9a2         232 GLDVPEVDLVVFYEPVPSA  250 (286)
T ss_dssp             GGGSTTCCEEEESSCCHHH
T ss_pred             cccCCCCCEEEEeCCCCCH
Confidence            9999999999999999875

>d1jr6a_ c.37.1.14 (A:) 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=99.54  E-value=2.6e-15  Score=109.19  Aligned_cols=78  Identities=15%  Similarity=0.190  Sum_probs=69.5

Q ss_pred             hhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEec
Q 018574          268 DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFL  347 (354)
Q Consensus       268 ~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~  347 (354)
                      +...++++||||++++.++.+++.|++.|+.+..+|++++.       ++|++|+.+|||||+++++|+| |++++|||+
T Consensus        31 ~~~~~~k~IVFc~t~~~ae~la~~L~~~G~~~~~~H~~~~~-------~~~~~~~~~vlvaTd~~~~GiD-~~v~~Vi~~  102 (138)
T d1jr6a_          31 EVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYYRGLDV-------SVIPTNGDVVVVATDALMTGFT-GDFDSVIDC  102 (138)
T ss_dssp             HHHTTSCEEEECSCHHHHHHHHHHHHHHTCEEEEECTTCCS-------CCCTTSSCEEEEESSSSCSSSC-CCBSEEEEC
T ss_pred             hhcCCCCEEEEeCcHHHHHHHHHHHhccccchhhhhccchh-------hhhhhhhcceeehhHHHHhccc-cccceEEEE
Confidence            34456899999999999999999999999999999999874       4578899999999999999999 999999996


Q ss_pred             C----CCCCC
Q 018574          348 F----LFCNV  353 (354)
Q Consensus       348 ~----~p~s~  353 (354)
                      |    +|.|+
T Consensus       103 ~~~~~~P~~~  112 (138)
T d1jr6a_         103 NTSDGKPQDA  112 (138)
T ss_dssp             SEETTEECCH
T ss_pred             EecCCCCCCH
Confidence            5    57764

>d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}

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: Rad54-like, Rad54L
species: Zebra fish (Danio rerio) [TaxId: 7955]

Probab=99.54  E-value=8.6e-14  Score=116.27  Aligned_cols=157  Identities=16%  Similarity=0.102  Sum_probs=101.5

Q ss_pred             CChHHHHHhHhhhh---------cCCcEEEEcCCCCchhhHhHHHHhhccccCC----CceeEEEEcCCHHHHHHHHHHH
Q 018574           55 KPSAIQQRAVMPII---------KGRDVIAQAQSGTGKTSMIALTVCQTVDTSS----REVQALILSPTRELATQTEKVI  121 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~---------~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~----~~~~~lil~p~~~l~~q~~~~~  121 (354)
                      .++|||.+++.++.         .+.++++.-.+|.|||...+..+...+....    ...++|||||. ++..||.+++
T Consensus        55 ~Lr~hQ~~gv~~l~~~~~~~~~~~~~g~iLaDemGlGKT~qaia~l~~l~~~~~~~~~~~~~~LIV~P~-sl~~qW~~Ei  133 (298)
T d1z3ix2          55 VLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSPS-SLVRNWYNEV  133 (298)
T ss_dssp             TCCHHHHHHHHHHHHHHTTSSSTTCCEEEECCCTTSCHHHHHHHHHHHHHHCCTTSSCSCSCEEEEECH-HHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHhhhhccCCceEEEeCCCCCHHHHHHHHHHHHHHhcccccCCCCcEEEEccc-hhhHHHHHHH
Confidence            67999999998653         3557899999999999866654444433321    22359999996 5889999999


Q ss_pred             HHhccCcCeEEEEEeCCcchHHhH--Hhh------cCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcH
Q 018574          122 LAIGDFINIQAHACVGGKSVGEDI--RKL------EHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFK  193 (354)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~------~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~  193 (354)
                      .++.... ..+....++.......  ...      ....+++++|.+.+.....  .+...++++||+||+|.+.+.. .
T Consensus       134 ~k~~~~~-~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~sy~~~~~~~~--~l~~~~~~~vI~DEaH~ikn~~-s  209 (298)
T d1z3ix2         134 GKWLGGR-VQPVAIDGGSKDEIDSKLVNFISQQGMRIPTPILIISYETFRLHAE--VLHKGKVGLVICDEGHRLKNSD-N  209 (298)
T ss_dssp             HHHHGGG-CCEEEECSSCHHHHHHHHHHHHCCCSSCCSCCEEEEEHHHHHHHTT--TTTTSCCCEEEETTGGGCCTTC-H
T ss_pred             HhhcCCc-eeEEEEeCchHHHHHHHHHHhhhccCccccceEEEEeecccccchh--cccccceeeeeccccccccccc-c
Confidence            9877532 3334444443322111  111      1235789999887765433  3334578999999999986554 2


Q ss_pred             HHHHHHHhhCCCCCcEEEEEeeCch
Q 018574          194 DQIYDVYRYLPPDLQVVLISATLPH  218 (354)
Q Consensus       194 ~~~~~i~~~~~~~~~~i~lSaT~~~  218 (354)
                      .....+. .+ .....+++||||..
T Consensus       210 ~~~~a~~-~l-~~~~rllLTGTPi~  232 (298)
T d1z3ix2         210 QTYLALN-SM-NAQRRVLISGTPIQ  232 (298)
T ss_dssp             HHHHHHH-HH-CCSEEEEECSSCSG
T ss_pred             hhhhhhh-cc-ccceeeeecchHHh
Confidence            2222222 22 34567999999944

>d2fwra1 c.37.1.19 (A:257-456) 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=99.52  E-value=3.2e-15  Score=117.48  Aligned_cols=91  Identities=19%  Similarity=0.322  Sum_probs=84.4

Q ss_pred             chHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCC
Q 018574          258 WKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLD  337 (354)
Q Consensus       258 ~~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gid  337 (354)
                      .|++.+.+++....+.++||||++.+.++.+++.|.     +..+||+++.++|..++++|++|+.+|||+|+++++|+|
T Consensus        79 ~K~~~l~~ll~~~~~~k~lvf~~~~~~~~~l~~~l~-----~~~i~g~~~~~~R~~~l~~F~~~~~~vLv~~~~~~~Gid  153 (200)
T d2fwra1          79 NKIRKLREILERHRKDKIIIFTRHNELVYRISKVFL-----IPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGID  153 (200)
T ss_dssp             HHHHHHHHHHHHTSSSCBCCBCSCHHHHHHHHHHTT-----CCBCCSSSCSHHHHTHHHHHHHSSCSBCBCSSCCCSSSC
T ss_pred             HHHHHHHHHHHhCCCCcEEEEeCcHHHHHHHHhhcC-----cceeeCCCCHHHHHHHHHHhhcCCeeeeeecchhhcccC
Confidence            378889999999888899999999999999998874     345799999999999999999999999999999999999


Q ss_pred             cCCCcEEEecCCCCCC
Q 018574          338 VQQAILFFFLFLFCNV  353 (354)
Q Consensus       338 i~~~~~Vi~~~~p~s~  353 (354)
                      +|.+++||++|.|+|+
T Consensus       154 l~~~~~vi~~~~~~s~  169 (200)
T d2fwra1         154 VPDANVGVIMSGSGSA  169 (200)
T ss_dssp             SCCBSEEEEECCSSCC
T ss_pred             CCCCCEEEEeCCCCCH
Confidence            9999999999999986

>d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {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: Tandem AAA-ATPase domain
domain: Helicase of the SNF2/Rad54 hamily
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.48  E-value=6.3e-14  Score=112.60  Aligned_cols=148  Identities=13%  Similarity=0.112  Sum_probs=97.6

Q ss_pred             CChHHHHHhHhhhhc----CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCe
Q 018574           55 KPSAIQQRAVMPIIK----GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINI  130 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~  130 (354)
                      .+++||.+++..+..    +.++++..++|.|||..++..+..... .....++||+|| ..+..||.+++.++......
T Consensus        12 ~L~~yQ~~~v~~~~~~~~~~~g~iLaDe~GlGKT~~~i~~~~~~~~-~~~~~~~LIv~p-~~l~~~W~~e~~~~~~~~~~   89 (230)
T d1z63a1          12 NLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDAKK-ENELTPSLVICP-LSVLKNWEEELSKFAPHLRF   89 (230)
T ss_dssp             CCCHHHHHHHHHHHHHHHTTCCEEECCCTTSCHHHHHHHHHHHHHH-TTCCSSEEEEEC-STTHHHHHHHHHHHCTTSCE
T ss_pred             chhHHHHHHHHHHHHhhhcCCCEEEEeCCCCChHHHHHHhhhhhhh-cccccccceecc-hhhhhHHHHHHHhhcccccc
Confidence            689999999986543    567899999999999877655444433 333346899999 57788999999888754332


Q ss_pred             EEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEE
Q 018574          131 QAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVV  210 (354)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i  210 (354)
                      .  ........ .    .....++++++.+.+.....   +....+++||+||+|.+...... .. .....+ .....+
T Consensus        90 ~--~~~~~~~~-~----~~~~~~vvi~~~~~~~~~~~---l~~~~~~~vI~DEah~~k~~~s~-~~-~~~~~l-~a~~r~  156 (230)
T d1z63a1          90 A--VFHEDRSK-I----KLEDYDIILTTYAVLLRDTR---LKEVEWKYIVIDEAQNIKNPQTK-IF-KAVKEL-KSKYRI  156 (230)
T ss_dssp             E--ECSSSTTS-C----CGGGSSEEEEEHHHHTTCHH---HHTCCEEEEEEETGGGGSCTTSH-HH-HHHHTS-CEEEEE
T ss_pred             e--eeccccch-h----hccCcCEEEeeHHHHHhHHH---HhcccceEEEEEhhhcccccchh-hh-hhhhhh-ccceEE
Confidence            2  22111111 1    11236899999887754322   22346789999999999765422 22 223333 345579


Q ss_pred             EEEeeCc
Q 018574          211 LISATLP  217 (354)
Q Consensus       211 ~lSaT~~  217 (354)
                      ++||||-
T Consensus       157 ~LTgTPi  163 (230)
T d1z63a1         157 ALTGTPI  163 (230)
T ss_dssp             EECSSCS
T ss_pred             EEecchH
Confidence            9999994

>d2eyqa5 c.37.1.19 (A:779-989) 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=99.43  E-value=5.3e-13  Score=102.17  Aligned_cols=81  Identities=19%  Similarity=0.263  Sum_probs=74.9

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC--CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY--NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLF  348 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~--~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~  348 (354)
                      .++++.++||.++..+.+++.+++.  +.++..+||.|+++++++++++|.+|+.+|||||.+++.|+|+|+++++|..+
T Consensus        30 rGgQvy~V~p~I~~~e~~~~~l~~~~p~~~i~~lHGkm~~~eke~im~~F~~g~~~ILv~TtvIEvGiDvpnA~~iiI~~  109 (211)
T d2eyqa5          30 RGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIER  109 (211)
T ss_dssp             TTCEEEEECCCSSCHHHHHHHHHHHCTTSCEEECCSSCCHHHHHHHHHHHHTTSCCEEEESSTTGGGSCCTTEEEEEETT
T ss_pred             cCCeEEEEEcCccchhhHHHHHHHhCCceEEEEEEeccCHHHHHHHHHHHHcCCcceEEEehhhhhccCCCCCcEEEEec
Confidence            4579999999999999999999775  67899999999999999999999999999999999999999999999999887


Q ss_pred             CCC
Q 018574          349 LFC  351 (354)
Q Consensus       349 ~p~  351 (354)
                      .+.
T Consensus       110 a~r  112 (211)
T d2eyqa5         110 ADH  112 (211)
T ss_dssp             TTS
T ss_pred             chh
Confidence            654

>d2p6ra4 c.37.1.19 (A:203-403) 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=99.29  E-value=2.2e-12  Score=100.36  Aligned_cols=86  Identities=15%  Similarity=0.223  Sum_probs=72.2

Q ss_pred             hHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcC------------------------------CCeEEEeecCCCH
Q 018574          259 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGY------------------------------NFTVSSMHGDMPQ  308 (354)
Q Consensus       259 ~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~------------------------------~~~~~~~~~~~~~  308 (354)
                      ..+.+.+.+..  ++++||||+|++.++.++..|...                              ...+.++|+++++
T Consensus        29 ~~~l~~~~i~~--~~~~LVF~~sRk~~~~~A~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~GIa~hh~~l~~  106 (201)
T d2p6ra4          29 FEELVEECVAE--NGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHHAGLLN  106 (201)
T ss_dssp             HHHHHHHHHHT--TCCEEEECSSHHHHHHHHHHHHHHHHTTCCCSSHHHHHHTTCCSHHHHHHHHHHHTTCCEECTTSCH
T ss_pred             HHHHHHHHHHc--CCcEEEEeCCHHHHHHHHHHHHHHHHhhhchhHHHHHHHHhhhhhhhHHHHHHHhccHHHHHHHhhh
Confidence            34555555554  478999999999999888887541                              0126789999999


Q ss_pred             HHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEe
Q 018574          309 KERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFF  346 (354)
Q Consensus       309 ~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~  346 (354)
                      .+|..+.+.|++|.++|||||..+++|+|+|..++||+
T Consensus       107 ~~r~~ie~~f~~g~i~vlvaT~~l~~Gin~p~~~vvi~  144 (201)
T d2p6ra4         107 GQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVR  144 (201)
T ss_dssp             HHHHHHHHHHHTTSCCEEEECSTTTSSSCCCBSEEEEC
T ss_pred             hhHHHHHHHHhCCCceEEEechHHHhhcCCCCceEEEe
Confidence            99999999999999999999999999999999999886

>d1gm5a4 c.37.1.19 (A:550-755) 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=99.28  E-value=5.2e-13  Score=103.28  Aligned_cols=94  Identities=24%  Similarity=0.327  Sum_probs=70.0

Q ss_pred             hHHHHHHHHhh-C-CCCcEEEEcCchhhHHH--------HHHHHhcC---CCeEEEeecCCCHHHHHHHHHHHhCCCCcE
Q 018574          259 KFDTLCDLYDT-L-TITQAVIFCNTKRKVDW--------LTEKMRGY---NFTVSSMHGDMPQKERDAIMGEFRSGTTRV  325 (354)
Q Consensus       259 ~~~~l~~~l~~-~-~~~~~lvf~~~~~~~~~--------l~~~l~~~---~~~~~~~~~~~~~~~r~~~~~~f~~g~~~v  325 (354)
                      +.+.+...++. . .++++.++||.++..+.        .++.|.+.   +.++..+||.|++++|++++++|++|+.+|
T Consensus        14 ~~~~v~~~I~~el~~g~QvyvVcP~Ieese~~~~~~~~e~~~~l~~~~~p~~~v~~lHG~m~~~eke~~m~~F~~g~~~i   93 (206)
T d1gm5a4          14 RVNEVYEFVRQEVMRGGQAFIVYPLIEESDKLNVKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDI   93 (206)
T ss_dssp             THHHHHHHHHHHTTTSCCBCCBCCCC--------CHHHHHHHSGGGSCC---CBCCCCSSSCCSCSHHHHHHHTTTSSSB
T ss_pred             cHHHHHHHHHHHHHcCCCEEEEEeeecccccccchhhHHHHHHHHHhcCCCCeEEEEeecccHHHHHHHHHHHHCCCEEE
Confidence            44444444443 2 34678889987765543        33444332   556788999999999999999999999999


Q ss_pred             EEEccccccCCCcCCCcEEEecCCCCC
Q 018574          326 LITTDVWARGLDVQQAILFFFLFLFCN  352 (354)
Q Consensus       326 lv~T~~~~~Gidi~~~~~Vi~~~~p~s  352 (354)
                      ||||.++++|+|+|++++||+++.|..
T Consensus        94 LVaTtViE~GIDip~a~~iii~~a~~f  120 (206)
T d1gm5a4          94 LVSTTVIEVGIDVPRANVMVIENPERF  120 (206)
T ss_dssp             CCCSSCCCSCSCCTTCCEEEBCSCSSS
T ss_pred             EEEehhhhccccccCCcEEEEEccCCc
Confidence            999999999999999999999999973

>d1a1va2 c.37.1.14 (A:326-624) 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=99.24  E-value=8.3e-13  Score=105.82  Aligned_cols=82  Identities=13%  Similarity=0.138  Sum_probs=72.2

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHH----------HHHHHHHhCCCCcEEEEcccccc---CCCc
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKER----------DAIMGEFRSGTTRVLITTDVWAR---GLDV  338 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r----------~~~~~~f~~g~~~vlv~T~~~~~---Gidi  338 (354)
                      ++++||||++++.++++++.|++.|+++..+|++++.+.|          ...++.|.+|+.+++|+|+...+   |+|+
T Consensus        36 ggk~LVFcnSR~~aE~La~~L~~~Gi~a~~~Hgglsq~~R~~~gd~~i~~~~aLe~f~~G~~dvVVaT~~~a~g~~giDi  115 (299)
T d1a1va2          36 GGRHLIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPTSGDVVVVATDALMTGFTGDFDSVIDCNTCVTQTVDFSL  115 (299)
T ss_dssp             SSEEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCGGGSCSSSSEEEEECTTC---CCCCBSEEEECCEEEEEEEECCC
T ss_pred             CCCEEEECCcHHHHHHHHHHHHHCCCCEEEEeCCchHHHHHhccchHHHHHHHHHHHhcCCCcEEEEEeehhccCCCCCC
Confidence            5799999999999999999999999999999999998776          45778899999999999999888   7788


Q ss_pred             CCCcEEEecCCCCCC
Q 018574          339 QQAILFFFLFLFCNV  353 (354)
Q Consensus       339 ~~~~~Vi~~~~p~s~  353 (354)
                      +.+.+||++|+|.|+
T Consensus       116 d~V~~VI~~d~P~Sv  130 (299)
T d1a1va2         116 DPTFTIETTTLPQDA  130 (299)
T ss_dssp             SSSCEEEEEEEECBH
T ss_pred             CcceEEEeCCCCCCH
Confidence            888899999999885

>d1z3ix1 c.37.1.19 (X:390-735) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}

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: Rad54-like, Rad54L
species: Zebra fish (Danio rerio) [TaxId: 7955]

Probab=99.19  E-value=4.7e-11  Score=100.59  Aligned_cols=96  Identities=19%  Similarity=0.227  Sum_probs=84.5

Q ss_pred             chHHHHHHHHh---hCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCc---EEEEccc
Q 018574          258 WKFDTLCDLYD---TLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTR---VLITTDV  331 (354)
Q Consensus       258 ~~~~~l~~~l~---~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~---vlv~T~~  331 (354)
                      .|+..+..++.   ...++|+|||+++....+.+...|...|+.+..++|.++..+|..+++.|++++..   +|++|.+
T Consensus       101 ~Kl~~L~~ll~~~~~~~g~KvlIFs~~~~~ld~l~~~l~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~vlLls~~a  180 (346)
T d1z3ix1         101 GKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKA  180 (346)
T ss_dssp             HHHHHHHHHHHHHHHHCCCEEEEEESCHHHHHHHHHHHHHHTCCEEEECSSCCHHHHHHHHHHHHSTTCCCCEEEEEGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCceeEEeehhhhhHHHHHHHhhhhccccccccchhHHHHHHHHHhhhcccccceeeeecchh
Confidence            36777666665   34568999999999999999999999999999999999999999999999987543   5777899


Q ss_pred             cccCCCcCCCcEEEecCCCCCC
Q 018574          332 WARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       332 ~~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      .+.|+|++.+++||+||.|||+
T Consensus       181 gg~GlnL~~a~~vi~~d~~wnp  202 (346)
T d1z3ix1         181 GGCGLNLIGANRLVMFDPDWNP  202 (346)
T ss_dssp             SCTTCCCTTEEEEEECSCCSSH
T ss_pred             hhhccccccceEEEEecCCCcc
Confidence            9999999999999999999986

>d1z5za1 c.37.1.19 (A:663-906) Helicase of the SNF2/Rad54 hamily {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: Tandem AAA-ATPase domain
domain: Helicase of the SNF2/Rad54 hamily
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.19  E-value=5.7e-11  Score=95.78  Aligned_cols=96  Identities=16%  Similarity=0.229  Sum_probs=82.8

Q ss_pred             chHHHHHHHHhhC--CCCcEEEEcCchhhHHHHHHHHhcC-CCeEEEeecCCCHHHHHHHHHHHhCC-CCcEEEEc-ccc
Q 018574          258 WKFDTLCDLYDTL--TITQAVIFCNTKRKVDWLTEKMRGY-NFTVSSMHGDMPQKERDAIMGEFRSG-TTRVLITT-DVW  332 (354)
Q Consensus       258 ~~~~~l~~~l~~~--~~~~~lvf~~~~~~~~~l~~~l~~~-~~~~~~~~~~~~~~~r~~~~~~f~~g-~~~vlv~T-~~~  332 (354)
                      .|+..+.+++...  .++|+||||+.....+.+...+... +..+..++|+++..+|..+++.|.++ ...+++++ .+.
T Consensus        69 ~K~~~l~~~l~~~~~~g~kviIFs~~~~~~~~l~~~l~~~~~~~~~~i~G~~~~~~R~~~i~~F~~~~~~~vll~~~~~~  148 (244)
T d1z5za1          69 GKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAG  148 (244)
T ss_dssp             HHHHHHHHHHHHHHHTTCCEEEEESCHHHHHHHHHHHHHHHCSCCCEECTTSCHHHHHHHHHHHHHCTTCCEEEEECCTT
T ss_pred             hHHHHHHHHHHhhcccccceEEEeeceehHHHHHHHHHhhccceEEEEecccchhccchhhhhhhccccchhcccccccc
Confidence            3777777777643  5679999999999999998888654 78888999999999999999999876 46777655 799


Q ss_pred             ccCCCcCCCcEEEecCCCCCC
Q 018574          333 ARGLDVQQAILFFFLFLFCNV  353 (354)
Q Consensus       333 ~~Gidi~~~~~Vi~~~~p~s~  353 (354)
                      +.|+|++.+++||++|.|+|+
T Consensus       149 g~Glnl~~a~~vi~~~~~wn~  169 (244)
T d1z5za1         149 GFGINLTSANRVIHFDRWWNP  169 (244)
T ss_dssp             CCCCCCTTCSEEEECSCCSCT
T ss_pred             ccccccchhhhhhhcCchhhh
Confidence            999999999999999999997

>d1tf5a3 c.37.1.19 (A:1-226,A:349-395) Translocation ATPase SecA, nucleotide-binding domains {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: Tandem AAA-ATPase domain
domain: Translocation ATPase SecA, nucleotide-binding domains
species: Bacillus subtilis [TaxId: 1423]

Probab=99.15  E-value=2.6e-10  Score=89.77  Aligned_cols=166  Identities=17%  Similarity=0.223  Sum_probs=118.3

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEE
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      .+++.|.-.--.+.  +.-+..+.||-|||+++.+|+.-....++.   +=|++.+.-|+..-++++..+...+|+.+..
T Consensus        80 RhyDVQLiGgi~L~--~G~iaem~TGEGKTL~a~l~a~l~al~g~~---vhvvTvNdyLA~RDae~m~~iy~~lGlsvg~  154 (273)
T d1tf5a3          80 FPFKVQLMGGVALH--DGNIAEMKTGEGKTLTSTLPVYLNALTGKG---VHVVTVNEYLASRDAEQMGKIFEFLGLTVGL  154 (273)
T ss_dssp             CCCHHHHHHHHHHH--TTSEEECCTTSCHHHHHHHHHHHHHTTSSC---EEEEESSHHHHHHHHHHHHHHHHHTTCCEEE
T ss_pred             EEehhHHHHHHHHH--hhhheeecCCCcchhHHHHHHHHHHhcCCC---ceEEecCccccchhhhHHhHHHHHcCCCccc
Confidence            45555544443344  446889999999999999888877666543   8888999999999999999999999999998


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHH-HHHHhcC------CccCCCccEEEEecchhhhccC--------------cH
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRV-CDMIKRK------TLRTRAIKLLVLDESDEMLSRG--------------FK  193 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l-~~~~~~~------~~~~~~~~~vvvDE~h~~~~~~--------------~~  193 (354)
                      ...+....+....+  .++|+++|...+ .++++..      ....+.+.+.||||+|.++-..              -.
T Consensus       155 ~~~~~~~~~r~~~Y--~~di~Ygt~~e~~fDyLrd~~~~~~~~~~~r~~~~aIvDEvDsiliDeartpliisg~~~~~a~  232 (273)
T d1tf5a3         155 NLNSMSKDEKREAY--AADITYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSILIDEARTPLIISGQSMTLAT  232 (273)
T ss_dssp             CCTTSCHHHHHHHH--HSSEEEEEHHHHHHHHHHHTTCSSGGGCCCCCCCEEEEETHHHHHTTTTTCEEEEEEEEEEEEE
T ss_pred             cccccCHHHHHHHh--hCCceecchhhhhhhhcchhhhcChhhhccCCCCEEEEEcchhhhhhccCCceEeccCccchhh
Confidence            88776666555444  489999999877 3455432      2234678999999999975221              00


Q ss_pred             HHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhccCC
Q 018574          194 DQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTD  230 (354)
Q Consensus       194 ~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~~~~  230 (354)
                      -.+..+++..   .++.+||+|...+..++.+-+-.+
T Consensus       233 it~q~~f~~y---~~l~gmtgta~~~~~e~~~iy~l~  266 (273)
T d1tf5a3         233 ITFQNYFRMY---EKLAGMTGTAKTEEEEFRNIYNMQ  266 (273)
T ss_dssp             EEHHHHHTTS---SEEEEEESCCGGGHHHHHHHHCCC
T ss_pred             hhHHHHHHHH---HHHhCCccccHHHHHHHHhccCCc
Confidence            1123344433   468999999988777777666544

>d1yksa2 c.37.1.14 (A:325-623) 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=98.93  E-value=7.9e-10  Score=90.31  Aligned_cols=74  Identities=11%  Similarity=0.102  Sum_probs=62.2

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCcCCCcEEEecCCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQAILFFFLFLF  350 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p  350 (354)
                      .++++|||++..+++.+++.|++.|.++..+||.+...++.    .|++|+.++||||++++.|+|+ ++.+||+.+++
T Consensus        36 ~g~~~~F~~s~~~~~~~a~~L~~~g~~V~~l~~~~~~~e~~----~~~~~~~~~~~~t~~~~~~~~~-~~~~vid~g~~  109 (299)
T d1yksa2          36 KRPTAWFLPSIRAANVMAASLRKAGKSVVVLNRKTFEREYP----TIKQKKPDFILATDIAEMGANL-CVERVLDCRTA  109 (299)
T ss_dssp             CSCEEEECSCHHHHHHHHHHHHHTTCCEEECCSSSCC------------CCCSEEEESSSTTCCTTC-CCSEEEECCEE
T ss_pred             CCCEEEEeCCHHHHHHHHHHHHhcCCeEEEEcCcCcHhHHh----hhhcCCcCEEEEechhhhceec-CceEEEecCce
Confidence            58999999999999999999999999999999999876654    4678999999999999999999 59999998863

>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=98.68  E-value=7.9e-08  Score=80.97  Aligned_cols=144  Identities=15%  Similarity=0.191  Sum_probs=86.7

Q ss_pred             CCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccc-cCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEE
Q 018574           54 EKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVD-TSSREVQALILSPTRELATQTEKVILAIGDFINIQA  132 (354)
Q Consensus        54 ~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~-~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~  132 (354)
                      ....+.|..++..++.++-.+|.||+|+|||++....+..... ....+.++++++||..-+..+.+.............
T Consensus       147 ~~~~~~Q~~A~~~al~~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~~~~~~~~~~~~  226 (359)
T d1w36d1         147 SDEINWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTD  226 (359)
T ss_dssp             TTSCCHHHHHHHHHHTBSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHTHHHHHSSCCS
T ss_pred             cccccHHHHHHHHHHcCCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHHHHHHhhcCchh
Confidence            3567889999999999999999999999999775433222211 123456799999999888888777654332211100


Q ss_pred             EEEeCCcchHHhHHhhcCCCeEEEeCcHHHH------HHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCC
Q 018574          133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVC------DMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPD  206 (354)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~------~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~  206 (354)
                      ...   ...           ..-..|..++.      ............++++||||+-.+    -...+..++..++.+
T Consensus       227 ~~~---~~~-----------~~~~~t~~~ll~~~~~~~~~~~~~~~~l~~d~lIIDEaSmv----~~~l~~~ll~~~~~~  288 (359)
T d1w36d1         227 EQK---KRI-----------PEDASTLHRLLGAQPGSQRLRHHAGNPLHLDVLVVDEASMI----DLPMMSRLIDALPDH  288 (359)
T ss_dssp             CCC---CSC-----------SCCCBTTTSCC-----------CTTSCCSCSEEEECSGGGC----BHHHHHHHHHTCCTT
T ss_pred             hhh---hhh-----------hhhhhHHHHHHhhhhcchHHHHhhhcccccceeeehhhhcc----CHHHHHHHHHHhcCC
Confidence            000   000           00001111110      111222334457899999999876    345677888888888


Q ss_pred             CcEEEEEee
Q 018574          207 LQVVLISAT  215 (354)
Q Consensus       207 ~~~i~lSaT  215 (354)
                      .++|++.-.
T Consensus       289 ~~lILvGD~  297 (359)
T d1w36d1         289 ARVIFLGDR  297 (359)
T ss_dssp             CEEEEEECT
T ss_pred             CEEEEECCh
Confidence            887765543

>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=98.23  E-value=9.8e-07  Score=72.94  Aligned_cols=69  Identities=17%  Similarity=0.137  Sum_probs=54.0

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-CCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-SSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      +|+|-|++++..  ...+++|.|++|||||.+.+.-+.+.+.. ..+..++++++++++++..+.+.+.+..
T Consensus         1 ~L~~eQ~~av~~--~~~~~lI~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~tn~a~~~i~~~~~~~~   70 (306)
T d1uaaa1           1 RLNPGQQQAVEF--VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTL   70 (306)
T ss_dssp             CCCHHHHHHHHC--CSSEEEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESSHHHHHHHHHHHHHHS
T ss_pred             CcCHHHHHHHhC--CCCCEEEEeeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeCcHHHHHHHHHHHHHhc
Confidence            478999999975  34679999999999998877665555433 2234579999999999999988887655

>d1tf5a4 c.37.1.19 (A:396-570) Translocation ATPase SecA, nucleotide-binding domains {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: Tandem AAA-ATPase domain
domain: Translocation ATPase SecA, nucleotide-binding domains
species: Bacillus subtilis [TaxId: 1423]

Probab=98.22  E-value=7e-06  Score=60.12  Aligned_cols=92  Identities=12%  Similarity=0.121  Sum_probs=66.8

Q ss_pred             hHHHHHHHHhh--CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCC
Q 018574          259 KFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGL  336 (354)
Q Consensus       259 ~~~~l~~~l~~--~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  336 (354)
                      |...+.+.+..  ..+.|+||++.|++.++.++..|++.+++..++++.....+ .+++. ..-....|.|+|+++++|.
T Consensus        19 K~~AIi~eV~~~~~~grPVLIgT~SIe~SE~ls~~L~~~gi~h~vLnAk~~~~E-a~II~-~Ag~~g~VtIATNmAGRGt   96 (175)
T d1tf5a4          19 KFKAVAEDVAQRYMTGQPVLVGTVAVETSELISKLLKNKGIPHQVLNAKNHERE-AQIIE-EAGQKGAVTIATNMAGRGT   96 (175)
T ss_dssp             HHHHHHHHHHHHHHHTCCEEEEESCHHHHHHHHHHHHTTTCCCEEECSSCHHHH-HHHHT-TTTSTTCEEEEETTSSTTC
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHcCCCceeehhhhHHHH-HHHHH-hccCCCceeehhhHHHcCC
Confidence            55555544432  23579999999999999999999999999999998753222 23332 2223557999999999999


Q ss_pred             CcCC---Cc-----EEEecCCCCC
Q 018574          337 DVQQ---AI-----LFFFLFLFCN  352 (354)
Q Consensus       337 di~~---~~-----~Vi~~~~p~s  352 (354)
                      |+.-   +.     |||.-..|.|
T Consensus        97 Dikl~~~v~~~GGLhVI~t~~~~s  120 (175)
T d1tf5a4          97 DIKLGEGVKELGGLAVVGTERHES  120 (175)
T ss_dssp             CCCCCTTSGGGTSEEEEESSCCSS
T ss_pred             CccchHHHHhCCCcEEEEeccCcc
Confidence            9952   11     6777777765

>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=98.01  E-value=6.6e-06  Score=68.25  Aligned_cols=69  Identities=17%  Similarity=0.194  Sum_probs=54.8

Q ss_pred             CChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCC-CceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS-REVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~-~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      .+++-|.++++..  +.+++|.|++|||||.+.+.-+.+.+.... ...+++++++++..+..+...+....
T Consensus        11 ~L~~eQ~~~v~~~--~g~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~~aa~~~~~~~~~~~   80 (318)
T d1pjra1          11 HLNKEQQEAVRTT--EGPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNKAAREMRERVQSLL   80 (318)
T ss_dssp             TSCHHHHHHHHCC--SSCEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSHHHHHHHHHHHHHHH
T ss_pred             hCCHHHHHHHhCC--CCCEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccHHHHHHHHHHHHhhc
Confidence            5789999999853  457999999999999988776666554432 23479999999999999998886643

>d1nkta4 c.37.1.19 (A:397-615) Translocation ATPase SecA, nucleotide-binding domains {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: Tandem AAA-ATPase domain
domain: Translocation ATPase SecA, nucleotide-binding domains
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.66  E-value=0.00016  Score=53.90  Aligned_cols=77  Identities=16%  Similarity=0.273  Sum_probs=59.6

Q ss_pred             hHHHHHHHHhh--CCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHH-HHHHHHhCC-CCcEEEEcccccc
Q 018574          259 KFDTLCDLYDT--LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERD-AIMGEFRSG-TTRVLITTDVWAR  334 (354)
Q Consensus       259 ~~~~l~~~l~~--~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~-~~~~~f~~g-~~~vlv~T~~~~~  334 (354)
                      |...+...+..  ..+.|+||-+.|++..+.++..|.+.++++.++++...  +++ +++.  +.| ...|-|+|+++++
T Consensus        19 K~~Avv~ei~~~h~~GqPVLVGT~SVe~SE~lS~lL~~~gi~h~vLNAK~h--erEAeIIA--qAG~~GaVTIATNMAGR   94 (219)
T d1nkta4          19 KYIAVVDDVAERYAKGQPVLIGTTSVERSEYLSRQFTKRRIPHNVLNAKYH--EQEATIIA--VAGRRGGVTVATNMAGR   94 (219)
T ss_dssp             HHHHHHHHHHHHHHTTCCEEEEESCHHHHHHHHHHHHHTTCCCEEECSSCH--HHHHHHHH--TTTSTTCEEEEETTCST
T ss_pred             HHHHHHHHHHHHHhcCCCEEEeeCcHHHHHHHHHHHHHhccchhccchhhH--HHHHHHHH--hcccCCcEEeeccccCC
Confidence            55555554442  34579999999999999999999999999999999743  333 3333  345 4679999999999


Q ss_pred             CCCcC
Q 018574          335 GLDVQ  339 (354)
Q Consensus       335 Gidi~  339 (354)
                      |.||-
T Consensus        95 GTDI~   99 (219)
T d1nkta4          95 GTDIV   99 (219)
T ss_dssp             TCCCC
T ss_pred             CCcee
Confidence            99983

>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=97.64  E-value=2.9e-05  Score=59.81  Aligned_cols=39  Identities=18%  Similarity=0.191  Sum_probs=27.6

Q ss_pred             ChHHHHHhHhhhhc----CC---cEEEEcCCCCchhhHhHHHHhhc
Q 018574           56 PSAIQQRAVMPIIK----GR---DVIAQAQSGTGKTSMIALTVCQT   94 (354)
Q Consensus        56 ~~~~Q~~~~~~~~~----~~---~~ii~~~tGsGKT~~~~~~~~~~   94 (354)
                      .+|||..+++.+.+    ++   ..++.||+|+|||.++...+...
T Consensus         3 ~yPw~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l   48 (207)
T d1a5ta2           3 WYPWLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL   48 (207)
T ss_dssp             CCGGGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhc
Confidence            46788877776543    32   38999999999997666554443

>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=97.61  E-value=0.00012  Score=57.86  Aligned_cols=76  Identities=17%  Similarity=0.199  Sum_probs=64.8

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHh----cCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccCCCcCCCcEEE
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMR----GYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWARGLDVQQAILFF  345 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~----~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~~Gidi~~~~~Vi  345 (354)
                      .+.++++.+++.--+.+.++.++    ..++.+..+||+++..+|.++.+.+.+|+.+|+|+|. .+...+.+.++..||
T Consensus       131 ~g~q~~~m~Pt~~La~Qh~~~~~~~f~~~~~~v~~l~~~~~~~~r~~~~~~~~~g~~~iiIGThsl~~~~~~f~~Lglvi  210 (264)
T d1gm5a3         131 AGFQTAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALIQEDVHFKNLGLVI  210 (264)
T ss_dssp             HTSCEEEECSCHHHHHHHHHHHHHHHTCSSCCEEECCSSSCHHHHHHHHHHHHSSCCCEEEECTTHHHHCCCCSCCCEEE
T ss_pred             cccceeEEeehHhhhHHHHHHHHHhhhhccccceeeccccchHHHHHHHHHHHCCCCCEEEeehHHhcCCCCccccceee
Confidence            35689999999888877766664    4578999999999999999999999999999999995 666678888998877


Q ss_pred             e
Q 018574          346 F  346 (354)
Q Consensus       346 ~  346 (354)
                      .
T Consensus       211 i  211 (264)
T d1gm5a3         211 I  211 (264)
T ss_dssp             E
T ss_pred             e
Confidence            4

>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=97.44  E-value=0.00048  Score=52.89  Aligned_cols=104  Identities=14%  Similarity=0.219  Sum_probs=57.7

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcC
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH  150 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (354)
                      +.+++.||+|+|||.......-+... .  +..+++ .+...+..+..+.+..-                          
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~~-~--~~~~~~-~~~~~~~~~~~~~~~~~--------------------------   86 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAKK-R--GYRVIY-SSADDFAQAMVEHLKKG--------------------------   86 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHHH-T--TCCEEE-EEHHHHHHHHHHHHHHT--------------------------
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhcc-C--ccceEE-echHHHHHHHHHHHHcc--------------------------
Confidence            45899999999999654444333322 2  223444 44445554444433210                          


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc-CcHHHHHHHHhhCCCCCcEEEEEeeCch
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQVVLISATLPH  218 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~-~~~~~~~~i~~~~~~~~~~i~lSaT~~~  218 (354)
                             ....+...++       ..+++++|++|.+... .+...+..++..+......+++|+..++
T Consensus        87 -------~~~~~~~~~~-------~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p  141 (213)
T d1l8qa2          87 -------TINEFRNMYK-------SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHP  141 (213)
T ss_dssp             -------CHHHHHHHHH-------TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCG
T ss_pred             -------chhhHHHHHh-------hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcc
Confidence                   1112222222       5689999999998654 4555566666665443334556666544

>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=97.43  E-value=9.8e-05  Score=56.32  Aligned_cols=131  Identities=19%  Similarity=0.261  Sum_probs=70.2

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC-C-HHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhc
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP-T-RELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE  149 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p-~-~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (354)
                      -+++.+|||+|||+...-.+......+   .++.+++- + +.-+   .++++.+.+..++.+.......+...-...  
T Consensus        12 vi~lvGp~GvGKTTTiaKLA~~~~~~g---~kV~lit~Dt~R~gA---~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~--   83 (207)
T d1ls1a2          12 LWFLVGLQGSGKTTTAAKLALYYKGKG---RRPLLVAADTQRPAA---REQLRLLGEKVGVPVLEVMDGESPESIRRR--   83 (207)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHHHHHTT---CCEEEEECCSSCHHH---HHHHHHHHHHHTCCEEECCTTCCHHHHHHH--
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC---CcEEEEecccccchH---HHHHHHHHHhcCCccccccccchhhHHHHH--
Confidence            357799999999988777665544332   33444443 2 2222   234444444334554443333222211000  


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc-cCcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHhc
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKF  227 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~-~~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~~  227 (354)
                                  .....     .....++|++|=+=+... ......+..+.+...++..++.++|+...+.......+
T Consensus        84 ------------~~~~~-----~~~~~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f  145 (207)
T d1ls1a2          84 ------------VEEKA-----RLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAF  145 (207)
T ss_dssp             ------------HHHHH-----HHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHH
T ss_pred             ------------HHHHH-----hhccCcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHH
Confidence                        00000     112446677776654432 22456666677767777778888998887776666554

>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=97.35  E-value=0.00082  Score=51.92  Aligned_cols=76  Identities=16%  Similarity=0.234  Sum_probs=66.8

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhc----CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccCCCcCCCcEEE
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRG----YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWARGLDVQQAILFF  345 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~----~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~~Gidi~~~~~Vi  345 (354)
                      .+.++++.+++.-.+.+.++.+++    .+..+..+|+..+..+|.++.+.+.+|+.+|+|+|. .+...+.++++..||
T Consensus       103 ~g~qv~~l~Pt~~La~Q~~~~~~~~~~~~~~~v~~l~~~~~~~~~~~~~~~~~~g~~~iviGths~l~~~~~f~~LgLiI  182 (233)
T d2eyqa3         103 NHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLI  182 (233)
T ss_dssp             TTCEEEEECSSHHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHHHHHHHHHHTTCCSEEEECTHHHHSCCCCSSEEEEE
T ss_pred             cCCceEEEccHHHhHHHHHHHHHHHHhhCCCEEEeccCcccchhHHHHHHHHhCCCCCEEEeehhhhccCCcccccccee
Confidence            457899999999999999988875    478899999999999999999999999999999996 555678888888877


Q ss_pred             e
Q 018574          346 F  346 (354)
Q Consensus       346 ~  346 (354)
                      .
T Consensus       183 i  183 (233)
T d2eyqa3         183 V  183 (233)
T ss_dssp             E
T ss_pred             e
Confidence            4

>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=97.27  E-value=0.00071  Score=51.18  Aligned_cols=113  Identities=12%  Similarity=0.126  Sum_probs=61.7

Q ss_pred             HHHhHhhhhc---CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH--HHHHHHHHHHHhccCcCeEEEE
Q 018574           60 QQRAVMPIIK---GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE--LATQTEKVILAIGDFINIQAHA  134 (354)
Q Consensus        60 Q~~~~~~~~~---~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~--l~~q~~~~~~~~~~~~~~~~~~  134 (354)
                      |.+.+..+.+   +..+++.||+|+|||..+...+-.........+-++++.|...  -.+|+.+               
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~---------------   66 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRT---------------   66 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHH---------------
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHH---------------
Confidence            5555655554   4578999999999997666544322222222234666666311  0122211               


Q ss_pred             EeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEe
Q 018574          135 CVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISA  214 (354)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSa  214 (354)
                                                 +.+.+..... .....++|+||||.|... ....+.+.+..-+.+..++++|.
T Consensus        67 ---------------------------i~~~~~~~~~-~~~~KviIId~ad~l~~~-aqNaLLK~LEEPp~~t~fiLit~  117 (198)
T d2gnoa2          67 ---------------------------IKDFLNYSPE-LYTRKYVIVHDCERMTQQ-AANAFLKALEEPPEYAVIVLNTR  117 (198)
T ss_dssp             ---------------------------HHHHHTSCCS-SSSSEEEEETTGGGBCHH-HHHHTHHHHHSCCTTEEEEEEES
T ss_pred             ---------------------------HHHHHhhCcc-cCCCEEEEEeCccccchh-hhhHHHHHHhCCCCCceeeeccC
Confidence                                       1122222121 235689999999998444 34556666665555665555544


Q ss_pred             eC
Q 018574          215 TL  216 (354)
Q Consensus       215 T~  216 (354)
                      .+
T Consensus       118 ~~  119 (198)
T d2gnoa2         118 RW  119 (198)
T ss_dssp             CG
T ss_pred             Ch
Confidence            43

>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=97.26  E-value=0.0007  Score=51.43  Aligned_cols=130  Identities=18%  Similarity=0.239  Sum_probs=65.9

Q ss_pred             EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEc-CCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCC
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILS-PTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG  151 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~-p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (354)
                      +++.+|||+|||+...-.+.... ..  +.++.+++ .+.-.+  -.++++.+.+..++.+.....+.+......     
T Consensus        12 i~lvGptGvGKTTTiAKLA~~~~-~~--g~kV~lit~Dt~R~g--A~eQL~~~a~~l~v~~~~~~~~~d~~~~l~-----   81 (211)
T d2qy9a2          12 ILMVGVNGVGKTTTIGKLARQFE-QQ--GKSVMLAAGDTFRAA--AVEQLQVWGQRNNIPVIAQHTGADSASVIF-----   81 (211)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH-TT--TCCEEEECCCTTCHH--HHHHHHHHHHHTTCCEECCSTTCCHHHHHH-----
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-HC--CCcEEEEeccccccc--chhhhhhhhhhcCCcccccccCCCHHHHHH-----
Confidence            56799999999988877665433 22  23344444 432222  235555555555565554433333222111     


Q ss_pred             CeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhc-cCcHHHHHHHHhhCC------CCCcEEEEEeeCchhHHHHH
Q 018574          152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRYLP------PDLQVVLISATLPHEILEMT  224 (354)
Q Consensus       152 ~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~-~~~~~~~~~i~~~~~------~~~~~i~lSaT~~~~~~~~~  224 (354)
                                  +...  ......+++|++|=+=+... ....+.+..+.+...      +...++.++|+...+.....
T Consensus        82 ------------~~~~--~a~~~~~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~  147 (211)
T d2qy9a2          82 ------------DAIQ--AAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQA  147 (211)
T ss_dssp             ------------HHHH--HHHHTTCSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHH
T ss_pred             ------------HHHH--HHHHcCCCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHH
Confidence                        1111  00113457778886644321 123344444444332      34567888888876655544


Q ss_pred             Hh
Q 018574          225 TK  226 (354)
Q Consensus       225 ~~  226 (354)
                      ..
T Consensus       148 ~~  149 (211)
T d2qy9a2         148 KL  149 (211)
T ss_dssp             HH
T ss_pred             hh
Confidence            33

>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=97.13  E-value=0.0012  Score=51.85  Aligned_cols=54  Identities=11%  Similarity=0.138  Sum_probs=31.9

Q ss_pred             ccCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhh--hcCCcEEEEcCCCCchhhHhH
Q 018574           32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPI--IKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        32 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~--~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+|++.+-.+.+++.+.+. + .+- .+.+.+...  ...+.+++.||+|+|||..+-
T Consensus         5 ~~~~~di~G~~~~k~~l~~~-i-~~l-~~~~~~~~~g~~~~~giLl~GppGtGKT~la~   60 (247)
T d1ixza_           5 KVTFKDVAGAEEAKEELKEI-V-EFL-KNPSRFHEMGARIPKGVLLVGPPGVGKTHLAR   60 (247)
T ss_dssp             SCCGGGCCSCHHHHHHHHHH-H-HHH-HCHHHHHHTTCCCCSEEEEECCTTSSHHHHHH
T ss_pred             CCcHHHHccHHHHHHHHHHH-H-HHH-HCHHHHHHcCCCCCceEEEecCCCCChhHHHH
Confidence            36889987677777766542 1 110 111112221  124579999999999996443

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=97.06  E-value=0.00043  Score=58.52  Aligned_cols=67  Identities=22%  Similarity=0.298  Sum_probs=50.9

Q ss_pred             CChHHHHHhHhhhhc----C-CcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccC
Q 018574           55 KPSAIQQRAVMPIIK----G-RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDF  127 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~-~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~  127 (354)
                      .|...|-+++..+.+    | +..++.|-||||||+++... ++..     +..+|||+|+..+|.|+++.++.+...
T Consensus        11 ~p~gDQP~aI~~l~~~l~~g~~~q~l~GltGS~ka~~iA~l-~~~~-----~rp~LVVt~n~~~A~qL~~dL~~~l~~   82 (413)
T d1t5la1          11 EPQGDQPQAIAKLVDGLRRGVKHQTLLGATGTGKTFTISNV-IAQV-----NKPTLVIAHNKTLAGQLYSELKEFFPH   82 (413)
T ss_dssp             CCCTTHHHHHHHHHHHHHHTCSEEEEEECTTSCHHHHHHHH-HHHH-----TCCEEEECSSHHHHHHHHHHHHHHCTT
T ss_pred             CCCCCCHHHHHHHHHHHhcCCCcEEEeCCCCcHHHHHHHHH-HHHh-----CCCEEEEeCCHHHHHHHHHHHHHHcCC
Confidence            677788887776665    4 56889999999999654432 2222     234999999999999999999988743

>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=97.04  E-value=0.00071  Score=51.31  Aligned_cols=26  Identities=35%  Similarity=0.326  Sum_probs=19.8

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      ++-+++.+|||+|||+..+-.+....
T Consensus         6 ~~vi~lvGptGvGKTTTiaKLA~~~~   31 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIAKLGRYYQ   31 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45578899999999988777655443

>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=96.94  E-value=0.0018  Score=49.23  Aligned_cols=60  Identities=18%  Similarity=0.144  Sum_probs=34.1

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEE
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHAC  135 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~  135 (354)
                      -+++.+|||+|||+..+-.+......+  .+-.++-+.+.-.+.  .++++.+.+..++.+...
T Consensus        13 vi~lvGptGvGKTTTiAKLAa~~~~~~--~kV~lit~Dt~R~gA--~eQL~~~a~~l~i~~~~~   72 (213)
T d1vmaa2          13 VIMVVGVNGTGKTTSCGKLAKMFVDEG--KSVVLAAADTFRAAA--IEQLKIWGERVGATVISH   72 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEECTTCHHH--HHHHHHHHHHHTCEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC--CceEEEeecccccch--hHHHHHHhhhcCcccccc
Confidence            357799999999988777665443333  233555555443322  244444444445555433

>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=96.88  E-value=0.00096  Score=52.59  Aligned_cols=47  Identities=15%  Similarity=0.158  Sum_probs=30.1

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhHHHH
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV   91 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~~~~   91 (354)
                      .+|+++--.+.+.+.++.+-- .           -....++++.||+|+|||.++...+
T Consensus         8 ~~~~diig~~~~~~~L~~~~~-~-----------~~~~~~lll~Gp~G~GKTt~~~~la   54 (252)
T d1sxje2           8 KSLNALSHNEELTNFLKSLSD-Q-----------PRDLPHLLLYGPNGTGKKTRCMALL   54 (252)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTT-C-----------TTCCCCEEEECSTTSSHHHHHHTHH
T ss_pred             CCHHHccCcHHHHHHHHHHHH-c-----------CCCCCeEEEECCCCCCHHHHHHHHH
Confidence            357777667777777765311 0           0113368999999999996554433

>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=96.87  E-value=0.0064  Score=47.30  Aligned_cols=40  Identities=13%  Similarity=0.228  Sum_probs=24.3

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeC
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATL  216 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~  216 (354)
                      ...++|+||+|.+... ....+..++...+....++ +.++-
T Consensus       115 ~~kviiIde~d~l~~~-~q~~Llk~lE~~~~~~~~i-l~tn~  154 (239)
T d1njfa_         115 RFKVYLIDEVHMLSRH-SFNALLKTLEEPPEHVKFL-LATTD  154 (239)
T ss_dssp             SSEEEEEETGGGSCHH-HHHHHHHHHHSCCTTEEEE-EEESC
T ss_pred             CCEEEEEECcccCCHH-HHHHHHHHHhcCCCCeEEE-EEcCC
Confidence            4579999999998433 3445556666544444444 44443

>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=96.85  E-value=0.0026  Score=48.21  Aligned_cols=131  Identities=14%  Similarity=0.228  Sum_probs=61.3

Q ss_pred             EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCC
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGV  152 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (354)
                      +++.+|||+|||+..+-.+......+ . .-++|-+.+.-.+.  .++++.+.+..++.+.......+......      
T Consensus        15 i~lvGptGvGKTTTiAKLA~~~~~~g-~-kV~lit~Dt~R~ga--~eQL~~~a~~l~v~~~~~~~~~~~~~~~~------   84 (211)
T d1j8yf2          15 IMLVGVQGTGKATTAGKLAYFYKKKG-F-KVGLVGADVYRPAA--LEQLQQLGQQIGVPVYGEPGEKDVVGIAK------   84 (211)
T ss_dssp             EEEECSCCC----HHHHHHHHHHHTT-C-CEEEEECCCSSHHH--HHHHHHHHHHHTCCEECCTTCCCHHHHHH------
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC-C-ceEEEEeeccccch--hHHHHHhccccCcceeecccchhhhHHHH------
Confidence            56689999999988777665443222 2 23555554432222  24444444433454433322222111100      


Q ss_pred             eEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhcc---CcHHHHHHHHhhCCCCCcEEEEEeeCchhHHHHHHh
Q 018574          153 HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR---GFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTK  226 (354)
Q Consensus       153 ~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~---~~~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~~~  226 (354)
                                 +...  .......++|++|=+=+....   .....+..+.....+....+.++|+...+.......
T Consensus        85 -----------~a~~--~~~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~  148 (211)
T d1j8yf2          85 -----------RGVE--KFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASK  148 (211)
T ss_dssp             -----------HHHH--HHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHH
T ss_pred             -----------HHHH--HhhccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhh
Confidence                       0000  001124567777755332111   123455666666666667788899987665554443

>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=96.73  E-value=0.0017  Score=50.23  Aligned_cols=39  Identities=21%  Similarity=0.410  Sum_probs=24.5

Q ss_pred             ccCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEE
Q 018574          171 LRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVV  210 (354)
Q Consensus       171 ~~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i  210 (354)
                      .......++|+||+|.+.... ...+..++...+....++
T Consensus        95 ~~~~~~kiiiiDe~d~~~~~~-~~~Ll~~le~~~~~~~~~  133 (227)
T d1sxjc2          95 IFSKGFKLIILDEADAMTNAA-QNALRRVIERYTKNTRFC  133 (227)
T ss_dssp             SSSCSCEEEEETTGGGSCHHH-HHHHHHHHHHTTTTEEEE
T ss_pred             ccCCCeEEEEEeccccchhhH-HHHHHHHhhhcccceeec
Confidence            334456799999999985443 455556666655444333

>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=96.69  E-value=0.0012  Score=51.05  Aligned_cols=43  Identities=14%  Similarity=0.247  Sum_probs=27.3

Q ss_pred             CCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEEeeC
Q 018574          173 TRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATL  216 (354)
Q Consensus       173 ~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lSaT~  216 (354)
                      ..+..++|+||+|.+.... ...+...+...+....+++.+...
T Consensus        99 ~~~~kviiiDe~d~~~~~~-~~~ll~~~e~~~~~~~~i~~~~~~  141 (224)
T d1sxjb2          99 PGKHKIVILDEADSMTAGA-QQALRRTMELYSNSTRFAFACNQS  141 (224)
T ss_dssp             TTCCEEEEEESGGGSCHHH-HHTTHHHHHHTTTTEEEEEEESCG
T ss_pred             CcceEEEEEecccccchhH-HHHHhhhccccccceeeeeccCch
Confidence            3456799999999986543 344555556555565555555444

>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=96.63  E-value=0.0037  Score=48.40  Aligned_cols=38  Identities=13%  Similarity=0.376  Sum_probs=22.5

Q ss_pred             cCCCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEE
Q 018574          172 RTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVV  210 (354)
Q Consensus       172 ~~~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i  210 (354)
                      ......++++||+|.+.... ...+..++........++
T Consensus       106 ~~~~~~iilide~d~~~~~~-~~~ll~~l~~~~~~~~~i  143 (231)
T d1iqpa2         106 GGASFKIIFLDEADALTQDA-QQALRRTMEMFSSNVRFI  143 (231)
T ss_dssp             GGCSCEEEEEETGGGSCHHH-HHHHHHHHHHTTTTEEEE
T ss_pred             cCCCceEEeehhhhhcchhH-HHHHhhhcccCCcceEEE
Confidence            34566789999999875543 334445555444443333

>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=96.18  E-value=0.077  Score=39.15  Aligned_cols=18  Identities=22%  Similarity=0.516  Sum_probs=15.1

Q ss_pred             CCcEEEEcCCCCchhhHh
Q 018574           70 GRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~   87 (354)
                      ..+.++.+++|.|||...
T Consensus        43 k~n~lLvG~pGVGKTalv   60 (195)
T d1jbka_          43 KNNPVLIGEPGVGKTAIV   60 (195)
T ss_dssp             SCEEEEECCTTSCHHHHH
T ss_pred             CCCeEEEecCCcccHHHH
Confidence            458999999999999544

>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=96.15  E-value=0.0059  Score=47.95  Aligned_cols=56  Identities=21%  Similarity=0.263  Sum_probs=32.8

Q ss_pred             ccccCcccCCCCHHHHHHHHHC-C-CCCChHHHHHhHhhhhcCCcEEEEcCCCCchhhHhH
Q 018574           30 EAITSFDAMGIKDDLLRGIYQY-G-FEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~l~~~-~-~~~~~~~Q~~~~~~~~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ....+|++.+-.+...+.+.+. . +..+..+|..-   ....+.+++.||+|+|||+.+-
T Consensus         6 ~~~~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g---~~~~~~iLL~GppGtGKT~la~   63 (256)
T d1lv7a_           6 QIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLG---GKIPKGVLMVGPPGTGKTLLAK   63 (256)
T ss_dssp             SSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC--------CCCCEEEEECCTTSCHHHHHH
T ss_pred             CCCCCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcC---CCCCCeEEeeCCCCCCccHHHH
Confidence            3346899988777777776542 0 11122222111   1224679999999999996544

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal 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: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.06  E-value=0.0047  Score=43.05  Aligned_cols=38  Identities=11%  Similarity=0.098  Sum_probs=26.1

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      =-++.||+.||||.-.+..+......+   .+++++-|...
T Consensus         4 L~li~GpMfsGKTt~Li~~~~~~~~~g---~~v~~ikp~~D   41 (133)
T d1xbta1           4 IQVILGPMFSGKSTELMRRVRRFQIAQ---YKCLVIKYAKD   41 (133)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTT---CCEEEEEETTC
T ss_pred             EEEEEecccCHHHHHHHHHHHHHHHcC---CcEEEEecccc
Confidence            357899999999976655554443333   35889888644

>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=96.04  E-value=0.0054  Score=48.36  Aligned_cols=17  Identities=35%  Similarity=0.563  Sum_probs=14.8

Q ss_pred             CCcEEEEcCCCCchhhH
Q 018574           70 GRDVIAQAQSGTGKTSM   86 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~   86 (354)
                      .+.+++.||+|+|||..
T Consensus        38 ~~giLL~GppGtGKT~l   54 (258)
T d1e32a2          38 PRGILLYGPPGTGKTLI   54 (258)
T ss_dssp             CCEEEEECCTTSSHHHH
T ss_pred             CceeEEecCCCCCchHH
Confidence            46799999999999964

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=95.93  E-value=0.012  Score=41.32  Aligned_cols=40  Identities=10%  Similarity=0.130  Sum_probs=27.0

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRE  112 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~  112 (354)
                      |.=-++.||+.||||.-.+..+..+...+   .+++++.|...
T Consensus         7 G~l~lI~GpMfSGKTteLi~~~~~~~~~g---~~vl~i~~~~D   46 (141)
T d1xx6a1           7 GWVEVIVGPMYSGKSEELIRRIRRAKIAK---QKIQVFKPEID   46 (141)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTT---CCEEEEEEC--
T ss_pred             eeEEEEEeccccHHHHHHHHHHHHhhhcC---CcEEEEEeccc
Confidence            44458899999999976666554443333   35999999754

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=95.88  E-value=0.015  Score=40.68  Aligned_cols=88  Identities=14%  Similarity=0.138  Sum_probs=49.4

Q ss_pred             EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCC
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGV  152 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (354)
                      -++.||+.||||.-.+..+......+   .+++++-|...-..         ..    .+. -+.|.         .. .
T Consensus         5 ~~i~GpMfsGKTteLi~~~~~~~~~~---~kv~~ikp~~D~R~---------~~----~i~-s~~g~---------~~-~   57 (139)
T d2b8ta1           5 EFITGPMFAGKTAELIRRLHRLEYAD---VKYLVFKPKIDTRS---------IR----NIQ-SRTGT---------SL-P   57 (139)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTT---CCEEEEEECCCGGG---------CS----SCC-CCCCC---------SS-C
T ss_pred             EEEEccccCHHHHHHHHHHHHHHHCC---CcEEEEEEcccccc---------cc----eEE-cccCc---------ee-e
Confidence            47899999999976665554443333   35889999744111         10    000 00111         11 2


Q ss_pred             eEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhh
Q 018574          153 HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML  188 (354)
Q Consensus       153 ~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~  188 (354)
                      .+.+.+...+......... ..+.++|.+||+|-+.
T Consensus        58 ~~~~~~~~~~~~~~~~~~~-~~~~dvI~IDE~QFf~   92 (139)
T d2b8ta1          58 SVEVESAPEILNYIMSNSF-NDETKVIGIDEVQFFD   92 (139)
T ss_dssp             CEEESSTHHHHHHHHSTTS-CTTCCEEEECSGGGSC
T ss_pred             eEEeccchhhHHHHHhhcc-ccCcCEEEechhhhcc
Confidence            2444555555555543332 3577999999999863

>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=95.87  E-value=0.011  Score=46.02  Aligned_cols=17  Identities=24%  Similarity=0.421  Sum_probs=14.3

Q ss_pred             CcEEEEcCCCCchhhHh
Q 018574           71 RDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~   87 (354)
                      +.+++.||+|+|||..+
T Consensus        41 ~~vLL~GppGtGKT~la   57 (246)
T d1d2na_          41 VSVLLEGPPHSGKTALA   57 (246)
T ss_dssp             EEEEEECSTTSSHHHHH
T ss_pred             eEEEEECcCCCCHHHHH
Confidence            36899999999999644

>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=95.84  E-value=0.0095  Score=48.46  Aligned_cols=64  Identities=19%  Similarity=0.258  Sum_probs=39.3

Q ss_pred             HHHHHCCCCC---ChHHHHHhHhhh-hcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHH
Q 018574           46 RGIYQYGFEK---PSAIQQRAVMPI-IKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTREL  113 (354)
Q Consensus        46 ~~l~~~~~~~---~~~~Q~~~~~~~-~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l  113 (354)
                      ..+.+.|+..   ..+.+...+..+ ..++++++.|+||||||+. +-.++..+...   .+++.+-.+.++
T Consensus       138 ~~l~~~g~~~~~~~~~~~~~~l~~~v~~~~nili~G~tgSGKTT~-l~al~~~i~~~---~rivtiEd~~El  205 (323)
T d1g6oa_         138 SFFEEQGFYNLLDNKEQAISAIKDGIAIGKNVIVCGGTGSGKTTY-IKSIMEFIPKE---ERIISIEDTEEI  205 (323)
T ss_dssp             HHHHHTTTTTTCSSHHHHHHHHHHHHHHTCCEEEEESTTSSHHHH-HHHHGGGSCTT---CCEEEEESSCCC
T ss_pred             HHHHHHhhhcccccHHHHHHHHHHHHHhCCCEEEEeeccccchHH-HHHHhhhcccc---cceeeccchhhh
Confidence            3344444432   334444555443 4478999999999999964 44555555433   347777666665

>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=95.59  E-value=0.0075  Score=46.68  Aligned_cols=38  Identities=21%  Similarity=0.345  Sum_probs=22.9

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEEE
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS  213 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~lS  213 (354)
                      ...++|+||+|.+.... ...+..+.........++..+
T Consensus       108 ~~~viiiDe~d~l~~~~-~~~l~~~~~~~~~~~~~i~~~  145 (237)
T d1sxjd2         108 PYKIIILDEADSMTADA-QSALRRTMETYSGVTRFCLIC  145 (237)
T ss_dssp             SCEEEEETTGGGSCHHH-HHHHHHHHHHTTTTEEEEEEE
T ss_pred             CceEEEEecccccCHHH-HHHHhhccccccccccccccc
Confidence            45689999999986543 334445555544444444333

>d1c4oa1 c.37.1.19 (A:2-409) Nucleotide excision repair enzyme UvrB {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: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Thermus thermophilus [TaxId: 274]

Probab=95.49  E-value=0.015  Score=48.78  Aligned_cols=67  Identities=27%  Similarity=0.358  Sum_probs=48.8

Q ss_pred             CChHHHHHhHhhhhc----CCc-EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccC
Q 018574           55 KPSAIQQRAVMPIIK----GRD-VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDF  127 (354)
Q Consensus        55 ~~~~~Q~~~~~~~~~----~~~-~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~  127 (354)
                      .|+.-|.+++..+.+    |+. ..+.|.+||+|+++.... ....     +..+|||+|+...+.++++.+..+...
T Consensus         8 ~p~~dqp~aI~~l~~~L~~g~~~~~L~GlsgS~ka~~~A~l-~~~~-----~rp~LvVt~~~~~A~~l~~dL~~~l~~   79 (408)
T d1c4oa1           8 SPKGDQPKAIAGLVEALRDGERFVTLLGATGTGKTVTMAKV-IEAL-----GRPALVLAPNKILAAQLAAEFRELFPE   79 (408)
T ss_dssp             CCCTTHHHHHHHHHHHHHTTCSEEEEEECTTSCHHHHHHHH-HHHH-----TCCEEEEESSHHHHHHHHHHHHHHCTT
T ss_pred             CCCCCCHHHHHHHHHHHhcCCCcEEEecCCCCHHHHHHHHH-HHHh-----CCCEEEEeCCHHHHHHHHHHHHHhcCc
Confidence            677778777766543    554 688999999999644322 2222     224899999999999999999988643

>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=95.15  E-value=0.066  Score=41.87  Aligned_cols=18  Identities=28%  Similarity=0.479  Sum_probs=15.0

Q ss_pred             CCcEEEEcCCCCchhhHh
Q 018574           70 GRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~   87 (354)
                      ..++++.||+|.|||...
T Consensus        39 k~n~lLVG~~GvGKTalv   56 (268)
T d1r6bx2          39 KNNPLLVGESGVGKTAIA   56 (268)
T ss_dssp             SCEEEEECCTTSSHHHHH
T ss_pred             cCCcEEECCCCCcHHHHH
Confidence            468999999999999433

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {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: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.82  E-value=0.055  Score=41.19  Aligned_cols=71  Identities=17%  Similarity=0.161  Sum_probs=53.7

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc------ccccCCCcCCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD------VWARGLDVQQA  341 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~------~~~~Gidi~~~  341 (354)
                      ..+++|++++++.+.++++.++..    ++++..+.|+.+..+....++    ...+|+|+|+      .-...+++.++
T Consensus        85 ~~~~lil~PtreLa~Qi~~~~~~l~~~~~i~~~~~~g~~~~~~~~~~l~----~~~~Ilv~TPgrl~~~~~~~~~~~~~l  160 (222)
T d2j0sa1          85 ETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD----YGQHVVAGTPGRVFDMIRRRSLRTRAI  160 (222)
T ss_dssp             SCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECTTSCHHHHHHHHH----HCCSEEEECHHHHHHHHHTTSSCCTTC
T ss_pred             CceeEEecchHHHHHHHHHHHHHHhCccceeEEEEeecccchhhHHHhc----cCCeEEeCCCCcHHhcccccccccccc
Confidence            346999999999999999888653    668888888887665544443    2468999995      23567788889


Q ss_pred             cEEEe
Q 018574          342 ILFFF  346 (354)
Q Consensus       342 ~~Vi~  346 (354)
                      +++|.
T Consensus       161 ~~lVl  165 (222)
T d2j0sa1         161 KMLVL  165 (222)
T ss_dssp             CEEEE
T ss_pred             eeeee
Confidence            88874

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {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: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.79  E-value=0.099  Score=37.02  Aligned_cols=139  Identities=14%  Similarity=0.136  Sum_probs=73.7

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHh-HHhhcC
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED-IRKLEH  150 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~  150 (354)
                      -+.|....|-|||++++-.++..+..+.+   ++++==.+.-...  .... .....++.......+...... ......
T Consensus         4 ~i~vytG~GKGKTTAAlG~alRA~G~G~r---V~ivQFlKg~~~~--ge~~-~~~~~~~~~~~~~~~~~~~~~~~e~~~~   77 (157)
T d1g5ta_           4 IIIVFTGNGKGKTTAAFGTAARAVGHGKN---VGVVQFIKGTWPN--GERN-LLEPHGVEFQVMATGFTWETQNREADTA   77 (157)
T ss_dssp             CEEEEESSSSCHHHHHHHHHHHHHHTTCC---EEEEESSCCSSCC--HHHH-HHGGGTCEEEECCTTCCCCGGGHHHHHH
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHhcCCCE---EEEEEEecCCccc--chhh-hhcccCcEEEEecCCCcccCCChHHHHH
Confidence            46678889999999999999888876644   6666433211000  0011 111123333322222111100 000000


Q ss_pred             CCeEEEeCcHHHHHHHhcCCccCCCccEEEEecchhhhccCc--HHHHHHHHhhCCCCCcEEEEEeeCchhHHHHH
Q 018574          151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF--KDQIYDVYRYLPPDLQVVLISATLPHEILEMT  224 (354)
Q Consensus       151 ~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~~~~~~--~~~~~~i~~~~~~~~~~i~lSaT~~~~~~~~~  224 (354)
                             ..+......+ ..+....+++||+||+-.....++  ...+..+++..|...-+++..-.+|+++.+..
T Consensus        78 -------~a~~~~~~a~-~~~~~~~~dllILDEi~~Ai~~gli~~~~v~~ll~~rp~~~evVlTGr~~p~~L~e~A  145 (157)
T d1g5ta_          78 -------ACMAVWQHGK-RMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCHRDILDLA  145 (157)
T ss_dssp             -------HHHHHHHHHH-HHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCCHHHHHHC
T ss_pred             -------HHHHHHHHHH-HHhhcCccCEEeHHHHHHHHHcCCCCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhc
Confidence                   0011111111 233445789999999998877653  56777788877777766655445666665543

>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=94.63  E-value=0.0094  Score=43.89  Aligned_cols=26  Identities=27%  Similarity=0.529  Sum_probs=18.7

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhcccc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVDT   97 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~~   97 (354)
                      ++++|.||+|+|||+... .++..+..
T Consensus         2 k~v~ItG~~GtGKTtl~~-~i~~~l~~   27 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIH-KASEVLKS   27 (189)
T ss_dssp             CCEEEESCCSSCHHHHHH-HHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHH-HHHHHHHH
Confidence            679999999999997444 34444433

>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=94.60  E-value=0.014  Score=48.21  Aligned_cols=18  Identities=28%  Similarity=0.523  Sum_probs=15.3

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      .+++..||||.|||..+=
T Consensus        69 ~niLfiGPTGvGKTElAk   86 (364)
T d1um8a_          69 SNILLIGPTGSGKTLMAQ   86 (364)
T ss_dssp             CCEEEECCTTSSHHHHHH
T ss_pred             cceeeeCCCCccHHHHHH
Confidence            579999999999997553

>d1c4oa2 c.37.1.19 (A:410-583) Nucleotide excision repair enzyme UvrB {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: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Thermus thermophilus [TaxId: 274]

Probab=94.52  E-value=0.11  Score=37.58  Aligned_cols=77  Identities=17%  Similarity=0.205  Sum_probs=59.5

Q ss_pred             CceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHHhcCCccCCC
Q 018574          100 REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMIKRKTLRTRA  175 (354)
Q Consensus       100 ~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~  175 (354)
                      ++.++||.|+++.-++.+.+.|...+    +....++|+.+..+...   .+. ...+|+|+|.      +....++..+
T Consensus        30 ~g~r~lvfc~t~~~~~~l~~~L~~~G----i~a~~~Hg~~~~~eR~~~l~~F~~G~~~vLVaT~------v~~~GiDip~   99 (174)
T d1c4oa2          30 RGERTLVTVLTVRMAEELTSFLVEHG----IRARYLHHELDAFKRQALIRDLRLGHYDCLVGIN------LLREGLDIPE   99 (174)
T ss_dssp             TTCEEEEECSSHHHHHHHHHHHHHTT----CCEEEECTTCCHHHHHHHHHHHHTTSCSEEEESC------CCCTTCCCTT
T ss_pred             cCCcEEEEEcchhHHHHHHHHHHhcC----CceEEEecccchHHHHHHHHHHHCCCeEEEEeee------eeeeeccCCC
Confidence            34569999999999999999988765    89999999987665543   333 3489999995      3446778888


Q ss_pred             ccEEEEecchh
Q 018574          176 IKLLVLDESDE  186 (354)
Q Consensus       176 ~~~vvvDE~h~  186 (354)
                      +++||+=.++.
T Consensus       100 V~~Vi~~~~~~  110 (174)
T d1c4oa2         100 VSLVAILDADK  110 (174)
T ss_dssp             EEEEEETTTTS
T ss_pred             CcEEEEecccc
Confidence            99998876665

>d1w36b1 c.37.1.19 (B:1-485) Exodeoxyribonuclease V beta chain (RecB), 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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.44  E-value=0.033  Score=47.85  Aligned_cols=54  Identities=20%  Similarity=0.170  Sum_probs=41.0

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCC---------CceeEEEEcCCHHHHHHHHHHHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSS---------REVQALILSPTRELATQTEKVILA  123 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~---------~~~~~lil~p~~~l~~q~~~~~~~  123 (354)
                      ....+|.|+.|||||.+...-++..+....         ....+|+|+=|+.-+..+.+++..
T Consensus        16 ~g~~lv~A~AGsGKT~~l~~r~~~ll~~~~~~~~~~~~~~~~~IL~lTFT~kAA~Emk~RI~~   78 (485)
T d1w36b1          16 QGERLIEASAGTGKTFTIAALYLRLLLGLGGSAAFPRPLTVEELLVVTFTEAATAELRGRIRS   78 (485)
T ss_dssp             SSCEEEECCTTSCHHHHHHHHHHHHHTTCSSSSSCSSCCCGGGEEEEESCHHHHHHHHHHHHH
T ss_pred             CCCeEEEEcCchHHHHHHHHHHHHHHhhCcccccccCCCCcccEeEeccHHHHHHHHHHHHHH
Confidence            457899999999999888887777664321         123599999999888888777644

>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=94.42  E-value=0.022  Score=47.90  Aligned_cols=39  Identities=18%  Similarity=0.311  Sum_probs=26.7

Q ss_pred             hHHHHHhHhhhhcC--CcEEEEcCCCCchhhHhHHHHhhccc
Q 018574           57 SAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVD   96 (354)
Q Consensus        57 ~~~Q~~~~~~~~~~--~~~ii~~~tGsGKT~~~~~~~~~~~~   96 (354)
                      .+.|.+.+..+...  .-+++.||||||||++.... +..+.
T Consensus       143 ~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~-l~~~~  183 (401)
T d1p9ra_         143 TAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAG-LQELN  183 (401)
T ss_dssp             CHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHH-HHHHC
T ss_pred             cHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHH-hhhhc
Confidence            56666666666653  35799999999999655554 44443

>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=94.32  E-value=0.036  Score=43.48  Aligned_cols=25  Identities=20%  Similarity=0.255  Sum_probs=18.0

Q ss_pred             CcEEEEcCCCCchhhHhHHHHhhccc
Q 018574           71 RDVIAQAQSGTGKTSMIALTVCQTVD   96 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~~~~~~~   96 (354)
                      .++++.||+|+|||.++ -.+...+.
T Consensus        44 ~~lll~GppGtGKT~l~-~~l~~~l~   68 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTL-RKLWELYK   68 (276)
T ss_dssp             CEEEEECCTTSSHHHHH-HHHHHHHT
T ss_pred             CceEEECCCCCCHHHHH-HHHHHHHh
Confidence            57999999999999544 33444443

>d2eyqa5 c.37.1.19 (A:779-989) 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=94.15  E-value=0.075  Score=39.62  Aligned_cols=92  Identities=13%  Similarity=0.121  Sum_probs=65.5

Q ss_pred             CceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHHhcCCccCCC
Q 018574          100 REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMIKRKTLRTRA  175 (354)
Q Consensus       100 ~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~  175 (354)
                      ++.++.||||..+-.....+.+.+...  +.++..++|..+..+...   .+. ...+|+|+|.     ..+ ..++..+
T Consensus        30 rGgQvy~V~p~I~~~e~~~~~l~~~~p--~~~i~~lHGkm~~~eke~im~~F~~g~~~ILv~Tt-----vIE-vGiDvpn  101 (211)
T d2eyqa5          30 RGGQVYYLYNDVENIQKAAERLAELVP--EARIAIGHGQMRERELERVMNDFHHQRFNVLVCTT-----IIE-TGIDIPT  101 (211)
T ss_dssp             TTCEEEEECCCSSCHHHHHHHHHHHCT--TSCEEECCSSCCHHHHHHHHHHHHTTSCCEEEESS-----TTG-GGSCCTT
T ss_pred             cCCeEEEEEcCccchhhHHHHHHHhCC--ceEEEEEEeccCHHHHHHHHHHHHcCCcceEEEeh-----hhh-hccCCCC
Confidence            456799999999888888888887654  467888898876655433   333 4489999994     333 4566778


Q ss_pred             ccEEEEecchhhhccCcHHHHHHHHhhC
Q 018574          176 IKLLVLDESDEMLSRGFKDQIYDVYRYL  203 (354)
Q Consensus       176 ~~~vvvDE~h~~~~~~~~~~~~~i~~~~  203 (354)
                      -.++|+..|+++    -..++..+.-+.
T Consensus       102 A~~iiI~~a~rf----GLaQLhQLRGRV  125 (211)
T d2eyqa5         102 ANTIIIERADHF----GLAQLHQLRGRV  125 (211)
T ss_dssp             EEEEEETTTTSS----CHHHHHHHHTTC
T ss_pred             CcEEEEecchhc----ccccccccccee
Confidence            899999999986    233455554444

>d2eyqa2 c.37.1.19 (A:349-465) 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=94.08  E-value=0.036  Score=37.36  Aligned_cols=75  Identities=12%  Similarity=0.082  Sum_probs=56.9

Q ss_pred             hHHHHHHHHhhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEccccccCCCc
Q 018574          259 KFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDV  338 (354)
Q Consensus       259 ~~~~l~~~l~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi  338 (354)
                      -...|..+++.. ++++|+.|.+...++.+.+.|++.++....+.+.          .+|.++.  +.|+...+..|+-+
T Consensus        22 p~~~L~~~i~~~-~~~Vli~a~s~g~~erl~e~L~~~~i~~~~~~~~----------~~~~~~~--~~i~~~~l~~GF~~   88 (117)
T d2eyqa2          22 PLDALRKFLETF-DGPVVFSVESEGRREALGELLARIKIAPQRIMRL----------DEASDRG--RYLMIGAAEHGFVD   88 (117)
T ss_dssp             TTHHHHHHHTTC-CSCCCEEESSHHHHHHHHHHHGGGTCCCEECSSG----------GGCCTTC--CEEEECCCCSCEEE
T ss_pred             HHHHHHHHHHhC-CCeEEEEECCccHHHHHHHHHHHcCCCceEecCh----------hhhcCce--EEEEEecCcccccc
Confidence            356677777654 3689999999999999999999999887666442          1233344  56667789999999


Q ss_pred             CCCcEEEe
Q 018574          339 QQAILFFF  346 (354)
Q Consensus       339 ~~~~~Vi~  346 (354)
                      |+.+.+|.
T Consensus        89 ~~~~l~vI   96 (117)
T d2eyqa2          89 TVRNLALI   96 (117)
T ss_dssp             TTTTEEEE
T ss_pred             CCCCEEEE
Confidence            99988875

>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=93.92  E-value=0.024  Score=45.75  Aligned_cols=19  Identities=21%  Similarity=0.503  Sum_probs=16.1

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+++++.||||+|||..+-
T Consensus        49 ~~~iLl~GPpG~GKT~lAk   67 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIAR   67 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHH
Confidence            5789999999999996554

>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=93.82  E-value=0.019  Score=41.21  Aligned_cols=21  Identities=19%  Similarity=0.329  Sum_probs=16.8

Q ss_pred             CCcEEEEcCCCCchhhHhHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      .+++++.||+|+|||+++-..
T Consensus         2 ~k~I~l~G~~GsGKSTvak~L   22 (169)
T d1kaga_           2 KRNIFLVGPMGAGKSTIGRQL   22 (169)
T ss_dssp             CCCEEEECCTTSCHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHH
Confidence            468999999999999755433

>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=93.47  E-value=0.0056  Score=47.89  Aligned_cols=38  Identities=21%  Similarity=0.313  Sum_probs=26.1

Q ss_pred             CccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEE
Q 018574          175 AIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLI  212 (354)
Q Consensus       175 ~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~l  212 (354)
                      +..++|+||.=..++......+...+..+.++.-++++
T Consensus       172 ~p~ililDEpts~LD~~t~~~i~~~l~~l~~~~TvI~i  209 (255)
T d2hyda1         172 NPPILILDEATSALDLESESIIQEALDVLSKDRTTLIV  209 (255)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEE
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHhcCCEEEEE
Confidence            45789999998888776666666666666555444443

>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=93.42  E-value=0.22  Score=37.20  Aligned_cols=71  Identities=11%  Similarity=0.215  Sum_probs=52.8

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-----cc-ccCCCcCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-----VW-ARGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-----~~-~~Gidi~~  340 (354)
                      .+.+++|.|++++.+.++.+.++..    +.++...+|+.+..+..+.++     ..+|+|+|+     .+ ...+++.+
T Consensus        71 ~~~~~lil~pt~~l~~q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~l~-----~~~IlV~TP~~l~~~l~~~~~~~~~  145 (208)
T d1hv8a1          71 NGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALK-----NANIVVGTPGRILDHINRGTLNLKN  145 (208)
T ss_dssp             SSCCEEEECSCHHHHHHHHHHHHHHHCSSCCCEEEECTTSCHHHHHHHHH-----TCSEEEECHHHHHHHHHTTCSCTTS
T ss_pred             cCcceEEEeeccccchhhhhhhhhhcccCCeEEEEeeCCCChHHHHHhcC-----CCCEEEEChHHHHHHHHcCCCCccc
Confidence            3357999999999999988887653    667888888877665544332     478999995     22 44678889


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      ++++|.
T Consensus       146 l~~lVi  151 (208)
T d1hv8a1         146 VKYFIL  151 (208)
T ss_dssp             CCEEEE
T ss_pred             CcEEEE
Confidence            988875

>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=92.93  E-value=0.022  Score=48.39  Aligned_cols=19  Identities=21%  Similarity=0.503  Sum_probs=15.9

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+|+++.||||+|||+.+-
T Consensus        49 ksNILliGPTGvGKTlLAr   67 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIAR   67 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHH
T ss_pred             cccEEEECCCCCCHHHHHH
Confidence            5689999999999996443

>d1t5la2 c.37.1.19 (A:415-595) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=92.79  E-value=0.23  Score=36.10  Aligned_cols=96  Identities=16%  Similarity=0.156  Sum_probs=66.9

Q ss_pred             ceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhh---c-CCCeEEEeCcHHHHHHHhcCCccCCCc
Q 018574          101 EVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKL---E-HGVHVVSGTPGRVCDMIKRKTLRTRAI  176 (354)
Q Consensus       101 ~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~-~~~~iiv~T~~~l~~~~~~~~~~~~~~  176 (354)
                      +.+++|.|+++.-+..++..+...    ++.+..++|+.+..+....+   . ...+|+|+|.      +-...++..++
T Consensus        31 ~~~~iif~~~~~~~~~~~~~l~~~----g~~~~~~hg~~~~~eR~~~l~~Fr~g~~~vLVaTd------v~~rGiDip~v  100 (181)
T d1t5la2          31 NERTLVTTLTKKMAEDLTDYLKEA----GIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGIN------LLREGLDIPEV  100 (181)
T ss_dssp             TCEEEEECSSHHHHHHHHHHHHTT----TCCEEEECSSCCHHHHHHHHHHHHHTSCSEEEESC------CCSSSCCCTTE
T ss_pred             CCeEEEEeehhhhhHHHHHHHHhC----CcceeEecCCccHHHHHHHHHHHHCCCCCEEEehh------HHHccCCCCCC
Confidence            346999999999999888888655    48999999998876654433   3 3589999994      33457788899


Q ss_pred             cEEEEecchhhh-ccCcHHHHHHHHhhCCCC
Q 018574          177 KLLVLDESDEML-SRGFKDQIYDVYRYLPPD  206 (354)
Q Consensus       177 ~~vvvDE~h~~~-~~~~~~~~~~i~~~~~~~  206 (354)
                      ++||.-++.... .......+..+-+..+..
T Consensus       101 ~~VI~~d~p~~~~~~s~~~yi~R~GRagR~g  131 (181)
T d1t5la2         101 SLVAILDADKEGFLRSERSLIQTIGRAARNA  131 (181)
T ss_dssp             EEEEETTTTSCSGGGSHHHHHHHHGGGTTST
T ss_pred             CEEEEecCCcccccccHHHHHHHHHhhcccc
Confidence            999988877531 122334445555544433

>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=92.41  E-value=0.42  Score=35.56  Aligned_cols=72  Identities=13%  Similarity=0.363  Sum_probs=51.5

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC-----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc------ccccCCCcCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY-----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD------VWARGLDVQQ  340 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~-----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~------~~~~Gidi~~  340 (354)
                      ..+++|.+++++.+.++.+.++..     ...+..+.|+.+......   .+.....+|+|+|+      .-...+++.+
T Consensus        69 ~~~~lil~PtreL~~qi~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~l~~~~~~ilI~TP~rl~~~~~~~~~~l~~  145 (207)
T d1t6na_          69 QVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEE---VLKKNCPHIVVGTPGRILALARNKSLNLKH  145 (207)
T ss_dssp             CCCEEEECSCHHHHHHHHHHHHHHTTTSTTCCEEEESCCSCHHHHHH---HHHHSCCSEEEECHHHHHHHHHTTSSCCTT
T ss_pred             CceEEEEeccchhhHHHHHHHHHHHhhCCCceeEEEeccccHHHHHH---HHHhcCCCEEEeCcchhhhhccCCceeccc
Confidence            346999999999999998888654     245677778776554333   23346789999997      2224678888


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      ++++|.
T Consensus       146 l~~lVl  151 (207)
T d1t6na_         146 IKHFIL  151 (207)
T ss_dssp             CCEEEE
T ss_pred             cceeeh
Confidence            888774

>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=92.28  E-value=0.032  Score=40.44  Aligned_cols=19  Identities=42%  Similarity=0.693  Sum_probs=15.5

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      +.++++.||+|+|||+.+-
T Consensus         5 ~~~I~i~G~~GsGKTT~~~   23 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAE   23 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHH
T ss_pred             CCEEEEEeCCCCCHHHHHH
Confidence            4569999999999997543

>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=92.24  E-value=0.038  Score=42.54  Aligned_cols=18  Identities=28%  Similarity=0.481  Sum_probs=15.0

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      .++++.||+|+|||.++-
T Consensus        36 ~~~L~~GPpGtGKT~lA~   53 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAH   53 (238)
T ss_dssp             CCEEEESSTTSSHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHH
Confidence            579999999999996443

>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=92.20  E-value=0.0067  Score=47.03  Aligned_cols=39  Identities=21%  Similarity=0.262  Sum_probs=24.4

Q ss_pred             CCccEEEEecchhhhccCcHHHHHHHHhhCCCCCcEEEE
Q 018574          174 RAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLI  212 (354)
Q Consensus       174 ~~~~~vvvDE~h~~~~~~~~~~~~~i~~~~~~~~~~i~l  212 (354)
                      .+.+++|+||.=..++......+...+..+.++.-++++
T Consensus       156 ~~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~i  194 (241)
T d2pmka1         156 NNPKILIFDEATSALDYESEHVIMRNMHKICKGRTVIII  194 (241)
T ss_dssp             TCCSEEEECCCCSCCCHHHHHHHHHHHHHHHTTSEEEEE
T ss_pred             cccchhhhhCCccccCHHHHHHHHHHHHHHhCCCEEEEE
Confidence            456788888888777766555555555555444444443

>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=92.16  E-value=0.064  Score=41.23  Aligned_cols=37  Identities=22%  Similarity=0.360  Sum_probs=27.7

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      |.-+++.+++|+|||...+..+...+..+.   .+++++-
T Consensus        26 gsl~li~G~pGsGKT~l~~qia~~~~~~~~---~~~~is~   62 (242)
T d1tf7a2          26 DSIILATGATGTGKTLLVSRFVENACANKE---RAILFAY   62 (242)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHHTTTC---CEEEEES
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhcc---ccceeec
Confidence            567899999999999888777777654433   3677664

>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=92.12  E-value=0.031  Score=39.52  Aligned_cols=16  Identities=19%  Similarity=0.385  Sum_probs=13.3

Q ss_pred             cEEEEcCCCCchhhHh
Q 018574           72 DVIAQAQSGTGKTSMI   87 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~   87 (354)
                      -+++.|++|||||+.+
T Consensus         4 lIii~G~pGsGKTTla   19 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWA   19 (152)
T ss_dssp             EEEEECCTTSSHHHHH
T ss_pred             EEEEECCCCCCHHHHH
Confidence            4688999999999743

>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=92.09  E-value=0.04  Score=42.45  Aligned_cols=18  Identities=22%  Similarity=0.420  Sum_probs=15.1

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      .++++.||+|+|||..+-
T Consensus        36 ~~~Ll~GPpG~GKTtla~   53 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAH   53 (239)
T ss_dssp             CCEEEECCTTSCHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHH
Confidence            579999999999996443

>d1fuka_ c.37.1.19 (A:) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.08  E-value=0.4  Score=34.08  Aligned_cols=74  Identities=12%  Similarity=0.105  Sum_probs=53.6

Q ss_pred             ceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHh---h-cCCCeEEEeCcHHHHHHHhcCCccCCCc
Q 018574          101 EVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRK---L-EHGVHVVSGTPGRVCDMIKRKTLRTRAI  176 (354)
Q Consensus       101 ~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~-~~~~~iiv~T~~~l~~~~~~~~~~~~~~  176 (354)
                      ..++||.|.++.-++++++.+...+    +.+..++++.+..+....   + .....|+|+|.      .-...++..++
T Consensus        27 ~~k~iIF~~s~~~~~~l~~~L~~~~----~~~~~~~~~~~~~~r~~~l~~f~~~~~~iLv~Td------v~~rGiDi~~v   96 (162)
T d1fuka_          27 VTQAVIFCNTRRKVEELTTKLRNDK----FTVSAIYSDLPQQERDTIMKEFRSGSSRILISTD------LLARGIDVQQV   96 (162)
T ss_dssp             CSCEEEEESSHHHHHHHHHHHHHTT----CCEEEECTTSCHHHHHHHHHHHHTTSCSEEEEEG------GGTTTCCCCSC
T ss_pred             CCcEEEEEEEEchHHHHHHHHhhcC----ceEEEeccCCchhhHHHHHHHHhhcccceeeccc------cccccccCCCc
Confidence            3469999999999999998887654    778888888776655432   2 24478999995      22356677788


Q ss_pred             cEEEEecc
Q 018574          177 KLLVLDES  184 (354)
Q Consensus       177 ~~vvvDE~  184 (354)
                      ++||.-+.
T Consensus        97 ~~VI~~d~  104 (162)
T d1fuka_          97 SLVINYDL  104 (162)
T ss_dssp             SEEEESSC
T ss_pred             eEEEEecc
Confidence            88877543

>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=92.06  E-value=0.041  Score=39.70  Aligned_cols=18  Identities=22%  Similarity=0.468  Sum_probs=14.9

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+++.||+|||||+.+-
T Consensus         5 ~~I~i~G~pGsGKTTia~   22 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGK   22 (173)
T ss_dssp             CCEEEECSTTSSHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            468999999999997544

>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=91.73  E-value=0.039  Score=39.97  Aligned_cols=19  Identities=21%  Similarity=0.532  Sum_probs=15.8

Q ss_pred             cCCcEEEEcCCCCchhhHh
Q 018574           69 KGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~   87 (354)
                      .|+-+++.||+|||||+.+
T Consensus         3 ~g~iI~l~G~~GsGKSTia   21 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIA   21 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHH
Confidence            4667899999999999744

>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=91.63  E-value=0.077  Score=40.77  Aligned_cols=41  Identities=15%  Similarity=0.084  Sum_probs=27.5

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhcccc---CCCceeEEEEcC
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDT---SSREVQALILSP  109 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~---~~~~~~~lil~p  109 (354)
                      .|+-+++.||+|+|||...+..+...+..   ...+..++++.-
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~   76 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDT   76 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEES
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEee
Confidence            35678999999999998777666554432   223445666653

>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=91.62  E-value=0.054  Score=42.46  Aligned_cols=18  Identities=33%  Similarity=0.518  Sum_probs=14.7

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      +.+++.||||+|||..+-
T Consensus        33 ~~ilL~GpPGtGKT~la~   50 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRS   50 (273)
T ss_dssp             EEEEEECCTTSCTHHHHH
T ss_pred             EEEEEECCCCCCHHHHHH
Confidence            358999999999996543

>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=91.57  E-value=0.038  Score=39.87  Aligned_cols=17  Identities=24%  Similarity=0.331  Sum_probs=14.0

Q ss_pred             cEEEEcCCCCchhhHhH
Q 018574           72 DVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~   88 (354)
                      -+++.||+|+|||+.+-
T Consensus         4 lI~i~G~~GsGKTTva~   20 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCK   20 (176)
T ss_dssp             EEEEECSTTSSHHHHHH
T ss_pred             EEEEECCCCCCHHHHHH
Confidence            47899999999997543

>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=91.48  E-value=0.068  Score=45.23  Aligned_cols=44  Identities=16%  Similarity=0.336  Sum_probs=29.7

Q ss_pred             hcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHH
Q 018574           68 IKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELA  114 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~  114 (354)
                      ...++++|.|+||+|||..+...+.+.+..   +..++|+=|.-++.
T Consensus        48 ~~~~H~~I~G~tGsGKT~~l~~li~~~~~~---g~~~iiiD~kge~~   91 (433)
T d1e9ra_          48 AEPRHLLVNGATGTGKSVLLRELAYTGLLR---GDRMVIVDPNGDML   91 (433)
T ss_dssp             GGGGCEEEEECTTSSHHHHHHHHHHHHHHT---TCEEEEEEETTHHH
T ss_pred             cccceEEEEeCCCCcHHHHHHHHHHHHHhC---CCCEEEEeCChhHH
Confidence            345789999999999997654444444433   33477777766543

>d1s2ma2 c.37.1.19 (A:252-422) Putative ATP-dependent RNA helicase DHH1 {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: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.32  E-value=0.53  Score=33.72  Aligned_cols=75  Identities=12%  Similarity=0.073  Sum_probs=54.4

Q ss_pred             ceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHh---hc-CCCeEEEeCcHHHHHHHhcCCccCCCc
Q 018574          101 EVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRK---LE-HGVHVVSGTPGRVCDMIKRKTLRTRAI  176 (354)
Q Consensus       101 ~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~  176 (354)
                      ..++||.|+++.-++.++..+...+    +.+..++++.+..+....   +. ....++|+|..      -...+++..+
T Consensus        32 ~~k~iVF~~~~~~~~~l~~~L~~~g----~~~~~~h~~~~~~~r~~~~~~f~~~~~~ilv~Td~------~~~Gid~~~v  101 (171)
T d1s2ma2          32 INQAIIFCNSTNRVELLAKKITDLG----YSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDL------LTRGIDIQAV  101 (171)
T ss_dssp             CSEEEEECSSHHHHHHHHHHHHHHT----CCEEEECTTSCHHHHHHHHHHHHTTSSSEEEESSC------SSSSCCCTTE
T ss_pred             CCceEEEEeeeehhhHhHHhhhccc----ccccccccccchhhhhhhhhhcccCccccccchhH------hhhcccccee
Confidence            4579999999999999998887764    778888888776544332   22 44789999952      3356777788


Q ss_pred             cEEEEecch
Q 018574          177 KLLVLDESD  185 (354)
Q Consensus       177 ~~vvvDE~h  185 (354)
                      ++||.-+.-
T Consensus       102 ~~VI~~d~p  110 (171)
T d1s2ma2         102 NVVINFDFP  110 (171)
T ss_dssp             EEEEESSCC
T ss_pred             EEEEecCCc
Confidence            888865554

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {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: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.27  E-value=0.45  Score=35.36  Aligned_cols=72  Identities=14%  Similarity=0.118  Sum_probs=50.7

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC-----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc------ccccCCCcC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY-----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD------VWARGLDVQ  339 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~-----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~------~~~~Gidi~  339 (354)
                      ....++|.+++++.+.++++.+...     +.......|+.........+    ....+|+|+|+      .-...+++.
T Consensus        70 ~~~~~lil~pt~el~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l----~~~~~ivv~TPgrl~~~~~~~~~~~~  145 (206)
T d1veca_          70 DNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRL----DDTVHVVIATPGRILDLIKKGVAKVD  145 (206)
T ss_dssp             CSCCEEEECSCHHHHHHHHHHHHHHTTTSSSCCEEEECSSSCHHHHHHHT----TSCCSEEEECHHHHHHHHHTTCSCCT
T ss_pred             cCcceEEEeecchhhHHHHHHHHHHhhcccCcccccccCCccHHHHHHHH----HhccCeEEeCCccccccccchhcccc
Confidence            3457999999999999998887642     45566777776655544333    36789999995      233356777


Q ss_pred             CCcEEEe
Q 018574          340 QAILFFF  346 (354)
Q Consensus       340 ~~~~Vi~  346 (354)
                      +++++|.
T Consensus       146 ~l~~lVl  152 (206)
T d1veca_         146 HVQMIVL  152 (206)
T ss_dssp             TCCEEEE
T ss_pred             ccceEEE
Confidence            8887764

>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=91.03  E-value=0.041  Score=40.26  Aligned_cols=19  Identities=16%  Similarity=0.368  Sum_probs=15.6

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+.+++.||+|+|||+.+-
T Consensus         7 ~K~I~i~G~~GsGKTTla~   25 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVN   25 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHH
Confidence            3679999999999996444

>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=90.82  E-value=0.098  Score=41.16  Aligned_cols=45  Identities=13%  Similarity=0.124  Sum_probs=30.1

Q ss_pred             HhhhhcCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCC
Q 018574           64 VMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPT  110 (354)
Q Consensus        64 ~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~  110 (354)
                      +.-+..|.-+++.|+||+|||...+-.+.......  +.+++++..-
T Consensus        29 ~~G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~--g~~v~~~s~E   73 (277)
T d1cr2a_          29 TLGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAM--GKKVGLAMLE   73 (277)
T ss_dssp             HCSBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTS--CCCEEEEESS
T ss_pred             hcCCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhc--ccceeEeeec
Confidence            33456678899999999999976655555433222  3358888753

>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=90.64  E-value=0.075  Score=38.03  Aligned_cols=18  Identities=17%  Similarity=0.477  Sum_probs=14.8

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      +++++.|++|+|||++.-
T Consensus         1 k~I~liG~~GsGKsTi~k   18 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLAR   18 (161)
T ss_dssp             CCEEEECCTTSCHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHH
Confidence            468999999999996544

>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=90.53  E-value=0.067  Score=39.03  Aligned_cols=18  Identities=17%  Similarity=0.329  Sum_probs=14.9

Q ss_pred             cEEEEcCCCCchhhHhHH
Q 018574           72 DVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~   89 (354)
                      ++++.||+|||||+.+-.
T Consensus         2 ~I~i~G~pGSGKsT~a~~   19 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEK   19 (182)
T ss_dssp             EEEEECSTTSSHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            478999999999976543

>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=90.37  E-value=0.081  Score=38.95  Aligned_cols=21  Identities=19%  Similarity=0.286  Sum_probs=16.6

Q ss_pred             CCcEEEEcCCCCchhhHhHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      |-++++.||+|||||+.+-..
T Consensus         3 ~~riil~G~pGSGKsT~a~~L   23 (190)
T d1ak2a1           3 GVRAVLLGPPGAGKGTQAPKL   23 (190)
T ss_dssp             CCEEEEECCTTSSHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHH
Confidence            457889999999999766543

>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=90.27  E-value=0.072  Score=41.28  Aligned_cols=55  Identities=13%  Similarity=0.069  Sum_probs=31.8

Q ss_pred             cCcccCCCCHHHHHHHHHCCCCCChHHHHH-hHhh-----hhcCCcEEEEcCCCCchhhHhHH
Q 018574           33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQR-AVMP-----IIKGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        33 ~~~~~~~~~~~~~~~l~~~~~~~~~~~Q~~-~~~~-----~~~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      .+|+++...+...+.+..+  ..-+..... .+..     ....+.+++.||+|+|||.++-.
T Consensus        11 ~~~~dlig~~~~~~~L~~~--l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~   71 (253)
T d1sxja2          11 TNLQQVCGNKGSVMKLKNW--LANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHL   71 (253)
T ss_dssp             SSGGGCCSCHHHHHHHHHH--HHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHH
T ss_pred             CCHHHhcCCHHHHHHHHHH--HHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHH
Confidence            4678887888887777652  011111111 1111     11135799999999999964443

>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=90.09  E-value=0.088  Score=41.17  Aligned_cols=49  Identities=18%  Similarity=0.223  Sum_probs=32.3

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKV  120 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~  120 (354)
                      .|+-..+.+|+|+|||..++..+......   +..++|+-.-..+..++.+.
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q~~---g~~~vyIDtE~~~~~e~a~~  107 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQAA---GGVAAFIDAEHALDPDYAKK  107 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHHHT---TCEEEEEESSCCCCHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHhcC---CCEEEEEECCccCCHHHHHH
Confidence            35678999999999998877666654433   33577766554554444433

>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=90.04  E-value=0.088  Score=37.94  Aligned_cols=20  Identities=25%  Similarity=0.446  Sum_probs=15.5

Q ss_pred             cCCcEEEEcCCCCchhhHhH
Q 018574           69 KGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~   88 (354)
                      ..+-+++.|++|||||+.+-
T Consensus         2 ~~kiI~l~G~~GsGKsTva~   21 (178)
T d1qhxa_           2 TTRMIILNGGSSAGKSGIVR   21 (178)
T ss_dssp             CCCEEEEECCTTSSHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHH
Confidence            34567889999999996443

>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=89.94  E-value=0.096  Score=38.72  Aligned_cols=23  Identities=17%  Similarity=0.290  Sum_probs=17.9

Q ss_pred             hhcCCcEEEEcCCCCchhhHhHH
Q 018574           67 IIKGRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        67 ~~~~~~~ii~~~tGsGKT~~~~~   89 (354)
                      +.+.+-+++.||+|||||+.+-.
T Consensus         5 ~~~~~iI~l~G~pGSGKsT~a~~   27 (194)
T d3adka_           5 LKKSKIIFVVGGPGSGKGTQCEK   27 (194)
T ss_dssp             HHTSCEEEEEECTTSSHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHH
Confidence            44567789999999999975543

>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=89.75  E-value=0.085  Score=38.54  Aligned_cols=20  Identities=20%  Similarity=0.358  Sum_probs=15.6

Q ss_pred             cEEEEcCCCCchhhHhHHHH
Q 018574           72 DVIAQAQSGTGKTSMIALTV   91 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~   91 (354)
                      .+++.||+|||||+.+-..+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La   21 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIV   21 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47899999999997654443

>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=89.60  E-value=0.088  Score=38.41  Aligned_cols=19  Identities=21%  Similarity=0.284  Sum_probs=15.4

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      ++++.||+|||||+.+-..
T Consensus         2 ~I~i~G~pGsGKsT~a~~L   20 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKL   20 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999755543

>d1t5ia_ 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=89.50  E-value=0.6  Score=33.33  Aligned_cols=73  Identities=10%  Similarity=0.113  Sum_probs=51.1

Q ss_pred             eeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHh---hc-CCCeEEEeCcHHHHHHHhcCCccCCCcc
Q 018574          102 VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRK---LE-HGVHVVSGTPGRVCDMIKRKTLRTRAIK  177 (354)
Q Consensus       102 ~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~  177 (354)
                      .++||.|+++.-++.+.+.+.+.+    +.+..++|+.+..+....   +. ....++|+|..      ....+++...+
T Consensus        28 ~k~iIF~~~~~~~~~l~~~L~~~~----~~~~~ihg~~~~~~r~~~l~~F~~g~~~iLv~T~~------~~~Gid~~~~~   97 (168)
T d1t5ia_          28 NQVVIFVKSVQRCIALAQLLVEQN----FPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNL------FGRGMDIERVN   97 (168)
T ss_dssp             SSEEEECSSHHHHHHHHHHHHHTT----CCEEEECTTSCHHHHHHHHHHHHTTSCSEEEESSC------CSTTCCGGGCS
T ss_pred             CeEEEEEeeeecchhhhhhhcccc----ccccccccccchhhhhhhhhhhccccceeeecccc------ccchhhcccch
Confidence            469999999999998888887654    778889998776655432   32 34789999942      22455556677


Q ss_pred             EEEEecc
Q 018574          178 LLVLDES  184 (354)
Q Consensus       178 ~vvvDE~  184 (354)
                      +||.-+.
T Consensus        98 ~vi~~~~  104 (168)
T d1t5ia_          98 IAFNYDM  104 (168)
T ss_dssp             EEEESSC
T ss_pred             hhhhhhc
Confidence            7665554

>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=89.48  E-value=0.085  Score=38.18  Aligned_cols=21  Identities=14%  Similarity=0.295  Sum_probs=16.2

Q ss_pred             hcCCcEEEEcCCCCchhhHhH
Q 018574           68 IKGRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~~   88 (354)
                      .+|.-+++.|++|+|||+.+-
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~   24 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIAR   24 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHH
Confidence            345567899999999997553

>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=89.46  E-value=0.093  Score=39.47  Aligned_cols=27  Identities=19%  Similarity=0.079  Sum_probs=21.5

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      .|+-+++.||+|+|||...+..+....
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~   48 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQ   48 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            356789999999999987777666554

>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=89.43  E-value=0.11  Score=37.36  Aligned_cols=20  Identities=15%  Similarity=0.159  Sum_probs=15.9

Q ss_pred             CcEEEEcCCCCchhhHhHHH
Q 018574           71 RDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~   90 (354)
                      +.+++.|++|+|||+..-..
T Consensus         3 ~~Iil~G~~GsGKSTia~~L   22 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGREL   22 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHH
Confidence            57889999999999755443

>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=89.27  E-value=0.096  Score=38.50  Aligned_cols=18  Identities=22%  Similarity=0.383  Sum_probs=15.0

Q ss_pred             cEEEEcCCCCchhhHhHH
Q 018574           72 DVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~   89 (354)
                      .+++.||+|||||+.+-.
T Consensus         5 ~I~i~GppGsGKsT~a~~   22 (189)
T d1zaka1           5 KVMISGAPASGKGTQCEL   22 (189)
T ss_dssp             CEEEEESTTSSHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            589999999999975543

>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=89.14  E-value=0.083  Score=37.94  Aligned_cols=20  Identities=20%  Similarity=0.268  Sum_probs=15.2

Q ss_pred             CCcEEEEcCCCCchhhHhHH
Q 018574           70 GRDVIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~   89 (354)
                      ++-+++.|++|||||+.+-.
T Consensus         6 ~~iivl~G~~GsGKsT~a~~   25 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASE   25 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHH
Confidence            34578899999999965443

>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=89.14  E-value=0.16  Score=36.79  Aligned_cols=18  Identities=22%  Similarity=0.366  Sum_probs=14.6

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      +-+++.|++|+|||+..-
T Consensus         2 kiI~i~G~~GsGKsT~~~   19 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQ   19 (190)
T ss_dssp             CEEEEECCTTSCHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHH
Confidence            557899999999996444

>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=89.13  E-value=0.1  Score=38.51  Aligned_cols=20  Identities=15%  Similarity=0.204  Sum_probs=16.0

Q ss_pred             CcEEEEcCCCCchhhHhHHH
Q 018574           71 RDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~   90 (354)
                      -++++.||+|||||+..-..
T Consensus         7 mrIiliG~PGSGKtT~a~~L   26 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRI   26 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             eeEEEECCCCCCHHHHHHHH
Confidence            46899999999999765543

>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=89.00  E-value=0.14  Score=40.06  Aligned_cols=47  Identities=17%  Similarity=0.180  Sum_probs=31.1

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEK  119 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~  119 (354)
                      |+-.-+.+|+|+|||..++..+......   +..++|+=--.++..++++
T Consensus        57 g~itei~G~~~sGKT~l~l~~~~~aqk~---g~~v~yiDtE~~~~~~~a~  103 (268)
T d1xp8a1          57 GRITEIYGPESGGKTTLALAIVAQAQKA---GGTCAFIDAEHALDPVYAR  103 (268)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT---TCCEEEEESSCCCCHHHHH
T ss_pred             ceEEEEecCCccchHHHHHHHHHHHHhC---CCEEEEEECCccCCHHHHH
Confidence            4567899999999998777766655433   3447777654445444433

>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=88.95  E-value=0.099  Score=38.04  Aligned_cols=19  Identities=16%  Similarity=0.205  Sum_probs=15.0

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      ++++.||+|||||+.+-..
T Consensus         2 ~I~i~G~pGSGKsT~~~~L   20 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFI   20 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4788999999999765433

>d1oywa3 c.37.1.19 (A:207-406) 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=88.83  E-value=0.91  Score=33.40  Aligned_cols=71  Identities=17%  Similarity=0.211  Sum_probs=50.5

Q ss_pred             ceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHHhcCCccCCCc
Q 018574          101 EVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMIKRKTLRTRAI  176 (354)
Q Consensus       101 ~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~  176 (354)
                      +.++||.++++..++.++..+...+    +.+..++++.+..+...   .+. ...+|+|+|.      .....++..++
T Consensus        30 ~~~~IIF~~t~~~~~~l~~~l~~~~----~~~~~~h~~~~~~~r~~~~~~f~~g~~~ilvaTd------~~~~GiD~p~v   99 (200)
T d1oywa3          30 GKSGIIYCNSRAKVEDTAARLQSKG----ISAAAYHAGLENNVRADVQEKFQRDDLQIVVATV------AFGMGINKPNV   99 (200)
T ss_dssp             TCCEEEECSSHHHHHHHHHHHHHTT----CCEEEECTTSCHHHHHHHHHHHHTTSCSEEEECT------TSCTTTCCTTC
T ss_pred             CCCEEEEEeeehhhHHhhhhhccCC----ceeEEecCCCcHHHHHHHHHHHhcccceEEEecc------hhhhccCCCCC
Confidence            4469999999999999988887754    77888898877654433   222 3478999995      23345666677


Q ss_pred             cEEEE
Q 018574          177 KLLVL  181 (354)
Q Consensus       177 ~~vvv  181 (354)
                      ++||.
T Consensus       100 ~~VI~  104 (200)
T d1oywa3         100 RFVVH  104 (200)
T ss_dssp             CEEEE
T ss_pred             CEEEE
Confidence            77664

>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=88.82  E-value=0.11  Score=37.61  Aligned_cols=16  Identities=31%  Similarity=0.744  Sum_probs=13.5

Q ss_pred             cEEEEcCCCCchhhHh
Q 018574           72 DVIAQAQSGTGKTSMI   87 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~   87 (354)
                      .+++.||+|+|||+.+
T Consensus         2 ki~I~G~~G~GKSTLl   17 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLV   17 (178)
T ss_dssp             EEEEECCTTSSHHHHH
T ss_pred             EEEEECCCCcHHHHHH
Confidence            4789999999999643

>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=88.54  E-value=0.12  Score=37.71  Aligned_cols=20  Identities=15%  Similarity=0.189  Sum_probs=15.6

Q ss_pred             CcEEEEcCCCCchhhHhHHH
Q 018574           71 RDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~~~   90 (354)
                      -.+++.||+|||||+.+-..
T Consensus         3 mrIvl~G~pGSGKtT~a~~L   22 (180)
T d1akya1           3 IRMVLIGPPGAGKGTQAPNL   22 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            35789999999999755444

>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=88.19  E-value=0.57  Score=38.57  Aligned_cols=34  Identities=15%  Similarity=0.145  Sum_probs=25.4

Q ss_pred             eEEEeCcHHHHHHHhcCCccCCCccEEEEecchhh
Q 018574          153 HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEM  187 (354)
Q Consensus       153 ~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~h~~  187 (354)
                      -|.-+||+.+.. ++...-..++|..|-|+|-+.-
T Consensus       154 ~I~~tT~~ey~~-~e~d~al~rrF~~v~v~ep~~~  187 (387)
T d1qvra2         154 LIGATTLDEYRE-IEKDPALERRFQPVYVDEPTVE  187 (387)
T ss_dssp             EEEEECHHHHHH-HTTCTTTCSCCCCEEECCCCHH
T ss_pred             eeeecCHHHHHH-hcccHHHHHhcccccCCCCcHH
Confidence            356678888865 5666666788999999998753

>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=88.07  E-value=0.11  Score=37.64  Aligned_cols=17  Identities=35%  Similarity=0.565  Sum_probs=13.9

Q ss_pred             CcEEEEcCCCCchhhHh
Q 018574           71 RDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~   87 (354)
                      .-+++.|++|||||+.+
T Consensus        15 ~liil~G~pGsGKST~a   31 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFI   31 (172)
T ss_dssp             CEEEEECCTTSSHHHHH
T ss_pred             EEEEEECCCCCCHHHHH
Confidence            35799999999999643

>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=88.00  E-value=0.13  Score=37.97  Aligned_cols=19  Identities=26%  Similarity=0.263  Sum_probs=14.9

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      -+++.||+|||||+.+-..
T Consensus         8 iI~i~G~pGSGKsT~a~~L   26 (194)
T d1qf9a_           8 VVFVLGGPGSGKGTQCANI   26 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4788999999999755433

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

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 VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=87.93  E-value=0.71  Score=35.10  Aligned_cols=70  Identities=7%  Similarity=0.068  Sum_probs=51.8

Q ss_pred             CcEEEEcCchhhHHHHHHHHhc----CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc------ccccCCCcCCCc
Q 018574          273 TQAVIFCNTKRKVDWLTEKMRG----YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD------VWARGLDVQQAI  342 (354)
Q Consensus       273 ~~~lvf~~~~~~~~~l~~~l~~----~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~------~~~~Gidi~~~~  342 (354)
                      .+++|.+++++.+.++.+.+..    .++++..+.|+.......+.    .....+|+|+|+      .-...+++.+++
T Consensus        99 ~~alil~pt~el~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~----~~~~~~ivV~TP~~l~~~~~~~~~~l~~v~  174 (238)
T d1wrba1          99 PKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIRE----VQMGCHLLVATPGRLVDFIEKNKISLEFCK  174 (238)
T ss_dssp             CSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCSHHHHHH----HSSCCSEEEECHHHHHHHHHTTSBCCTTCC
T ss_pred             ceEEEeccchhhhcchheeeeecccCCCcEEEEEeccchhhHHHhh----cccCCceeecCHHHHHhHHccCceeccccc
Confidence            4699999999999999887754    36778888887665544332    335789999996      224477788888


Q ss_pred             EEEe
Q 018574          343 LFFF  346 (354)
Q Consensus       343 ~Vi~  346 (354)
                      ++|.
T Consensus       175 ~lVi  178 (238)
T d1wrba1         175 YIVL  178 (238)
T ss_dssp             EEEE
T ss_pred             eeee
Confidence            8774

>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=87.92  E-value=0.12  Score=37.88  Aligned_cols=15  Identities=40%  Similarity=0.756  Sum_probs=13.7

Q ss_pred             CcEEEEcCCCCchhh
Q 018574           71 RDVIAQAQSGTGKTS   85 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~   85 (354)
                      +.+++.||+|+|||.
T Consensus         2 rpIvl~GpsG~GK~t   16 (186)
T d1gkya_           2 RPIVISGPSGTGKST   16 (186)
T ss_dssp             CCEEEECCTTSSHHH
T ss_pred             CeEEEECCCCCCHHH
Confidence            578999999999996

>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=87.82  E-value=0.13  Score=39.09  Aligned_cols=39  Identities=21%  Similarity=0.245  Sum_probs=26.3

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      .|.-+++.|++|+|||..++-.+...+....  ..++++..
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~--~~~~~~s~   63 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGIIEFD--EPGVFVTF   63 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHHHC--CCEEEEES
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHhcC--CCcccccc
Confidence            4677899999999999776655554443322  23677664

>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=87.74  E-value=0.073  Score=39.89  Aligned_cols=19  Identities=47%  Similarity=0.684  Sum_probs=15.8

Q ss_pred             cCCcEEEEcCCCCchhhHh
Q 018574           69 KGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~   87 (354)
                      +|+-+++.||.|+|||...
T Consensus         1 ~G~livi~GPSG~GK~tl~   19 (205)
T d1s96a_           1 QGTLYIVSAPSGAGKSSLI   19 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHH
Confidence            4677899999999999633

>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=87.63  E-value=0.15  Score=37.59  Aligned_cols=19  Identities=26%  Similarity=0.261  Sum_probs=15.0

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      .+++.||+|||||+.+-..
T Consensus         3 iI~i~GppGSGKsT~a~~L   21 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARI   21 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3689999999999766543

>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=87.60  E-value=0.13  Score=39.61  Aligned_cols=26  Identities=15%  Similarity=0.074  Sum_probs=21.1

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      |+-+++.+|+|+|||...+..+.+.+
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            46789999999999987777766554

>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=87.54  E-value=0.15  Score=37.63  Aligned_cols=19  Identities=16%  Similarity=0.204  Sum_probs=14.8

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      -+++.||+|||||+.+-..
T Consensus        10 iI~i~GppGSGKsT~a~~L   28 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKL   28 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4788999999999655443

>d2j0sa2 c.37.1.19 (A:244-411) Probable ATP-dependent RNA helicase DDX48 {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: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.10  E-value=1.5  Score=31.08  Aligned_cols=96  Identities=13%  Similarity=0.113  Sum_probs=62.8

Q ss_pred             EEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-
Q 018574           74 IAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-  149 (354)
Q Consensus        74 ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-  149 (354)
                      .+..+....|.. ++..++...    .+.+++|.|+++.-++..++.+...+    +.+..++++....+...   .+. 
T Consensus        12 ~v~v~~~~~K~~-~L~~ll~~~----~~~k~iiF~~~~~~~~~~~~~l~~~~----~~~~~~~~~~~~~~r~~~~~~fk~   82 (168)
T d2j0sa2          12 FVAVEREEWKFD-TLCDLYDTL----TITQAVIFCNTKRKVDWLTEKMREAN----FTVSSMHGDMPQKERESIMKEFRS   82 (168)
T ss_dssp             EEEESSTTHHHH-HHHHHHHHH----TSSEEEEECSSHHHHHHHHHHHHHTT----CCCEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEecChHHHHH-HHHHHHHhC----CCCceEEEeeeHHHHHHHHHHhhhcc----cchhhhhhhhhHHHHHHHHHHHhc
Confidence            344444455653 333333332    33469999999999999988887654    67788888877665533   232 


Q ss_pred             CCCeEEEeCcHHHHHHHhcCCccCCCccEEEEecc
Q 018574          150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDES  184 (354)
Q Consensus       150 ~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vvvDE~  184 (354)
                      ....++|+|.      .-...++..++++||.=++
T Consensus        83 g~~~iLv~Td------~~~rGiDi~~v~~VIn~d~  111 (168)
T d2j0sa2          83 GASRVLISTD------VWARGLDVPQVSLIINYDL  111 (168)
T ss_dssp             TSSCEEEECG------GGSSSCCCTTEEEEEESSC
T ss_pred             CCccEEeccc------hhcccccccCcceEEEecC
Confidence            3478999995      2345777778888775444

>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=86.92  E-value=0.063  Score=39.57  Aligned_cols=18  Identities=33%  Similarity=0.361  Sum_probs=14.0

Q ss_pred             CcEEEEcCCCCchhhHhH
Q 018574           71 RDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~~   88 (354)
                      .-+++.|++|||||+.+-
T Consensus        20 ~vI~L~G~pGSGKTTiAk   37 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSM   37 (195)
T ss_dssp             EEEEEESSCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHH
Confidence            356688999999996444

>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=86.76  E-value=1.2  Score=33.61  Aligned_cols=75  Identities=20%  Similarity=0.360  Sum_probs=49.8

Q ss_pred             CCCCcEEEEcCchhhHHHHHHHHhcC----CCe----EEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc-ccccC-CCcC
Q 018574          270 LTITQAVIFCNTKRKVDWLTEKMRGY----NFT----VSSMHGDMPQKERDAIMGEFRSGTTRVLITTD-VWARG-LDVQ  339 (354)
Q Consensus       270 ~~~~~~lvf~~~~~~~~~l~~~l~~~----~~~----~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~-~~~~G-idi~  339 (354)
                      ..+.++++.++++..+.+.++.+++.    ++.    +..+++......+.+.++..  .+.+|+|+|. .+... .++.
T Consensus        84 ~~~~rvliv~Pt~~La~Q~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~Ilv~Tp~~l~~~~~~~~  161 (237)
T d1gkub1          84 LKGKRCYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNL--RNFKIVITTTQFLSKHYRELG  161 (237)
T ss_dssp             TTSCCEEEEESCHHHHHHHHHHHHHHHTTTCCSGGGSEEECCSSCCSHHHHHHHHSG--GGCSEEEEEHHHHHHCSTTSC
T ss_pred             HhcCeEEEEeccHHHHHHHHHHHHHHHHHcCCceEEEEeeeecccchhhhhhhhccc--cccceeccChHHHHHhhhhcC
Confidence            34578999999999999998888653    332    44556666666666555433  3578999994 33333 3456


Q ss_pred             CCcEEEe
Q 018574          340 QAILFFF  346 (354)
Q Consensus       340 ~~~~Vi~  346 (354)
                      ++++||.
T Consensus       162 ~~~~vVv  168 (237)
T d1gkub1         162 HFDFIFV  168 (237)
T ss_dssp             CCSEEEE
T ss_pred             CCCEEEE
Confidence            7777664

>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=86.71  E-value=0.16  Score=37.42  Aligned_cols=17  Identities=35%  Similarity=0.737  Sum_probs=14.2

Q ss_pred             CcEEEEcCCCCchhhHh
Q 018574           71 RDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        71 ~~~ii~~~tGsGKT~~~   87 (354)
                      +.+++.||+|+|||...
T Consensus         1 rpIvl~GPsGsGK~tl~   17 (190)
T d1lvga_           1 RPVVLSGPSGAGKSTLL   17 (190)
T ss_dssp             CCEEEECCTTSSHHHHH
T ss_pred             CeEEEECCCCCCHHHHH
Confidence            46899999999999643

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.56  E-value=0.89  Score=33.80  Aligned_cols=70  Identities=13%  Similarity=0.194  Sum_probs=44.7

Q ss_pred             CCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc------ccccCCCcCCC
Q 018574          272 ITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD------VWARGLDVQQA  341 (354)
Q Consensus       272 ~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~------~~~~Gidi~~~  341 (354)
                      ...++|++++++.+.+....+...    ........++.+..++...     -.+.+|+|+|+      .-..++++.++
T Consensus        78 ~~~~lil~pt~el~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~IvI~TP~~l~~~~~~~~~~l~~l  152 (212)
T d1qdea_          78 APQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEG-----LRDAQIVVGTPGRVFDNIQRRRFRTDKI  152 (212)
T ss_dssp             SCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECC---------------CTTCSEEEECHHHHHHHHHTTSSCCTTC
T ss_pred             CcceEEEcccHHHhhhhhhhhcccccccccceeeEeeccchhHHHHH-----hcCCcEEEECCCccccccccCceecCcc
Confidence            357999999999999998888643    4455555555433332221     13578999995      34557788889


Q ss_pred             cEEEe
Q 018574          342 ILFFF  346 (354)
Q Consensus       342 ~~Vi~  346 (354)
                      +++|.
T Consensus       153 ~~lVl  157 (212)
T d1qdea_         153 KMFIL  157 (212)
T ss_dssp             CEEEE
T ss_pred             eEEee
Confidence            88875

>d1hv8a2 c.37.1.19 (A:211-365) 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=86.46  E-value=1.5  Score=30.58  Aligned_cols=70  Identities=13%  Similarity=0.239  Sum_probs=48.6

Q ss_pred             eeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHH---hhc-CCCeEEEeCcHHHHHHHhcCCccCCCcc
Q 018574          102 VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR---KLE-HGVHVVSGTPGRVCDMIKRKTLRTRAIK  177 (354)
Q Consensus       102 ~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~iiv~T~~~l~~~~~~~~~~~~~~~  177 (354)
                      .++||.|+++.-+.++++.+...+    +.+..++++....+...   .+. ....++|+|..     +. ..++....+
T Consensus        29 ~k~IIF~~s~~~~~~l~~~L~~~g----~~~~~~~~~~~~~~r~~~~~~f~~~~~~ilv~T~~-----~~-~Gid~~~v~   98 (155)
T d1hv8a2          29 FYGLVFCKTKRDTKELASMLRDIG----FKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDV-----MS-RGIDVNDLN   98 (155)
T ss_dssp             CCEEEECSSHHHHHHHHHHHHHTT----CCEEEECSSSCHHHHHHHHHHHHTTSSSEEEECTT-----HH-HHCCCSCCS
T ss_pred             CCEEEEECchHHHHHHHhhhcccc----cccccccccchhhhhhhhhhhhhcccceeeeehhH-----Hh-hhhhhccCc
Confidence            468999999999999999887754    77888888876555433   222 34789999942     11 244555667


Q ss_pred             EEEE
Q 018574          178 LLVL  181 (354)
Q Consensus       178 ~vvv  181 (354)
                      +||.
T Consensus        99 ~Vi~  102 (155)
T d1hv8a2          99 CVIN  102 (155)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            7664

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=86.38  E-value=0.17  Score=36.88  Aligned_cols=17  Identities=35%  Similarity=0.614  Sum_probs=14.8

Q ss_pred             CCcEEEEcCCCCchhhH
Q 018574           70 GRDVIAQAQSGTGKTSM   86 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~   86 (354)
                      |+-+++.||+|+|||..
T Consensus         2 G~iivl~GpsG~GK~tl   18 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTV   18 (182)
T ss_dssp             CCEEEEECSTTSSHHHH
T ss_pred             CeEEEEECCCCCCHHHH
Confidence            56789999999999974

>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=86.36  E-value=0.33  Score=37.83  Aligned_cols=62  Identities=15%  Similarity=0.183  Sum_probs=37.8

Q ss_pred             hHhhhhcCCcEEEEcCCCCchhhHhHHHHhhcccc-------CCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           63 AVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDT-------SSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        63 ~~~~~~~~~~~ii~~~tGsGKT~~~~~~~~~~~~~-------~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      +++-+..|.-.++.|++|+|||..++..+......       ...+.+++|+.- ..-..++..++....
T Consensus        22 li~G~~pg~~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~-E~~~~~~~~Rl~~~~   90 (274)
T d1nlfa_          22 VLPNMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPA-EDPPTAIHHRLHALG   90 (274)
T ss_dssp             EETTEETTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEES-SSCHHHHHHHHHHHH
T ss_pred             HhCCccCCcEEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEec-cchHHHHHHHHHHHh
Confidence            44556668888999999999997776655542211       112335777653 233445556665554

>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=86.20  E-value=0.23  Score=35.46  Aligned_cols=19  Identities=16%  Similarity=0.267  Sum_probs=14.8

Q ss_pred             cEEEEcCCCCchhhHhHHH
Q 018574           72 DVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~   90 (354)
                      ++++.|++|+|||++.-..
T Consensus         3 ~IvliG~~G~GKSTig~~L   21 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRL   21 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHH
Confidence            5788899999999755433

>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=86.19  E-value=0.11  Score=42.12  Aligned_cols=18  Identities=28%  Similarity=0.364  Sum_probs=15.3

Q ss_pred             cCCcEEEEcCCCCchhhH
Q 018574           69 KGRDVIAQAQSGTGKTSM   86 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~   86 (354)
                      .+.++++.||+|+|||..
T Consensus        27 ~~h~vLl~G~pG~GKT~l   44 (333)
T d1g8pa_          27 GIGGVLVFGDRGTGKSTA   44 (333)
T ss_dssp             GGCCEEEECCGGGCTTHH
T ss_pred             CCCeEEEECCCCccHHHH
Confidence            356899999999999954

>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=86.16  E-value=0.19  Score=38.62  Aligned_cols=51  Identities=10%  Similarity=-0.003  Sum_probs=31.4

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhccccC---CCceeEEEEcCCHHHHHHHHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTS---SREVQALILSPTRELATQTEK  119 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~~~~---~~~~~~lil~p~~~l~~q~~~  119 (354)
                      .|+-+++.+++|+|||...+..+.......   .....++++.........+..
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLR   89 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHHHH
Confidence            356789999999999987777765544322   222346666555444433333

>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=86.14  E-value=0.32  Score=39.76  Aligned_cols=19  Identities=26%  Similarity=0.326  Sum_probs=15.3

Q ss_pred             CCcEEEEcCCCCchhhHhH
Q 018574           70 GRDVIAQAQSGTGKTSMIA   88 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~   88 (354)
                      ++.+++.||+|+|||..+.
T Consensus       154 ~~~~~~~g~~~~gk~~~~~  172 (362)
T d1svma_         154 KRYWLFKGPIDSGKTTLAA  172 (362)
T ss_dssp             CCEEEEECSTTSSHHHHHH
T ss_pred             cCeEEEECCCCCCHHHHHH
Confidence            4578999999999995443

>d1jr6a_ c.37.1.14 (A:) 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=86.03  E-value=0.96  Score=30.98  Aligned_cols=65  Identities=20%  Similarity=0.238  Sum_probs=46.9

Q ss_pred             eeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCcHHHHHHHhcCCccCCCccEEE
Q 018574          102 VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLV  180 (354)
Q Consensus       102 ~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~~vv  180 (354)
                      .++||.|+++.-++++++.|+..+    +.+..++++....+.   -....+++|+|.     .+. ..++ .+++.||
T Consensus        36 ~k~IVFc~t~~~ae~la~~L~~~G----~~~~~~H~~~~~~~~---~~~~~~vlvaTd-----~~~-~GiD-~~v~~Vi  100 (138)
T d1jr6a_          36 GRHLIFCHSKKKCDELAAKLVALG----INAVAYYRGLDVSVI---PTNGDVVVVATD-----ALM-TGFT-GDFDSVI  100 (138)
T ss_dssp             SCEEEECSCHHHHHHHHHHHHHHT----CEEEEECTTCCSCCC---TTSSCEEEEESS-----SSC-SSSC-CCBSEEE
T ss_pred             CCEEEEeCcHHHHHHHHHHHhccc----cchhhhhccchhhhh---hhhhcceeehhH-----HHH-hccc-cccceEE
Confidence            458999999999999999998765    788888888765443   234578999994     222 3344 4566664

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {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: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.51  E-value=1.9  Score=31.68  Aligned_cols=75  Identities=17%  Similarity=0.209  Sum_probs=54.5

Q ss_pred             hhCCCCcEEEEcCchhhHHHHHHHHhc----CCCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc------ccccCCC
Q 018574          268 DTLTITQAVIFCNTKRKVDWLTEKMRG----YNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD------VWARGLD  337 (354)
Q Consensus       268 ~~~~~~~~lvf~~~~~~~~~l~~~l~~----~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~------~~~~Gid  337 (354)
                      ........++.+++.+.+......+..    .++++...+|+.........+    ....+|+|+|+      .-...++
T Consensus        65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l----~~~~~Ili~TP~~l~~~l~~~~~~  140 (206)
T d1s2ma1          65 PKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRL----NETVHILVGTPGRVLDLASRKVAD  140 (206)
T ss_dssp             TTSCSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECSSSCHHHHHHHT----TSCCSEEEECHHHHHHHHHTTCSC
T ss_pred             cccccccceeeccchhhhhhhhhhhhhcccccCeeEEeecCccchhhHHHHh----cccceEEEECCcccccccccceee
Confidence            344456789999999988877777654    378899999988766554433    35689999996      2334678


Q ss_pred             cCCCcEEEe
Q 018574          338 VQQAILFFF  346 (354)
Q Consensus       338 i~~~~~Vi~  346 (354)
                      +.+++++|.
T Consensus       141 l~~l~~lV~  149 (206)
T d1s2ma1         141 LSDCSLFIM  149 (206)
T ss_dssp             CTTCCEEEE
T ss_pred             cccceEEEe
Confidence            888888774

>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=84.97  E-value=0.42  Score=33.79  Aligned_cols=16  Identities=44%  Similarity=0.594  Sum_probs=12.9

Q ss_pred             EEEEcCCCCchhhHhH
Q 018574           73 VIAQAQSGTGKTSMIA   88 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~   88 (354)
                      +.+.|+.|||||+..-
T Consensus         5 i~itG~~GSGKTTL~~   20 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLK   20 (170)
T ss_dssp             EEEECCTTSCHHHHHH
T ss_pred             EEEEcCCCCCHHHHHH
Confidence            6789999999996333

>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=84.78  E-value=0.32  Score=36.29  Aligned_cols=34  Identities=9%  Similarity=0.047  Sum_probs=21.8

Q ss_pred             CcEEEEcC-CCCchhhHhHHHHhhccccCCCceeEEEE
Q 018574           71 RDVIAQAQ-SGTGKTSMIALTVCQTVDTSSREVQALIL  107 (354)
Q Consensus        71 ~~~ii~~~-tGsGKT~~~~~~~~~~~~~~~~~~~~lil  107 (354)
                      +.++|.+. ||.|||++.+..+......+   .+++++
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G---~rVl~i   36 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAG---YRTAGY   36 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTT---CCEEEE
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCC---CeEEEE
Confidence            35666666 79999987766555544433   346665

>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=84.53  E-value=0.2  Score=38.37  Aligned_cols=27  Identities=15%  Similarity=0.121  Sum_probs=22.1

Q ss_pred             cCCcEEEEcCCCCchhhHhHHHHhhcc
Q 018574           69 KGRDVIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      .|+-+++.|++|+|||...+..+...+
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            356789999999999988777776655

>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=84.46  E-value=0.14  Score=40.10  Aligned_cols=18  Identities=28%  Similarity=0.453  Sum_probs=15.2

Q ss_pred             CCcEEEEcCCCCchhhHh
Q 018574           70 GRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~   87 (354)
                      .+.+++.||+|+|||..+
T Consensus        41 ~~giLL~Gp~GtGKT~l~   58 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLA   58 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHH
T ss_pred             CCeEEEECCCCCcchhHH
Confidence            567999999999999543

>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=84.46  E-value=0.28  Score=37.06  Aligned_cols=32  Identities=13%  Similarity=0.248  Sum_probs=20.1

Q ss_pred             EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcC
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSP  109 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p  109 (354)
                      .++.|.-|||||+. +-.++.    ...+.++.||+.
T Consensus         6 ~iitGFLGaGKTTl-l~~lL~----~~~~~riaVI~N   37 (222)
T d1nija1           6 TLLTGFLGAGKTTL-LRHILN----EQHGYKIAVIEN   37 (222)
T ss_dssp             EEEEESSSSSCHHH-HHHHHH----SCCCCCEEEECS
T ss_pred             EEEeeCCCCCHHHH-HHHHHh----cCCCCcEEEEEe
Confidence            57899999999963 323332    233445666665

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {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: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.05  E-value=0.53  Score=35.32  Aligned_cols=73  Identities=12%  Similarity=0.198  Sum_probs=47.1

Q ss_pred             CCCcEEEEcCchhhHHHHHHHHhcC----CCeEEEeecCCCHHHHHHHHHHHhCCCCcEEEEcc------ccccCCCcCC
Q 018574          271 TITQAVIFCNTKRKVDWLTEKMRGY----NFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTD------VWARGLDVQQ  340 (354)
Q Consensus       271 ~~~~~lvf~~~~~~~~~l~~~l~~~----~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~------~~~~Gidi~~  340 (354)
                      ...+++|++++++.+.++++.++..    +..+..+.++....+   .......+..+|+|+|+      .-...+++.+
T Consensus        79 ~~~~alil~Pt~eL~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~IvV~TP~rl~~~l~~~~~~~~~  155 (218)
T d2g9na1          79 KATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRA---EVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKY  155 (218)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHHTTTTCCEEEECC--CCCS---TTTSSSSCCCSEEEECHHHHHHHHHTTSSCSTT
T ss_pred             cCccEEEEcccchhhhhHHHHHhhhccccceeEEeeecccchhH---HHHHHhcCCCEEEEeCChhHHHHHhcCCccccc
Confidence            4457999999999999998887653    555555555433211   11223346788999996      2234567778


Q ss_pred             CcEEEe
Q 018574          341 AILFFF  346 (354)
Q Consensus       341 ~~~Vi~  346 (354)
                      ++++|.
T Consensus       156 l~~lVl  161 (218)
T d2g9na1         156 IKMFVL  161 (218)
T ss_dssp             CCEEEE
T ss_pred             ceEEEe
Confidence            887774

>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=83.84  E-value=0.3  Score=35.72  Aligned_cols=16  Identities=25%  Similarity=0.304  Sum_probs=12.5

Q ss_pred             EEEEcCCCCchhhHhH
Q 018574           73 VIAQAQSGTGKTSMIA   88 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~   88 (354)
                      +.|.||+|||||+.+-
T Consensus        25 IgI~G~~GSGKSTla~   40 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLAN   40 (198)
T ss_dssp             EEEEECTTSSHHHHHH
T ss_pred             EEEECCCCCCHHHHHH
Confidence            3489999999996443

>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=83.79  E-value=0.47  Score=36.77  Aligned_cols=45  Identities=16%  Similarity=0.198  Sum_probs=31.0

Q ss_pred             CCcEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHH
Q 018574           70 GRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQT  117 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~  117 (354)
                      |+-..+.+|+|+|||...+..+......+   ..++|+---.++..++
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~q~~g---~~~vyidtE~~~~~~~   98 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAAQREG---KTCAFIDAEHALDPIY   98 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTT---CCEEEEESSCCCCHHH
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCC---CEEEEEccccccCHHH
Confidence            46689999999999988877777665443   3467766544444443

>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=83.59  E-value=0.18  Score=39.44  Aligned_cols=16  Identities=25%  Similarity=0.335  Sum_probs=12.1

Q ss_pred             EEEEcCCCCchhhHhH
Q 018574           73 VIAQAQSGTGKTSMIA   88 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~   88 (354)
                      +++.||+|+|||.+.-
T Consensus        49 l~l~GppGtGKT~l~~   64 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAK   64 (287)
T ss_dssp             EECTTCCSSSHHHHHH
T ss_pred             EEeECCCCCCHHHHHH
Confidence            4567999999995443

>d1yt8a4 c.46.1.2 (A:243-372) Thiosulfate sulfurtransferase PA2603 {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a/b)
fold: Rhodanese/Cell cycle control phosphatase
superfamily: Rhodanese/Cell cycle control phosphatase
family: Multidomain sulfurtransferase (rhodanese)
domain: Thiosulfate sulfurtransferase PA2603
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=83.29  E-value=1  Score=30.38  Aligned_cols=40  Identities=8%  Similarity=0.111  Sum_probs=34.4

Q ss_pred             hhCCCCcEEEEcCchhhHHHHHHHHhcCCCeEEEeecCCC
Q 018574          268 DTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMP  307 (354)
Q Consensus       268 ~~~~~~~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~  307 (354)
                      ....++++++||.+-..+...+..|++.|+.+..+.|++.
T Consensus        76 ~~~~~~~ivl~C~~G~rS~~aa~~L~~~G~~v~~l~GG~~  115 (130)
T d1yt8a4          76 ASVRGARLVLVDDDGVRANMSASWLAQMGWQVAVLDGLSE  115 (130)
T ss_dssp             CCSBTCEEEEECSSSSHHHHHHHHHHHTTCEEEEECSCCG
T ss_pred             cCCccceEEeecCCCccHHHHHHHHHHcCCCeEEEcCchH
Confidence            3345578999999999999999999999999999998863

>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=83.27  E-value=0.27  Score=36.42  Aligned_cols=20  Identities=35%  Similarity=0.511  Sum_probs=16.6

Q ss_pred             hcCCcEEEEcCCCCchhhHh
Q 018574           68 IKGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~   87 (354)
                      .+|+-+.+.||.|+|||+.+
T Consensus        25 ~~Gei~~l~G~NGsGKSTLl   44 (200)
T d1sgwa_          25 EKGNVVNFHGPNGIGKTTLL   44 (200)
T ss_dssp             ETTCCEEEECCTTSSHHHHH
T ss_pred             cCCCEEEEECCCCChHHHHH
Confidence            35888999999999999633

>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=83.26  E-value=0.31  Score=36.50  Aligned_cols=44  Identities=14%  Similarity=0.083  Sum_probs=24.6

Q ss_pred             EEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHHHHHHHHHHhc
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIG  125 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~q~~~~~~~~~  125 (354)
                      +.|.||+||||++.+-..+-..         -+.-..|-.|..+........+
T Consensus         6 I~I~GppGSGKgT~ak~La~~~---------gl~~iStGdLlR~~a~~~~~~~   49 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAMAEAL---------QWHLLDSGAIYRVLALAALHHH   49 (225)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH---------TCEEEEHHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---------CCcEECHHHHHHHHHHHHHHcC
Confidence            5667999999997655443322         1222444555555544443333

>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=82.89  E-value=1.5  Score=33.37  Aligned_cols=20  Identities=25%  Similarity=0.346  Sum_probs=16.3

Q ss_pred             hcCCcEEEEcCCCCchhhHh
Q 018574           68 IKGRDVIAQAQSGTGKTSMI   87 (354)
Q Consensus        68 ~~~~~~ii~~~tGsGKT~~~   87 (354)
                      ..+.+++|.|++|+||+.++
T Consensus        21 ~~~~pvlI~Ge~GtGK~~~A   40 (247)
T d1ny5a2          21 CAECPVLITGESGVGKEVVA   40 (247)
T ss_dssp             TCCSCEEEECSTTSSHHHHH
T ss_pred             CCCCCEEEECCCCcCHHHHH
Confidence            34679999999999999533

>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=82.66  E-value=0.31  Score=35.32  Aligned_cols=17  Identities=12%  Similarity=0.431  Sum_probs=14.5

Q ss_pred             CCcEEEEcCCCCchhhH
Q 018574           70 GRDVIAQAQSGTGKTSM   86 (354)
Q Consensus        70 ~~~~ii~~~tGsGKT~~   86 (354)
                      ++.+++.||+|+||+..
T Consensus         3 ~k~ivl~Gpsg~GK~tl   19 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHI   19 (178)
T ss_dssp             CCEEEEECCTTSSHHHH
T ss_pred             CCcEEEECCCCCCHHHH
Confidence            46789999999999964

>d1yksa2 c.37.1.14 (A:325-623) 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=82.64  E-value=1  Score=35.52  Aligned_cols=54  Identities=9%  Similarity=-0.068  Sum_probs=37.2

Q ss_pred             eeEEEEcCCHHHHHHHHHHHHHhccCcCeEEEEEeCCcchHHhHHhhcCCCeEEEeCc
Q 018574          102 VQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTP  159 (354)
Q Consensus       102 ~~~lil~p~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~  159 (354)
                      .+++|+||+..-+.++++.+++.+    .++..+++.....+.........+++|+|.
T Consensus        37 g~~~~F~~s~~~~~~~a~~L~~~g----~~V~~l~~~~~~~e~~~~~~~~~~~~~~t~   90 (299)
T d1yksa2          37 RPTAWFLPSIRAANVMAASLRKAG----KSVVVLNRKTFEREYPTIKQKKPDFILATD   90 (299)
T ss_dssp             SCEEEECSCHHHHHHHHHHHHHTT----CCEEECCSSSCC--------CCCSEEEESS
T ss_pred             CCEEEEeCCHHHHHHHHHHHHhcC----CeEEEEcCcCcHhHHhhhhcCCcCEEEEec
Confidence            359999999999999999998764    567778887655444333334578999994

>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=82.23  E-value=0.59  Score=35.38  Aligned_cols=22  Identities=23%  Similarity=0.374  Sum_probs=15.4

Q ss_pred             EEEEcCCCCchhhHhHHHHhhcc
Q 018574           73 VIAQAQSGTGKTSMIALTVCQTV   95 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~~~~   95 (354)
                      +++.|+.|+|||+. +-.++.++
T Consensus         3 i~v~G~~GsGKTTL-l~~ll~~~   24 (244)
T d1yrba1           3 VVFVGTAGSGKTTL-TGEFGRYL   24 (244)
T ss_dssp             EEEECSTTSSHHHH-HHHHHHHH
T ss_pred             EEEEcCCCCcHHHH-HHHHHHHH
Confidence            67899999999953 33344443

>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=82.16  E-value=0.54  Score=33.94  Aligned_cols=17  Identities=29%  Similarity=0.470  Sum_probs=13.3

Q ss_pred             EEEEcCCCCchhhHhHH
Q 018574           73 VIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~   89 (354)
                      +++.|++|+|||+..-.
T Consensus         4 ivi~G~~GsGKTT~~~~   20 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAK   20 (194)
T ss_dssp             EEEEECTTSCHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHH
Confidence            57799999999965543

>d1bg2a_ c.37.1.9 (A:) Kinesin {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: Motor proteins
domain: Kinesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.59  E-value=0.49  Score=37.97  Aligned_cols=27  Identities=26%  Similarity=0.441  Sum_probs=19.9

Q ss_pred             hHhhhhcCCc--EEEEcCCCCchhhHhHH
Q 018574           63 AVMPIIKGRD--VIAQAQSGTGKTSMIAL   89 (354)
Q Consensus        63 ~~~~~~~~~~--~ii~~~tGsGKT~~~~~   89 (354)
                      .++.+++|.+  ++..|+||||||....-
T Consensus        67 lv~~~l~G~n~~i~aYGqtgSGKTyT~~G   95 (323)
T d1bg2a_          67 IVKDVLEGYNGTIFAYGQTSSGKTHTMEG   95 (323)
T ss_dssp             HHHHHHTTCCEEEEEECSTTSSHHHHHTB
T ss_pred             HHHHHHcCCCcceeeecccCCCCceeccC
Confidence            3455566764  68999999999976543

>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=81.48  E-value=0.38  Score=33.93  Aligned_cols=38  Identities=26%  Similarity=0.309  Sum_probs=25.9

Q ss_pred             cEEEEcCCCCchhhHhHHHHhhccccCCCceeEEEEcCCHHHHH
Q 018574           72 DVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELAT  115 (354)
Q Consensus        72 ~~ii~~~tGsGKT~~~~~~~~~~~~~~~~~~~~lil~p~~~l~~  115 (354)
                      -+++.|+-|+||| .+.-.++..+....     -|-.||-.|+.
T Consensus        35 ii~L~G~LGaGKT-tfvr~~~~~lg~~~-----~V~SPTF~l~~   72 (158)
T d1htwa_          35 MVYLNGDLGAGKT-TLTRGMLQGIGHQG-----NVKSPTYTLVE   72 (158)
T ss_dssp             EEEEECSTTSSHH-HHHHHHHHHTTCCS-----CCCCCTTTCEE
T ss_pred             EEEEecCCCccHH-HHHHHHHhhccccc-----ccCCCceEEEE
Confidence            4778999999999 55555666654321     25578877654

>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=81.13  E-value=0.42  Score=35.79  Aligned_cols=20  Identities=10%  Similarity=0.308  Sum_probs=14.7

Q ss_pred             EEEEcCCCCchhhHhHHHHh
Q 018574           73 VIAQAQSGTGKTSMIALTVC   92 (354)
Q Consensus        73 ~ii~~~tGsGKT~~~~~~~~   92 (354)
                      +.|-||+|+|||+.+-..+-
T Consensus         6 IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            45679999999976654433

>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=80.27  E-value=0.4  Score=34.52  Aligned_cols=22  Identities=27%  Similarity=0.303  Sum_probs=18.0

Q ss_pred             cCCcEEEEcCCCCchhhHhHHH
Q 018574           69 KGRDVIAQAQSGTGKTSMIALT   90 (354)
Q Consensus        69 ~~~~~ii~~~tGsGKT~~~~~~   90 (354)
                      .|+.+++.++.|+|||..++..
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l   35 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDL   35 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHH
Confidence            4778999999999999766544